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= TM0309.4
(116 letters)
Database: sprot
164,201 sequences; 59,974,054 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
RPA9_SCHPO (O94703) DNA-directed RNA polymerase I 13.1 kDa polyp... 76 1e-14
RPA9_YEAST (P32529) DNA-directed RNA polymerase I 13.7 kDa polyp... 65 2e-11
RPOM_METJA (Q58548) DNA-directed RNA polymerase subunit M (EC 2.... 60 1e-09
RPOM_METTH (O27369) DNA-directed RNA polymerase subunit M (EC 2.... 59 2e-09
RPOM_THECE (Q56254) DNA-directed RNA polymerase subunit M (EC 2.... 58 4e-09
RPCZ_YEAST (Q04307) DNA-directed RNA polymerases III 12.5 kDa po... 57 1e-08
RPOM_SULAC (Q07271) DNA-directed RNA polymerase subunit M (EC 2.... 55 3e-08
RPCZ_SCHPO (O13896) DNA-directed RNA polymerases III 12.5 kDa po... 54 5e-08
RPOM_ARCFU (O29033) DNA-directed RNA polymerase subunit M (EC 2.... 50 1e-06
RPCZ_HUMAN (Q9Y2Y1) DNA-directed RNA polymerases III 12.5 kDa po... 45 4e-05
RPCZ_MOUSE (Q9CQZ7) DNA-directed RNA polymerases III 12.5 kDa po... 44 7e-05
RPB9_SCHPO (O74635) DNA-directed RNA polymerase II subunit 9 (EC... 44 7e-05
TFS2_SCHPO (P49373) Transcription elongation factor S-II (TFIIS) 44 9e-05
TCE1_MOUSE (P10711) Transcription elongation factor A protein 1 ... 44 9e-05
TCE1_HUMAN (P23193) Transcription elongation factor A protein 1 ... 44 9e-05
TCE2_HUMAN (Q15560) Transcription elongation factor A protein 2 ... 42 2e-04
TCE3_MOUSE (P23881) Transcription elongation factor A protein 3 ... 42 2e-04
TCE3_HUMAN (O75764) Transcription elongation factor A protein 3 ... 42 2e-04
TCE2_RAT (Q63799) Transcription elongation factor A protein 2 (T... 42 2e-04
TCE2_MOUSE (Q9QVN7) Transcription elongation factor A protein 2 ... 42 2e-04
>RPA9_SCHPO (O94703) DNA-directed RNA polymerase I 13.1 kDa
polypeptide (EC 2.7.7.6)
Length = 119
Score = 76.3 bits (186), Expect = 1e-14
Identities = 37/111 (33%), Positives = 54/111 (48%), Gaps = 4/111 (3%)
Query: 10 LFCHYCGTMLTVPSVNYAECPLCKNRSNIKDIEGKEISYTISAEEIRREL----GIETIE 65
+FC CG +L + + C C++ + + SA L I +E
Sbjct: 8 IFCSECGNLLESTTAQWTTCDQCQSVYPSEQFANLVVETKSSASAFPSALKLKHSIVQVE 67
Query: 66 EQKVQLSKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQEN 116
QK + + + + C KCGN TF+T Q+RSADEG T FY C RC ++F N
Sbjct: 68 SQKEEAATIEEKCPKCGNDHMTFHTLQLRSADEGSTVFYECPRCAYKFSTN 118
>RPA9_YEAST (P32529) DNA-directed RNA polymerase I 13.7 kDa
polypeptide (EC 2.7.7.6) (A12.2)
Length = 125
Score = 65.5 bits (158), Expect = 2e-11
Identities = 36/117 (30%), Positives = 63/117 (53%), Gaps = 10/117 (8%)
Query: 10 LFCHYCGTMLTVPSV---NYAECPLCK------NRSNIKDIEGKEISYTISAEEIRRELG 60
+FC CG +L P+ + EC CK SN+K + S+ ++ +
Sbjct: 8 IFCLDCGDLLENPNAVLGSNVECSQCKAIYPKSQFSNLKVVTTTADDAFPSSLRAKKSVV 67
Query: 61 IETIEEQKVQL-SKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQEN 116
