FASTA searches a protein or DNA sequence data bank 36.3.4 Apr, 2011
Please cite:
W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448

Query: pF1KB9960, 689 aa
  1>>>pF1KB9960 689 - 689 aa - 689 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.7303+/-0.00043; mu= 17.9829+/- 0.027
 mean_var=73.1940+/-14.884, 0's: 0 Z-trim(109.9): 13  B-trim: 0 in 0/49
 Lambda= 0.149912
 statistics sampled from 18187 (18194) to 18187 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.566), E-opt: 0.2 (0.213), width:  16
 Scan time: 11.140

The best scores are:                                      opt bits E(85289)
NP_060422 (OMIM: 614918) pentatricopeptide repeat  ( 689) 4550 994.0       0


>>NP_060422 (OMIM: 614918) pentatricopeptide repeat doma  (689 aa)
 initn: 4550 init1: 4550 opt: 4550  Z-score: 5315.6  bits: 994.0 E(85289):    0
Smith-Waterman score: 4550; 100.0% identity (100.0% similar) in 689 aa overlap (1-689:1-689)

               10        20        30        40        50        60
pF1KB9 MAVVSAVRWLGLRSRLGQPLTGRRAGLCEQARSCRFYSGSATLSKVEGTDVTGIEEVVIP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 MAVVSAVRWLGLRSRLGQPLTGRRAGLCEQARSCRFYSGSATLSKVEGTDVTGIEEVVIP
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB9 KKKTWDKVAVLQALASTVNRDTTAVPYVFQDDPYLMPASSLESRSFLLAKKSGENVAKFI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 KKKTWDKVAVLQALASTVNRDTTAVPYVFQDDPYLMPASSLESRSFLLAKKSGENVAKFI
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB9 INSYPKYFQKDIAEPHIPCLMPEYFEPQIKDISEAALKERIELRKVKASVDMFDQLLQAG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 INSYPKYFQKDIAEPHIPCLMPEYFEPQIKDISEAALKERIELRKVKASVDMFDQLLQAG
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KB9 TTVSLETTNSLLDLLCYYGDQEPSTDYHFQQTGQSEALEEENDETSRRKAGHQFGVTWRA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 TTVSLETTNSLLDLLCYYGDQEPSTDYHFQQTGQSEALEEENDETSRRKAGHQFGVTWRA
              190       200       210       220       230       240

              250       260       270       280       290       300
pF1KB9 KNNAERIFSLMPEKNEHSYCTMIRGMVKHRAYEQALNLYTELLNNRLHADVYTFNALIEA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 KNNAERIFSLMPEKNEHSYCTMIRGMVKHRAYEQALNLYTELLNNRLHADVYTFNALIEA
              250       260       270       280       290       300

              310       320       330       340       350       360
pF1KB9 TVCAINEKFEEKWSKILELLRHMVAQKVKPNLQTFNTILKCLRRFHVFARSPALQVLREM
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 TVCAINEKFEEKWSKILELLRHMVAQKVKPNLQTFNTILKCLRRFHVFARSPALQVLREM
              310       320       330       340       350       360

              370       380       390       400       410       420
pF1KB9 KAIGIEPSLATYHHIIRLFDQPGDPLKRSSFIIYDIMNELMGKRFSPKDPDDDKFFQSAM
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 KAIGIEPSLATYHHIIRLFDQPGDPLKRSSFIIYDIMNELMGKRFSPKDPDDDKFFQSAM
              370       380       390       400       410       420

              430       440       450       460       470       480
pF1KB9 SICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYSKFFDLICLMEQIDVTLKWYED
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 SICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYSKFFDLICLMEQIDVTLKWYED
              430       440       450       460       470       480

              490       500       510       520       530       540
pF1KB9 LIPSAYFPHSQTMIHLLQALDVANRLEVIPKIWKDSKEYGHTFRSDLREEILMLMARDKH
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 LIPSAYFPHSQTMIHLLQALDVANRLEVIPKIWKDSKEYGHTFRSDLREEILMLMARDKH
              490       500       510       520       530       540

              550       560       570       580       590       600
pF1KB9 PPELQVAFADCAADIKSAYESQPIRQTAQDWPATSLNCIAILFLRAGRTQEAWKMLGLFR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 PPELQVAFADCAADIKSAYESQPIRQTAQDWPATSLNCIAILFLRAGRTQEAWKMLGLFR
              550       560       570       580       590       600

              610       620       630       640       650       660
pF1KB9 KHNKIPRSELLNELMDSAKVSNSPSQAIEVVELASAFSLPICEGLTQRVMSDFAINQEQK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 KHNKIPRSELLNELMDSAKVSNSPSQAIEVVELASAFSLPICEGLTQRVMSDFAINQEQK
              610       620       630       640       650       660

              670       680         
pF1KB9 EALSNLTALTSDSDTDSSSDSDSDTSEGK
       :::::::::::::::::::::::::::::
NP_060 EALSNLTALTSDSDTDSSSDSDSDTSEGK
              670       680         




689 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 09:13:24 2016 done: Fri Nov  4 09:13:25 2016
 Total Scan time: 11.140 Total Display time:  0.000

Function used was FASTA [36.3.4 Apr, 2011]