Medicago
BLAST2 result
BLASTP 2.2.2 [Dec-14-2001]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= AC139708.7 + phase: 0 
         (159 letters)

Database: nr 
           2,540,612 sequences; 863,360,394 total letters

Searching..................................................done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

gb|AAM63852.1| unknown [Arabidopsis thaliana] gi|19310697|gb|AAL...   182  3e-45
gb|AAN41384.1| unknown protein [Arabidopsis thaliana] gi|1433489...    61  1e-08
ref|NP_913997.1| unknown protein [Oryza sativa (japonica cultiva...    60  2e-08
pdb|1IU6|A Chain A, Neutron Crystal Structure Of The Rubredoxin ...    50  3e-05
gb|AAB20233.1| rubredoxin,  Rd [Pyrococcus furiosus, DSM 3638, P...    49  6e-05
gb|AAL81406.1| rubredoxin [Pyrococcus furiosus DSM 3638] gi|6066...    49  6e-05
pdb|1BQ9|A Chain A, Rubredoxin (Formyl Methionine Mutant) From P...    49  6e-05
sp|P04170|RUBR1_DESDE Rubredoxin 1 (Rd-1)                              48  8e-05
pdb|6RXN|   Rubredoxin                                                 48  8e-05
ref|ZP_00511090.1| Rubredoxin-type Fe(Cys)4 protein [Chlorobium ...    48  1e-04
gb|AAB84661.1| rubredoxin [Methanothermobacter thermautotrophicu...    47  2e-04
ref|ZP_00504933.1| Flavin reductase-like:Rubredoxin-type Fe(Cys)...    46  3e-04
emb|CAA72620.1| rubredoxin [Clostridium diolis]                        46  4e-04
ref|ZP_00128935.1| COG1773: Rubredoxin [Desulfovibrio desulfuric...    46  4e-04
emb|CAB49806.1| rd rubredoxin [Pyrococcus abyssi GE5] gi|1312452...    45  7e-04
gb|AAT41909.1| putative rubrerythrin [Fremyella diplosiphon]           45  7e-04
ref|ZP_00528080.1| Rubredoxin-type Fe(Cys)4 protein [Chlorobium ...    45  9e-04
ref|NP_661991.1| rubredoxin [Chlorobium tepidum TLS] gi|22654089...    45  9e-04
gb|AAB84662.1| rubredoxin [Methanothermobacter thermautotrophicu...    45  9e-04
ref|NP_661992.1| rubredoxin [Chlorobium tepidum TLS] gi|22654090...    44  0.001

>gb|AAM63852.1| unknown [Arabidopsis thaliana] gi|19310697|gb|AAL85079.1| unknown
           protein [Arabidopsis thaliana]
           gi|15292669|gb|AAK92703.1| unknown protein [Arabidopsis
           thaliana] gi|9758248|dbj|BAB08747.1| unnamed protein
           product [Arabidopsis thaliana]
           gi|18423226|ref|NP_568749.1| rubredoxin family protein
           [Arabidopsis thaliana]
          Length = 154

 Score =  182 bits (461), Expect = 3e-45
 Identities = 97/160 (60%), Positives = 115/160 (71%), Gaps = 9/160 (5%)

Query: 1   MALQVQ-ASLYTTRLSPTATPTLLRPLSNPSTLKTSFFSR-SLNLLLHPNQLQLAYGPPR 58
           MA+Q+   +LY  R S    PT       P+  ++SF    S+ LL +   L  +   PR
Sbjct: 1   MAMQLPPTTLYAGRSSVVLPPT------TPTLQRSSFLPYYSMRLLGNKKSLSKS-SAPR 53

Query: 59  FTMRVASKQAYICRDCGYIYNERTAFDKLPDKYFCPVCGAPKRRFKPYATDVNKKANETD 118
           F+MRV+SKQAYICRDCGYIYN+RT FDKLPD YFCPVC APKRRF+ Y  DV+K  N+ D
Sbjct: 54  FSMRVSSKQAYICRDCGYIYNDRTPFDKLPDNYFCPVCAAPKRRFRAYMPDVSKNVNDKD 113

