BLASTP 2.2.26 [Sep-21-2011]
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 005541
(691 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YPD|A Chain A, Crystal Structure Of The Jumonji Domain Of Human Jumonji
Domain Containing 1c Protein
pdb|2YPD|B Chain B, Crystal Structure Of The Jumonji Domain Of Human Jumonji
Domain Containing 1c Protein
Length = 392
Score = 75.5 bits (184), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 55/188 (29%), Positives = 95/188 (50%), Gaps = 13/188 (6%)
Query: 450 DLSLGGHDVNNEHVEKSATDEDEIMEDQGVETGTAEEKT--VKSERLNGYSDVSEKTHPG 507
+L + DV N V + I+ G+ EE + +RL S++ PG
Sbjct: 179 NLHIEVSDVVNILVYVGIAKGNGILSKAGILKKFEEEDLDDILRKRLKDSSEI-----PG 233
Query: 508 AHWDVFRRQDVPKLIEYLREHWTDFGRPDGVTNDFVTHPLYGEVVYLNGDHKRKLKEEFG 567
A W ++ +DV K+ E+L++ + G+ P+ + Y+N +++L EE+G
Sbjct: 234 ALWHIYAGKDVDKIREFLQK----ISKEQGLEVLPEHDPIRDQSWYVNKKLRQRLLEEYG 289
Query: 568 VEPWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPESVGEAVRLAEEIRCLPN-- 625
V + Q LG+A+ +PAG QV+N S +Q+ DF+ PE + E+ L +E+R L
Sbjct: 290 VRTCTLIQFLGDAIVLPAGALHQVQNFHSCIQVTEDFVSPEHLVESFHLTQELRLLKEEI 349
Query: 626 DHEAKLQV 633
+++ KLQV
Sbjct: 350 NYDDKLQV 357
Score = 73.9 bits (180), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 51/183 (27%), Positives = 88/183 (48%), Gaps = 14/183 (7%)
Query: 235 FRKHWVKGEPVIVKQVCDSSSMSIWDPKDIWRGIRETADEKTKDENRIVKAIDCLDWSEV 294
F++ W +G+P +V V ++S+W + I + D + ++C D
Sbjct: 27 FKECWKQGQPAVVSGVHKKMNISLWKAESI---SLDFGDHQAD-------LLNCKDSIIS 76
Query: 295 DIELGEFIKGYSEGRVRE---DGWPEMLKLKDWPSPSASEEFLLYHKPEFISKLPLLEYI 351
+ + EF G+ E R+ G +LKLKDWPS + + + + LPL EY
Sbjct: 77 NANVKEFWDGFEEVSKRQKNKSGETVVLKLKDWPSGEDFKTMMPARYEDLLKSLPLPEYC 136
Query: 352 HSRLGFLNVAAKLPHYSLQNDVGPKIYMSYGTYEELDRGNSVKNLHFNMPDMVYLLVHMG 411
+ G N+A+ LP + ++ D+GP++ +YG D NLH + D+V +LV++G
Sbjct: 137 NPE-GKFNLASHLPGFFVRPDLGPRLCSAYGVVAAKDHDIGTTNLHIEVSDVVNILVYVG 195
Query: 412 EVK 414
K
Sbjct: 196 IAK 198
>pdb|4GIR|A Chain A, Crystal Structure Of An Enolase Family Member From Vibrio
Harveyi (Efi-Target 501692) With Homology To Mannonate
Dehydratase, With Mg, Ethylene Glycol And Sulfate Bound
(Ordered Loops, Space Group P41212)
pdb|4GIR|B Chain B, Crystal Structure Of An Enolase Family Member From Vibrio
Harveyi (Efi-Target 501692) With Homology To Mannonate
Dehydratase, With Mg, Ethylene Glycol And Sulfate Bound
(Ordered Loops, Space Group P41212)
pdb|4GIR|C Chain C, Crystal Structure Of An Enolase Family Member From Vibrio
Harveyi (Efi-Target 501692) With Homology To Mannonate
Dehydratase, With Mg, Ethylene Glycol And Sulfate Bound
(Ordered Loops, Space Group P41212)
pdb|4GIR|D Chain D, Crystal Structure Of An Enolase Family Member From Vibrio
Harveyi (Efi-Target 501692) With Homology To Mannonate
Dehydratase, With Mg, Ethylene Glycol And Sulfate Bound
(Ordered Loops, Space Group P41212)
