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= 041149
(389 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1ELK|A Chain A, Vhs Domain Of Tom1 Protein From H. Sapiens
pdb|1ELK|B Chain B, Vhs Domain Of Tom1 Protein From H. Sapiens
Length = 157
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 55/117 (47%), Gaps = 4/117 (3%)
Query: 36 TPESKMVDEATLETLEEPNWGMNMRICALIN-SEEFSGSEXXXXXXXXXXXXXXXXQRLS 94
+P + +++AT +L+ +W +NM IC +IN +EE L+
Sbjct: 15 SPVGQRIEKATDGSLQSEDWALNMEICDIINETEEGPKDALRAVKKRIVGNKNFHEVMLA 74
Query: 95 LDLLEACAMNCEKVFSE-VASEKVLDEMVRMIENPQMDPGN--RSRALQLIRAWGES 148
L +LE C NC F VAS+ ++ ++ P+ +P + L LI++W ++
Sbjct: 75 LTVLETCVKNCGHRFHVLVASQDFVESVLVRTILPKNNPPTIVHDKVLNLIQSWADA 131
>pdb|3RRU|A Chain A, X-Ray Crystal Structure Of The Vhs Domain Of Human
Tom1-Like Protein, Northeast Structural Genomics
Consortium Target Hr3050e
pdb|3RRU|B Chain B, X-Ray Crystal Structure Of The Vhs Domain Of Human
Tom1-Like Protein, Northeast Structural Genomics
Consortium Target Hr3050e
Length = 152
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/118 (22%), Positives = 55/118 (46%), Gaps = 6/118 (5%)
Query: 36 TPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEXXXXXXXXXXXXXXXXQ-RLS 94
T ++++AT ++ +WG IC +IN+ + + + +L+
Sbjct: 15 TSVGHLIEKATFAGVQTEDWGQFXHICDIINTTQDGPKDAVKALKKRISKNYNHKEIQLT 74
Query: 95 LDLLEACAMNCEKVFSE--VASEKVLDEMVRMIENPQMD-PGN-RSRALQLIRAWGES 148
L L++ C NC F V E V + +V+++ NP+ + P + ++R L I+ W +
Sbjct: 75 LSLIDXCVQNCGPSFQSLIVKKEFVKENLVKLL-NPRYNLPLDIQNRILNFIKTWSQG 131
>pdb|3ZYQ|A Chain A, Crystal Structure Of The Tandem Vhs And Fyve Domains Of
Hepatocyte Growth Factor-Regulated Tyrosine Kinase
Substrate (Hgs-Hrs) At 1.48 A Resolution
pdb|4AVX|A Chain A, Hepatocyte Growth Factor-Regulated Tyrosine Kinase
Substrate (Hgs-Hrs) Bound To An Ip2 Compound At 1.68 A
Resolution
Length = 226
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/110 (23%), Positives = 56/110 (50%), Gaps = 2/110 (1%)
Query: 40 KMVDEATLETLEEPNWGMNMRICALINSEEFSGSEXXXXXXXXXXXXXXXXQRLSLDLLE 99
+++D+AT + L E +W ++IC LI + +L+++E
Sbjct: 11 RLLDKATSQLLLETDWESILQICDLIRQGDTQAKYAVNSIKKKVNDKNPHVALYALEVME 70
Query: 100 ACAMNC-EKVFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148
+ NC + V EVA+++ ++E+ +++ Q++ R++ L LI+AW +
Sbjct: 71 SVVKNCGQTVHDEVANKQTMEELKDLLKR-QVEVNVRNKILYLIQAWAHA 119
>pdb|1NAF|A Chain A, Crystal Structure Of The Human Gga1 Gat Domain
Length = 158
Score = 36.2 bits (82), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%)
Query: 256 EDLTVSMLEKCKESQPVIQRIIESTTDDEAMLFEALNLHDELQLVISRYEEL 307
EDL + ++C+ +P + R+ T D++ L E L +D L VI+ Y++L
Sbjct: 90 EDLXKELYQRCERXRPTLFRLASDTEDNDEALAEILQANDNLTQVINLYKQL 141
>pdb|1OXZ|A Chain A, Crystal Structure Of The Human Gga1 Gat Domain
Length = 186
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%)
Query: 256 EDLTVSMLEKCKESQPVIQRIIESTTDDEAMLFEALNLHDELQLVISRYEEL 307
EDL + ++C+ +P + R+ T D++ L E L +D L VI+ Y++L
Sbjct: 106 EDLMKELYQRCERMRPTLFRLASDTEDNDEALAEILQANDNLTQVINLYKQL 157
>pdb|1X79|A Chain A, Crystal Structure Of Human Gga1 Gat Domain Complexed With
The Gat-Binding Domain Of Rabaptin5
Length = 98
Score = 35.4 bits (80), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%)
Query: 256 EDLTVSMLEKCKESQPVIQRIIESTTDDEAMLFEALNLHDELQLVISRYEEL 307