Query: 119 VRKARKAELQRDEAVGKALPIAVAVGVVVLAGLYFYLNST 158
           VRKARKAELQRDEAVGKALPI +AVGV+ LA LYFY+NST
Sbjct: 114 VRKARKAELQRDEAVGKALPIGIAVGVLALAALYFYVNST 153


>gb|AAN41384.1| unknown protein [Arabidopsis thaliana] gi|14334892|gb|AAK59624.1|
           unknown protein [Arabidopsis thaliana]
           gi|18418200|ref|NP_568342.1| rubredoxin family protein
           [Arabidopsis thaliana] gi|10177062|dbj|BAB10504.1|
           unnamed protein product [Arabidopsis thaliana]
          Length = 271

 Score = 60.8 bits (146), Expect = 1e-08
 Identities = 41/101 (40%), Positives = 51/101 (49%), Gaps = 26/101 (25%)

Query: 56  PPRFTMRVASKQ----AYICRDCGYIYNERTAFDKLPDKYFCPVCGAPKRRFKPYATDVN 111
           PPRF  ++   Q     +IC DCG+IY    +FD+ PD Y CP C APK+RF  Y  DVN
Sbjct: 180 PPRFGRKLTETQKARATHICLDCGFIYTLPKSFDEQPDTYVCPQCIAPKKRFAKY--DVN 237

Query: 112 KKANETDVRKARKAELQRDEAVGKAL-PIAVAVGVVVLAGL 151
                              +A+G  L PI V VG  +LAGL
Sbjct: 238 -----------------TGKAIGGGLPPIGVIVG--LLAGL 259


>ref|NP_913997.1| unknown protein [Oryza sativa (japonica cultivar-group)]
           gi|51964714|ref|XP_507141.1| PREDICTED P0577B11.138 gene
           product [Oryza sativa (japonica cultivar-group)]
           gi|28564642|dbj|BAC57824.1| unknown protein [Oryza
           sativa (japonica cultivar-group)]
           gi|37806461|dbj|BAC99896.1| unknown protein [Oryza
           sativa (japonica cultivar-group)]
          Length = 260

 Score = 60.1 bits (144), Expect = 2e-08
 Identities = 36/102 (35%), Positives = 51/102 (49%), Gaps = 25/102 (24%)

Query: 56  PPRFTMRVASKQ----AYICRDCGYIYNERTAFDKLPDKYFCPVCGAPKRRFKPYATDVN 111
           PPRF  ++   Q     +IC DCGYIY     F++ PD+Y CP C APK+RF  Y  +  
Sbjct: 169 PPRFGRKLTESQKARATHICLDCGYIYFLPKPFEEQPDEYGCPQCNAPKKRFAKYDAETG 228

Query: 112 KKANETDVRKARKAELQRDEAVGKAL-PIAVAVGVVV-LAGL 151
           +                   A+G AL PI V V +++ +AG+
Sbjct: 229 R-------------------AIGGALPPITVIVSLIIGIAGV 251


>pdb|1IU6|A Chain A, Neutron Crystal Structure Of The Rubredoxin Mutant From
           Pyrococcus Furiosus gi|23200152|pdb|1IU5|A Chain A,
           X-Ray Crystal Structure Of The Rubredoxin Mutant From
           Pyrococcus Furiosus gi|40889728|pdb|1RWD|A Chain A,
           Backbone Nmr Structure Of A Mutant P. Furiosus
           Rubredoxin Using Residual Dipolar Couplings
          Length = 53

 Score = 49.7 bits (117), Expect = 3e-05
 Identities = 20/47 (42%), Positives = 29/47 (61%), Gaps = 11/47 (23%)

Query: 69  YICRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFK 104
           Y+C+ CGYIY+E            T F+++PD + CP+CGAPK  F+
Sbjct: 3   YVCKICGYIYDEDAGDPDNGVSPGTKFEEIPDDWVCPICGAPKSEFE 49


