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= 016112
(395 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 = 83.6 bits (205), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 48/142 (33%), Positives = 79/142 (55%), Gaps = 2/142 (1%)
Query: 43 QGPNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQY 102
+G E+L++ ATS+ L E DW L +CD+I + + IKK++ K+P +
Sbjct: 4 RGSGTFERLLDKATSQLLLETDWESILQICDLIRQGDTQAKYAVNSIKKKVNDKNPHVAL 63
Query: 103 LALVLLETVVKNC-EKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSE 161
AL ++E+VVKNC + EVA ++ ++E+ L+ Q VN RNK L +I+AW +
Sbjct: 64 YALEVMESVVKNCGQTVHDEVANKQTMEELKDLLK-RQVEVNVRNKILYLIQAWAHAFRN 122
Query: 162 LRYLPVYEETYKSLRSRGIRFP 183
V ++TY+ ++ G FP
Sbjct: 123 EPKYKVVQDTYQIMKVEGHVFP 144
>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 = 81.3 bits (199), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 50/144 (34%), Positives = 81/144 (56%), Gaps = 8/144 (5%)
Query: 46 NPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIML-KSPRIQYLA 104
+PV + +E AT +L+ DWA+N+++CD+IN + D +R +KKRI+ K+ LA
Sbjct: 15 SPVGQRIEKATDGSLQSEDWALNMEICDIINETEEGPKDALRAVKKRIVGNKNFHEVMLA 74
Query: 105 LVLLETVVKNCEKAFSEVAA-----ERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGEST 159
L +LET VKNC F + A E VL + ++P T+V+ +K L +I++W ++
Sbjct: 75 LTVLETCVKNCGHRFHVLVASQDFVESVLVRTILPKNNPPTIVH--DKVLNLIQSWADAF 132
Query: 160 SELRYLPVYEETYKSLRSRGIRFP 183
L Y+ LR +G+ FP
Sbjct: 133 RSSPDLTGVVTIYEDLRRKGLEFP 156
>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 = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/139 (32%), Positives = 68/139 (48%), Gaps = 3/139 (2%)
Query: 46 NPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLAL 105
NP ++ VE ATSE DW + LD+CD + + D +R I +R+ K P + AL
Sbjct: 4 NPFDQDVEKATSEMNTAEDWGLILDICDKVGQSRTGPKDCLRSIMRRVNHKDPHVAMQAL 63
Query: 106 VLLETVVKNCEKAFS-EVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRY 164
LL V NC K F EV + E+ +++ V + KAL M+E W +
Sbjct: 64 TLLGACVSNCGKIFHLEVCSRDFASEVSNVLNKGHPKVCEKLKAL-MVE-WTDEFKNDPQ 121
Query: 165 LPVYEETYKSLRSRGIRFP 183
L + K+L+ +G+ FP
Sbjct: 122 LSLISAMIKNLKEQGVTFP 140
>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 = 71.6 bits (174), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 47/149 (31%), Positives = 74/149 (49%), Gaps = 4/149 (2%)
Query: 46 NPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLAL 105
NP E+ VE AT+E DW++ +D+CD + + + D ++ I KR+ K P + AL
Sbjct: 14 NPFEQDVEKATNEYNTTEDWSLIMDICDKVGSTPNGAKDCLKAIMKRVNHKVPHVALQAL 73
Query: 106 VLLETVVKNCEKAFS-EVAAERVLDEMVKLI-DDPQTVVNNRNKALVMIEAWGESTSELR 163
LL V NC K F EV + E+ +I + V + K+L M+E W E +
Sbjct: 74 TLLGACVANCGKIFHLEVCSRDFATEVRAVIKNKAHPKVCEKLKSL-MVE-WSEEFQKDP 131
Query: 164 YLPVYEETYKSLRSRGIRFPGRDNESLAP 192
+ T KS++ GI FP +++ P
Sbjct: 132 QFSLISATIKSMKEEGITFPPAGSQTSGP 160
>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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 51/198 (25%), Positives = 89/198 (44%), Gaps = 9/198 (4%)
