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= 032341
(142 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DMW|A Chain A, Solution Structure Of The Longin Domain Of Synaptobrevin-
Like Protein 1
Length = 131
Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 42/119 (35%), Positives = 64/119 (53%), Gaps = 2/119 (1%)
Query: 2 SQKSLIYAFVARGNVVLAEYTEFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDN 61
S ++++A VARG +LA++ GNF + Q L K+P+ NNK TY+ + F+Y+ +
Sbjct: 6 SGMAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQD 65
Query: 62 GYTYCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGYSVVILILK 120
Y + D+ R FL +K F + Y G +A TAP +N EF SV+ LK
Sbjct: 66 RIVYLCITDDDFERSRAFNFLNEIKKRFQTTY-GSRAQTAPPYAMNSEFS-SVLAAQLK 122
>pdb|4B93|A Chain A, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin
Repeat Domain Of Varp
Length = 189
Score = 72.8 bits (177), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 37/107 (34%), Positives = 58/107 (54%), Gaps = 1/107 (0%)
Query: 5 SLIYAFVARGNVVLAEYTEFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYT 64
++++A VARG +LA++ GNF + Q L K+P+ NNK TY+ + F+Y+ +
Sbjct: 3 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 62
Query: 65 YCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFG 111
Y + D+ R +FL VK F + Y G +A TA +N EF
Sbjct: 63 YLCITDDDFERSRAFSFLNEVKKRFQTTY-GSRAQTALPYAMNSEFS 108
>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 = 72.4 bits (176), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 41/116 (35%), Positives = 63/116 (54%), Gaps = 2/116 (1%)
Query: 5 SLIYAFVARGNVVLAEYTEFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYT 64
++++A VARG +LA++ GNF + Q L K+P+ NNK TY+ + F+Y+ +
Sbjct: 45 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 104
Query: 65 YCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGYSVVILILK 120
Y + D+ R +FL VK F + Y G +A TA +N EF SV+ LK
Sbjct: 105 YLCITDDDFERSRAFSFLNEVKKRFQTTY-GSRAQTALPYAMNSEFS-SVLAAQLK 158
>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 = 72.4 bits (176), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 41/116 (35%), Positives = 63/116 (54%), Gaps = 2/116 (1%)
Query: 5 SLIYAFVARGNVVLAEYTEFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYT 64
++++A VARG +LA++ GNF + Q L K+P+ NNK TY+ + F+Y+ +
Sbjct: 55 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 114
Query: 65 YCVVADESSGRQIPMAFLERVKDEFVSKYGGGKAATAPANGLNKEFGYSVVILILK 120
Y + D+ R +FL VK F + Y G +A TA +N EF SV+ LK
Sbjct: 115 YLCITDDDFERSRAFSFLNEVKKRFQTTY-GSRAQTALPYAMNSEFS-SVLAAQLK 168
>pdb|1IFQ|A Chain A, Sec22b N-Terminal Domain
pdb|1IFQ|B Chain B, Sec22b N-Terminal Domain
Length = 138
Score = 38.5 bits (88), Expect = 0.001, 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|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 = 37.7 bits (86), Expect = 0.002, 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: 32 QYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 91
Query: 86 KDEFVSKYG 94
EF ++G
Sbjct: 92 HSEFDEQHG 100
>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 = 37.7 bits (86), Expect = 0.002, 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: 33 QYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 92
Query: 86 KDEFVSKYG 94
EF ++G
Sbjct: 93 HSEFDEQHG 101
>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 = 0.24, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 41/87 (47%), Gaps = 10/87 (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 EFVSKYGGGKAATAPANGLNKEFGYSV 114
Y + TA G+N + G+ +
Sbjct: 239 ALKKVYLLAQGGTAVGTGINSKIGFDI 265
>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 = 27.3 bits (59), Expect = 3.0, 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|2PB7|A Chain A, Crystal Structure Of The Sra Domain Of The Human Uhrf1
Protein
Length = 239
Score = 26.2 bits (56), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 35/93 (37%), Gaps = 15/93 (16%)
Query: 23 EFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFL 82
+ SGN + C QKL +N NC + N D SG+ P+ +
Sbjct: 81 DLSGNKRTAEQSCDQKLTNTNRALALNC------FAPINDQEGAEAKDWRSGK--PVRVV 132
Query: 83 ERVKDEFVSKYGGGKAATAPANGLNKEFGYSVV 115
VK SKY APA G + Y VV
Sbjct: 133 RNVKGGKNSKY-------APAEGNRYDGIYKVV 158
>pdb|3CLZ|A Chain A, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
pdb|3CLZ|B Chain B, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
pdb|3CLZ|C Chain C, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
pdb|3CLZ|D Chain D, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
Length = 212
Score = 25.8 bits (55), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 35/93 (37%), Gaps = 15/93 (16%)
Query: 23 EFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFL 82
+ SGN + C QKL +N NC A N D SG+ P+ +
Sbjct: 73 DLSGNKRTAEQSCDQKLTNTNRALALNCFAPI------NDQEGAEAKDWRSGK--PVRVV 124
Query: 83 ERVKDEFVSKYGGGKAATAPANGLNKEFGYSVV 115
VK SKY APA G + Y VV
Sbjct: 125 RNVKGGKNSKY-------APAEGNRYDGIYKVV 150
>pdb|3DWH|A Chain A, Structural And Functional Analysis Of Sra Domain
Length = 208
Score = 25.8 bits (55), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 35/93 (37%), Gaps = 15/93 (16%)
Query: 23 EFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFL 82
+ SGN + C QKL +N NC + N D SG+ P+ +
Sbjct: 76 DLSGNKRTAEQSCDQKLTNTNRALALNC------FAPINDQEGAEAKDWRSGK--PVRVV 127
Query: 83 ERVKDEFVSKYGGGKAATAPANGLNKEFGYSVV 115
VK SKY APA G + Y VV
Sbjct: 128 RNVKGGKNSKY-------APAEGNRYDGIYKVV 153
>pdb|3BI7|A Chain A, Crystal Structure Of The Sra Domain Of E3
Ubiquitin-Protein Ligase Uhrf1
Length = 212
Score = 25.8 bits (55), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 35/93 (37%), Gaps = 15/93 (16%)
Query: 23 EFSGNFNSIAYQCLQKLPASNNKFTYNCDAHTFNYLVDNGYTYCVVADESSGRQIPMAFL 82
+ SGN + C QKL +N NC + N D SG+ P+ +
Sbjct: 73 DLSGNKRTAEQSCDQKLTNTNRALALNC------FAPINDQEGAEAKDWRSGK--PVRVV 124
Query: 83 ERVKDEFVSKYGGGKAATAPANGLNKEFGYSVV 115
VK SKY APA G + Y VV
Sbjct: 125 RNVKGGKNSKY-------APAEGNRYDGIYKVV 150
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
0.321 0.135 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,253,058
Number of Sequences: 62578
Number of extensions: 173710
Number of successful extensions: 352
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 343
Number of HSP's gapped (non-prelim): 15
length of query: 142
length of database: 14,973,337
effective HSP length: 89
effective length of query: 53
effective length of database: 9,403,895
effective search space: 498406435
effective search space used: 498406435
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)