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= 035311
(68 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 38.1 bits (87), Expect = 0.001, Method: Composition-based stats.
Identities = 22/40 (55%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 2 TEEDFIRSNGHINGGNDLPREFLSKLYHSICKNEIGTTPE 41
T E FI N IN G DLP E L LY SI KNE PE
Sbjct: 162 TAERFITXNRGINEGGDLPEELLRNLYESI-KNEPFKIPE 200
>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 = 37.4 bits (85), Expect = 0.002, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 23/36 (63%)
Query: 1 MTEEDFIRSNGHINGGNDLPREFLSKLYHSICKNEI 36
MT+E +I+ N IN DLP E+LS +Y+ I +I
Sbjct: 167 MTKEQYIKMNRGINDSKDLPEEYLSAIYNEIAGKKI 202
>pdb|1BC9|A Chain A, Cytohesin-1B2-1 Sec7 Domain, Nmr, Minimized Average
Structure
Length = 200
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/40 (55%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 2 TEEDFIRSNGHINGGNDLPREFLSKLYHSICKNEIGTTPE 41
T E FI N IN G DLP E L LY SI KNE PE
Sbjct: 154 TVERFIAMNRGINDGGDLPEELLRNLYESI-KNEPFKIPE 192
>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 = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/40 (55%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 2 TEEDFIRSNGHINGGNDLPREFLSKLYHSICKNEIGTTPE 41
T E FI N IN G DLP E L LY SI KNE PE
Sbjct: 154 TVERFIAMNRGINDGGDLPEELLRNLYESI-KNEPFKIPE 192
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/40 (55%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 2 TEEDFIRSNGHINGGNDLPREFLSKLYHSICKNEIGTTPE 41
T E FI N IN G DLP E L LY SI KNE PE
Sbjct: 162 TAERFITMNRGINEGGDLPEELLRNLYESI-KNEPFKIPE 200
>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 = 34.7 bits (78), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 2 TEEDFIRSNGHINGGNDLPREFLSKLYHSICKNEIG 37
T+E +I+ N IN DLP E+LS +Y I +I
Sbjct: 159 TKEQYIKXNRGINDSKDLPEEYLSSIYEEIEGKKIA 194
>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 = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 1 MTEEDFIRSNGHINGGNDLPREFLSKLYHSICKNEIGTTPE 41
M E F+ N IN G DLP E L LY SI +NE PE
Sbjct: 159 MGLERFVAMNRGINEGGDLPEELLRNLYDSI-RNEPFKIPE 198
>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 = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 1 MTEEDFIRSNGHINGGNDLPREFLSKLYHSICKNEIGTTPE 41
M E F+ N IN G DLP E L LY SI +NE PE
Sbjct: 159 MGLERFVAMNRGINEGGDLPEELLRNLYDSI-RNEPFKIPE 198
>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 = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 1 MTEEDFIRSNGHINGGNDLPREFLSKLYHSICKNEIGTTPE 41
M E F+ N IN G DLP E L LY SI +NE PE
Sbjct: 159 MGLERFVAMNRGINEGGDLPEELLRNLYDSI-RNEPFKIPE 198
>pdb|1PBV|A Chain A, Sec7 Domain Of The Exchange Factor Arno
Length = 195
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 4 EDFIRSNGHINGGNDLPREFLSKLYHSICKNEIGTTP 40
E F+ N IN G DLP E L LY SI +NE P
Sbjct: 160 ERFVAMNRGINEGGDLPEELLRNLYDSI-RNEPFKIP 195
>pdb|2YDT|A Chain A, Structure Of The Alpha-L-Arabinofuranosidase Arb93a From
Fusarium Graminearum In Complexe With An Iminosugar
Inhibitor
Length = 367
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 20/30 (66%), Gaps = 4/30 (13%)