Query: 50 KLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLE 109
K +E+ATS EPDW L +CD IN + ++ + IKK++ +P +L++LE
Sbjct: 8 KNLENATSHLRLEPDWPSILLICDEINQKDVTPKNAFAAIKKKMNSPNPHSSCYSLLVLE 67
Query: 110 TVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYE 169
++VKNC E + EM + N R K L +++ W + +
Sbjct: 68 SIVKNCGAPVHEEVFTKENCEMFSSFLESTPHENVRQKMLELVQTWAYAFRSSDKYQAIK 127
Query: 170 ETYKSLRSRGIRFPG-RDNESL-----APIFTPPRSVSETEVDATLAEQIQRDIR--GQS 221
+T L+++G FP R+ +++ AP + R V+ T + + R GQ
Sbjct: 128 DTMTILKAKGHTFPELREADAMFTADTAPNWADGRVCHRCRVEFTFTNR-KHHCRNCGQV 186
Query: 222 FTKEQTKEAFDVARNSIE 239
F + T + + + IE
Sbjct: 187 FCGQCTAKQCPLPKYGIE 204
>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 = 55.5 bits (132), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 40/137 (29%), Positives = 67/137 (48%), Gaps = 6/137 (4%)
Query: 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIM--LKSPRIQYLAL 105
V L+E AT ++ DW +CD+INT + D ++ +KKRI IQ L L
Sbjct: 17 VGHLIEKATFAGVQTEDWGQFXHICDIINTTQDGPKDAVKALKKRISKNYNHKEIQ-LTL 75
Query: 106 VLLETVVKNCEKAFSE--VAAERVLDEMVKLIDDPQTV-VNNRNKALVMIEAWGESTSEL 162
L++ V+NC +F V E V + +VKL++ + ++ +N+ L I+ W +
Sbjct: 76 SLIDXCVQNCGPSFQSLIVKKEFVKENLVKLLNPRYNLPLDIQNRILNFIKTWSQGFPGG 135
Query: 163 RYLPVYEETYKSLRSRG 179
+ +E Y L +G
Sbjct: 136 VDVSEVKEVYLDLVKKG 152
>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 = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 34/139 (24%), Positives = 65/139 (46%), Gaps = 10/139 (7%)
Query: 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVL 107
+E + AT+ + + DW + CD IN E +R + +I AL +
Sbjct: 14 LESWLNKATNPSNRQEDWEYIIGFCDQINKELEGPQIAVRLLAHKIQSPQEWEALQALTV 73
Query: 108 LETVVKNCEKAF-SEVAAERVLDEMVKLIDDPQTVVNN-----RNKALVMIEAWGESTSE 161
LE KNC + F +EV R L+E++K++ P+ + + + K + ++ +W + E
Sbjct: 74 LEACXKNCGRRFHNEVGKFRFLNELIKVV-SPKYLGDRVSEKVKTKVIELLYSWTXALPE 132
Query: 162 LRYLPVYEETYKSLRSRGI 180
+ ++ Y L+ +GI
Sbjct: 133 EAKI---KDAYHXLKRQGI 148
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 34/139 (24%), Positives = 66/139 (47%), Gaps = 10/139 (7%)
Query: 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVL 107
+E + AT+ + + DW + CD IN E +R + +I AL +
Sbjct: 14 LESWLNKATNPSNRQEDWEYIIGFCDQINKELEGPQIAVRLLAHKIQSPQEWEALQALTV 73
Query: 108 LETVVKNCEKAF-SEVAAERVLDEMVKLIDDPQTVVNN-----RNKALVMIEAWGESTSE 161
LE +KNC + F +EV R L+E++K++ P+ + + + K + ++ +W + E
Sbjct: 74 LEACMKNCGRRFHNEVGKFRFLNELIKVV-SPKYLGDRVSEKVKTKVIELLYSWTMALPE 132
Query: 162 LRYLPVYEETYKSLRSRGI 180
+ ++ Y L+ +GI
Sbjct: 133 EAKI---KDAYHMLKRQGI 148
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 42/145 (28%), Positives = 70/145 (48%), Gaps = 16/145 (11%)
Query: 45 PNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPR----I 100
P +E + AT+ +E DWA C+ +N + R + +I +SP+ I
Sbjct: 8 PETLEARINRATNPLNKELDWASINGFCEQLNEDFEGPPLATRLLAHKI--QSPQEWEAI 65
Query: 101 QYLALVLLETVVKNCEKAFS-EVAAERVLDEMVKLID----DPQTVVNNRNKALVMIEAW 155
Q AL +LET +K+C K F EV R L+E++K++ +T +NK L ++ +W
Sbjct: 66 Q--ALTVLETCMKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSW 123