EDL + ++C+ +P + R+ T D++ L E L +D L VI+ Y++L
Sbjct: 42 EDLMKELYQRCERMRPTLFRLASDTEDNDEALAEILQANDNLTQVINLYKQL 93
>pdb|1X5B|A Chain A, The Solution Structure Of The Vhs Domain Of Human Signal
Transducing Adaptor Molecule 2
pdb|2L0T|B Chain B, Solution Structure Of The Complex Of Ubiquitin And The Vhs
Domain Of Stam2
Length = 163
Score = 35.0 bits (79), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 56/145 (38%), Gaps = 7/145 (4%)
Query: 32 LQAPTPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEXXXXXXXXXXXXXXXXQ 91
L P + V++AT E +W + M IC + S +
Sbjct: 10 LFTANPFEQDVEKATNEYNTTEDWSLIMDICDKVGSTPNGAKDCLKAIMKRVNHKVPHVA 69
Query: 92 RLSLDLLEACAMNCEKVFS-EVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGESED 150
+L LL AC NC K+F EV S E+ +I+N + P + L+ W SE+
Sbjct: 70 LQALTLLGACVANCGKIFHLEVCSRDFATEVRAVIKN-KAHPKVCEKLKSLMVEW--SEE 126
Query: 151 LAYLPVY---RQTYMSLKERSVPPP 172
P + T S+KE + P
Sbjct: 127 FQKDPQFSLISATIKSMKEEGITFP 151
>pdb|1NWM|X Chain X, Gat Domain Of Human Gga1
Length = 142
Score = 34.7 bits (78), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%)
Query: 256 EDLTVSMLEKCKESQPVIQRIIESTTDDEAMLFEALNLHDELQLVISRYEEL 307
EDL + ++C+ +P + R+ T D++ L E L +D L VI+ Y++L
Sbjct: 86 EDLMKELYQRCERMRPTLFRLASDTEDNDEALAEILQANDNLTQVINLYKQL 137
>pdb|1O3X|A Chain A, Crystal Structure Of Human Gga1 Gat Domain
Length = 140
Score = 34.7 bits (78), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%)
Query: 256 EDLTVSMLEKCKESQPVIQRIIESTTDDEAMLFEALNLHDELQLVISRYEEL 307
EDL + ++C+ +P + R+ T D++ L E L +D L VI+ Y++L
Sbjct: 81 EDLMKELYQRCERMRPTLFRLASDTEDNDEALAEILQANDNLTQVINLYKQL 132
>pdb|1JPL|A Chain A, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Independent Mannose 6-Phosphate Receptor
pdb|1JPL|B Chain B, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Independent Mannose 6-Phosphate Receptor
pdb|1JPL|C Chain C, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Independent Mannose 6-Phosphate Receptor
pdb|1JPL|D Chain D, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Independent Mannose 6-Phosphate Receptor
pdb|1JUQ|A Chain A, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Dependent Mannose 6-Phosphate Receptor
pdb|1JUQ|B Chain B, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Dependent Mannose 6-Phosphate Receptor
pdb|1JUQ|C Chain C, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Dependent Mannose 6-Phosphate Receptor
pdb|1JUQ|D Chain D, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Dependent Mannose 6-Phosphate Receptor
Length = 171
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 54/113 (47%), Gaps = 11/113 (9%)
Query: 41 MVDEATLETLEEPNWGMNMRICALINSEEFSGSEXXXXXXXXXXXXXXXXQRL-SLDLLE 99
+++AT + + +W + C IN +E G + + L +L +LE
Sbjct: 17 WLNKATNPSNRQEDWEYIIGFCDQIN-KELEGPQIAVRLLAHKIQSPQEWEALQALTVLE 75
Query: 100 ACAMNCEKVF-SEVASEKVLDEMVRMIENPQMDPGNR------SRALQLIRAW 145
AC NC + F +EV + L+E+++++ + G+R ++ ++L+ +W
Sbjct: 76 ACXKNCGRRFHNEVGKFRFLNELIKVVSPKYL--GDRVSEKVKTKVIELLYSW 126
>pdb|1LF8|A Chain A, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
pdb|1LF8|B Chain B, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
pdb|1LF8|C Chain C, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
pdb|1LF8|D Chain D, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
