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= 029988
(184 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B93|A Chain A, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin
Repeat Domain Of Varp
Length = 189
Score = 124 bits (312), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 69/187 (36%), Positives = 109/187 (58%), Gaps = 14/187 (7%)
Query: 5 SLIYSFVARGTVILAEYTEFTGNFTSIASQCLQKLPATNNKFTYNCDGHTFNYLVENGFT 64
+++++ VARGT ILA++ GNF + Q L K+P+ NNK TY+ + F+Y+ ++
Sbjct: 3 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 62
Query: 65 YCVVAVESAGRQIPIAFLERVKEDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQYCVDH 124
Y + + R +FL VK+ F Y G +A TA+ ++N EF S L +++ H
Sbjct: 63 YLCITDDDFERSRAFSFLNEVKKRFQTTY-GSRAQTALPYAMNSEFSSVLAAQLKH---H 118
Query: 125 PE--EISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENL--------RSQVN 174
E + K+ + +AQV E+KG+M+ NI+ V RGE++ELL+DKTENL + N
Sbjct: 119 SENKSLDKVMETQAQVDELKGIMVRNIDLVAQRGERLELLIDKTENLVDSSVTFKTTSRN 178
Query: 175 LAVADCL 181
LA A C+
Sbjct: 179 LARAMCM 185
>pdb|4AFI|A Chain A, Complex Between Vamp7 Longin Domain And Fragment Of Delta-
Adaptin From Ap3
pdb|4AFI|B Chain B, Complex Between Vamp7 Longin Domain And Fragment Of Delta-
Adaptin From Ap3
Length = 173
Score = 78.2 bits (191), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 66/116 (56%), Gaps = 1/116 (0%)
Query: 5 SLIYSFVARGTVILAEYTEFTGNFTSIASQCLQKLPATNNKFTYNCDGHTFNYLVENGFT 64
+++++ VARGT ILA++ GNF + Q L K+P+ NNK TY+ + F+Y+ ++
Sbjct: 55 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 114
Query: 65 YCVVAVESAGRQIPIAFLERVKEDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQY 120
Y + + R +FL VK+ F Y G +A TA+ ++N EF S L +++
Sbjct: 115 YLCITDDDFERSRAFSFLNEVKKRFQTTY-GSRAQTALPYAMNSEFSSVLAAQLKH 169
>pdb|2VX8|A Chain A, Vamp7 Longin Domain Hrb Peptide Complex
pdb|2VX8|B Chain B, Vamp7 Longin Domain Hrb Peptide Complex
pdb|2VX8|C Chain C, Vamp7 Longin Domain Hrb Peptide Complex
pdb|2VX8|D Chain D, Vamp7 Longin Domain Hrb Peptide Complex
Length = 169
Score = 77.4 bits (189), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 39/115 (33%), Positives = 65/115 (56%), Gaps = 1/115 (0%)
Query: 5 SLIYSFVARGTVILAEYTEFTGNFTSIASQCLQKLPATNNKFTYNCDGHTFNYLVENGFT 64
+++++ VARGT ILA++ GNF + Q L K+P+ NNK TY+ + F+Y+ ++
Sbjct: 45 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 104
Query: 65 YCVVAVESAGRQIPIAFLERVKEDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQ 119
Y + + R +FL VK+ F Y G +A TA+ ++N EF S L ++
Sbjct: 105 YLCITDDDFERSRAFSFLNEVKKRFQTTY-GSRAQTALPYAMNSEFSSVLAAQLK 158
>pdb|2DMW|A Chain A, Solution Structure Of The Longin Domain Of Synaptobrevin-
Like Protein 1
Length = 131
Score = 75.1 bits (183), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 39/123 (31%), Positives = 65/123 (52%), Gaps = 1/123 (0%)
Query: 5 SLIYSFVARGTVILAEYTEFTGNFTSIASQCLQKLPATNNKFTYNCDGHTFNYLVENGFT 64
+++++ VARGT ILA++ GNF + Q L K+P+ NNK TY+ + F+Y+ ++
Sbjct: 9 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 68
Query: 65 YCVVAVESAGRQIPIAFLERVKEDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQYCVDH 124
Y + + R FL +K+ F Y G +A TA ++N EF S L +++