Query: 156 GESTSELRYLPVYEETYKSLRSRGI 180
E + E Y+ L+ +GI
Sbjct: 124 TVGLPEEVKI---AEAYQMLKKQGI 145
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 42/145 (28%), Positives = 70/145 (48%), Gaps = 16/145 (11%)
Query: 45 PNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPR----I 100
P +E + AT+ +E DWA C+ +N + R + +I +SP+ I
Sbjct: 9 PETLEARINRATNPLNKELDWASINGFCEQLNEDFEGPPLATRLLAHKI--QSPQEWEAI 66
Query: 101 QYLALVLLETVVKNCEKAFS-EVAAERVLDEMVKLID----DPQTVVNNRNKALVMIEAW 155
Q AL +LET +K+C K F EV R L+E++K++ +T +NK L ++ +W
Sbjct: 67 Q--ALTVLETCMKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSW 124
Query: 156 GESTSELRYLPVYEETYKSLRSRGI 180
E + E Y+ L+ +GI
Sbjct: 125 TVGLPEEVKIA---EAYQMLKKQGI 146
>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 = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 42/145 (28%), Positives = 70/145 (48%), Gaps = 16/145 (11%)
Query: 45 PNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPR----I 100
P +E + AT+ +E DWA C+ +N + R + +I +SP+ I
Sbjct: 7 PETLEARINRATNPLNKELDWASINGFCEQLNEDFEGPPLATRLLAHKI--QSPQEWEAI 64
Query: 101 QYLALVLLETVVKNCEKAFS-EVAAERVLDEMVKLID----DPQTVVNNRNKALVMIEAW 155
Q AL +LET +K+C K F EV R L+E++K++ +T +NK L ++ +W
Sbjct: 65 Q--ALTVLETCMKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSW 122
Query: 156 GESTSELRYLPVYEETYKSLRSRGI 180
E + E Y+ L+ +GI
Sbjct: 123 TVGLPEEVKIA---EAYQMLKKQGI 144
>pdb|1MHQ|A Chain A, Crystal Structure Of Human Gga2 Vhs Domain
pdb|1MHQ|B Chain B, Crystal Structure Of Human Gga2 Vhs Domain
Length = 148
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 45/89 (50%), Gaps = 1/89 (1%)
Query: 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVL 107
+E + AT ++ E DW+ + C+ +NT+ + +I + AL +
Sbjct: 2 LELWLNKATDPSMSEQDWSAIQNFCEQVNTDPNGPTHAPWLLAHKIQSPQEKEALYALTV 61
Query: 108 LETVVKNC-EKAFSEVAAERVLDEMVKLI 135
LE + +C EK SEVA R L+E++K++
Sbjct: 62 LEMCMNHCGEKFHSEVAKFRFLNELIKVL 90
>pdb|1NAF|A Chain A, Crystal Structure Of The Human Gga1 Gat Domain
Length = 158
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 46/97 (47%), Gaps = 3/97 (3%)
Query: 230 AFDVARNSIELLSTVLSSSPQQDAL---QDDLTTTLVQQCRQSQFTVQRIIETAGDNEAL 286
A + N+++LL+ + S Q A +DL L Q+C + + T+ R+ DN+
Sbjct: 61 AIEEVNNNVKLLTEXVXSHSQGGAAAGSSEDLXKELYQRCERXRPTLFRLASDTEDNDEA 120
Query: 287 LFEALNVNDEIQKVLTKYEELKKPSGAPAEPEPAMIP 323
L E L ND + +V+ Y++L + + IP
Sbjct: 121 LAEILQANDNLTQVINLYKQLVRGEEVNGDATAGSIP 157
>pdb|1OXZ|A Chain A, Crystal Structure Of The Human Gga1 Gat Domain
Length = 186
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 230 AFDVARNSIELLSTVLSSSPQQDAL---QDDLTTTLVQQCRQSQFTVQRIIETAGDNEAL 286
A + N+++LL+ ++ S Q A +DL L Q+C + + T+ R+ DN+
Sbjct: 77 AIEEVNNNVKLLTEMVMSHSQGGAAAGSSEDLMKELYQRCERMRPTLFRLASDTEDNDEA 136
Query: 287 LFEALNVNDEIQKVLTKYEEL 307
L E L ND + +V+ Y++L
Sbjct: 137 LAEILQANDNLTQVINLYKQL 157
>pdb|1NWM|X Chain X, Gat Domain Of Human Gga1
Length = 142
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 230 AFDVARNSIELLSTVLSSSPQQDAL---QDDLTTTLVQQCRQSQFTVQRIIETAGDNEAL 286
