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= 031403
(160 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 = 94.0 bits (232), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 51/151 (33%), Positives = 83/151 (54%), Gaps = 6/151 (3%)
Query: 5 SLIYAFVARGNVVLAEYTEFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYT 64
++++A VARG +LA++ GNF + Q L K+P+ NNK TY+ + F+Y+ +
Sbjct: 3 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 62
Query: 65 YCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDH 124
Y + D+ R +FL VK F + Y G +A TA +N EF L +++ H
Sbjct: 63 YLCITDDDFERSRAFSFLNEVKKRFQTTY-GSRAQTALPYAMNSEFSSVLAAQLKH---H 118
Query: 125 PE--EISKLAKVKAQVSEVKGVMMENIEKVG 153
E + K+ + +AQV E+KG+M+ NI+ V
Sbjct: 119 SENKSLDKVMETQAQVDELKGIMVRNIDLVA 149
>pdb|2DMW|A Chain A, Solution Structure Of The Longin Domain Of Synaptobrevin-
Like Protein 1
Length = 131
Score = 76.3 bits (186), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 40/126 (31%), Positives = 64/126 (50%), Gaps = 1/126 (0%)
Query: 2 SQKSLIYAFVARGNVVLAEYTEFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDN 61
S ++++A VARG +LA++ GNF + Q L K+P+ NNK TY+ + F+Y+ +
Sbjct: 6 SGMAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQD 65
Query: 62 GYTYCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYC 121
Y + D+ R FL +K F + Y G +A TAP +N EF L +++
Sbjct: 66 RIVYLCITDDDFERSRAFNFLNEIKKRFQTTY-GSRAQTAPPYAMNSEFSSVLAAQLKHH 124
Query: 122 VDHPEE 127
P
Sbjct: 125 SSGPSS 130
>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 = 73.6 bits (179), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 38/116 (32%), Positives = 62/116 (53%), Gaps = 1/116 (0%)
Query: 5 SLIYAFVARGNVVLAEYTEFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYT 64
++++A VARG +LA++ GNF + Q L K+P+ NNK TY+ + F+Y+ +
Sbjct: 55 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 114
Query: 65 YCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQY 120
Y + D+ R +FL VK F + Y G +A TA +N EF 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 = 73.6 bits (179), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 38/110 (34%), Positives = 59/110 (53%), Gaps = 1/110 (0%)
Query: 5 SLIYAFVARGNVVLAEYTEFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYT 64
++++A VARG +LA++ GNF + Q L K+P+ NNK TY+ + F+Y+ +
Sbjct: 45 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 104
Query: 65 YCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKL 114
Y + D+ R +FL VK F + Y G +A TA +N EF L
Sbjct: 105 YLCITDDDFERSRAFSFLNEVKKRFQTTY-GSRAQTALPYAMNSEFSSVL 153
>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 = 43.5 bits (101), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 62/127 (48%), Gaps = 3/127 (2%)
Query: 27 NFNSIAYQCLQKL-PASNNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFLERV 85
+ S A Q +KL S + T A TF+Y+++ G Y V+ + + +++ A+LE +
Sbjct: 32 QYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 91
Query: 86 KDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVM 145
EF ++ G K T EF +++ + +D L + ++ +V+ +M
Sbjct: 92 HSEFDEQH-GKKVPTVSRPYSFIEFDTFIQKTKKLYIDSRAR-RNLGSINTELQDVQRIM 149
Query: 146 MENIEKV 152
+ NIE+V
Sbjct: 150 VANIEEV 156
>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 = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 62/127 (48%), Gaps = 3/127 (2%)
Query: 27 NFNSIAYQCLQKL-PASNNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFLERV 85
+ S A Q +KL S + T A TF+Y+++ G Y V+ + + +++ A+LE +
Sbjct: 33 QYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 92
Query: 86 KDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVM 145
EF ++ G K T EF +++ + +D L + ++ +V+ +M
Sbjct: 93 HSEFDEQH-GKKVPTVSRPYSFIEFDTFIQKTKKLYIDSRAR-RNLGSINTELQDVQRIM 150
Query: 146 MENIEKV 152
+ NIE+V
Sbjct: 151 VANIEEV 157
>pdb|1IFQ|A Chain A, Sec22b N-Terminal Domain
pdb|1IFQ|B Chain B, Sec22b N-Terminal Domain
Length = 138
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 27 NFNSIAYQCLQKL-PASNNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFLERV 85
+ S A Q +KL S + T A TF+Y+++ G Y V+ + + +++ A+LE +
Sbjct: 43 QYQSQAKQLFRKLNEQSPTRCTLEAGAXTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 102
Query: 86 KDEFVSKYG 94
EF ++G
Sbjct: 103 HSEFDEQHG 111
>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 = 30.8 bits (68), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 41/88 (46%), Gaps = 10/88 (11%)
Query: 37 QKLPASNNKFTYNCD-AHTFNYLVDNGYTYC------VVADESSG--RQIPMAFLERVKD 87