++++ +++ + + + C +CGN E ++T Q+RSADEG T FY CT CG++F+ N
Sbjct: 68 KTSLKKNELKDGATIKEKCPQCGNEEMNYHTLQLRSADEGATVFYTCTSCGYKFRTN 124
>RPOM_METJA (Q58548) DNA-directed RNA polymerase subunit M (EC
2.7.7.6)
Length = 108
Score = 59.7 bits (143), Expect = 1e-09
Identities = 32/111 (28%), Positives = 53/111 (46%), Gaps = 14/111 (12%)
Query: 11 FCHYCGTMLTVPSVNYAECPLCKNRSNIKDIEGKEISYTISAEEIRREL------GIETI 64
FC C ++ +P +C +C KE Y E + ++ G+ET+
Sbjct: 4 FCPKCNNLM-LPKDGKLKCAVCGYEEETTAEGSKEYEYKEHLENKKEKITVIESEGLETL 62
Query: 65 EEQKVQLSKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQE 115
+++ C KCG+ EA ++ +Q R ADE +T FY C +CGH ++E
Sbjct: 63 PTTRIE-------CPKCGHNEAYWWLQQTRCADEPETRFYKCKKCGHTWRE 106
>RPOM_METTH (O27369) DNA-directed RNA polymerase subunit M (EC
2.7.7.6)
Length = 136
Score = 58.9 bits (141), Expect = 2e-09
Identities = 38/115 (33%), Positives = 58/115 (50%), Gaps = 5/115 (4%)
Query: 1 MAYSRERDFLFCHYCGTMLTVPSVNYAECPLCKNRSNIKDIEGKEISYTISAEEIRRELG 60
++ +R + FC CG ++ PS +C C +I D + Y +S E +E
Sbjct: 25 VSLTRRKKMEFCPKCGAVM-FPSEGKFKCQ-CGYEKDITD--KLKDKYRVSEEVEAKETI 80
Query: 61 IETIEEQKVQLSKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQE 115
I T ++ L C KCGN EA ++ +Q R ADE +T F+ CTRC H ++E
Sbjct: 81 IFTGDDVNT-LPTTRVECPKCGNMEAFWWLQQTRRADESETRFFRCTRCKHTWRE 134
>RPOM_THECE (Q56254) DNA-directed RNA polymerase subunit M (EC
2.7.7.6)
Length = 110
Score = 57.8 bits (138), Expect = 4e-09
Identities = 36/107 (33%), Positives = 49/107 (45%), Gaps = 5/107 (4%)
Query: 11 FCHYCGT-MLTVPSVNYAECPLCKNRSNIKDIEGKEISYTISAEEIRR--ELGIETIEEQ 67
FC CG ML C C E K+ T+ +E++ + GI IE+
Sbjct: 3 FCPKCGNLMLPDRKRKVWVCRSCGYEEPFD--EEKDREKTVIKQEVKHKPDEGIVVIEQD 60
Query: 68 KVQLSKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQ 114
L TC KCGN A ++ Q R+ DE T FY CT+CGH ++
Sbjct: 61 LKTLPTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWR 107
>RPCZ_YEAST (Q04307) DNA-directed RNA polymerases III 12.5 kDa
polypeptide (EC 2.7.7.6)
Length = 110
Score = 56.6 bits (135), Expect = 1e-08
Identities = 38/111 (34%), Positives = 55/111 (49%), Gaps = 9/111 (8%)
Query: 11 FCHYCGTMLTVPSVNYAECPL-CKNRSNIKDIEGKEI--SYTISAEEIRRELG--IETIE 65
FC C ML + S + L C++ IEG EI + +E+ LG + ++
Sbjct: 4 FCPSCNNMLLITSGDSGVYTLACRSCPYEFPIEGIEIYDRKKLPRKEVDDVLGGGWDNVD 63
Query: 66 EQKVQLSKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQEN 116
+ K Q + CG A F+ Q+RSADE TTFY C CGH+++EN
Sbjct: 64 QTKTQCPNY----DTCGGESAYFFQLQIRSADEPMTTFYKCVNCGHRWKEN 110
>RPOM_SULAC (Q07271) DNA-directed RNA polymerase subunit M (EC
2.7.7.6)
Length = 202
Score = 55.1 bits (131), Expect = 3e-08
Identities = 35/108 (32%), Positives = 49/108 (44%), Gaps = 4/108 (3%)
Query: 11 FCHYCGTMLTVPSVNYAECPLCKNRSNIKDIEGKEISYTISAEEIRRELGIETIEEQK-- 68
FC CG+M+ N C + I KE T + + + +