Sbjct: 69 YLCITDDDFERSRAFNFLNEIKKRFQTTY-GSRAQTAPPYAMNSEFSSVLAAQLKHHSSG 127
Query: 125 PEE 127
P
Sbjct: 128 PSS 130
>pdb|2NUP|C Chain C, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
pdb|2NUT|C Chain C, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
Length = 196
Score = 56.6 bits (135), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 73/146 (50%), Gaps = 3/146 (2%)
Query: 27 NFTSIASQCLQKL-PATNNKFTYNCDGHTFNYLVENGFTYCVVAVESAGRQIPIAFLERV 85
+ S A Q +KL + + T TF+Y++E G Y V+ + +++ A+LE +
Sbjct: 33 QYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 92
Query: 86 KEDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQYCVDHPEEISKLAKVKAQVSEVKGVM 145
+F++++G + S EF + +++ + +D L + ++ +V+ +M
Sbjct: 93 HSEFDEQHGKKVPTVSRPYSF-IEFDTFIQKTKKLYIDSRAR-RNLGSINTELQDVQRIM 150
Query: 146 MENIEKVLDRGEKIELLVDKTENLRS 171
+ NIE+VL RGE + L K NL S
Sbjct: 151 VANIEEVLQRGEALSALDSKANNLSS 176
>pdb|3KYQ|A Chain A, Lipid-Induced Conformational Switch Controls Fusion
Activity Of Longin Domain Snare Ykt6
Length = 199
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 59/121 (48%), Gaps = 14/121 (11%)
Query: 57 YLVENGFTYCVVAVESAGRQIPIAFLERVKEDFNKR-----YGGGKAATAVANSLNKEFG 111
Y+ + V+A ++ LE+V ++F+K+ + G AT +L+
Sbjct: 70 YVRSDSLAGVVIADSEYPSRVAFTLLEKVLDEFSKQVDRIDWPVGSPATIHYTALDGHLS 129
Query: 112 SKLKEHMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLRS 171
+P E ++KV+A++ E K ++ +E +L+RGEK++ LV K+E L +
Sbjct: 130 R---------YQNPREADPMSKVQAELDETKIILHNTMESLLERGEKLDDLVSKSEVLGT 180
Query: 172 Q 172
Q
Sbjct: 181 Q 181
>pdb|3EGD|C Chain C, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22 AND
BOUND To The Transport Signal Sequence Of Vesicular
Stomatitis Virus Glycoprotein
pdb|3EGX|C Chain C, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22B AND
Bound To The Transport Signal Sequence Of The Snare
Protein Bet1
Length = 157
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/128 (23%), Positives = 64/128 (50%), Gaps = 3/128 (2%)
Query: 27 NFTSIASQCLQKL-PATNNKFTYNCDGHTFNYLVENGFTYCVVAVESAGRQIPIAFLERV 85
+ S A Q +KL + + T TF+Y++E G Y V+ + +++ A+LE +
Sbjct: 32 QYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 91
Query: 86 KEDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQYCVDHPEEISKLAKVKAQVSEVKGVM 145
+F++++G + S EF + +++ + +D L + ++ +V+ +M
Sbjct: 92 HSEFDEQHGKKVPTVSRPYSF-IEFDTFIQKTKKLYIDSRAR-RNLGSINTELQDVQRIM 149
Query: 146 MENIEKVL 153
+ NIE+VL
Sbjct: 150 VANIEEVL 157
>pdb|2NPS|A Chain A, Crystal Structure Of The Early Endosomal Snare Complex
Length = 74
Score = 43.1 bits (100), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 21/41 (51%), Positives = 30/41 (73%)
Query: 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENL 169
K+ V+ QV EV VM ENI KV++RGE+++ L DK+E+L
Sbjct: 8 DKIKHVQNQVDEVIDVMQENITKVIERGERLDELQDKSESL 48
>pdb|3B5N|A Chain A, Structure Of The Yeast Plasma Membrane Snare Complex
pdb|3B5N|E Chain E, Structure Of The Yeast Plasma Membrane Snare Complex
pdb|3B5N|I Chain I, Structure Of The Yeast Plasma Membrane Snare Complex
Length = 61
Score = 39.7 bits (91), Expect = 0.001, Method: Composition-based stats.