Q +PA NN TY D + ++ ++ G T+ + E SG QI A LER++D
Sbjct: 180 QLIPALNNLLTYLQDKSKDWDKIIKIGRTHLQDATPLTLKQEFSGYITQIEYA-LERIED 238
Query: 88 EFVSKYGGGKAATAPANGLNKEFGPKLK 115
Y + TA G+N + G +K
Sbjct: 239 ALKKVYLLAQGGTAVGTGINSKIGFDIK 266
>pdb|3KYQ|A Chain A, Lipid-Induced Conformational Switch Controls Fusion
Activity Of Longin Domain Snare Ykt6
Length = 199
Score = 30.4 bits (67), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 14/101 (13%)
Query: 57 YLVDNGYTYCVVADESSGRQIPMAFLERVKDEFVSK-----YGGGKAATAPANGLNKEFG 111
Y+ + V+AD ++ LE+V DEF + + G AT L+
Sbjct: 70 YVRSDSLAGVVIADSEYPSRVAFTLLEKVLDEFSKQVDRIDWPVGSPATIHYTALD---- 125
Query: 112 PKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKV 152
L +Y +P E ++KV+A++ E K ++ +E +
Sbjct: 126 ---GHLSRY--QNPREADPMSKVQAELDETKIILHNTMESL 161
>pdb|1ITQ|A Chain A, Human Renal Dipeptidase
pdb|1ITQ|B Chain B, Human Renal Dipeptidase
pdb|1ITU|A Chain A, Human Renal Dipeptidase Complexed With Cilastatin
pdb|1ITU|B Chain B, Human Renal Dipeptidase Complexed With Cilastatin
Length = 369
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 97 KAATAPANGLNKEFG--PKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKV 152
+ A A A G +F P++ E ++ +P+ I++L + +EVKG + +N+ +V
Sbjct: 276 EVAGARAVGFGGDFDGVPRVPEGLEDVSKYPDLIAELLRRNWTEAEVKGALADNLLRV 333
>pdb|3QCW|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), No
Splice Inserts
pdb|3QCW|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), No
Splice Inserts
Length = 1245
Score = 27.3 bits (59), Expect = 4.2, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 87 DEFVSKYGGGKAATA--PANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGV 144
D+F Y GG +TA P + ++ F LKE++ D E+S+LAK ++ GV
Sbjct: 353 DDFF--YVGGSPSTADLPGSPVSNNFMGCLKEVVYKNNDVRLELSRLAKQGDPKMKIHGV 410
Query: 145 MMENIEKVGML 155
+ E V L
Sbjct: 411 VAFKCENVATL 421
>pdb|3R05|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
Splice Insert Ss3
pdb|3R05|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
Splice Insert Ss3
Length = 1254
Score = 27.3 bits (59), Expect = 4.3, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 87 DEFVSKYGGGKAATA--PANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGV 144
D+F Y GG +TA P + ++ F LKE++ D E+S+LAK ++ GV
Sbjct: 353 DDFF--YVGGSPSTADLPGSPVSNNFMGCLKEVVYKNNDVRLELSRLAKQGDPKMKIHGV 410
Query: 145 MMENIEKVGML 155
+ E V L
Sbjct: 411 VAFKCENVATL 421
>pdb|3POY|A Chain A, Crystal Structure Of The Alpha-Neurexin-1 Ectodomain, Lns
2-6
Length = 1019
Score = 26.9 bits (58), Expect = 4.6, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 87 DEFVSKYGGGKAATA--PANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGV 144
D+F Y GG +TA P + ++ F LKE++ D E+S+LAK ++ GV
Sbjct: 128 DDFF--YVGGSPSTADLPGSPVSNNFMGCLKEVVYKNNDVRLELSRLAKQGDPKMKIHGV 185
Query: 145 MMENIEKVGML 155
+ E V L
Sbjct: 186 VAFKCENVATL 196
>pdb|3I4I|A Chain A, Crystal Structure Of A Prokaryotic
Beta-1,3-1,4-Glucanase (Lichenase) Derived From A Mouse
Hindgut Metagenome
pdb|3I4I|B Chain B, Crystal Structure Of A Prokaryotic
Beta-1,3-1,4-Glucanase (Lichenase) Derived From A Mouse
Hindgut Metagenome
Length = 234
Score = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 1/70 (1%)
Query: 21 YTEFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMA 80
+T F F+ Q +K N +NC +N + +G + D+ P A
Sbjct: 21 FTHFGEGFDYYDSQLWEKADGWGNGGVFNCIWRAYNIELKDGILNLSITDDMPSSSKPYA 80
Query: 81 FLE-RVKDEF 89
E R +D+F
Sbjct: 81 GAEYRTRDKF 90
>pdb|3HC9|A Chain A, Ferric Horse Heart Myoglobin; H64v Mutant
pdb|3HEP|A Chain A, Ferric Horse Heart Myoglobin; H64v Mutant, Nitrite
Modified
Length = 153
Score = 26.2 bits (56), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 22/41 (53%)
Query: 117 LMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVGMLCL 157
L++ HPE + K K K +E + E+++KVG + L
Sbjct: 29 LIRLFTGHPETLEKFDKFKHLKTEAEMKASEDLKKVGTVVL 69
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 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,746,366
Number of Sequences: 62578
Number of extensions: 194197
Number of successful extensions: 566
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 552
Number of HSP's gapped (non-prelim): 17
length of query: 160
length of database: 14,973,337
effective HSP length: 91
effective length of query: 69
effective length of database: 9,278,739
effective search space: 640232991
effective search space used: 640232991
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: 47 (22.7 bits)