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= psy15388
(217 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 192 bits (488), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 89/156 (57%), Positives = 118/156 (75%)
Query: 1 MFLLTMIARVRDGLILSASMQDDEYSERSTLEYQNQAKQLFRKLNLNSPAKLSIETGNYF 60
M LLTMIARV DGL L+ASMQ+DE S R +YQ+QAKQLFRKLN SP + ++E G
Sbjct: 2 MVLLTMIARVADGLPLAASMQEDEQSGRDLQQYQSQAKQLFRKLNEQSPTRCTLEAGAMT 61
Query: 61 FHYLIDRGVCFLALCEKTFSTKVAYSYLESLSLEFHGQYGGQFEQCTRPYAFVEFDSSIK 120
FHY+I++GVC+L LCE F K+A++YLE L EF Q+G + +RPY+F+EFD+ I+
Sbjct: 62 FHYIIEQGVCYLVLCEAAFPKKLAFAYLEDLHSEFDEQHGKKVPTVSRPYSFIEFDTFIQ 121
Query: 121 KLRKSFTDTRVRRNLNTLNTELQDVQRIMVQNIDDI 156
K +K + D+R RRNL ++NTELQDVQRIMV NI+++
Sbjct: 122 KTKKLYIDSRARRNLGSINTELQDVQRIMVANIEEV 157
>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 = 192 bits (488), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 89/156 (57%), Positives = 118/156 (75%)
Query: 1 MFLLTMIARVRDGLILSASMQDDEYSERSTLEYQNQAKQLFRKLNLNSPAKLSIETGNYF 60
M LLTMIARV DGL L+ASMQ+DE S R +YQ+QAKQLFRKLN SP + ++E G
Sbjct: 1 MVLLTMIARVADGLPLAASMQEDEQSGRDLQQYQSQAKQLFRKLNEQSPTRCTLEAGAMT 60
Query: 61 FHYLIDRGVCFLALCEKTFSTKVAYSYLESLSLEFHGQYGGQFEQCTRPYAFVEFDSSIK 120
FHY+I++GVC+L LCE F K+A++YLE L EF Q+G + +RPY+F+EFD+ I+
Sbjct: 61 FHYIIEQGVCYLVLCEAAFPKKLAFAYLEDLHSEFDEQHGKKVPTVSRPYSFIEFDTFIQ 120
Query: 121 KLRKSFTDTRVRRNLNTLNTELQDVQRIMVQNIDDI 156
K +K + D+R RRNL ++NTELQDVQRIMV NI+++
Sbjct: 121 KTKKLYIDSRARRNLGSINTELQDVQRIMVANIEEV 156
>pdb|1IFQ|A Chain A, Sec22b N-Terminal Domain
pdb|1IFQ|B Chain B, Sec22b N-Terminal Domain
Length = 138
Score = 139 bits (351), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 66/122 (54%), Positives = 88/122 (72%)
Query: 3 LLTMIARVRDGLILSASMQDDEYSERSTLEYQNQAKQLFRKLNLNSPAKLSIETGNYFFH 62
LLT IARV DGL L+AS Q+DE S R +YQ+QAKQLFRKLN SP + ++E G FH
Sbjct: 14 LLTXIARVADGLPLAASXQEDEQSGRDLQQYQSQAKQLFRKLNEQSPTRCTLEAGAXTFH 73
Query: 63 YLIDRGVCFLALCEKTFSTKVAYSYLESLSLEFHGQYGGQFEQCTRPYAFVEFDSSIKKL 122
Y+I++GVC+L LCE F K+A++YLE L EF Q+G + +RPY+F+EFD+ I+K
Sbjct: 74 YIIEQGVCYLVLCEAAFPKKLAFAYLEDLHSEFDEQHGKKVPTVSRPYSFIEFDTFIQKT 133
Query: 123 RK 124
+K
Sbjct: 134 KK 135
>pdb|4B93|A Chain A, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin
Repeat Domain Of Varp
Length = 189
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 51/105 (48%), Gaps = 2/105 (1%)
Query: 51 KLSIETGNYFFHYLIDRGVCFLALCEKTFSTKVAYSYLESLSLEFHGQYGGQFEQCTRPY 110
KL+ GNY FHY+ + +L + + F A+S+L + F YG + Q PY
Sbjct: 43 KLTYSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFLNEVKKRFQTTYGSR-AQTALPY 101
Query: 111 AF-VEFDSSIKKLRKSFTDTRVRRNLNTLNTELQDVQRIMVQNID 154
A EF S + K ++ + + ++ +++ IMV+NID
Sbjct: 102 AMNSEFSSVLAAQLKHHSENKSLDKVMETQAQVDELKGIMVRNID 146
>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 = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 51 KLSIETGNYFFHYLIDRGVCFLALCEKTFSTKVAYSYLESLSLEFHGQYGGQFEQCTRPY 110
KL+ GNY FHY+ + +L + + F A+S+L + F YG + Q PY
Sbjct: 95 KLTYSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFLNEVKKRFQTTYGSR-AQTALPY 153