Identities = 16/41 (39%), Positives = 30/41 (73%)
Query: 129 SKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENL 169
S+ A+++A++ + G+M +NI KV +RGE++ + DK +NL
Sbjct: 2 SRTAELQAEIDDTVGIMRDNINKVAERGERLTSIEDKADNL 42
>pdb|1GL2|A Chain A, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 30/40 (75%)
Query: 130 KLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENL 169
++ ++++V VK +M +N+E++L RGE ++ L +KTE+L
Sbjct: 10 RVRNLQSEVEGVKNIMTQNVERILARGENLDHLRNKTEDL 49
>pdb|1IFQ|A Chain A, Sec22b N-Terminal Domain
pdb|1IFQ|B Chain B, Sec22b N-Terminal Domain
Length = 138
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 27 NFTSIASQCLQKL-PATNNKFTYNCDGHTFNYLVENGFTYCVVAVESAGRQIPIAFLERV 85
+ S A Q +KL + + T TF+Y++E G Y V+ + +++ A+LE +
Sbjct: 43 QYQSQAKQLFRKLNEQSPTRCTLEAGAXTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 102
Query: 86 KEDFNKRYG 94
+F++++G
Sbjct: 103 HSEFDEQHG 111
>pdb|3HD7|A Chain A, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3HD7|E Chain E, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3IPD|A Chain A, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
pdb|3IPD|E Chain E, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
Length = 91
Score = 35.4 bits (80), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 30/44 (68%)
Query: 128 ISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLRS 171
+ +L + +AQV EV +M N++KVL+R +K+ L D+ + L++
Sbjct: 4 MRRLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQA 47
>pdb|2KOG|A Chain A, Lipid-Bound Synaptobrevin Solution Nmr Structure
Length = 119
Score = 35.4 bits (80), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 29/42 (69%)
Query: 130 KLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLRS 171
+L + +AQV EV +M N++KVL+R +K+ L D+ + L++
Sbjct: 34 RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQA 75
>pdb|1N7S|A Chain A, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 63
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 29/42 (69%)
Query: 130 KLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLRS 171
+L + +AQV EV +M N++KVL+R +K+ L D+ + L++
Sbjct: 5 RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQA 46
>pdb|1KIL|A Chain A, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 66
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 29/42 (69%)
Query: 130 KLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLRS 171
+L + +AQV EV +M N++KVL+R +K+ L D+ + L++
Sbjct: 5 RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQA 46
>pdb|1SFC|A Chain A, Neuronal Synaptic Fusion Complex
pdb|1SFC|E Chain E, Neuronal Synaptic Fusion Complex
pdb|1SFC|I Chain I, Neuronal Synaptic Fusion Complex
Length = 96
Score = 35.0 bits (79), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 29/42 (69%)
Query: 130 KLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLRS 171
+L + +AQV EV +M N++KVL+R +K+ L D+ + L++
Sbjct: 31 RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQA 72
>pdb|1L4A|A Chain A, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 80
Score = 34.7 bits (78), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 28/42 (66%)
Query: 130 KLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLRS 171
+L + +AQV EV +M N++KVL+R KI L D+ + L++
Sbjct: 16 RLQQTQAQVEEVVDIMRVNVDKVLERDSKISELDDRADALQA 57
