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= 003861
(791 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EYW|A Chain A, Crystal Structure Of The C-terminal Domain Of E. Coli Kefc
In Complex With Keff
pdb|3EYW|B Chain B, Crystal Structure Of The C-terminal Domain Of E. Coli Kefc
In Complex With Keff
pdb|3L9W|A Chain A, Kefc C-Terminal Domain In Complex With Keff And Gsh
pdb|3L9W|B Chain B, Kefc C-Terminal Domain In Complex With Keff And Gsh
pdb|3L9X|A Chain A, Kefc C-Terminal Domain In Complex With Keff And Esg
pdb|3L9X|B Chain B, Kefc C-Terminal Domain In Complex With Keff And Esg
Length = 413
Score = 74.7 bits (182), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 45/144 (31%), Positives = 74/144 (51%), Gaps = 10/144 (6%)
Query: 534 VVIVGFGQMGQVLANLLSAPLASGSDGNTVGWPFVAFDLNPSVVKESRKLGFPILYGDAS 593
V+I GFG+ GQ+ LL L+SG V D +P ++ RK G + YGDA+
Sbjct: 7 VIIAGFGRFGQITGRLL---LSSGVK-------MVVLDHDPDHIETLRKFGMKVFYGDAT 56
Query: 594 RPAVLLSAGITSPKAVMIMYTDKKRTIEAVQRLRLAFPAIPIYARAQDMMHLLDLKKAGA 653
R +L SAG + ++ D + ++ + ++ FP + I ARA+D+ H + L++AG
Sbjct: 57 RMDLLESAGAAKAEVLINAIDDPQTNLQLTEMVKEHFPHLQIIARARDVDHYIRLRQAGV 116
Query: 654 TDAILENAETSLQLGSKLLKGFGV 677
E E +L+ G L+ G+
Sbjct: 117 EKPERETFEGALKTGRLALESLGL 140
>pdb|4GX0|A Chain A, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX0|B Chain B, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX0|C Chain C, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX0|D Chain D, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX1|A Chain A, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX1|B Chain B, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX1|C Chain C, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX1|D Chain D, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX2|A Chain A, Gsuk Channel Bound To Nad
pdb|4GX2|B Chain B, Gsuk Channel Bound To Nad
pdb|4GX2|C Chain C, Gsuk Channel Bound To Nad
pdb|4GX2|D Chain D, Gsuk Channel Bound To Nad
Length = 565
Score = 35.8 bits (81), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 39/142 (27%), Positives = 56/142 (39%), Gaps = 15/142 (10%)
Query: 532 EPVVIVGFGQMGQVLANLLSAPLASGSDGNTVGWPFVAFDLNPSVVKESRKLGFPILYGD 591
E + I+G G++G A L D V PF+ D S V ++YGD
Sbjct: 349 ELIFIIGHGRIGCAAAAFL--------DRKPV--PFILIDRQESPVCNDHV----VVYGD 394
Query: 592 ASRPAVLLSAGITSPKAVMIMYTDKKRTIEAVQRLRLAFPAIPIYARAQDMMHLLDLKKA 651
A+ L AGI +++ D I R I I ARA ++ L A
Sbjct: 395 ATVGQTLRQAGIDRASGIIVTTNDDSTNIFLTLACRHLHSHIRIVARANGEENVDQLYAA 454
Query: 652 GATDAILENAETSLQLGSKLLK 673
GA D ++ NA + LL+
Sbjct: 455 GA-DFVVSNASVGANILGNLLE 475
>pdb|4GX5|A Chain A, Gsuk Channel
pdb|4GX5|B Chain B, Gsuk Channel
pdb|4GX5|C Chain C, Gsuk Channel
pdb|4GX5|D Chain D, Gsuk Channel
Length = 565
Score = 35.8 bits (81), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 39/142 (27%), Positives = 56/142 (39%), Gaps = 15/142 (10%)
Query: 532 EPVVIVGFGQMGQVLANLLSAPLASGSDGNTVGWPFVAFDLNPSVVKESRKLGFPILYGD 591
E + I+G G++G A L D V PF+ D S V ++YGD
Sbjct: 349 ELIFIIGHGRIGCAAAAFL--------DRKPV--PFILIDRQESPVCNDHV----VVYGD 394
