RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8547
(115 letters)
>1byw_A Protein (human ERG potassium channel); PAS domain, potassium
channel domain, membrane protein; 2.60A {Homo sapiens}
SCOP: d.110.3.6
Length = 110
Score = 57.2 bits (139), Expect = 3e-12
Identities = 13/36 (36%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVT 42
YR+ + F CL+D+VP+KNE V++++ + + V
Sbjct: 73 FYRKDGSCFLCLVDVVPVKNEDGAVIMFILNFEVVM 108
Score = 56.0 bits (136), Expect = 9e-12
Identities = 12/31 (38%), Positives = 22/31 (70%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVT 94
G+ F CL+D+VP+KNE V++++ + + V
Sbjct: 78 GSCFLCLVDVVPVKNEDGAVIMFILNFEVVM 108
>2l0w_A Potassium voltage-gated channel, subfamily H (EAG member 2, isoform
CRA_B; HERG, PAS domain, voltage-gated potassium
channel, membrane; NMR {Homo sapiens} PDB: 2l1m_A 2l4r_A
Length = 138
Score = 57.6 bits (140), Expect = 4e-12
Identities = 13/36 (36%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 8 NYR-QRTPFWCLLDIVPIKNEKREVVLYLASHKDVT 42
YR + F CL+D+VP+KNE V++++ + + V
Sbjct: 101 FYRKDGSCFLCLVDVVPVKNEDGAVIMFILNFEVVM 136
Score = 56.9 bits (138), Expect = 9e-12
Identities = 12/31 (38%), Positives = 22/31 (70%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVT 94
G+ F CL+D+VP+KNE V++++ + + V
Sbjct: 106 GSCFLCLVDVVPVKNEDGAVIMFILNFEVVM 136
>2z6d_A Phototropin-2; PAS-fold, LOV-fold, alternative splicing,
ATP-binding, chromophore, flavoprotein, FMN, kinase,
membrane, nucleotide-binding; HET: FMN; 2.00A
{Arabidopsis thaliana} PDB: 2z6c_A*
Length = 130
Score = 56.0 bits (136), Expect = 1e-11
Identities = 12/42 (28%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 48
NY++ TPFW LL + PIK+++ + ++ +V+
Sbjct: 86 NYKKDGTPFWNLLTVTPIKDDQGNTIKFIGMQVEVSKYTEGV 127
Score = 55.3 bits (134), Expect = 3e-11
Identities = 11/37 (29%), Positives = 20/37 (54%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 100
GTPFW LL + PIK+++ + ++ +V+
Sbjct: 91 GTPFWNLLTVTPIKDDQGNTIKFIGMQVEVSKYTEGV 127
>2v0u_A NPH1-1, LOV2; kinase, transferase, ATP-binding,
serine/threonine-protein kinase, light-induced signal
trans phototropin1, nucleotide-binding; HET: FMN; 1.40A
{Avena sativa} PDB: 2v0w_A* 2v1b_A* 2v1a_A* 1jnu_A*
1g28_A*
Length = 146
Score = 55.3 bits (134), Expect = 4e-11
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 48
NY + FW L + P++++K +V ++ D T
Sbjct: 82 NYTKSGKKFWNLFHLQPMRDQKGDVQYFIGVQLDGTEHVRDA 123
Score = 54.6 bits (132), Expect = 6e-11
Identities = 9/37 (24%), Positives = 17/37 (45%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 100
G FW L + P++++K +V ++ D T
Sbjct: 87 GKKFWNLFHLQPMRDQKGDVQYFIGVQLDGTEHVRDA 123
>1n9l_A PHOT-LOV1, putative blue light receptor; phototropin, flavin,
electron transport; HET: FMN; 1.90A {Chlamydomonas
reinhardtii} SCOP: d.110.3.6 PDB: 1n9n_A* 1n9o_A*
Length = 109
Score = 54.0 bits (131), Expect = 5e-11
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 = 53.3 bits (129), Expect = 1e-10
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTN 95
GTPFW LL + PIK V ++ DVT+
Sbjct: 78 GTPFWNLLTVTPIKTPDGRVSKFVGVQVDVTS 109
>4eet_B Phototropin-2; LOV, blue light photoreceptor, signaling protein,
flavoprote; HET: FMN; 1.20A {Arabidopsis thaliana} PDB:
4ees_A* 4eer_A* 4eep_A* 4eeu_A* 1jnu_A* 1g28_A*
Length = 115
Score = 52.9 bits (128), Expect = 1e-10
