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= psy17822
(91 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2R0D|A Chain A, Crystal Structure Of Autoinhibited Form Of Grp1 Arf
Gtpase Exchange Factor
pdb|2R0D|B Chain B, Crystal Structure Of Autoinhibited Form Of Grp1 Arf
Gtpase Exchange Factor
Length = 347
Score = 79.7 bits (195), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 38/51 (74%), Positives = 44/51 (86%)
Query: 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEK 51
MDPKKGI++LI+N+LL+ + VAQFLYKGEGLNKT IGDYLGER DFN K
Sbjct: 27 MDPKKGIQFLIENDLLQSSPEDVAQFLYKGEGLNKTVIGDYLGERDDFNIK 77
>pdb|1BC9|A Chain A, Cytohesin-1B2-1 Sec7 Domain, Nmr, Minimized Average
Structure
Length = 200
Score = 78.6 bits (192), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 37/49 (75%), Positives = 44/49 (89%)
Query: 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFN 49
MDPKKGI++LI+N+LL+ T +AQFLYKGEGLNKTAIGDYLGER +FN
Sbjct: 19 MDPKKGIQFLIENDLLKNTCEDIAQFLYKGEGLNKTAIGDYLGERDEFN 67
>pdb|4A4P|A Chain A, Crystal Structure Of The Sec7 Domain From Human
Cytohesin1
pdb|4A4P|B Chain B, Crystal Structure Of The Sec7 Domain From Human
Cytohesin1
Length = 192
Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 37/49 (75%), Positives = 44/49 (89%)
Query: 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFN 49
MDPKKGI++LI+N+LL+ T +AQFLYKGEGLNKTAIGDYLGER +FN
Sbjct: 19 MDPKKGIQFLIENDLLKNTCEDIAQFLYKGEGLNKTAIGDYLGERDEFN 67
>pdb|2R09|A Chain A, Crystal Structure Of Autoinhibited Form Of Grp1 Arf
Gtpase Exchange Factor
pdb|2R09|B Chain B, Crystal Structure Of Autoinhibited Form Of Grp1 Arf
Gtpase Exchange Factor
Length = 347
Score = 77.8 bits (190), Expect = 1e-15, Method: Composition-based stats.
Identities = 37/50 (74%), Positives = 43/50 (86%)
Query: 2 DPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEK 51
DPKKGI++LI+N+LL+ + VAQFLYKGEGLNKT IGDYLGER DFN K
Sbjct: 28 DPKKGIQFLIENDLLQSSPEDVAQFLYKGEGLNKTVIGDYLGERDDFNIK 77
Score = 60.5 bits (145), Expect = 2e-10, Method: Composition-based stats.
Identities = 29/40 (72%), Positives = 33/40 (82%)
Query: 51 KNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEK 90
+N+LL+ + VAQFLYKGEGLNKT IGDYLGER DFN K
Sbjct: 38 ENDLLQSSPEDVAQFLYKGEGLNKTVIGDYLGERDDFNIK 77
>pdb|1PBV|A Chain A, Sec7 Domain Of The Exchange Factor Arno
Length = 195
Score = 73.9 bits (180), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 34/49 (69%), Positives = 42/49 (85%)
Query: 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFN 49
MDPKKGI++L++N LL+ T +A+FLYKGEGLNKTAIGDYLGER + N
Sbjct: 23 MDPKKGIQFLVENELLQNTPEEIARFLYKGEGLNKTAIGDYLGEREELN 71
>pdb|1R8Q|E Chain E, Full-Length Arf1-Gdp-Mg In Complex With Brefeldin A And
A Sec7 Domain
pdb|1R8Q|F Chain F, Full-Length Arf1-Gdp-Mg In Complex With Brefeldin A And
A Sec7 Domain
Length = 203
Score = 73.6 bits (179), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 34/49 (69%), Positives = 42/49 (85%)
Query: 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFN 49
MDPKKGI++L++N LL+ T +A+FLYKGEGLNKTAIGDYLGER + N
Sbjct: 25 MDPKKGIQFLVENELLQNTPEEIARFLYKGEGLNKTAIGDYLGEREELN 73
>pdb|1R8S|E Chain E, Arf1[delta1-17]-Gdp In Complex With A Sec7 Domain
Carrying The Mutation Of The Catalytic Glutamate To
Lysine
Length = 203
Score = 73.6 bits (179), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 34/49 (69%), Positives = 42/49 (85%)
Query: 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFN 49
MDPKKGI++L++N LL+ T +A+FLYKGEGLNKTAIGDYLGER + N
Sbjct: 25 MDPKKGIQFLVENELLQNTPEEIARFLYKGEGLNKTAIGDYLGEREELN 73
>pdb|1R8M|E Chain E, Sec7 Domain Of The Arf Exchange Factor Arno With
Brefeldin A- Sensitizing Mutations
pdb|1S9D|E Chain E, Arf1[delta 1-17]-Gdp-Mg In Complex With Brefeldin A And
A Sec7 Domain
Length = 203
Score = 73.6 bits (179), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 34/49 (69%), Positives = 42/49 (85%)
Query: 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFN 49
MDPKKGI++L++N LL+ T +A+FLYKGEGLNKTAIGDYLGER + N
Sbjct: 25 MDPKKGIQFLVENELLQNTPEEIARFLYKGEGLNKTAIGDYLGEREELN 73
>pdb|3LTL|A Chain A, Crystal Structure Of Human Big1 Sec7 Domain
pdb|3LTL|B Chain B, Crystal Structure Of Human Big1 Sec7 Domain
Length = 211
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 33/48 (68%)
Query: 3 PKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNE 50
PK+GI++L + +L T +AQFL++ E L+ T +G++LG+ FN+
Sbjct: 33 PKRGIQYLQEQGMLGTTPEDIAQFLHQEERLDSTQVGEFLGDNDKFNK 80
Score = 32.0 bits (71), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%)
Query: 50 EKNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNE 89
++ +L T +AQFL++ E L+ T +G++LG+ FN+
Sbjct: 41 QEQGMLGTTPEDIAQFLHQEERLDSTQVGEFLGDNDKFNK 80
>pdb|3L8N|A Chain A, Crystal Structure Of A Domain Of Brefeldin A-Inhibited
Guanine Nucleotide-Exchange Protein 2
(Brefeldina-Inhibited Gep 2) From Homo Sapiens (Human).