Query: 592 ASRPAVLLSAGITSPKAVMIMYTDKKRTIEAVQRLRLAFPAIPIYARAQDMMHLLDLKKA 651
A+ L AGI +++ D I R I I ARA ++ L A
Sbjct: 395 ATVGQTLRQAGIDRASGIIVTTNDDSTNIFLTLACRHLHSHIRIVARANGEENVDQLYAA 454
Query: 652 GATDAILENAETSLQLGSKLLK 673
GA D ++ NA + LL+
Sbjct: 455 GA-DFVVSNASVGANILGNLLE 475
>pdb|4GVL|A Chain A, Crystal Structure Of The Gsuk Rck Domain
pdb|4GVL|B Chain B, Crystal Structure Of The Gsuk Rck Domain
pdb|4GVL|C Chain C, Crystal Structure Of The Gsuk Rck Domain
pdb|4GVL|D Chain D, Crystal Structure Of The Gsuk Rck Domain
Length = 462
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 43/164 (26%), Positives = 65/164 (39%), Gaps = 17/164 (10%)
Query: 532 EPVVIVGFGQMGQVLANLLSAPLASGSDGNTVGWPFVAFDLNPSVVKESRKLGFPILYGD 591
E + I+G G++G A L D V PF+ D S V ++YGD
Sbjct: 246 ELIFIIGHGRIGCAAAAFL--------DRKPV--PFILIDRQESPVCNDHV----VVYGD 291
Query: 592 ASRPAVLLSAGITSPKAVMIMYTDKKRTIEAVQRLRLAFPAIPIYARAQDMMHLLDLKKA 651
A+ L AGI +++ D I R I I ARA ++ L A
Sbjct: 292 ATVGQTLRQAGIDRASGIIVTTNDDSTNIFLTLACRHLHSHIRIVARANGEENVDQLYAA 351
Query: 652 GATDAILENAETSLQLGSKLL--KGFGVMSDDVTFLRQLVRNSM 693
GA D ++ NA + LL K +S+ + R+ + +M
Sbjct: 352 GA-DFVVSNASVGANILGNLLEHKESAFLSEGMAVFRRPLPPAM 394
>pdb|2F6H|X Chain X, Myosin V Cargo Binding Domain
Length = 419
Score = 32.7 bits (73), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 669 SKLLKGFGVMSDDVTFLRQLVRNSMEIQAQEVLSQKDDQEFDIMKPLQV--RVADIVEAE 726
+KLL+ +D+ LR + + Q Q+++SQ +++ P ++ VADIV+ E
Sbjct: 292 AKLLQVRKYTIEDIDILRGICYSLTPAQLQKLISQYQVADYESPIPQEILRYVADIVKKE 351
Query: 727 KTIPSTSNDDK 737
+ S+ ND K
Sbjct: 352 AALSSSGNDSK 362
>pdb|3FWZ|A Chain A, Crystal Structure Of Trka-n Domain Of Inner Membrane
Protein Ybal From Escherichia Coli
pdb|3FWZ|B Chain B, Crystal Structure Of Trka-n Domain Of Inner Membrane
Protein Ybal From Escherichia Coli
Length = 140
Score = 32.7 bits (73), Expect = 0.90, Method: Composition-based stats.
Identities = 35/136 (25%), Positives = 59/136 (43%), Gaps = 13/136 (9%)
Query: 535 VIVGFGQMGQVLANLLSAPLASGSDGNTVGWPFVAFDLNPSVVKESRKLGFPILYGDASR 594
++VG+G++G +L L A SD P V + + + V E R+ G + G+A+
Sbjct: 11 LLVGYGRVGSLLGEKLLA-----SD-----IPLVVIETSRTRVDELRERGVRAVLGNAAN 60
Query: 595 PAVLLSAGITSPKAVMIMYTDKKRTIEAVQRLRLAFPAIPIYARAQDMMHLLDLKKAGAT 654
+ A + K +++ + E V R P I I ARA + + + GA
Sbjct: 61 EEIXQLAHLECAKWLILTIPNGYEAGEIVASARAKNPDIEIIARAHYDDEVAYITERGAN 120
Query: 655 DAIL---ENAETSLQL 667
+ E A T L+L
Sbjct: 121 QVVXGEREIARTXLEL 136
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
0.320 0.137 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,663,023
Number of Sequences: 62578
Number of extensions: 689449
Number of successful extensions: 1452
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1447
Number of HSP's gapped (non-prelim): 11
length of query: 791
length of database: 14,973,337
effective HSP length: 107
effective length of query: 684
effective length of database: 8,277,491
effective search space: 5661803844
effective search space used: 5661803844
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: 55 (25.8 bits)