Query: 111 AF-VEFDS 117
A EF S
Sbjct: 154 AMNSEFSS 161
>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 = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 51 KLSIETGNYFFHYLIDRGVCFLALCEKTFSTKVAYSYLESLSLEFHGQYGGQFEQCTRPY 110
KL+ GNY FHY+ + +L + + F A+S+L + F YG + Q PY
Sbjct: 85 KLTYSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFLNEVKKRFQTTYGSR-AQTALPY 143
Query: 111 AF-VEFDS 117
A EF S
Sbjct: 144 AMNSEFSS 151
>pdb|2DMW|A Chain A, Solution Structure Of The Longin Domain Of Synaptobrevin-
Like Protein 1
Length = 131
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 51 KLSIETGNYFFHYLIDRGVCFLALCEKTFSTKVAYSYLESLSLEFHGQYGGQFEQCTRPY 110
KL+ GNY FHY+ + +L + + F A+++L + F YG + Q PY
Sbjct: 49 KLTYSHGNYLFHYICQDRIVYLCITDDDFERSRAFNFLNEIKKRFQTTYGSR-AQTAPPY 107
Query: 111 AF-VEFDS 117
A EF S
Sbjct: 108 AMNSEFSS 115
>pdb|2DSJ|A Chain A, Crystal Structure Of Project Id Tt0128 From Thermus
Thermophilus Hb8
pdb|2DSJ|B Chain B, Crystal Structure Of Project Id Tt0128 From Thermus
Thermophilus Hb8
Length = 423
Score = 30.8 bits (68), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 6/36 (16%)
Query: 167 GNQIDLTGIPDQVRLLGLPDKHTLSGIPDQVRLFIG 202
G +DL+G+P V DKH+ G+ D+V L +G
Sbjct: 66 GKVLDLSGLPHPV------DKHSSGGVGDKVSLVVG 95
>pdb|3BW6|A Chain A, Crystal Structure Of The Longin Domain Of Yeast Ykt6
Length = 144
Score = 30.4 bits (67), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 53 SIETGNYFFH-YLIDRGVCFLALCEKTFSTKVAYSYLESLSLEF 95
SIE GNY H Y G+C + + +K + + AY+ L + E+
Sbjct: 62 SIEEGNYIGHVYARSEGICGVLITDKEYPVRPAYTLLNKILDEY 105
>pdb|1IOU|A Chain A, Solution Structure Of Ykt6p (1-140)
pdb|1H8M|A Chain A, Solution Structure Of Ykt6
Length = 140
Score = 30.4 bits (67), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 53 SIETGNYFFH-YLIDRGVCFLALCEKTFSTKVAYSYLESLSLEF 95
SIE GNY H Y G+C + + +K + + AY+ L + E+
Sbjct: 58 SIEEGNYIGHVYARSEGICGVLITDKQYPVRPAYTLLNKILDEY 101
>pdb|2I2X|A Chain A, Crystal Structure Of Methanol:cobalamin Methyltransferase
Complex Mtabc From Methanosarcina Barkeri
pdb|2I2X|C Chain C, Crystal Structure Of Methanol:cobalamin Methyltransferase
Complex Mtabc From Methanosarcina Barkeri
pdb|2I2X|E Chain E, Crystal Structure Of Methanol:cobalamin Methyltransferase
Complex Mtabc From Methanosarcina Barkeri
pdb|2I2X|G Chain G, Crystal Structure Of Methanol:cobalamin Methyltransferase
Complex Mtabc From Methanosarcina Barkeri
pdb|2I2X|I Chain I, Crystal Structure Of Methanol:cobalamin Methyltransferase
Complex Mtabc From Methanosarcina Barkeri
pdb|2I2X|K Chain K, Crystal Structure Of Methanol:cobalamin Methyltransferase
Complex Mtabc From Methanosarcina Barkeri
pdb|2I2X|M Chain M, Crystal Structure Of Methanol:cobalamin Methyltransferase
Complex Mtabc From Methanosarcina Barkeri
pdb|2I2X|O Chain O, Crystal Structure Of Methanol:cobalamin Methyltransferase
Complex Mtabc From Methanosarcina Barkeri
Length = 461
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 92 SLEFHGQYGGQFEQCTRPYAFVEFDSSIKKLRKSFTDTRVRRNLNTLNTELQDVQRIMV 150
S+E+HG++GG QC + +D ++ + +V R+L L+ +D Q M+