>gb|AAB20233.1| rubredoxin,  Rd [Pyrococcus furiosus, DSM 3638, Peptide, 53 aa]
           gi|52696107|pdb|1VCX|A Chain A, Neutron Crystal
           Structure Of The Wild Type Rubredoxin From Pyrococcus
           Furiosus At 1.5a Resolution gi|6729721|pdb|1BRF|A Chain
           A, Rubredoxin (Wild Type) From Pyrococcus Furiosus
           gi|443341|pdb|1ZRP|  Rubredoxin (Zn-Substituted) (Nmr,
           40 Structures) gi|442698|pdb|1CAD|  Rubredoxin (Reduced)
           gi|442697|pdb|1CAA|  Rubredoxin (Oxidized)
          Length = 53

 Score = 48.5 bits (114), Expect = 6e-05
 Identities = 20/47 (42%), Positives = 29/47 (61%), Gaps = 11/47 (23%)

Query: 69  YICRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFK 104
           ++C+ CGYIY+E            T F++LPD + CP+CGAPK  F+
Sbjct: 3   WVCKICGYIYDEDAGDPDNGISPGTKFEELPDDWVCPICGAPKSEFE 49


>gb|AAL81406.1| rubredoxin [Pyrococcus furiosus DSM 3638] gi|6066243|gb|AAF03228.1|
           rubredoxin [Pyrococcus furiosus]
           gi|19857441|sp|P24297|RUBR_PYRFU Rubredoxin (Rd)
           gi|18977654|ref|NP_579011.1| rubredoxin [Pyrococcus
           furiosus DSM 3638] gi|6729714|pdb|1BQ8|A Chain A,
           Rubredoxin (Methionine Mutant) From Pyrococcus Furiosus
          Length = 54

 Score = 48.5 bits (114), Expect = 6e-05
 Identities = 20/47 (42%), Positives = 29/47 (61%), Gaps = 11/47 (23%)

Query: 69  YICRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFK 104
           ++C+ CGYIY+E            T F++LPD + CP+CGAPK  F+
Sbjct: 4   WVCKICGYIYDEDAGDPDNGISPGTKFEELPDDWVCPICGAPKSEFE 50


>pdb|1BQ9|A Chain A, Rubredoxin (Formyl Methionine Mutant) From Pyrococcus
           Furiosus
          Length = 54

 Score = 48.5 bits (114), Expect = 6e-05
 Identities = 20/47 (42%), Positives = 29/47 (61%), Gaps = 11/47 (23%)

Query: 69  YICRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFK 104
           ++C+ CGYIY+E            T F++LPD + CP+CGAPK  F+
Sbjct: 4   WVCKICGYIYDEDAGDPDNGISPGTKFEELPDDWVCPICGAPKSEFE 50


>sp|P04170|RUBR1_DESDE Rubredoxin 1 (Rd-1)
          Length = 45

 Score = 48.1 bits (113), Expect = 8e-05
 Identities = 20/43 (46%), Positives = 26/43 (59%), Gaps = 4/43 (9%)

Query: 67  QAYICRDCGYIYN----ERTAFDKLPDKYFCPVCGAPKRRFKP 105
           Q Y+C  CGY Y+    +   FD+LPD + CPVCG  K +F P
Sbjct: 2   QKYVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVSKDQFSP 44


>pdb|6RXN|   Rubredoxin
          Length = 46

 Score = 48.1 bits (113), Expect = 8e-05
 Identities = 20/43 (46%), Positives = 26/43 (59%), Gaps = 4/43 (9%)

Query: 67  QAYICRDCGYIYN----ERTAFDKLPDKYFCPVCGAPKRRFKP 105
           Q Y+C  CGY Y+    +   FD+LPD + CPVCG  K +F P
Sbjct: 3   QKYVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVSKDQFSP 45


>ref|ZP_00511090.1| Rubredoxin-type Fe(Cys)4 protein [Chlorobium limicola DSM 245]
           gi|67784787|gb|EAM44160.1| Rubredoxin-type Fe(Cys)4
           protein [Chlorobium limicola DSM 245]
          Length = 58

 Score = 47.8 bits (112), Expect = 1e-04
 Identities = 20/51 (39%), Positives = 28/51 (54%), Gaps = 11/51 (21%)

