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= psy8547
(115 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2L0W|A Chain A, Solution Nmr Structure Of The N-Terminal Pas Domain Of
Herg Potassium Channel
Length = 138
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 22/30 (73%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDV 93
G+ F CL+D+VP+KNE V++++ + + V
Sbjct: 106 GSCFLCLVDVVPVKNEDGAVIMFILNFEVV 135
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 21/29 (72%)
Query: 13 TPFWCLLDIVPIKNEKREVVLYLASHKDV 41
+ F CL+D+VP+KNE V++++ + + V
Sbjct: 107 SCFLCLVDVVPVKNEDGAVIMFILNFEVV 135
>pdb|1BYW|A Chain A, Structure Of The N-Terminal Domain Of The Human-Erg
Potassium Channel
Length = 110
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 22/30 (73%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDV 93
G+ F CL+D+VP+KNE V++++ + + V
Sbjct: 78 GSCFLCLVDVVPVKNEDGAVIMFILNFEVV 107
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 24/34 (70%), Gaps = 1/34 (2%)
Query: 9 YRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDV 41
YR+ + F CL+D+VP+KNE V++++ + + V
Sbjct: 74 YRKDGSCFLCLVDVVPVKNEDGAVIMFILNFEVV 107
>pdb|2L1M|A Chain A, Solution Structure Of The Eag Domain Of The Herg (Kv11.1)
K+ Channel
Length = 150
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 22/30 (73%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDV 93
G+ F CL+D+VP+KNE V++++ + + V
Sbjct: 103 GSCFLCLVDVVPVKNEDGAVIMFILNFEVV 132
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 21/29 (72%)
Query: 13 TPFWCLLDIVPIKNEKREVVLYLASHKDV 41
+ F CL+D+VP+KNE V++++ + + V
Sbjct: 104 SCFLCLVDVVPVKNEDGAVIMFILNFEVV 132
>pdb|2L4R|A Chain A, Nmr Solution Structure Of The N-Terminal Pas Domain Of
Herg
Length = 135
Score = 33.5 bits (75), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 22/30 (73%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDV 93
G+ F CL+D+VP+KNE V++++ + + V
Sbjct: 103 GSCFLCLVDVVPVKNEDGAVIMFILNFEVV 132
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 21/29 (72%)
Query: 13 TPFWCLLDIVPIKNEKREVVLYLASHKDV 41
+ F CL+D+VP+KNE V++++ + + V
Sbjct: 104 SCFLCLVDVVPVKNEDGAVIMFILNFEVV 132
>pdb|1N9L|A Chain A, Crystal Structure Of The Phot-lov1 Domain From
Chlamydomonas Reinhardtii In The Dark State.
pdb|1N9N|A Chain A, Crystal Structure Of The Phot-Lov1 Domain From
Chlamydomonas Reinhardtii In Illuminated State. Data Set
Of A Single Crystal.
pdb|1N9O|A Chain A, Crystal Structure Of The Phot-Lov1 Domain From
Chlamydomonas Reinhardtii In Illuminated State.
Composite Data Set
Length = 109
Score = 33.1 bits (74), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVTN 43
NYR+ TPFW LL + PIK V ++ DVT+
Sbjct: 73 NYRKDGTPFWNLLTVTPIKTPDGRVSKFVGVQVDVTS 109
Score = 32.7 bits (73), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTN 95
GTPFW LL + PIK V ++ DVT+
Sbjct: 78 GTPFWNLLTVTPIKTPDGRVSKFVGVQVDVTS 109
>pdb|2Z6C|A Chain A, Crystal Structure Of Lov1 Domain Of Phototropin1 From
Arabidopsis Thaliana
pdb|2Z6C|B Chain B, Crystal Structure Of Lov1 Domain Of Phototropin1 From
Arabidopsis Thaliana
Length = 129
Score = 32.3 bits (72), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVT 94
GT FW LL I PIK+E +V+ ++ +V+
Sbjct: 92 GTSFWNLLTIAPIKDESGKVLKFIGMQVEVS 122
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVT 42
NY++ T FW LL I PIK+E +V+ ++ +V+
Sbjct: 87 NYKKDGTSFWNLLTIAPIKDESGKVLKFIGMQVEVS 122
>pdb|2Z6D|A Chain A, Crystal Structure Of Lov1 Domain Of Phototropin2 From
Arabidopsis Thaliana
pdb|2Z6D|B Chain B, Crystal Structure Of Lov1 Domain Of Phototropin2 From
Arabidopsis Thaliana
Length = 130
Score = 32.0 bits (71), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 45 KMAQMADNGE---GDYEDMQELGTPFWCLLDIVPIKNEKREVVLYLASHKDVT 94
K+ NG+ G + ++ GTPFW LL + PIK+++ + ++ +V+
Sbjct: 69 KIRDCVKNGKSYCGRLLNYKKDGTPFWNLLTVTPIKDDQGNTIKFIGMQVEVS 121
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVT 42
NY++ TPFW LL + PIK+++ + ++ +V+
Sbjct: 86 NYKKDGTPFWNLLTVTPIKDDQGNTIKFIGMQVEVS 121
>pdb|3SW1|A Chain A, Structure Of A Full-Length Bacterial Lov Protein
pdb|3SW1|B Chain B, Structure Of A Full-Length Bacterial Lov Protein
Length = 162
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTN 95
G+ FW L I P+K++ + ++ KDV+
Sbjct: 110 GSAFWNELSITPVKSDFDQRTYFIGIQKDVSR 141
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVTN 43
NYR+ + FW L I P+K++ + ++ KDV+
Sbjct: 105 NYRKDGSAFWNELSITPVKSDFDQRTYFIGIQKDVSR 141
>pdb|3EWK|A Chain A, Structure Of The Redox Sensor Domain Of Methylococcus
Capsulatus (Bath) Mmos
Length = 227
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 27/47 (57%)
Query: 54 EGDYEDMQELGTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 100
+G++ + ++ GT +W IVP+ + + Y++ +D+T K A+
Sbjct: 61 QGEFCNRRKDGTRYWVDSTIVPLMDNAGKPRQYISIRRDITAQKEAE 107
>pdb|2GJ3|A Chain A, Crystal Structure Of The Fad-Containing Pas Domain Of The
Protein Nifl From Azotobacter Vinelandii.