Identities = 10/36 (27%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVT 42
NY + FW LL + P++++K E+ ++ D +
Sbjct: 77 NYTKSGKKFWNLLHLQPVRDQKGELQYFIGVQLDGS 112
Score = 52.1 bits (126), Expect = 3e-10
Identities = 9/31 (29%), Positives = 18/31 (58%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVT 94
G FW LL + P++++K E+ ++ D +
Sbjct: 82 GKKFWNLLHLQPVRDQKGELQYFIGVQLDGS 112
>3ue6_A Aureochrome1; PAS/LOV domain, FMN-binding blue-light photoreceptor,
signal protein; HET: FMN; 2.75A {Vaucheria frigida} PDB:
3ulf_A*
Length = 166
Score = 53.1 bits (128), Expect = 3e-10
Identities = 10/47 (21%), Positives = 21/47 (44%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNGEGDYE 110
GT FW L + +++ K +V Y+ V+ + + +Y+
Sbjct: 120 GTTFWNLFFVAGLRDSKGNIVNYVGVQSKVSEDYAKLLVNEQNIEYK 166
Score = 53.1 bits (128), Expect = 4e-10
Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNGEGDYE 58
NYRQ T FW L + +++ K +V Y+ V+ + + +Y+
Sbjct: 115 NYRQDGTTFWNLFFVAGLRDSKGNIVNYVGVQSKVSEDYAKLLVNEQNIEYK 166
>3p7n_A Sensor histidine kinase; LOV domain, light-activated transcription
factor, DNA bindin; HET: FMN; 2.10A {Erythrobacter
litoralis}
Length = 258
Score = 51.1 bits (122), Expect = 5e-09
Identities = 22/100 (22%), Positives = 40/100 (40%), Gaps = 2/100 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNGEGDYEDMQELGTP 66
NY++ TPF + + PI ++ E++ +L S +V + + E E ++ L
Sbjct: 143 NYKKDGTPFRNAVLVAPIYDDDDELLYFLGSQVEVDDDQPNMGMARRERAAEMLKTLSPR 202
Query: 67 FWCLLDIVPIKNEKREVVLYLA-SHKDVTNTKMAQMADNG 105
+ +V +EV L S K V + M
Sbjct: 203 QLEVTTLVASGLRNKEVAARLGLSEKTVKMHRGLVMEKLN 242
Score = 50.0 bits (119), Expect = 1e-08
Identities = 13/52 (25%), Positives = 25/52 (48%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNGEGDYEDMQEL 115
GTPF + + PI ++ E++ +L S +V + + E E ++ L
Sbjct: 148 GTPFRNAVLVAPIYDDDDELLYFLGSQVEVDDDQPNMGMARRERAAEMLKTL 199
>3d72_A Vivid PAS protein VVD; circadian, photoreceptor, blue-light, LOV,
signaling protein; HET: FAD; 1.65A {Neurospora crassa}
PDB: 3is2_A* 2pd8_A* 3hjk_A* 2pdr_A* 2pd7_A* 2pdt_A*
3hji_A* 3rh8_B*
Length = 149
Score = 44.6 bits (106), Expect = 5e-07
Identities = 6/34 (17%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKD 40
N+++ F L ++P+++E E + +
Sbjct: 116 NFKKNGQRFVNFLTMIPVRDETGEYRYSMGFQCE 149
Score = 44.3 bits (105), Expect = 6e-07
Identities = 6/29 (20%), Positives = 13/29 (44%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKD 92
G F L ++P+++E E + +
Sbjct: 121 GQRFVNFLTMIPVRDETGEYRYSMGFQCE 149
>3t50_A Blue-light-activated histidine kinase; PAS superfamily, blue-light
photoreceptor, FMN binding, TRAN; HET: FMN; 1.64A
{Brucella melitensis}
Length = 128
Score = 44.1 bits (105), Expect = 6e-07
Identities = 11/37 (29%), Positives = 18/37 (48%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 100
G FW L I P+ N + +++S DVT + +
Sbjct: 82 GEAFWNRLHISPVHNANGRLQHFVSSQLDVTLELVPR 118
Score = 43.7 bits (104), Expect = 7e-07
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 48
NY++ FW L I P+ N + +++S DVT + +
Sbjct: 77 NYKKSGEAFWNRLHISPVHNANGRLQHFVSSQLDVTLELVPR 118
>3sw1_A Sensory box protein; light-oxygen-voltage, LOV, PAS, signaling
protein; HET: FMN; 2.63A {Pseudomonas putida}
Length = 162
Score = 43.4 bits (103), Expect = 1e-06
Identities = 10/37 (27%), Positives = 19/37 (51%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 100
G+ FW L I P+K++ + ++ KDV+ +
