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= 009068
(544 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 34/49 (69%)
Query: 1 MVKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAF 49
+VKNCG VH ++A + + E+ ++K++ ++ +R+KIL L+ +W AF
Sbjct: 72 VVKNCGQTVHDEVANKQTMEELKDLLKRQVEVNVRNKILYLIQAWAHAF 120
>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 = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 28/76 (36%), Positives = 40/76 (52%), Gaps = 4/76 (5%)
Query: 2 VKNCGDFVHFQIAERN-VLGEMVKIV--KKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQ 58
VKNCG H +A ++ V +V+ + K P + DK+L L+ SW +AF
Sbjct: 82 VKNCGHRFHVLVASQDFVESVLVRTILPKNNPPTIVHDKVLNLIQSWADAFRS-SPDLTG 140
Query: 59 YYWAYEDLRRYGVQFP 74
YEDLRR G++FP
Sbjct: 141 VVTIYEDLRRKGLEFP 156
>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 = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 7/76 (9%)
Query: 2 VKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYYW 61
V NCG H ++ R+ E+ ++K K ++ +K+ L+ W E F K PQ+
Sbjct: 80 VANCGKIFHLEVCSRDFATEVRAVIKNKAHPKVCEKLKSLMVEWSEEF----QKDPQFSL 135
Query: 62 ---AYEDLRRYGVQFP 74
+ ++ G+ FP
Sbjct: 136 ISATIKSMKEEGITFP 151
>pdb|1WRD|A Chain A, Crystal Structure Of Tom1 Gat Domain In Complex With
Ubiquitin
Length = 103
Score = 33.5 bits (75), Expect = 0.28, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 38/78 (48%)
Query: 124 SSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQMXXXXXXXXXX 183
S L+ + + ++S+ML + P+ E E++ +L CR+ Q++++++
Sbjct: 13 SELEMVSGNVRVMSEMLTELVPTQAEPADLELLQELNRTCRAMQQRVLELIPQIANEQLT 72
Query: 184 XXXXXXNDILQNLLAKHD 201
ND L N+ +H+
Sbjct: 73 EELLIVNDNLNNVFLRHE 90
>pdb|1DVP|A Chain A, Crystal Structure Of The Vhs And Fyve Tandem Domains Of
Hrs, A Protein Involved In Membrane Trafficking And
Signal Transduction
Length = 220
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 42/90 (46%), Gaps = 12/90 (13%)
Query: 1 MVKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYY 60
+VKNCG VH ++ + ++ P +R K+L L+ +W AF + Y
Sbjct: 69 IVKNCGAPVHEEVFTKENCEMFSSFLESTPHENVRQKMLELVQTWAYAF-----RSSDKY 123
Query: 61 WAYED----LRRYGVQFPK-RSPDAAPIFT 85
A +D L+ G FP+ R DA +FT
Sbjct: 124 QAIKDTMTILKAKGHTFPELREADA--MFT 151
>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 = 32.3 bits (72), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 35/75 (46%), Gaps = 9/75 (12%)
Query: 2 VKNCGDFVHFQIAERNVLGEMVKIVKKK-----PDMQLRDKILVLLDSWQEAFGGPGGKH 56
+KNCG H ++ + L E++K+V K +++ K++ LL SW A
Sbjct: 78 MKNCGRRFHNEVGKFRFLNELIKVVSPKYLGDRVSEKVKTKVIELLYSWTMALPEEAKIK 137
Query: 57 PQYYWAYEDLRRYGV 71
AY L+R G+
Sbjct: 138 D----AYHMLKRQGI 148
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 32.0 bits (71), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 114 MATEV-ETLSFSSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDL 159
M TE+ ++ + D +RDV ++ D + VN DR V +EVI+ L
Sbjct: 129 MTTEILRSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIML 175
>pdb|1H0H|A Chain A, Tungsten Containing Formate Dehydrogenase From
Desulfovibrio Gigas
pdb|1H0H|K Chain K, Tungsten Containing Formate Dehydrogenase From
Desulfovibrio Gigas
Length = 977
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 15/27 (55%)
Query: 68 RYGVQFPKRSPDAAPIFTPPVSHPTLG 94
YG FPK DAA I TP V +P G
Sbjct: 937 HYGWSFPKNGGDAANILTPSVGNPNTG 963
>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 = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 26/92 (28%), Positives = 42/92 (45%), Gaps = 11/92 (11%)
Query: 3 KNCGDFVHFQIAERNVLGEMVKIVKKK-----PDMQLRDKILVLLDSWQEAFGGPGGKHP 57
KNCG H ++ + L E++K+V K +++ K++ LL SW A +
Sbjct: 79 KNCGRRFHNEVGKFRFLNELIKVVSPKYLGDRVSEKVKTKVIELLYSWTXAL----PEEA 134
Query: 58 QYYWAYEDLRRYGV--QFPKRSPDAAPIFTPP 87
+ AY L+R G+ P D I +PP
Sbjct: 135 KIKDAYHXLKRQGIVQSDPPIPVDRTLIPSPP 166
>pdb|1JWF|A Chain A, Crystal Structure Of Human Gga1 Vhs Domain.