Length = 171
Score = 31.6 bits (70), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 54/113 (47%), Gaps = 11/113 (9%)
Query: 41 MVDEATLETLEEPNWGMNMRICALINSEEFSGSEXXXXXXXXXXXXXXXXQRL-SLDLLE 99
+++AT + + +W + C IN +E G + + L +L +LE
Sbjct: 17 WLNKATNPSNRQEDWEYIIGFCDQIN-KELEGPQIAVRLLAHKIQSPQEWEALQALTVLE 75
Query: 100 ACAMNCEKVF-SEVASEKVLDEMVRMIENPQMDPGNR------SRALQLIRAW 145
AC NC + F +EV + L+E+++++ + G+R ++ ++L+ +W
Sbjct: 76 ACMKNCGRRFHNEVGKFRFLNELIKVVSPKYL--GDRVSEKVKTKVIELLYSW 126
>pdb|3LDZ|A Chain A, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|D Chain D, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|B Chain B, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|C Chain C, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
Length = 140
Score = 31.6 bits (70), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 32/140 (22%), Positives = 54/140 (38%), Gaps = 2/140 (1%)
Query: 34 APTPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEXXXXXXXXXXXXXXXXQRL 93
A P + V++AT E +WG+ + IC + +
Sbjct: 2 ATNPFDQDVEKATSEMNTAEDWGLILDICDKVGQSRTGPKDCLRSIMRRVNHKDPHVAMQ 61
Query: 94 SLDLLEACAMNCEKVFS-EVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGESEDLA 152
+L LL AC NC K+F EV S E+ ++ + +AL ++ E ++
Sbjct: 62 ALTLLGACVSNCGKIFHLEVCSRDFASEVSNVLNKGHPKVCEKLKAL-MVEWTDEFKNDP 120
Query: 153 YLPVYRQTYMSLKERSVPPP 172
L + +LKE+ V P
Sbjct: 121 QLSLISAMIKNLKEQGVTFP 140
>pdb|3K7N|A Chain A, Structures Of Two Elapid Snake Venom Metalloproteases With
Distinct Activities Highlight The Disulfide Patterns In
The D Domain Of Adamalysin Family Proteins
Length = 397
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 202 IPETGLHGADRTSFAYNYGSLSVDEKKEFLVVTRNSLDLLSSILNTETEPKPIKEDLTVS 261
IP + RT+ A+ + S S+ E +E+L+ R +L+ L+T+ PI + V
Sbjct: 163 IPGPCIMLKKRTAPAFQFSSCSIREYREYLLRDRPQC-ILNKPLSTDIVSPPICGNYFVE 221
Query: 262 MLEKCKESQP 271
+ E+C P
Sbjct: 222 VGEECDCGSP 231
>pdb|2V5D|A Chain A, Structure Of A Family 84 Glycoside Hydrolase And A Family
32 Carbohydrate-Binding Module In Tandem From
Clostridium Perfringens
Length = 737
Score = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 33/123 (26%), Positives = 56/123 (45%), Gaps = 20/123 (16%)
Query: 235 RNSLDLLSSILNTETEPKPIKEDLTVSMLEKCKESQPVIQRIIESTTDDEAMLFEALNLH 294
+ SLD++ + LN +TE +++ + L S VI + + EA+ F
Sbjct: 536 KASLDMIVAQLNEDTEAYESAKEIAQNKLNTALSSFAVISEKVAQSFIQEALSF------ 589
Query: 295 DELQLVISRYEELEAAVQ--SGEPAPGKSDTPDANLATRVGAHSEPKAADTSEADLPAHD 352
+L L+ R ++ A+ + SGE AP S D ++ T HS+ + PAH+
Sbjct: 590 -DLTLINPRTVKITASSEETSGENAPA-SFASDGDMNTF--WHSKWSS--------PAHE 637
Query: 353 GTH 355
G H
Sbjct: 638 GPH 640
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
0.309 0.128 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,014,957
Number of Sequences: 62578
Number of extensions: 443593
Number of successful extensions: 825
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 816
Number of HSP's gapped (non-prelim): 21
length of query: 389
length of database: 14,973,337
effective HSP length: 101
effective length of query: 288
effective length of database: 8,652,959
effective search space: 2492052192
effective search space used: 2492052192
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 52 (24.6 bits)