Sbjct: 110 GSAFWNELSITPVKSDFDQRTYFIGIQKDVSRQVELE 146
Score = 43.0 bits (102), Expect = 2e-06
Identities = 12/42 (28%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 48
NYR+ + FW L I P+K++ + ++ KDV+ +
Sbjct: 105 NYRKDGSAFWNELSITPVKSDFDQRTYFIGIQKDVSRQVELE 146
>2pr5_A Blue-light photoreceptor; light-oxygen-voltage, LOV, PER-ARNT-SIM,
PAS, flavoprotein, protein; HET: FMN; 1.45A {Bacillus
subtilis} PDB: 2pr6_A*
Length = 132
Score = 41.7 bits (99), Expect = 4e-06
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 100
GT FW L+I P++ E + ++ D+T K +
Sbjct: 84 GTMFWNELNIDPMEIE--DKTYFVGIQNDITKQKEYE 118
Score = 41.4 bits (98), Expect = 5e-06
Identities = 12/42 (28%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 8 NYRQ-RTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 48
NY++ T FW L+I P++ E + ++ D+T K +
Sbjct: 79 NYKKDGTMFWNELNIDPMEIE--DKTYFVGIQNDITKQKEYE 118
>2gj3_A Nitrogen fixation regulatory protein; PAS domain, FAD, redox
sensor, atomic resolution, transferase; HET: FAD; 1.04A
{Azotobacter vinelandii}
Length = 120
Score = 34.0 bits (79), Expect = 0.002
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVT 94
T + L + P+ NE E + YL H+D +
Sbjct: 87 KTLYLAELTVAPVLNEAGETIYYLGMHRDTS 117
Score = 32.1 bits (74), Expect = 0.013
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 15 FWCLLDIVPIKNEKREVVLYLASHKDVT 42
+ L + P+ NE E + YL H+D +
Sbjct: 90 YLAELTVAPVLNEAGETIYYLGMHRDTS 117
>3ewk_A Sensor protein; PAS domain, alpha/beta fold, kinase,
phosphoprotein, transfe flavoprotein; HET: FAD; 2.34A
{Methylococcus capsulatus}
Length = 227
Score = 34.7 bits (80), Expect = 0.003
Identities = 12/50 (24%), Positives = 21/50 (42%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNGEGDYEDMQ 113
GT +W IVP+ + + Y++ +D+T K A+ D
Sbjct: 71 GTRYWVDSTIVPLMDNAGKPRQYISIRRDITAQKEAEAQLARLKQAMDAN 120
Score = 32.0 bits (73), Expect = 0.027
Identities = 11/49 (22%), Positives = 20/49 (40%)
Query: 13 TPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNGEGDYEDMQ 61
T +W IVP+ + + Y++ +D+T K A+ D
Sbjct: 72 TRYWVDSTIVPLMDNAGKPRQYISIRRDITAQKEAEAQLARLKQAMDAN 120
Score = 28.5 bits (64), Expect = 0.44
Identities = 6/29 (20%), Positives = 11/29 (37%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKD 92
+W + PI + +V Y+ D
Sbjct: 199 AEDYWAEISTTPIHTDGNGLVGYVQIQHD 227
Score = 26.2 bits (58), Expect = 2.3
Identities = 6/28 (21%), Positives = 11/28 (39%)
Query: 13 TPFWCLLDIVPIKNEKREVVLYLASHKD 40
+W + PI + +V Y+ D
Sbjct: 200 EDYWAEISTTPIHTDGNGLVGYVQIQHD 227
>3lyx_A Sensory BOX/ggdef domain protein; structural genomics, PSI- 2,
protein structure initiative, northeast structural
genomics consortium; 2.00A {Colwellia psychrerythraea}
Length = 124
Score = 33.2 bits (77), Expect = 0.006
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTK 97
G W VPI E ++V L ++D+T K
Sbjct: 89 GHIGWIESMCVPIYGENYQMVGALGINRDITKRK 122
Score = 30.1 bits (69), Expect = 0.067
Identities = 10/33 (30%), Positives = 15/33 (45%)
Query: 13 TPFWCLLDIVPIKNEKREVVLYLASHKDVTNTK 45
W VPI E ++V L ++D+T K
Sbjct: 90 HIGWIESMCVPIYGENYQMVGALGINRDITKRK 122
>4eho_A Bacteriophytochrome, PAS/PAC sensor; photoreceptor,
bacteriopbhytochrome; HET: MSE BLA; 2.90A
{Rhodopseudomonas palustris tie-1}
Length = 635
Score = 27.8 bits (61), Expect = 0.85
Identities = 10/86 (11%), Positives = 29/86 (33%), Gaps = 3/86 (3%)