pdb|1JWG|A Chain A, Vhs Domain Of Human Gga1 Complexed With Cation-independent
M6pr C-terminal Peptide
pdb|1JWG|B Chain B, Vhs Domain Of Human Gga1 Complexed With Cation-independent
M6pr C-terminal Peptide
pdb|1UJJ|A Chain A, Vhs Domain Of Human Gga1 Complexed With C-Terminal Peptide
From Bace
pdb|1UJJ|B Chain B, Vhs Domain Of Human Gga1 Complexed With C-Terminal Peptide
From Bace
pdb|1UJK|A Chain A, Vhs Domain Of Human Gga1 Complexed With C-Terminal
Phosphopeptide From Bace
pdb|1UJK|B Chain B, Vhs Domain Of Human Gga1 Complexed With C-Terminal
Phosphopeptide From Bace
Length = 147
Score = 30.8 bits (68), Expect = 1.9, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 9/75 (12%)
Query: 2 VKNCGDFVHFQIAERNVLGEMVKIVKKK-----PDMQLRDKILVLLDSWQEAFGGPGGKH 56
+K+CG H ++ + L E++K+V K ++++KIL LL SW G P +
Sbjct: 74 MKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSW--TVGLP--EE 129
Query: 57 PQYYWAYEDLRRYGV 71
+ AY+ L++ G+
Sbjct: 130 VKIAEAYQMLKKQGI 144
>pdb|3G2S|A Chain A, Vhs Domain Of Human Gga1 Complexed With Sorla C-Terminal
Peptide
pdb|3G2S|B Chain B, Vhs Domain Of Human Gga1 Complexed With Sorla C-Terminal
Peptide
pdb|3G2T|A Chain A, Vhs Domain Of Human Gga1 Complexed With Sorla C-Terminal
Phosphopeptide
pdb|3G2T|B Chain B, Vhs Domain Of Human Gga1 Complexed With Sorla C-Terminal
Phosphopeptide
pdb|3G2U|A Chain A, Vhs Domain Of Human Gga1 Complexed With Sotilin C-Terminal
Peptide
pdb|3G2U|B Chain B, Vhs Domain Of Human Gga1 Complexed With Sotilin C-Terminal
Peptide
pdb|3G2V|A Chain A, Vhs Domain Of Human Gga1 Complexed With Sotilin C-Terminal
Phosphopeptide
pdb|3G2V|B Chain B, Vhs Domain Of Human Gga1 Complexed With Sotilin C-Terminal
Phosphopeptide
pdb|3G2W|A Chain A, Vhs Domain Of Human Gga1 Complexed With A Dxxll Hinge
Peptide
pdb|3G2W|B Chain B, Vhs Domain Of Human Gga1 Complexed With A Dxxll Hinge
Peptide
Length = 149
Score = 30.8 bits (68), Expect = 2.0, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 9/75 (12%)
Query: 2 VKNCGDFVHFQIAERNVLGEMVKIVKKK-----PDMQLRDKILVLLDSWQEAFGGPGGKH 56
+K+CG H ++ + L E++K+V K ++++KIL LL SW G P +
Sbjct: 76 MKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSW--TVGLP--EE 131
Query: 57 PQYYWAYEDLRRYGV 71
+ AY+ L++ G+
Sbjct: 132 VKIAEAYQMLKKQGI 146
>pdb|1PY1|A Chain A, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
pdb|1PY1|B Chain B, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
pdb|1PY1|C Chain C, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
pdb|1PY1|D Chain D, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
Length = 158
Score = 30.0 bits (66), Expect = 3.0, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 9/75 (12%)
Query: 2 VKNCGDFVHFQIAERNVLGEMVKIVKKK-----PDMQLRDKILVLLDSWQEAFGGPGGKH 56
+K+CG H ++ + L E++K+V K ++++KIL LL SW G P +
Sbjct: 75 MKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSW--TVGLP--EE 130
Query: 57 PQYYWAYEDLRRYGV 71
+ AY+ L++ G+
Sbjct: 131 VKIAEAYQMLKKQGI 145
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
0.312 0.129 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,055,255
Number of Sequences: 62578
Number of extensions: 462072
Number of successful extensions: 725
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 719
Number of HSP's gapped (non-prelim): 17
length of query: 544
length of database: 14,973,337
effective HSP length: 104
effective length of query: 440
effective length of database: 8,465,225
effective search space: 3724699000
effective search space used: 3724699000
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)