>pdb|3RK2|A Chain A, Truncated Snare Complex
pdb|3RK2|E Chain E, Truncated Snare Complex
pdb|3RK3|A Chain A, Truncated Snare Complex With Complexin
pdb|3RL0|A Chain A, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|E Chain E, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|I Chain I, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|M Chain M, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|Q Chain Q, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|U Chain U, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|Y Chain Y, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|CC Chain c, Truncated Snare Complex With Complexin (P1)
Length = 37
Score = 31.2 bits (69), Expect = 0.39, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 22/30 (73%)
Query: 130 KLAKVKAQVSEVKGVMMENIEKVLDRGEKI 159
+L + +AQV EV +M N++KVL+R +K+
Sbjct: 8 RLQQTQAQVDEVVDIMRVNVDKVLERDQKL 37
>pdb|3GTD|A Chain A, 2.4 Angstrom Crystal Structure Of Fumarate Hydratase From
Rickettsia Prowazekii
pdb|3GTD|B Chain B, 2.4 Angstrom Crystal Structure Of Fumarate Hydratase From
Rickettsia Prowazekii
Length = 482
Score = 30.4 bits (67), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 8/87 (9%)
Query: 37 QKLPATNNKFTYNCD-GHTFNYLVENGFTYCVVAV------ESAGRQIPIAF-LERVKED 88
Q +PA NN TY D ++ +++ G T+ A E +G I + LER+++
Sbjct: 180 QLIPALNNLLTYLQDKSKDWDKIIKIGRTHLQDATPLTLKQEFSGYITQIEYALERIEDA 239
Query: 89 FNKRYGGGKAATAVANSLNKEFGSKLK 115
K Y + TAV +N + G +K
Sbjct: 240 LKKVYLLAQGGTAVGTGINSKIGFDIK 266
>pdb|3ZYM|A Chain A, Structure Of Calm (Picalm) In Complex With Vamp8
pdb|3ZYM|B Chain B, Structure Of Calm (Picalm) In Complex With Vamp8
pdb|3ZYM|C Chain C, Structure Of Calm (Picalm) In Complex With Vamp8
Length = 310
Score = 30.0 bits (66), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 23/33 (69%)
Query: 127 EISKLAKVKAQVSEVKGVMMENIEKVLDRGEKI 159
+ ++ ++++V VK +M +N+E++L RGE +
Sbjct: 278 HMDRVRNLQSEVEGVKNIMTQNVERILARGENL 310
>pdb|3FIE|C Chain C, Crystal Structure Of Clostridium Botulinum Neurotoxin
Serotype F Catalytic Domain With An Inhibitor (Inh1)
pdb|3FIE|D Chain D, Crystal Structure Of Clostridium Botulinum Neurotoxin
Serotype F Catalytic Domain With An Inhibitor (Inh1)
Length = 38
Score = 28.9 bits (63), Expect = 1.6, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 19/26 (73%)
Query: 130 KLAKVKAQVSEVKGVMMENIEKVLDR 155
+L + +AQV EV +M N++KVL+R
Sbjct: 10 RLQQTQAQVDEVVDIMRVNVDKVLER 35
>pdb|2FCT|A Chain A, Syrb2 With Fe(Ii), Chloride, And Alpha-Ketoglutarate
pdb|2FCT|B Chain B, Syrb2 With Fe(Ii), Chloride, And Alpha-Ketoglutarate
pdb|2FCU|A Chain A, Syrb2 With Alpha-Ketoglutarate
pdb|2FCU|B Chain B, Syrb2 With Alpha-Ketoglutarate
pdb|2FCV|A Chain A, Syrb2 With Fe(Ii), Bromide, And Alpha-Ketoglutarate
pdb|2FCV|B Chain B, Syrb2 With Fe(Ii), Bromide, And Alpha-Ketoglutarate
Length = 313
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 8/42 (19%)
Query: 16 VILAEYTEFTGNFT--------SIASQCLQKLPATNNKFTYN 49
+I E EF G T +IA+ CLQ +P T N Y+
Sbjct: 133 IIWPENEEFGGTITVWTAFTDANIANGCLQFIPGTQNSMNYD 174
>pdb|2UUZ|A Chain A, Orthorhombic Crystal Form Of Gams From Bacteriophage
Lambda.
pdb|2UUZ|B Chain B, Orthorhombic Crystal Form Of Gams From Bacteriophage
Lambda.
pdb|2UV1|A Chain A, Hexagonal Crystal Form Of Gams From Bacteriophage Lambda.