Sbjct: 94 FCPKCGSMMMPRKENGKTVYKCSKCAYIDTENQKEAKITTVIKHSAKAKTLVLASDMPNP 153
Query: 69 -VQLSKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQE 115
VQL++ +C CGN EA F+ Q RSADE T FY CT+CG ++E
Sbjct: 154 GVQLTR-GISCPSCGNDEAYFWILQTRSADEPATRFYKCTKCGKVWRE 200
>RPCZ_SCHPO (O13896) DNA-directed RNA polymerases III 12.5 kDa
polypeptide (EC 2.7.7.6)
Length = 109
Score = 54.3 bits (129), Expect = 5e-08
Identities = 39/112 (34%), Positives = 50/112 (43%), Gaps = 11/112 (9%)
Query: 11 FCHYCGTMLTVP----SVNYAECPLCKNRSNIKDIEGKEISYTISAEEIRRELGIETIEE 66
FC CG L V N +C C I + + +E+ LG E E
Sbjct: 3 FCPTCGNHLIVAVDEEGRNAFDCRTCPYHFPISTFLYSR--HEFAQKEVDDVLGGEEAFE 60
Query: 67 QKVQLSKVNKTCE--KCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQEN 116
Q TCE KC N A F+ Q+RSADE +TFY CT+C Q++EN
Sbjct: 61 SNQQ---TEVTCENTKCDNNRAYFFQLQIRSADEPMSTFYRCTKCKFQWREN 109
>RPOM_ARCFU (O29033) DNA-directed RNA polymerase subunit M (EC
2.7.7.6)
Length = 103
Score = 49.7 bits (117), Expect = 1e-06
Identities = 28/105 (26%), Positives = 51/105 (47%), Gaps = 6/105 (5%)
Query: 11 FCHYCGTMLTVPSVNYAECPLCKNRSNIKDIEGKEISYTISAEEIRRELGIETIEEQKVQ 70
FC C +++ + + +C+ K+ + E I E + ++ + E K
Sbjct: 3 FCPKCKSLM----IYQGDKLVCRKCGYEKEADDSE-ELVIKVERNKEDVPVIEGENLKT- 56
Query: 71 LSKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQE 115
L C CG+ EA ++ RQ+R+ADE + F+ CT+CG ++E
Sbjct: 57 LPTTKAICPACGHNEAFWWLRQLRAADESEVRFFRCTKCGKTWRE 101
>RPCZ_HUMAN (Q9Y2Y1) DNA-directed RNA polymerases III 12.5 kDa
polypeptide (EC 2.7.7.6) (RNA polymerase III C11
subunit) (HsC11p) (hRPC11) (My010 protein)
Length = 108
Score = 44.7 bits (104), Expect = 4e-05
Identities = 33/109 (30%), Positives = 47/109 (42%), Gaps = 6/109 (5%)
Query: 10 LFCHYCGTMLTVPSVNYAECPLCKNRSNIKDIEGKEISYTI-SAEEIRRELGIETIEEQK 68
LFC CG L V C + +I K + +E+ LG E
Sbjct: 3 LFCPGCGNGLIVEEGQRCHRFACNTCPYVHNITRKVTNRKYPKLKEVDDVLGGAAAWEN- 61
Query: 69 VQLSKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYAC--TRCGHQFQE 115
+ ++C KC + A F Q RSADE TTFY C +CGH++++
Sbjct: 62 --VDSTAESCPKCEHPRAYFMQLQTRSADEPMTTFYKCCNAQCGHRWRD 108
>RPCZ_MOUSE (Q9CQZ7) DNA-directed RNA polymerases III 12.5 kDa
polypeptide (EC 2.7.7.6) (RNA polymerase III C11
subunit)
Length = 108
Score = 43.9 bits (102), Expect = 7e-05
Identities = 33/109 (30%), Positives = 46/109 (41%), Gaps = 6/109 (5%)
Query: 10 LFCHYCGTMLTVPSVNYAECPLCKNRSNIKDIEGKEISYTI-SAEEIRRELGIETIEEQK 68
LFC CG L V C + +I K + +E+ LG E
Sbjct: 3 LFCPGCGNGLIVEEGQRCHRFACNTCPYVHNITRKVTNRKYPKLKEVDDVLGGAAAWEN- 61
Query: 69 VQLSKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYAC--TRCGHQFQE 115
+ + C KC + A F Q RSADE TTFY C +CGH++++
Sbjct: 62 --VDSTAEPCPKCEHPRAYFMQLQTRSADEPMTTFYKCCNAQCGHRWRD 108
>RPB9_SCHPO (O74635) DNA-directed RNA polymerase II subunit 9 (EC
2.7.7.6) (DNA-directed RNA polymerase II 13.2 kDa