A + N+++LL+ ++ S Q A +DL L Q+C + + T+ R+ DN+
Sbjct: 57 AIEEVNNNVKLLTEMVMSHSQGGAAAGSSEDLMKELYQRCERMRPTLFRLASDTEDNDEA 116
Query: 287 LFEALNVNDEIQKVLTKYEEL 307
L E L ND + +V+ Y++L
Sbjct: 117 LAEILQANDNLTQVINLYKQL 137
>pdb|1X79|A Chain A, Crystal Structure Of Human Gga1 Gat Domain Complexed With
The Gat-Binding Domain Of Rabaptin5
Length = 98
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 230 AFDVARNSIELLSTVLSSSPQQDAL---QDDLTTTLVQQCRQSQFTVQRIIETAGDNEAL 286
A + N+++LL+ ++ S Q A +DL L Q+C + + T+ R+ DN+
Sbjct: 13 AIEEVNNNVKLLTEMVMSHSQGGAAAGSSEDLMKELYQRCERMRPTLFRLASDTEDNDEA 72
Query: 287 LFEALNVNDEIQKVLTKYEEL 307
L E L ND + +V+ Y++L
Sbjct: 73 LAEILQANDNLTQVINLYKQL 93
>pdb|1O3X|A Chain A, Crystal Structure Of Human Gga1 Gat Domain
Length = 140
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 230 AFDVARNSIELLSTVLSSSPQQDAL---QDDLTTTLVQQCRQSQFTVQRIIETAGDNEAL 286
A + N+++LL+ ++ S Q A +DL L Q+C + + T+ R+ DN+
Sbjct: 52 AIEEVNNNVKLLTEMVMSHSQGGAAAGSSEDLMKELYQRCERMRPTLFRLASDTEDNDEA 111
Query: 287 LFEALNVNDEIQKVLTKYEEL 307
L E L ND + +V+ Y++L
Sbjct: 112 LAEILQANDNLTQVINLYKQL 132
>pdb|2RG2|A Chain A, Crystal Structure Of Variant R18l Of Conjugated Bile Acid
Hydrolase From Clostridium Perfringens
Length = 328
Score = 31.6 bits (70), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 200 VSETEVDATLAEQIQRDIRGQSFTKEQTKEAFDVARNSIELLSTVLSSSPQQD 252
+SE + TL I DI G+S EQTKE +V N+I VL++SP D
Sbjct: 132 ISENIPNTTLHWMIS-DITGKSIVVEQTKEKLNVFDNNI----GVLTNSPTFD 179
>pdb|2BJF|A Chain A, Crystal Structure Of Conjugated Bile Acid Hydrolase From
Clostridium Perfringens In Complex With Reaction
Products Taurine And Deoxycholate
pdb|2BJG|A Chain A, Crystal Structure Of Conjugated Bile Acid Hydrolase From
Clostridium Perfringens In Complex With Reaction
Products Taurine And Deoxycholate
pdb|2BJG|B Chain B, Crystal Structure Of Conjugated Bile Acid Hydrolase From
Clostridium Perfringens In Complex With Reaction
Products Taurine And Deoxycholate
Length = 329
Score = 31.6 bits (70), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 200 VSETEVDATLAEQIQRDIRGQSFTKEQTKEAFDVARNSIELLSTVLSSSPQQD 252
+SE + TL I DI G+S EQTKE +V N+I VL++SP D
Sbjct: 133 ISENIPNTTLHWMIS-DITGKSIVVEQTKEKLNVFDNNI----GVLTNSPTFD 180
>pdb|2RF8|A Chain A, Crystal Structure Of The Mutant C2a Conjugated Bile Acid
Hydrolase From Clostridium Perfringens
pdb|2RF8|B Chain B, Crystal Structure Of The Mutant C2a Conjugated Bile Acid
Hydrolase From Clostridium Perfringens
Length = 329
Score = 31.6 bits (70), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 200 VSETEVDATLAEQIQRDIRGQSFTKEQTKEAFDVARNSIELLSTVLSSSPQQD 252
+SE + TL I DI G+S EQTKE +V N+I VL++SP D
Sbjct: 133 ISENIPNTTLHWMIS-DITGKSIVVEQTKEKLNVFDNNI----GVLTNSPTFD 180
>pdb|1YD8|G Chain G, Complex Of Human Gga3 Gat Domain And Ubiquitin
pdb|1YD8|H Chain H, Complex Of Human Gga3 Gat Domain And Ubiquitin
Length = 98
Score = 31.6 bits (70), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 37/74 (50%), Gaps = 2/74 (2%)
