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= 026760
(233 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1T91|B Chain B, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1T91|C Chain C, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1T91|D Chain D, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1YHN|A Chain A, Structure Basis Of Rilp Recruitment By Rab7
Length = 207
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 38/86 (44%), Gaps = 20/86 (23%)
Query: 128 NLLNNHPELQEALVWVYFHSNIPEFNKVECWGPLKEAVAGSSEAGGT--RHEIRQETSIS 185
+L N + A W Y +NIP F KEA+ +A T R+ ++QET +
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFE-----TSAKEAI-NVEQAFQTIARNALKQETEVE 181
Query: 186 NW-ELPEPCQ-----------ETCNC 199
+ E PEP + E+C+C
Sbjct: 182 LYNEFPEPIKLDKNDRAKASAESCSC 207
>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex
With Monoprenylated Rab7 Protein
pdb|1VG8|A Chain A, Gppnhp-Bound Rab7
pdb|1VG8|B Chain B, Gppnhp-Bound Rab7
pdb|1VG8|C Chain C, Gppnhp-Bound Rab7
pdb|1VG8|D Chain D, Gppnhp-Bound Rab7
Length = 207
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 38/86 (44%), Gaps = 20/86 (23%)
Query: 128 NLLNNHPELQEALVWVYFHSNIPEFNKVECWGPLKEAVAGSSEAGGT--RHEIRQETSIS 185
+L N + A W Y +NIP F KEA+ +A T R+ ++QET +
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFE-----TSAKEAI-NVEQAFQTIARNALKQETEVE 181
Query: 186 NW-ELPEPCQ-----------ETCNC 199
+ E PEP + E+C+C
Sbjct: 182 LYNEFPEPIKLDKNERAKASAESCSC 207
>pdb|3L5K|A Chain A, The Crystal Structure Of Human Haloacid Dehalogenase-Like
Hydrolase Domain Containing 1a (Hdhd1a)
Length = 250
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 40/98 (40%), Gaps = 9/98 (9%)
Query: 126 DGNLLNNHPELQEALVWVYFHSNIPEFNKVECWGPLKEAVAGSS--EAGGTRHEIRQETS 183
DG LL+ E L V F ++K W +K V G EA ++ Q
Sbjct: 38 DGLLLDT-----ERLYSVVFQEICNRYDKKYSWD-VKSLVMGKKALEAAQIIIDVLQ-LP 90
Query: 184 ISNWELPEPCQETCNCCFPPMSLIPWSEKLPLQTENRG 221
+S EL E Q FP +L+P +EKL + G
Sbjct: 91 MSKEELVEESQTKLKEVFPTAALMPGAEKLIIHLRKHG 128
>pdb|4A01|A Chain A, Crystal Structure Of The H-Translocating Pyrophosphatase
pdb|4A01|B Chain B, Crystal Structure Of The H-Translocating Pyrophosphatase
Length = 766
Score = 28.1 bits (61), Expect = 4.4, Method: Composition-based stats.
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 155 VECWGPLKEAVAGSSEAGGTRHEIRQET 182
++ +GP+ + G +E G H IR+ T
Sbjct: 499 IDAYGPISDNAGGIAEMAGMSHRIRERT 526
>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|B Chain B, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|C Chain C, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|D Chain D, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|E Chain E, Structure Of Gtp-Bound L129f Mutant Rab7
Length = 207
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 20/83 (24%)
Query: 131 NNHPELQEALVWVYFHSNIPEFNKVECWGPLKEAVAGSSEAGGT--RHEIRQETSISNW- 187
N + A W Y +NIP F KEA+ +A T R+ ++QET + +
Sbjct: 131 NRQVATKRAQAWCYSKNNIPYFE-----TSAKEAI-NVEQAFQTIARNALKQETEVELYN 184
Query: 188 ELPEPCQ-----------ETCNC 199
E PEP + E+C+C
Sbjct: 185 EFPEPIKLDKNDRAKASAESCSC 207
>pdb|3R3Q|A Chain A, Crystal Structure Of The Yeast Vps23 Uev Domain
pdb|3R42|A Chain A, Crystal Structure Of The Yeast Vps23 Uev Domain In
Complex With A Vps27 Psdp Peptide
Length = 162
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 35 PRTYTLTHSDITSKLTLAISQTINNSQ 61
PRT THSD T +L L+I TI+ +
Sbjct: 49 PRTRVFTHSDGTPQLLLSIYGTISTGE 75
>pdb|1UZX|A Chain A, A Complex Of The Vps23 Uev With Ubiquitin
Length = 169
Score = 26.9 bits (58), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 35 PRTYTLTHSDITSKLTLAISQTINNSQ 61
PRT THSD T +L L+I TI+ +
Sbjct: 55 PRTRVFTHSDGTPQLLLSIYGTISTGE 81
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
0.319 0.135 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,318,311
Number of Sequences: 62578
Number of extensions: 300531
Number of successful extensions: 652
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 649
Number of HSP's gapped (non-prelim): 7
length of query: 233
length of database: 14,973,337
effective HSP length: 96
effective length of query: 137
effective length of database: 8,965,849
effective search space: 1228321313
effective search space used: 1228321313
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: 50 (23.9 bits)