pdb|2GJ3|B Chain B, Crystal Structure Of The Fad-Containing Pas Domain Of The
Protein Nifl From Azotobacter Vinelandii
Length = 120
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 10 RQRTPFWCLLDIVPIKNEKREVVLYLASHKDVT 42
+ +T + L + P+ NE E + YL H+D +
Sbjct: 85 KDKTLYLAELTVAPVLNEAGETIYYLGMHRDTS 117
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 65 TPFWCLLDIVPIKNEKREVVLYLASHKDVT 94
T + L + P+ NE E + YL H+D +
Sbjct: 88 TLYLAELTVAPVLNEAGETIYYLGMHRDTS 117
>pdb|1KTK|E Chain E, Complex Of Streptococcal Pyrogenic Enterotoxin C (Spec)
With A Human T Cell Receptor Beta Chain (Vbeta2.1)
pdb|1KTK|F Chain F, Complex Of Streptococcal Pyrogenic Enterotoxin C (Spec)
With A Human T Cell Receptor Beta Chain (Vbeta2.1)
Length = 247
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 53 GEGDYEDMQELGTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNGEGDYEDM 112
G G D Q G P L + +KN EV ++ S ++++T+ A + G Y D
Sbjct: 99 GSGSSTDTQYFG-PGTRLTVLEDLKNFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDH 157
Query: 113 QEL 115
EL
Sbjct: 158 VEL 160
>pdb|3VYC|A Chain A, Crystal Structure Of Unliganded Saccharomyces Cerevisiae
Crm1 (Xpo1p)
Length = 1033
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 39/84 (46%), Gaps = 7/84 (8%)
Query: 20 DIVPIKNEKREVVLYLASHKDVTNT------KMAQMADNGEGDYEDMQELGTPFWCLLDI 73
D + + +REV++YL +H +V +T K+A+ D E + ++ L +
Sbjct: 423 DTIQLYKSEREVLVYL-THLNVIDTEEIMISKLARQIDGSEWSWHNINTLSWAIGSISGT 481
Query: 74 VPIKNEKREVVLYLASHKDVTNTK 97
+ EKR VV + D+T K
Sbjct: 482 MSEDTEKRFVVTVIKDLLDLTVKK 505
>pdb|3M1I|C Chain C, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With
Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp)
Length = 1049
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 39/84 (46%), Gaps = 7/84 (8%)
Query: 20 DIVPIKNEKREVVLYLASHKDVTNT------KMAQMADNGEGDYEDMQELGTPFWCLLDI 73
D + + +REV++YL +H +V +T K+A+ D E + ++ L +
Sbjct: 425 DTIQLYKSEREVLVYL-THLNVIDTEEIMISKLARQIDGSEWSWHNINTLSWAIGSISGT 483
Query: 74 VPIKNEKREVVLYLASHKDVTNTK 97
+ EKR VV + D+T K
Sbjct: 484 MSEDTEKRFVVTVIKDLLDLTVKK 507
>pdb|1G8S|A Chain A, Methanococcus Jannaschii Fibrillarin Pre-Rrna Processing
Protein
Length = 230
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 19 LDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNG 53
L ++PIK + + +LYL + T + +A +AD G
Sbjct: 67 LKVMPIKRDSK--ILYLGASAGTTPSHVADIADKG 99
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 71 LDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNG 105
L ++PIK + + +LYL + T + +A +AD G
Sbjct: 67 LKVMPIKRDSK--ILYLGASAGTTPSHVADIADKG 99
>pdb|4HB3|C Chain C, Crystal Structure Of Crm1(t539s)-ran-ranbp1 Soaked In
Excess Crm1 Inhibitor Leptomycin B
Length = 1023
Score = 25.8 bits (55), Expect = 6.1, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 40/87 (45%), Gaps = 7/87 (8%)
Query: 20 DIVPIKNEKREVVLYLASHKDVTNT------KMAQMADNGEGDYEDMQELGTPFWCLLDI 73
D + + +REV++YL +H +V +T K+A+ D E + ++ L +
Sbjct: 425 DTIQLYKSEREVLVYL-THLNVIDTEEIMISKLARQIDGSEWSWHNINTLSWAIGSISGT 483
Query: 74 VPIKNEKREVVLYLASHKDVTNTKMAQ 100
+ EKR VV + D++ K +
Sbjct: 484 MSEDTEKRFVVTVIKDLLDLSVKKRGK 510
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
0.316 0.133 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,681,382
Number of Sequences: 62578
Number of extensions: 141211
Number of successful extensions: 318
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 296
Number of HSP's gapped (non-prelim): 33
length of query: 115
length of database: 14,973,337
effective HSP length: 78
effective length of query: 37
effective length of database: 10,092,253
effective search space: 373413361
effective search space used: 373413361
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)