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= 002500
(915 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 = 118 bits (295), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 106/404 (26%), Positives = 182/404 (45%), Gaps = 78/404 (19%)
Query: 491 FRKHWVKGEPVIVKQVCDSSSMSIWDPKDIWRGIRETADEKTKDENRIVKAIDCLDWSEV 550
F++ W +G+P +V V ++S+W + I + D + ++C D
Sbjct: 27 FKECWKQGQPAVVSGVHKKMNISLWKAESI---SLDFGDHQAD-------LLNCKDSIIS 76
Query: 551 DIELGEFIKGYSEGRVRE---DGWPEMLKLKDWPSPSASEEFLLYHKPEFISKLPLLEYI 607
+ + EF G+ E R+ G +LKLKDWPS + + + + LPL EY
Sbjct: 77 NANVKEFWDGFEEVSKRQKNKSGETVVLKLKDWPSGEDFKTMMPARYEDLLKSLPLPEYC 136
Query: 608 HSRLGFLNVAAKLPHYSLQNDVGPKIYMSYGTYEELDRGNSVKNLHFNMPDMVYLLVHMG 667
+ G N+A+ LP + ++ D+GP++ +YG D NLH + D+V +LV++G
Sbjct: 137 NPE-GKFNLASHLPGFFVRPDLGPRLCSAYGVVAAKDHDIGTTNLHIEVSDVVNILVYVG 195
Query: 668 EVKLPTTEDEKIQXXXXXXXXXXXXGDPEKVSGEGSFPDLSLGGHDVNNEHVEKSATDED 727
K G G LS G + K +ED
Sbjct: 196 IAK-----------------------------GNGI---LSKAG-------ILKKFEEED 216
Query: 728 EIMEDQGVETGTAEEKTVKSERLNGYSDVSEKTHPGAHWDVFRRQDVPKLIEYLREHWTD 787
++D + +RL S++ PGA W ++ +DV K+ E+L++
Sbjct: 217 --LDD------------ILRKRLKDSSEI-----PGALWHIYAGKDVDKIREFLQK---- 253
Query: 788 FGRPDGVTNDFVTHPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQV 847
+ G+ P+ + Y+N +++L EE+GV + Q LG+A+ +PAG QV
Sbjct: 254 ISKEQGLEVLPEHDPIRDQSWYVNKKLRQRLLEEYGVRTCTLIQFLGDAIVLPAGALHQV 313
Query: 848 RNLQSTVQLGLDFLFPESVGEAVRLAEEIRCLPN--DHEAKLQV 889
+N S +Q+ DF+ PE + E+ L +E+R L +++ KLQV
Sbjct: 314 QNFHSCIQVTEDFVSPEHLVESFHLTQELRLLKEEINYDDKLQV 357
>pdb|3QM0|A Chain A, Crystal Structure Of Rtt109-Ac-Coa Complex
Length = 388
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 14/64 (21%)
Query: 203 DRERVVWCVKCDKRGYCDSCISTW-YSDIPLE---------ELEKVCPACRGSCN----C 248
D ER+++ K D GYC++ +S + I LE L+KV PA R +C
Sbjct: 80 DAERLIFVSKADTNGYCNTRVSVRDITKIILEFILSIDPNYYLQKVKPAIRSTCPREILT 139
Query: 249 KACL 252
K CL
Sbjct: 140 KICL 143
>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 = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 37/92 (40%), Gaps = 10/92 (10%)
Query: 705 PDLSLGGHDVN---NEHVEKSATDEDEIMEDQGVETGTAEEKTVKSERLNGYSDVSEKTH 761
PD++ G VN N H+ +A I E + T +E +NGY SE
Sbjct: 333 PDMTPIGAAVNTHLNVHLHNAA-----IQEHVEYKANTQRVFPNAAEPINGYLYASEIAG 387
Query: 762 PGAHWDVFRRQDVPKLIEYLREHWTDFGRPDG 793
G D QD P +EY WT PDG
Sbjct: 388 IGVEMDREAAQDFP--VEYRPHEWTQSRLPDG 417
>pdb|2FUG|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|L Chain L, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|U Chain U, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|3I9V|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3I9V|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3IAM|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAM|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAS|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|L Chain L, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|U Chain U, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3M9S|3 Chain 3, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|3M9S|C Chain C, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|2YBB|3 Chain 3, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|4HEA|3 Chain 3, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
pdb|4HEA|D Chain D, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
Length = 783
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 11/40 (27%), Positives = 22/40 (55%)
Query: 232 LEELEKVCPACRGSCNCKACLRADNMIKVRIREIPVLDKL 271
+EE C C C A R+ ++++R RE+P ++++
Sbjct: 249 MEETPTTCALCPVGCGITADTRSGELLRIRAREVPEVNEI 288
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
0.316 0.135 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,654,657
Number of Sequences: 62578
Number of extensions: 1253890
Number of successful extensions: 2531
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2524
Number of HSP's gapped (non-prelim): 7
length of query: 915
length of database: 14,973,337
effective HSP length: 108
effective length of query: 807
effective length of database: 8,214,913
effective search space: 6629434791
effective search space used: 6629434791
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: 56 (26.2 bits)