Query: 67  QAYICRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFKPY 106
           Q ++C  CGY+Y+             TAF+ +PD + CPVCG  K  F+PY
Sbjct: 2   QKWVCVPCGYVYDPEVGDLDGGVEPGTAFEDIPDDWVCPVCGVDKTLFEPY 52


>gb|AAB84661.1| rubredoxin [Methanothermobacter thermautotrophicus str. Delta H]
           gi|15678183|ref|NP_275298.1| rubredoxin
           [Methanothermobacter thermautotrophicus str. Delta H]
           gi|14285763|sp|O26258|RUBR_METTH Probable rubredoxin
           (RD)
          Length = 63

 Score = 46.6 bits (109), Expect = 2e-04
 Identities = 22/54 (40%), Positives = 30/54 (54%), Gaps = 11/54 (20%)

Query: 63  VASKQAYICRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFKP 105
           V++ + Y CR CGYIY+             T F+ LP+ + CP CGA K+ FKP
Sbjct: 8   VSAMKRYKCRVCGYIYDPEKGEPRTDTPPGTPFEDLPETWRCPSCGAKKKMFKP 61


>ref|ZP_00504933.1| Flavin reductase-like:Rubredoxin-type Fe(Cys)4 protein [Clostridium
           thermocellum ATCC 27405] gi|67850470|gb|EAM46048.1|
           Flavin reductase-like:Rubredoxin-type Fe(Cys)4 protein
           [Clostridium thermocellum ATCC 27405]
          Length = 220

 Score = 46.2 bits (108), Expect = 3e-04
 Identities = 18/35 (51%), Positives = 21/35 (59%)

Query: 69  YICRDCGYIYNERTAFDKLPDKYFCPVCGAPKRRF 103
           Y+C  CGY Y     F+ LP+ Y CPVCG PK  F
Sbjct: 182 YVCSICGYEYTGDIPFEDLPEDYVCPVCGQPKSVF 216


>emb|CAA72620.1| rubredoxin [Clostridium diolis]
          Length = 53

 Score = 45.8 bits (107), Expect = 4e-04
 Identities = 20/49 (40%), Positives = 27/49 (54%), Gaps = 11/49 (22%)

Query: 67  QAYICRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFK 104
           + YIC  CGYIY+E            T F+ +PD + CP+CG PK  F+
Sbjct: 2   EKYICTVCGYIYDEAAGDPDNGVAPGTKFEDIPDDWVCPLCGVPKSDFE 50


>ref|ZP_00128935.1| COG1773: Rubredoxin [Desulfovibrio desulfuricans G20]
          Length = 55

 Score = 45.8 bits (107), Expect = 4e-04
 Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 11/50 (22%)

Query: 67  QAYICRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFKP 105
           Q Y+C  CGY Y+             TA++ +P  + CPVCGAPK  F+P
Sbjct: 5   QKYVCNICGYEYDPAEGDPDNGVAPGTAWEDVPSDWLCPVCGAPKSEFEP 54


>emb|CAB49806.1| rd rubredoxin [Pyrococcus abyssi GE5]
           gi|13124529|sp|Q9V099|RUBR_PYRAB Rubredoxin (Rd)
           gi|14521100|ref|NP_126575.1| rubredoxin [Pyrococcus
           abyssi GE5]
          Length = 53

 Score = 45.1 bits (105), Expect = 7e-04
 Identities = 20/45 (44%), Positives = 26/45 (57%), Gaps = 11/45 (24%)

Query: 71  CRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFK 104
           C+ CGYIY+E            T F+ LPD + CP+CGAPK  F+
Sbjct: 6   CKICGYIYDEDEGDPDNGISPGTKFEDLPDDWVCPLCGAPKSEFE 50


>gb|AAT41909.1| putative rubrerythrin [Fremyella diplosiphon]
          Length = 251

 Score = 45.1 bits (105), Expect = 7e-04
 Identities = 20/48 (41%), Positives = 27/48 (55%), Gaps = 11/48 (22%)

Query: 69  YICRDCGYIYNE-----------RTAFDKLPDKYFCPVCGAPKRRFKP 105
           +ICR C  IY+             TAF+ +PD + CP+CGA K+ FKP
Sbjct: 197 WICRQCSMIYDPVAGDPDSGIAPGTAFEDIPDDWRCPICGATKKTFKP 244