Sbjct: 314 SVEYHGEFGGTTVQCWSE--TLAYDCALMNTALETKNDKVLRDLMMLSDRYRDPQAYML 370
>pdb|3L9D|A Chain A, The Crystal Structure Of Smu.1046c From Streptococcus
Mutans Ua159
pdb|3L9D|B Chain B, The Crystal Structure Of Smu.1046c From Streptococcus
Mutans Ua159
Length = 255
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 90 SLSLEFHGQYGGQFEQCTRPYAFVEFDSSIKKLRKSFTDTRVRRNLN--TLNTELQDVQ- 146
L ++F G QF + R ++ +EF + K +S + V R + L ++QD+
Sbjct: 50 ELKIKFRG-IRKQFRKQKR-HSPIEFVTGRVKPIESIKEKMVLRGIKKENLTQDMQDIAG 107
Query: 147 -RIMVQNIDDINATMNLV 163
RIMVQ +DD+N + L+
Sbjct: 108 LRIMVQFVDDVNDVLELL 125
>pdb|2YQC|A Chain A, Crystal Structure Of Uridine-Diphospho-N-Acetylglucosamine
Pyrophosphorylase From Candida Albicans, In The Apo-Like
Form
pdb|2YQH|A Chain A, Crystal Structure Of Uridine-Diphospho-N-Acetylglucosamine
Pyrophosphorylase From Candida Albicans, In The
Substrate-Binding Form
pdb|2YQH|B Chain B, Crystal Structure Of Uridine-Diphospho-N-Acetylglucosamine
Pyrophosphorylase From Candida Albicans, In The
Substrate-Binding Form
pdb|2YQJ|A Chain A, Crystal Structure Of Uridine-Diphospho-N-Acetylglucosamine
Pyrophosphorylase From Candida Albicans, In The
Reaction-Completed Form
pdb|2YQJ|B Chain B, Crystal Structure Of Uridine-Diphospho-N-Acetylglucosamine
Pyrophosphorylase From Candida Albicans, In The
Reaction-Completed Form
pdb|2YQS|A Chain A, Crystal Structure Of Uridine-Diphospho-N-Acetylglucosamine
Pyrophosphorylase From Candida Albicans, In The
Product-Binding Form
Length = 486
Score = 26.9 bits (58), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 49/116 (42%), Gaps = 18/116 (15%)
Query: 3 LLTMIARVRD-----GLILSASMQDDEYSERSTLEYQNQAKQLFRKLNLNSPAKLSIETG 57
L T + R RD GLI+ D + + +EY +++L K + +KL +
Sbjct: 279 LATKVVRKRDANESVGLIVL----DQDNQKPCVIEYSEISQELANKKDPQDSSKLFLRAA 334
Query: 58 NYFFHY----LIDRGVCFLALCEKTFSTKVAYSYLESLSLEFHGQYGGQFEQCTRP 109
N HY +++ + +K +A + SL+LE G+F + T P
Sbjct: 335 NIVNHYYSVEFLNKMIPKWISSQKYLPFHIAKKKIPSLNLE-----NGEFYKPTEP 385
>pdb|2VUW|A Chain A, Structure Of Human Haspin Kinase Domain
Length = 336
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Query: 11 RDGLILSASMQDDEYSERSTLEYQNQAKQLFRKLNLNSPAKLSIETGNYFFHYLIDRGVC 70
RDG+++ + DE +YQ +L +K N N + + + HYL D+
Sbjct: 233 RDGIVVFCDVSXDEDLFTGDGDYQFDIYRLXKKENNNRWGEYHPYSNVLWLHYLTDK--- 289
Query: 71 FLALCEKTFSTKV---AYSYLESLSLEFH 96
L + TF TK A ++ EFH
Sbjct: 290 --XLKQXTFKTKCNTPAXKQIKRKIQEFH 316
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
0.322 0.138 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,987,256
Number of Sequences: 62578
Number of extensions: 231109
Number of successful extensions: 522
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 513
Number of HSP's gapped (non-prelim): 18
length of query: 217
length of database: 14,973,337
effective HSP length: 95
effective length of query: 122
effective length of database: 9,028,427
effective search space: 1101468094
effective search space used: 1101468094
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: 49 (23.5 bits)