pdb|2UV1|B Chain B, Hexagonal Crystal Form Of Gams From Bacteriophage Lambda
Length = 99
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 24/47 (51%)
Query: 77 IPIAFLERVKEDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQYCVD 123
IP E + D +R+G K + A + EF ++ EH++Y V+
Sbjct: 40 IPQHLFESLCIDHLQRHGASKKSITRAFDDDVEFQERMAEHIRYMVE 86
>pdb|1YJE|A Chain A, Crystal Structure Of The Rngfi-B Ligand-Binding Domain
Length = 264
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/47 (23%), Positives = 25/47 (53%)
Query: 106 LNKEFGSKLKEHMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKV 152
L S LKEHM P+ S L+++ ++ E++ + + ++++
Sbjct: 193 LQNRIASCLKEHMAAVAGDPQPASCLSRLLGKLPELRTLCTQGLQRI 239
>pdb|3FII|B Chain B, Crystal Structure Of Clostridium Botulinum Neurotoxin
Serotype F Catalytic Domain With An Inhibitor (Inh2)
Length = 33
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 19/26 (73%)
Query: 130 KLAKVKAQVSEVKGVMMENIEKVLDR 155
+L + +AQV EV +M N++KVL+R
Sbjct: 5 RLQQTQAQVDEVVDIMRVNVDKVLER 30
>pdb|2DVL|A Chain A, Crystal Structure Of Project Tt0160 From Thermus
Thermophilus Hb8
pdb|2DVL|B Chain B, Crystal Structure Of Project Tt0160 From Thermus
Thermophilus Hb8
Length = 372
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 8/55 (14%)
Query: 107 NKEFGSKLKEHMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIEL 161
++FG KLKEH K+A + +++ + +++E K DRGE+ L
Sbjct: 261 REQFGKKLKEHQAIAF-------KIADMHVKIAAARALVLEAARKK-DRGERFTL 307
>pdb|3R6Y|A Chain A, Crystal Structure Of Chymotrypsin-Treated Aspartase From
Bacillus Sp. Ym55-1
pdb|3R6Y|B Chain B, Crystal Structure Of Chymotrypsin-Treated Aspartase From
Bacillus Sp. Ym55-1
pdb|3R6Y|C Chain C, Crystal Structure Of Chymotrypsin-Treated Aspartase From
Bacillus Sp. Ym55-1
pdb|3R6Y|D Chain D, Crystal Structure Of Chymotrypsin-Treated Aspartase From
Bacillus Sp. Ym55-1
pdb|3R6Y|E Chain E, Crystal Structure Of Chymotrypsin-Treated Aspartase From
Bacillus Sp. Ym55-1
pdb|3R6Y|F Chain F, Crystal Structure Of Chymotrypsin-Treated Aspartase From
Bacillus Sp. Ym55-1
pdb|3R6Y|G Chain G, Crystal Structure Of Chymotrypsin-Treated Aspartase From
Bacillus Sp. Ym55-1
pdb|3R6Y|H Chain H, Crystal Structure Of Chymotrypsin-Treated Aspartase From
Bacillus Sp. Ym55-1
Length = 401
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 82 LERVKEDFNKRYGGGKAATAVANSLN--KEFGSKLKEHMQYCVDHP 125
+ER+ N Y ATAV LN E+ S + EH+ HP
Sbjct: 212 IERIANTRNNLYDINMGATAVGTGLNADPEYISIVTEHLAKFSGHP 257
>pdb|1J3U|A Chain A, Crystal Structure Of Aspartase From Bacillus Sp. Ym55-1
pdb|1J3U|B Chain B, Crystal Structure Of Aspartase From Bacillus Sp. Ym55-1
pdb|3R6Q|A Chain A, A Triclinic-Lattice Structure Of Aspartase From Bacillus
Sp. Ym55-1
pdb|3R6Q|B Chain B, A Triclinic-Lattice Structure Of Aspartase From Bacillus
Sp. Ym55-1
pdb|3R6Q|C Chain C, A Triclinic-Lattice Structure Of Aspartase From Bacillus
Sp. Ym55-1
pdb|3R6Q|D Chain D, A Triclinic-Lattice Structure Of Aspartase From Bacillus
Sp. Ym55-1
pdb|3R6Q|E Chain E, A Triclinic-Lattice Structure Of Aspartase From Bacillus
Sp. Ym55-1
pdb|3R6Q|F Chain F, A Triclinic-Lattice Structure Of Aspartase From Bacillus
Sp. Ym55-1
pdb|3R6Q|G Chain G, A Triclinic-Lattice Structure Of Aspartase From Bacillus
Sp. Ym55-1
pdb|3R6Q|H Chain H, A Triclinic-Lattice Structure Of Aspartase From Bacillus
Sp. Ym55-1