>ref|ZP_00528080.1| Rubredoxin-type Fe(Cys)4 protein [Chlorobium phaeobacteroides DSM
           266] gi|67775951|gb|EAM35613.1| Rubredoxin-type Fe(Cys)4
           protein [Chlorobium phaeobacteroides DSM 266]
          Length = 58

 Score = 44.7 bits (104), Expect = 9e-04
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 11/51 (21%)

Query: 67  QAYICRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFKPY 106
           + ++C  CGY+Y+             T F+ +PD + CPVCG  K  F+PY
Sbjct: 2   EKWVCVPCGYVYDPEIGDPDSGVEPGTPFENIPDDWCCPVCGVDKSLFEPY 52


>ref|NP_661991.1| rubredoxin [Chlorobium tepidum TLS]
           gi|22654089|sp|P58992|RUBR1_CHLTE Rubredoxin 1 (Rd 1)
           gi|21647067|gb|AAM72333.1| rubredoxin [Chlorobium
           tepidum TLS]
          Length = 69

 Score = 44.7 bits (104), Expect = 9e-04
 Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 11/54 (20%)

Query: 68  AYICRDCGYIYNERTA-----------FDKLPDKYFCPVCGAPKRRFKPYATDV 110
           +++C +CGYIY+               FDKLPD + CPVC  PK +F  + + +
Sbjct: 16  SWMCAECGYIYDPAEGNLETNIRPGMPFDKLPDDWSCPVCNHPKNQFTKFISQL 69


>gb|AAB84662.1| rubredoxin [Methanothermobacter thermautotrophicus str. Delta H]
           gi|15678184|ref|NP_275299.1| rubredoxin
           [Methanothermobacter thermautotrophicus str. Delta H]
           gi|7430812|pir||B69075 rubredoxin - Methanobacterium
           thermoautotrophicum (strain Delta H)
          Length = 53

 Score = 44.7 bits (104), Expect = 9e-04
 Identities = 20/47 (42%), Positives = 26/47 (54%), Gaps = 11/47 (23%)

Query: 69  YICRDCGYIYNER-----------TAFDKLPDKYFCPVCGAPKRRFK 104
           Y+C+ CGYIY+             T F+ LPD + CPVCG  K +FK
Sbjct: 4   YVCQMCGYIYDPEEGDPVSGIEAGTPFEDLPDDWVCPVCGVGKDQFK 50


>ref|NP_661992.1| rubredoxin [Chlorobium tepidum TLS]
           gi|22654090|sp|P58993|RUBR2_CHLTE Rubredoxin 2 (Rd 2)
           gi|21647068|gb|AAM72334.1| rubredoxin [Chlorobium
           tepidum TLS]
          Length = 52

 Score = 44.3 bits (103), Expect = 0.001
 Identities = 20/44 (45%), Positives = 23/44 (51%), Gaps = 11/44 (25%)

Query: 71  CRDCGYIYNERT-----------AFDKLPDKYFCPVCGAPKRRF 103
           C  CGYIYN  T           +F+ LPD + CPVCGA K  F
Sbjct: 6   CNICGYIYNPETGDPEGDIPAGTSFESLPDSWMCPVCGAGKEEF 49


  Database: nr
    Posted date:  Jul 5, 2005 12:34 AM
  Number of letters in database: 863,360,394
  Number of sequences in database:  2,540,612
  
Lambda     K      H
   0.322    0.136    0.402 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 260,293,909
Number of Sequences: 2540612
Number of extensions: 9781622
Number of successful extensions: 34906
Number of sequences better than 10.0: 251
Number of HSP's better than 10.0 without gapping: 87
Number of HSP's successfully gapped in prelim test: 164
Number of HSP's that attempted gapping in prelim test: 34666
Number of HSP's gapped (non-prelim): 263
length of query: 159
length of database: 863,360,394
effective HSP length: 117
effective length of query: 42
effective length of database: 566,108,790
effective search space: 23776569180
effective search space used: 23776569180
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 69 (31.2 bits)


Medicago: description of AC139708.7