Query: 18 LLDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNGEGDYEDMQ---ELGTPFWCLLDIV 74
+L + + + +A++ D+G G ++ P +
Sbjct: 550 MLPAGSPSAVHLDDLAGFFVESNDFLRNVAELIDHGRGWRGEVLLRGAGNRPLPLAVRAD 609
Query: 75 PIKNEKREVVLYLASHKDVTNTKMAQ 100
P+ + + + ++ D T+ + A
Sbjct: 610 PVTRTEDQSLGFVLIFSDATDRRTAD 635
Score = 25.5 bits (55), Expect = 5.4
Identities = 5/37 (13%), Positives = 14/37 (37%)
Query: 12 RTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 48
P + P+ + + + ++ D T+ + A
Sbjct: 599 NRPLPLAVRADPVTRTEDQSLGFVLIFSDATDRRTAD 635
>3mqq_A Transcriptional regulator, LUXR family; PAS domain, PSI, MCSG,
structural genomics, center for structural genomics;
1.65A {Burkholderia thailandensis} PDB: 3mqo_A
Length = 120
Score = 26.8 bits (60), Expect = 1.0
Identities = 7/65 (10%), Positives = 20/65 (30%), Gaps = 11/65 (16%)
Query: 36 ASHKDVTNTKMAQMADNGEGDYE------DMQELGTPFWCLLDIVPIKNEKREVVLYLAS 89
+ + M +G + G FWC + + + + + +
Sbjct: 55 DEFERIGERISPVMIAHGSYADDRIMKRAG----GELFWCHVTGRAL-DRTAPLAAGVWT 109
Query: 90 HKDVT 94
+D++
Sbjct: 110 FEDLS 114
>2yhx_A Hexokinase B; transferase(phosphoryl,alcohol acceptr); HET: OTG;
2.10A {Saccharomyces cerevisiae} SCOP: i.12.1.1 PDB:
1hkg_A
Length = 457
Score = 25.9 bits (56), Expect = 4.2
Identities = 6/71 (8%), Positives = 19/71 (26%)
Query: 40 DVTNTKMAQMADNGEGDYEDMQELGTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMA 99
V + + +D + V + + +LA + ++
Sbjct: 17 IVPPXILQAVVSILTTRXDDXDSSAASIPMVPGWVLKQVSGAQAGSFLAIVMGGGDLEVI 76
Query: 100 QMADNGEGDYE 110
++ G +
Sbjct: 77 LISLAGRQESS 87
>1o6d_A Hypothetical UPF0247 protein TM0844; structural genomics, unknown
function; 1.66A {Thermotoga maritima} SCOP: c.116.1.3
Length = 163
Score = 24.8 bits (55), Expect = 6.6
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 9 YRQRTPFWCLLDIVPIKNEKR 29
Y + +C +++ IK R
Sbjct: 24 YEKFLRRFCKPEVLEIKRVHR 44
>3m8j_A FOCB protein; all-alpha, helix-turn-helix, transcription; 1.40A
{Escherichia coli}
Length = 111
Score = 24.2 bits (52), Expect = 8.5
Identities = 4/20 (20%), Positives = 11/20 (55%)
Query: 15 FWCLLDIVPIKNEKREVVLY 34
F+ L+ I I +++ + +
Sbjct: 35 FFLLIGISSIHSDRVILAMK 54
Score = 24.2 bits (52), Expect = 8.5
Identities = 4/20 (20%), Positives = 11/20 (55%)
Query: 67 FWCLLDIVPIKNEKREVVLY 86
F+ L+ I I +++ + +
Sbjct: 35 FFLLIGISSIHSDRVILAMK 54
>3kx0_X Uncharacterized protein RV1364C/MT1410; PAS domain, sensory domain,
mycobacteium tuberculos molecule binding domain; 2.30A
{Mycobacterium tuberculosis}
Length = 185
Score = 24.3 bits (53), Expect = 9.9
Identities = 7/49 (14%), Positives = 16/49 (32%), Gaps = 3/49 (6%)
Query: 2 VTHPDTNYRQRTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMA 50
+ + +R + + P + + DVT+ A+ A
Sbjct: 116 TDYDGSGVEER---YFDFVVTPRRRADGSIEGVQLIVDDVTSRVRARQA 161
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.316 0.133 0.402
Gapped
Lambda K H
0.267 0.0490 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,756,880
Number of extensions: 91681
Number of successful extensions: 203
Number of sequences better than 10.0: 1
Number of HSP's gapped: 203
Number of HSP's successfully gapped: 51
Length of query: 115
Length of database: 6,701,793
Length adjustment: 78
Effective length of query: 37
Effective length of database: 4,523,955
Effective search space: 167386335
Effective search space used: 167386335
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.0 bits)