Northeast Structural Genomics Consortium Target Id
Hr5562a
pdb|3SWV|A Chain A, Crystal Structure Of A Domain Of Brefeldin A-Inhibited
Guanine Nucleotide-Exchange Protein 2 (Brefeldin
A-Inhibited Gep 2) From Homo Sapiens (Human), Northeast
Structural Genomics Consortium Target Id Hr5562a
Length = 202
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 31/47 (65%)
Query: 3 PKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFN 49
PK+GI++L + L + +AQFL++ E L+ T +GD+LG+ FN
Sbjct: 24 PKRGIQFLQEQGXLGTSVEDIAQFLHQEERLDSTQVGDFLGDSARFN 70
Score = 33.1 bits (74), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 20/27 (74%)
Query: 62 VAQFLYKGEGLNKTAIGDYLGERHDFN 88
+AQFL++ E L+ T +GD+LG+ FN
Sbjct: 44 IAQFLHQEERLDSTQVGDFLGDSARFN 70
>pdb|3V68|A Chain A, Crystal Structure Of Pyrococcus Furiosus Pf2050, A
Member Of Duf2666 Family Protein
Length = 252
Score = 29.3 bits (64), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 8 EWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFN 49
EW++ N+ + T +A FL + + I YLGE+ D N
Sbjct: 14 EWIVGENVEDFTNENIAMFLSRVSNTVSSKIPGYLGEKIDVN 55
>pdb|3N00|A Chain A, Crystal Structure Of A Deletion Mutant Of Human Reverba
Ligand Binding Domain Bound With An Ncor Id1 Peptide
Determined To 2.60a
Length = 245
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%)
Query: 14 NLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKNNLLEPTE 59
N+ + T M +++ Y + L +GD L DF+EK N L TE
Sbjct: 120 NVKDQTVMFLSRTTYSLQELGAMGMGDLLSAMFDFSEKLNSLALTE 165
>pdb|3S2W|A Chain A, The Crystal Structure Of A Marr Transcriptional
Regulator From Methanosarcina Mazei Go1
pdb|3S2W|B Chain B, The Crystal Structure Of A Marr Transcriptional
Regulator From Methanosarcina Mazei Go1
pdb|3S2W|C Chain C, The Crystal Structure Of A Marr Transcriptional
Regulator From Methanosarcina Mazei Go1
pdb|3S2W|D Chain D, The Crystal Structure Of A Marr Transcriptional
Regulator From Methanosarcina Mazei Go1
pdb|3S2W|E Chain E, The Crystal Structure Of A Marr Transcriptional
Regulator From Methanosarcina Mazei Go1
pdb|3S2W|F Chain F, The Crystal Structure Of A Marr Transcriptional
Regulator From Methanosarcina Mazei Go1
pdb|3S2W|G Chain G, The Crystal Structure Of A Marr Transcriptional
Regulator From Methanosarcina Mazei Go1
pdb|3S2W|H Chain H, The Crystal Structure Of A Marr Transcriptional
Regulator From Methanosarcina Mazei Go1
Length = 159
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 5/32 (15%)
Query: 16 LEPTEMGVAQF-----LYKGEGLNKTAIGDYL 42
+EP +G QF LY+ +G+N+ ++ DYL
Sbjct: 43 IEPYGIGSGQFPFLXRLYREDGINQESLSDYL 74
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 5/32 (15%)
Query: 55 LEPTEMGVAQF-----LYKGEGLNKTAIGDYL 81
+EP +G QF LY+ +G+N+ ++ DYL
Sbjct: 43 IEPYGIGSGQFPFLXRLYREDGINQESLSDYL 74
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 0.138 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,153,075
Number of Sequences: 62578
Number of extensions: 130179
Number of successful extensions: 244
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 213
Number of HSP's gapped (non-prelim): 36
length of query: 91
length of database: 14,973,337
effective HSP length: 58
effective length of query: 33
effective length of database: 11,343,813
effective search space: 374345829
effective search space used: 374345829
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 45 (21.9 bits)