Query: 20 PREFLSKLYHSICKNEIGTTPEQCAGFPEI 49
P++FL+K +H I N+ GTTP AG P +
Sbjct: 253 PQKFLNKAHHQIVSND-GTTP---AGSPYV 278
>pdb|2YDP|A Chain A, Structure Of The E242a Mutant Of The
Alpha-L-Arabinofuranosidase Arb93a From Fusarium
Graminearum In Complex With An Iminosugar Inhibitor
pdb|2YDP|B Chain B, Structure Of The E242a Mutant Of The
Alpha-L-Arabinofuranosidase Arb93a From Fusarium
Graminearum In Complex With An Iminosugar Inhibitor
pdb|2YDP|C Chain C, Structure Of The E242a Mutant Of The
Alpha-L-Arabinofuranosidase Arb93a From Fusarium
Graminearum In Complex With An Iminosugar Inhibitor
Length = 367
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 20/30 (66%), Gaps = 4/30 (13%)
Query: 20 PREFLSKLYHSICKNEIGTTPEQCAGFPEI 49
P++FL+K +H I N+ GTTP AG P +
Sbjct: 253 PQKFLNKAHHQIVSND-GTTP---AGSPYV 278
>pdb|2W5O|A Chain A, Complex Structure Of The Gh93 Alpha-L-Arabinofuranosidase
Of Fusarium Graminearum With Arabinobiose
Length = 367
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 20/30 (66%), Gaps = 4/30 (13%)
Query: 20 PREFLSKLYHSICKNEIGTTPEQCAGFPEI 49
P++FL+K +H I N+ GTTP AG P +
Sbjct: 253 PQKFLNKAHHQIVSND-GTTP---AGSPYV 278
>pdb|2W5N|A Chain A, Native Structure Of The Gh93 Alpha-L-Arabinofuranosidase
Of Fusarium Graminearum
Length = 367
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 20/30 (66%), Gaps = 4/30 (13%)
Query: 20 PREFLSKLYHSICKNEIGTTPEQCAGFPEI 49
P++FL+K +H I N+ GTTP AG P +
Sbjct: 253 PQKFLNKAHHQIVSND-GTTP---AGSPYV 278
>pdb|1S5J|A Chain A, Insight In Dna Replication: The Crystal Structure Of Dna
Polymerase B1 From The Archaeon Sulfolobus Solfataricus
Length = 847
Score = 26.6 bits (57), Expect = 4.1, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 15 GGNDLPREFLSKLYHSICKNEIGTTPEQCAGFPEITQSCWIDLMRSLRKQL 65
G N LPR+ + Y+ +++ G P Q A EI +++ +RS +Q+
Sbjct: 771 GVNVLPRDII---YYVKVRSKDGVKPVQLAKVTEIDAEKYLEALRSTFEQI 818
>pdb|1RE0|B Chain B, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With
Brefeldin A
Length = 221
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 1 MTEEDFIRSNGHINGGNDLPREFLSKLYHSICKNEIGTTPEQ 42
MT +D+ + G D PR +L K+Y SI EI PE+
Sbjct: 180 MTFDDYSNNLRGCYNGKDFPRWYLHKIYTSIKVKEI-VMPEE 220
>pdb|3QN2|A Chain A, Structure-Based Design Of A Disulfide-Linked Oligomeric
Form Of The Simian Virus 40 (Sv40) Large T Antigen Dna
Binding Domain
Length = 134
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 13 INGGNDLPREFLSKLYHSICKNE------IGTTPEQCA 44
+ D P E LS L H++C N I TT E+ A
Sbjct: 4 VEDPKDFPSELLSFLSHAVCSNRTLACFAIYTTKEKAA 41
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 0.138 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,241,993
Number of Sequences: 62578
Number of extensions: 73442
Number of successful extensions: 129
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 118
Number of HSP's gapped (non-prelim): 17
length of query: 68
length of database: 14,973,337
effective HSP length: 38
effective length of query: 30
effective length of database: 12,595,373
effective search space: 377861190
effective search space used: 377861190
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: 45 (21.9 bits)