pdb|4GIS|A Chain A, Crystal Structure Of An Enolase Family Member From Vibrio
Harveyi (Efi-Target 501692) With Homology To Mannonate
Dehydratase, With Mg, Glycerol And Dicarboxylates Bound
(Mixed Loops, Space Group I4122)
pdb|4GIS|B Chain B, Crystal Structure Of An Enolase Family Member From Vibrio
Harveyi (Efi-Target 501692) With Homology To Mannonate
Dehydratase, With Mg, Glycerol And Dicarboxylates Bound
(Mixed Loops, Space Group I4122)
pdb|4GGH|A Chain A, Crystal Structure Of An Enolase Family Member From Vibrio
Harveyi (Efi-Target 501692) With Homology To Mannonate
Dehydratase, With Mg, Hepes, And Ethylene Glycol Bound
(Ordered Loops, Space Group C2221)
pdb|4GGH|B Chain B, Crystal Structure Of An Enolase Family Member From Vibrio
Harveyi (Efi-Target 501692) With Homology To Mannonate
Dehydratase, With Mg, Hepes, And Ethylene Glycol Bound
(Ordered Loops, Space Group C2221)
pdb|4GGH|C Chain C, Crystal Structure Of An Enolase Family Member From Vibrio
Harveyi (Efi-Target 501692) With Homology To Mannonate
Dehydratase, With Mg, Hepes, And Ethylene Glycol Bound
(Ordered Loops, Space Group C2221)
pdb|4GGH|D Chain D, Crystal Structure Of An Enolase Family Member From Vibrio
Harveyi (Efi-Target 501692) With Homology To Mannonate
Dehydratase, With Mg, Hepes, And Ethylene Glycol Bound
(Ordered Loops, Space Group C2221)
Length = 422
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 37/92 (40%), Gaps = 10/92 (10%)
Query: 449 PDLSLGGHDVN---NEHVEKSATDEDEIMEDQGVETGTAEEKTVKSERLNGYSDVSEKTH 505
PD++ G VN N H+ +A I E + T +E +NGY SE
Sbjct: 333 PDMTPIGAAVNTHLNVHLHNAA-----IQEHVEYKANTQRVFPNAAEPINGYLYASEIAG 387
Query: 506 PGAHWDVFRRQDVPKLIEYLREHWTDFGRPDG 537
G D QD P +EY WT PDG
Sbjct: 388 IGVEMDREAAQDFP--VEYRPHEWTQSRLPDG 417
>pdb|3EUS|A Chain A, The Crystal Structure Of The Dna Binding Protein From
Silicibacter Pomeroyi
pdb|3EUS|B Chain B, The Crystal Structure Of The Dna Binding Protein From
Silicibacter Pomeroyi
Length = 86
Score = 30.0 bits (66), Expect = 4.9, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 92 CQDLREASTSVGKEEFSENDRIQDTENASEQVKTSKLRLNLLEKFPGWKANNDG 145
CQ LR+A G + +R+ ++ +V+T + RL+++E F W A +G
Sbjct: 16 CQRLRQARLDAGLTQADLAERLDKPQSFVAKVETRERRLDVIE-FAKWMAACEG 68
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.136 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,686,475
Number of Sequences: 62578
Number of extensions: 958306
Number of successful extensions: 2069
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2062
Number of HSP's gapped (non-prelim): 10
length of query: 691
length of database: 14,973,337
effective HSP length: 106
effective length of query: 585
effective length of database: 8,340,069
effective search space: 4878940365
effective search space used: 4878940365
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)