polypeptide)
Length = 113
Score = 43.9 bits (102), Expect = 7e-05
Identities = 33/116 (28%), Positives = 48/116 (40%), Gaps = 14/116 (12%)
Query: 8 DFLFCHYCGTMLTVPSVNYAECPLCKNRSNIKDIEGKEISYTISAEEIRRELGIETIEEQ 67
+F +C C ML P + + L R ++ + EI+ T ++ R EL +E
Sbjct: 3 NFQYCIECNNML-YPREDKVDRVL---RLACRNCDYSEIAAT--SKVYRHELQSSNVENT 56
Query: 68 KVQ--------LSKVNKTCEKCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQE 115
V L + +K C +C EA FY R D T Y C CG F+E
Sbjct: 57 TVSHDASTDPTLPRSDKECPRCHQHEAVFYQTHSRRGDTMMTLIYVCVHCGFAFEE 112
>TFS2_SCHPO (P49373) Transcription elongation factor S-II (TFIIS)
Length = 293
Score = 43.5 bits (101), Expect = 9e-05
Identities = 18/38 (47%), Positives = 25/38 (65%)
Query: 77 TCEKCGNGEATFYTRQMRSADEGQTTFYACTRCGHQFQ 114
TC KC + ++Y Q RSADE TTF CT CG++++
Sbjct: 254 TCGKCKQKKVSYYQMQTRSADEPMTTFCECTVCGNRWK 291
>TCE1_MOUSE (P10711) Transcription elongation factor A protein 1
(Transcription elongation factor S-II protein 1)
(Transcription elongation factor TFIIS.o)
Length = 301
Score = 43.5 bits (101), Expect = 9e-05
Identities = 23/66 (34%), Positives = 35/66 (52%), Gaps = 4/66 (6%)
Query: 53 EEIRRELGIETIEEQKVQLSKVNKT----CEKCGNGEATFYTRQMRSADEGQTTFYACTR 108
+E+R+ L E I E ++ + +T C KC T+ Q RSADE TTF C
Sbjct: 234 KEMRKNLTKEAIREHQMAKTGGTQTDLFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNE 293
Query: 109 CGHQFQ 114
CG++++
Sbjct: 294 CGNRWK 299
>TCE1_HUMAN (P23193) Transcription elongation factor A protein 1
(Transcription elongation factor S-II protein 1)
(Transcription elongation factor TFIIS.o)
Length = 301
Score = 43.5 bits (101), Expect = 9e-05
Identities = 23/66 (34%), Positives = 35/66 (52%), Gaps = 4/66 (6%)
Query: 53 EEIRRELGIETIEEQKVQLSKVNKT----CEKCGNGEATFYTRQMRSADEGQTTFYACTR 108
+E+R+ L E I E ++ + +T C KC T+ Q RSADE TTF C
Sbjct: 234 KEMRKNLTKEAIREHQMAKTGGTQTDLFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNE 293
Query: 109 CGHQFQ 114
CG++++
Sbjct: 294 CGNRWK 299
>TCE2_HUMAN (Q15560) Transcription elongation factor A protein 2
(Transcription elongation factor S-II protein 2)
(Testis-specific S-II) (Transcription elongation factor
TFIIS.l)
Length = 299
Score = 42.4 bits (98), Expect = 2e-04
Identities = 22/66 (33%), Positives = 35/66 (52%), Gaps = 4/66 (6%)
Query: 53 EEIRRELGIETIEEQKVQLSKVNKT----CEKCGNGEATFYTRQMRSADEGQTTFYACTR 108
+EIR+ + E I E ++ + +T C KC T+ Q RS+DE TTF C
Sbjct: 232 KEIRKAMTKEAIREHQMARTGGTQTDLFTCGKCRKKNCTYTQVQTRSSDEPMTTFVVCNE 291
Query: 109 CGHQFQ 114
CG++++
Sbjct: 292 CGNRWK 297
>TCE3_MOUSE (P23881) Transcription elongation factor A protein 3
(Transcription elongation factor S-II protein 3)
(Transcription elongation factor TFIIS.h)
Length = 347
Score = 42.0 bits (97), Expect = 2e-04
Identities = 24/67 (35%), Positives = 33/67 (48%), Gaps = 8/67 (11%)