pdb|3R6V|A Chain A, Crystal Structure Of Aspartase From Bacillus Sp. Ym55-1
With Bound L- Aspartate
pdb|3R6V|B Chain B, Crystal Structure Of Aspartase From Bacillus Sp. Ym55-1
With Bound L- Aspartate
pdb|3R6V|C Chain C, Crystal Structure Of Aspartase From Bacillus Sp. Ym55-1
With Bound L- Aspartate
pdb|3R6V|D Chain D, Crystal Structure Of Aspartase From Bacillus Sp. Ym55-1
With Bound L- Aspartate
pdb|3R6V|E Chain E, Crystal Structure Of Aspartase From Bacillus Sp. Ym55-1
With Bound L- Aspartate
pdb|3R6V|F Chain F, Crystal Structure Of Aspartase From Bacillus Sp. Ym55-1
With Bound L- Aspartate
pdb|3R6V|G Chain G, Crystal Structure Of Aspartase From Bacillus Sp. Ym55-1
With Bound L- Aspartate
pdb|3R6V|H Chain H, Crystal Structure Of Aspartase From Bacillus Sp. Ym55-1
With Bound L- Aspartate
Length = 468
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 82 LERVKEDFNKRYGGGKAATAVANSLN--KEFGSKLKEHMQYCVDHP 125
+ER+ N Y ATAV LN E+ S + EH+ HP
Sbjct: 212 IERIANTRNNLYDINMGATAVGTGLNADPEYISIVTEHLAKFSGHP 257
>pdb|4EV4|A Chain A, Crystal Structure Of Serratia Fonticola Carbapenemase
Sfc-1 E166a Mutant With The Acylenzyme Intermediate Of
Meropenem
Length = 283
Score = 26.6 bits (57), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 76 QIPIAFLERVKEDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQYC 121
Q+ + L+R++ DF R G A+ NK FG + E C
Sbjct: 6 QVTVDKLKRLENDFGGRIG----VYAIDTGSNKTFGYRANERFPLC 47
>pdb|4EUZ|A Chain A, Crystal Structure Of Serratia Fonticola Carbapenemase
Sfc-1 S70a- Meropenem Complex
Length = 283
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 76 QIPIAFLERVKEDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQYC 121
Q+ + L+R++ DF R G A+ NK FG + E C
Sbjct: 6 QVTVDKLKRLENDFGGRIG----VYAIDTGSNKTFGYRANERFPLC 47
>pdb|4EQI|A Chain A, Crystal Structure Of Serratia Fonticola Carbapenemase
Sfc-1
pdb|4EQI|B Chain B, Crystal Structure Of Serratia Fonticola Carbapenemase
Sfc-1
Length = 283
Score = 26.6 bits (57), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 76 QIPIAFLERVKEDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQYC 121
Q+ + L+R++ DF R G A+ NK FG + E C
Sbjct: 6 QVTVDKLKRLENDFGGRIG----VYAIDTGSNKTFGYRANERFPLC 47
>pdb|2BOE|X Chain X, Catalytic Domain Of Endo-1,4-Glucanase Cel6a Mutant Y73s
From Thermobifida Fusca
pdb|2BOF|X Chain X, Catalytic Domain Of Endo-1,4-Glucanase Cel6a Mutant Y73s
From Thermobifida Fusca In Complex With Cellotetrose
pdb|2BOG|X Chain X, Catalytic Domain Of Endo-1,4-Glucanase Cel6a Mutant Y73s
From Thermobifida Fusca In Complex With Methyl
Cellobiosyl- 4-Thio-Beta-Cellobioside
Length = 286
Score = 26.6 bits (57), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 2/73 (2%)
Query: 69 AVESAGRQIPIAFLERVK-EDFNKRYGGGKAATAVANSLNKEFGSKLKEHMQYCVDHPEE 127
A ++AG+ IPI + D GG + + S EF + LK Y + P+
Sbjct: 60 AAQAAGK-IPILVVSNAPGRDCGNHSSGGAPSHSAYRSWIDEFAAGLKNRPAYIIVEPDL 118
Query: 128 ISKLAKVKAQVSE 140
IS ++ V +
Sbjct: 119 ISLMSSCMQHVQQ 131
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
0.318 0.133 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,165,381
Number of Sequences: 62578
Number of extensions: 206654
Number of successful extensions: 667
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 637
Number of HSP's gapped (non-prelim): 45
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)