Query: 236 NSIELLSTVLSSSPQQDALQDD--LTTTLVQQCRQSQFTVQRIIETAGDNEALLFEALNV 293
N++ LLS +L Q+D+ D L L QC + T+ ++ DN+ L + L
Sbjct: 20 NNVRLLSEMLLHYSQEDSSDGDRELMKELFDQCENKRRTLFKLASETEDNDNSLGDILQA 79
Query: 294 NDEIQKVLTKYEEL 307
+D + +V+ Y+ +
Sbjct: 80 SDNLSRVINSYKTI 93
>pdb|1WR6|A Chain A, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
pdb|1WR6|B Chain B, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
pdb|1WR6|C Chain C, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
pdb|1WR6|D Chain D, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
Length = 111
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 2/90 (2%)
Query: 236 NSIELLSTVLSSSPQQDALQDD--LTTTLVQQCRQSQFTVQRIIETAGDNEALLFEALNV 293
N++ LLS L Q+D+ D L L QC + T+ ++ DN+ L + L
Sbjct: 15 NNVRLLSEXLLHYSQEDSSDGDRELXKELFDQCENKRRTLFKLASETEDNDNSLGDILQA 74
Query: 294 NDEIQKVLTKYEELKKPSGAPAEPEPAMIP 323
+D + +V+ Y+ + + E +P
Sbjct: 75 SDNLSRVINSYKTIIEGQVINGEVATLTLP 104
>pdb|2RLC|A Chain A, Crystal Structure Of The Conjugated Bile Acid Hydrolase
From Clostridium Perfringens In Complex With Reaction
Products Glycine And Cholate
Length = 328
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 200 VSETEVDATLAEQIQRDIRGQSFTKEQTKEAFDVARNSIELLSTVLSSSPQQD 252
+SE + TL I DI G+S EQTKE +V N+I VL++SP D
Sbjct: 132 ISENIPNTTLHWXIS-DITGKSIVVEQTKEKLNVFDNNI----GVLTNSPTFD 179
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine
Apaf-1
Length = 1256
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 20/102 (19%), Positives = 44/102 (43%), Gaps = 6/102 (5%)
Query: 79 KISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCE----KAFSEVAAERVLDEMVKL 134
K +D + + SP ++Y+A + +K E + FS + ++
Sbjct: 959 KTGQIDYLPEAQVSCCCLSPHLEYVAFGDEDGAIKIIELPNNRVFSSGVGHKKAVRHIQF 1018
Query: 135 IDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLR 176
D +T++++ + +I+ W T + +L ++ET K R
Sbjct: 1019 TADGKTLISSSEDS--VIQVWNWQTGDYVFLQAHQETVKDFR 1058
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 20/102 (19%), Positives = 44/102 (43%), Gaps = 6/102 (5%)
Query: 79 KISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCE----KAFSEVAAERVLDEMVKL 134
K +D + + SP ++Y+A + +K E + FS + ++
Sbjct: 952 KTGQIDYLPEAQVSCCCLSPHLEYVAFGDEDGAIKIIELPNNRVFSSGVGHKKAVRHIQF 1011
Query: 135 IDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLR 176
D +T++++ + +I+ W T + +L ++ET K R
Sbjct: 1012 TADGKTLISSSEDS--VIQVWNWQTGDYVFLQAHQETVKDFR 1051
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
0.313 0.130 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,534,182
Number of Sequences: 62578
Number of extensions: 410729
Number of successful extensions: 1001
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 976
Number of HSP's gapped (non-prelim): 36
length of query: 395
length of database: 14,973,337
effective HSP length: 101
effective length of query: 294
effective length of database: 8,652,959
effective search space: 2543969946
effective search space used: 2543969946
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: 52 (24.6 bits)