Query: 54 EIRRELGIETIEEQKVQLSKVNKT------CEKCGNGEATFYTRQMRSADEGQTTFYACT 107
E+R + E I E Q++K T C KC T+ Q RSADE TTF C
Sbjct: 281 ELRNAMTQEAIREH--QMAKTGGTTTDLLRCSKCKKKNCTYNQVQTRSADEPMTTFVLCN 338
Query: 108 RCGHQFQ 114
CG++++
Sbjct: 339 ECGNRWK 345
>TCE3_HUMAN (O75764) Transcription elongation factor A protein 3
(Transcription elongation factor S-II protein 3)
(Transcription elongation factor TFIIS.h)
Length = 348
Score = 42.0 bits (97), Expect = 2e-04
Identities = 24/67 (35%), Positives = 33/67 (48%), Gaps = 8/67 (11%)
Query: 54 EIRRELGIETIEEQKVQLSKVNKT------CEKCGNGEATFYTRQMRSADEGQTTFYACT 107
E+R + E I E Q++K T C KC T+ Q RSADE TTF C
Sbjct: 282 ELRNAMTQEAIREH--QMAKTGGTTTDLFQCSKCKKKNCTYNQVQTRSADEPMTTFVLCN 339
Query: 108 RCGHQFQ 114
CG++++
Sbjct: 340 ECGNRWK 346
>TCE2_RAT (Q63799) Transcription elongation factor A protein 2
(Transcription elongation factor S-II protein 2)
(Testis-specific S-II) (Protein S-II-T1) (Transcription
elongation factor TFIIS.l)
Length = 299
Score = 42.0 bits (97), Expect = 2e-04
Identities = 21/66 (31%), Positives = 35/66 (52%), Gaps = 4/66 (6%)
Query: 53 EEIRRELGIETIEEQKVQLSKVNKT----CEKCGNGEATFYTRQMRSADEGQTTFYACTR 108
+EIR+ + E I E ++ + +T C KC T+ Q RS+DE TT+ C
Sbjct: 232 KEIRKAMTKEAIREHQMARTGGTQTDLFTCNKCRKKNCTYTQVQTRSSDEPMTTYVVCNE 291
Query: 109 CGHQFQ 114
CG++++
Sbjct: 292 CGNRWK 297
>TCE2_MOUSE (Q9QVN7) Transcription elongation factor A protein 2
(Transcription elongation factor S-II protein 2)
(Testis-specific S-II) (Protein S-II-T1) (Transcription
elongation factor TFIIS.l)
Length = 299
Score = 42.0 bits (97), Expect = 2e-04
Identities = 21/66 (31%), Positives = 35/66 (52%), Gaps = 4/66 (6%)
Query: 53 EEIRRELGIETIEEQKVQLSKVNKT----CEKCGNGEATFYTRQMRSADEGQTTFYACTR 108
+EIR+ + E I E ++ + +T C KC T+ Q RS+DE TT+ C
Sbjct: 232 KEIRKAMTKEAIREHQMARTGGTQTDLFTCNKCRKKNCTYTQVQTRSSDEPMTTYVVCNE 291
Query: 109 CGHQFQ 114
CG++++
Sbjct: 292 CGNRWK 297
Database: sprot
Posted date: Nov 25, 2004 10:54 AM
Number of letters in database: 59,974,054
Number of sequences in database: 164,201
Lambda K H
0.319 0.133 0.400
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,860,284
Number of Sequences: 164201
Number of extensions: 447657
Number of successful extensions: 1886
Number of sequences better than 10.0: 109
Number of HSP's better than 10.0 without gapping: 72
Number of HSP's successfully gapped in prelim test: 37
Number of HSP's that attempted gapping in prelim test: 1773
Number of HSP's gapped (non-prelim): 153
length of query: 116
length of database: 59,974,054
effective HSP length: 92
effective length of query: 24
effective length of database: 44,867,562
effective search space: 1076821488
effective search space used: 1076821488
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.9 bits)
Lotus: description of TM0309.4