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= psy17809
(294 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4H6J|A Chain A, Identification Of Cys 255 In Hif-1 As A Novel Site For
Development Of Covalent Inhibitors Of Hif-1 ARNT PASB
DOMAIN PROTEIN-Protein Interaction
Length = 113
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 27/51 (52%), Positives = 38/51 (74%)
Query: 144 VINKGQVLTHYYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVNYVISG 194
+ KGQV T YR++ K GGY WV++ ATV+ ++KN+ Q I+CVNYV+SG
Sbjct: 59 MFTKGQVTTGQYRMLAKRGGYVWVETQATVIYNTKNSQPQCIVCVNYVVSG 109
>pdb|3F1N|A Chain A, Crystal Structure Of A High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains, With Internally
Bound Ethylene Glycol.
pdb|3F1O|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains, With An
Internally- Bound Artificial Ligand
pdb|3F1P|A Chain A, Crystal Structure Of A High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains
pdb|3H7W|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains With The
Artificial Ligand Ths017
pdb|3H82|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains With The
Artificial Ligand Ths020
pdb|4GHI|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-terminal Pas Domains In Complex With A
Benzoxadiazole Antagonist
Length = 117
Score = 54.3 bits (129), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 38/57 (66%)
Query: 140 SQWQVINKGQVLTHYYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVNYVISGRE 196
S + KGQV++ YR++ K+GGY W+++ TV+ + +N Q I+CVNYV+S E
Sbjct: 59 SHQNLCTKGQVVSGQYRMLAKHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVLSEIE 115
>pdb|1P97|A Chain A, Nmr Structure Of The C-Terminal Pas Domain Of Hif2a
Length = 114
Score = 54.3 bits (129), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 38/57 (66%)
Query: 140 SQWQVINKGQVLTHYYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVNYVISGRE 196
S + KGQV++ YR++ K+GGY W+++ TV+ + +N Q I+CVNYV+S E
Sbjct: 56 SHQNLCTKGQVVSGQYRMLAKHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVLSEIE 112
>pdb|2A24|A Chain A, Haddock Structure Of Hif-2aARNT PAS-B Heterodimer
Length = 107
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 37/53 (69%)
Query: 144 VINKGQVLTHYYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVNYVISGRE 196
+ KGQV++ YR++ K+GGY W+++ TV+ + +N Q I+CVNYV+S E
Sbjct: 55 LCTKGQVVSGQYRMLAKHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVLSEIE 107
>pdb|2VLG|A Chain A, Kina Pas-A Domain, Homodimer
pdb|2VLG|B Chain B, Kina Pas-A Domain, Homodimer
pdb|2VLG|C Chain C, Kina Pas-A Domain, Homodimer
pdb|2VLG|D Chain D, Kina Pas-A Domain, Homodimer
Length = 111
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 37/90 (41%), Gaps = 21/90 (23%)
Query: 119 ALGSDGRFLYISETVSIYLGLSQWQVI---------------------NKGQVLTHYYRL 157
L S+GR +YIS ++LG Q ++I N+ ++ +R
Sbjct: 14 VLASNGRIIYISANSKLHLGYLQGEMIGSFLKTFLHEEDQFLVESYFYNEHHLMPCTFRF 73
Query: 158 MNKNGGYTWVQSCATVVCSSKNADEQNIIC 187
+ K+ WV++ +V + E+ II
Sbjct: 74 IKKDHTIVWVEAAVEIVTTRAERTEREIIL 103
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 31.2 bits (69), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 22/43 (51%)
Query: 154 YYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVNYVISGRE 196
YYR + K + W+Q+ + N+ + I+C + V+S E
Sbjct: 315 YYRFLTKGQQWIWLQTHYYITYHQWNSRPEFIVCTHTVVSYAE 357
Score = 30.8 bits (68), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 105 FKSSGYRSLDGFAFALGSDGRFLYISETVSIYL 137
F +LDGF A+ +DG +Y+SE+V+ L
Sbjct: 87 FTQLMLEALDGFFLAIMTDGSIIYVSESVTSLL 119
>pdb|2K7S|A Chain A, Human Arnt C-Terminal Pas Domain, 3 Residue Ib Slip
Length = 119
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 143 QVIN-KGQVLTHYYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVN 189
QV+ KGQVL+ +R +KN + W+++ + + + + + IIC N
Sbjct: 63 QVVKLKGQVLSVMFRFRSKNQEWLWMRTSSQTAQNPYSDEIETIICTN 110
>pdb|3F1N|B Chain B, Crystal Structure Of A High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains, With Internally
Bound Ethylene Glycol.
pdb|3F1O|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains, With An
Internally- Bound Artificial Ligand
pdb|3F1P|B Chain B, Crystal Structure Of A High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains
pdb|3H7W|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains With The
Artificial Ligand Ths017
pdb|3H82|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains With The
Artificial Ligand Ths020
pdb|4GHI|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-terminal Pas Domains In Complex With A
Benzoxadiazole Antagonist
Length = 121
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 143 QVIN-KGQVLTHYYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVN 189
QV+ KGQVL+ +R +KN + W+++ + + + + + IIC N
Sbjct: 65 QVVKLKGQVLSVMFRFRSKNQEWLWMRTSSFTFQNPYSDEIEYIICTN 112
>pdb|2HV1|A Chain A, Haddock Structure Of Arnt Pas-B Homodimer
pdb|2HV1|B Chain B, Haddock Structure Of Arnt Pas-B Homodimer
pdb|1X0O|A Chain A, Human Arnt C-Terminal Pas Domain
Length = 119
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 143 QVIN-KGQVLTHYYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVN 189
QV+ KGQVL+ +R +KN + W+++ + + + + + IIC N
Sbjct: 63 QVVKLKGQVLSVMFRFRSKNQEWLWMRTSSFTFQNPYSDEIEYIICTN 110
>pdb|4H6J|B Chain B, Identification Of Cys 255 In Hif-1 As A Novel Site For
Development Of Covalent Inhibitors Of Hif-1 ARNT PASB
DOMAIN PROTEIN-Protein Interaction
Length = 116
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 143 QVIN-KGQVLTHYYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVN 189
QV+ KGQVL+ +R +KN + W+++ + + + + + IIC N
Sbjct: 60 QVVKLKGQVLSVMFRFRSKNQEWLWMRTSSFTFQNPYSDEIEYIICTN 107
>pdb|2A24|B Chain B, Haddock Structure Of Hif-2aARNT PAS-B Heterodimer
Length = 108
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 143 QVIN-KGQVLTHYYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVN 189
QV+ KGQVL+ +R +KN + W+++ + + + + + IIC N
Sbjct: 57 QVVKLKGQVLSVMFRFRSKNQEWLWMRTSSFTFQNPYSDEIEYIICTN 104
>pdb|2B02|A Chain A, Crystal Structure Of Arnt Pas-B Domain
Length = 119
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 143 QVIN-KGQVLTHYYRLMNKNGGYTWVQSCATVVCSSKNADEQNIICVN 189
QV+ KGQVL+ +R +KN + W ++ + + + + + IIC N
Sbjct: 63 QVVKLKGQVLSVXFRFRSKNQEWLWXRTSSFTFQNPYSDEIEYIICTN 110
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
0.314 0.131 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,201,514
Number of Sequences: 62578
Number of extensions: 378072
Number of successful extensions: 362
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 346
Number of HSP's gapped (non-prelim): 18
length of query: 294
length of database: 14,973,337
effective HSP length: 98
effective length of query: 196
effective length of database: 8,840,693
effective search space: 1732775828
effective search space used: 1732775828
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)