RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4017
(136 letters)
>1k19_A Chemosensory protein CSP2; pheromone, lipid transport; NMR
{Mamestra brassicae} SCOP: a.118.21.1 PDB: 1kx8_A 1kx9_A
1n8u_A* 1n8v_A* 2jnt_A
Length = 112
Score = 139 bits (351), Expect = 5e-44
Identities = 49/101 (48%), Positives = 72/101 (71%)
Query: 25 EKYTTKYDNVDLDQILKNDRLFNNYYNCLLDKGKCSPDGQELKNKLPDAIATECKSCSEK 84
+KYT KYDN++LD+IL N RL Y NC++++GKCSP+G+ELK L DAI CK C+E
Sbjct: 2 DKYTDKYDNINLDEILANKRLLVAYVNCVMERGKCSPEGKELKEHLQDAIENGCKKCTEN 61
Query: 85 QKEGSKKIFKYLIDNKPEQWAELEKKFDPNGTYKAKYQKEL 125
Q++G+ ++ ++LI N+ E W EL K+DP G ++ KY+
Sbjct: 62 QEKGAYRVIEHLIKNEIEIWRELTAKYDPTGNWRKKYEDRA 102
>2gvs_A Chemosensory protein CSP-SG4; alpha-coil, lipid binding protein;
NMR {Schistocerca gregaria}
Length = 109
Score = 133 bits (336), Expect = 1e-41
Identities = 61/107 (57%), Positives = 83/107 (77%), Gaps = 2/107 (1%)
Query: 25 EKYTTKYDNVDLDQILKNDRLFNNYYNCLL--DKGKCSPDGQELKNKLPDAIATECKSCS 82
EKYTTKYDNV+LD+IL NDRL N Y CLL D+ C+ DG+ELK+ +PDA++ EC C+
Sbjct: 2 EKYTTKYDNVNLDEILANDRLLNKYVQCLLEDDESNCTADGKELKSVIPDALSNECAKCN 61
Query: 83 EKQKEGSKKIFKYLIDNKPEQWAELEKKFDPNGTYKAKYQKELSDLK 129
EKQKEG+KK+ K+LI++KP+ WA+L+ K+DP+GTY KY+ +L
Sbjct: 62 EKQKEGTKKVLKHLINHKPDVWAQLKAKYDPDGTYSKKYEDREKELH 108
>2j4d_A Cryptochrome 3, cryptochrome DASH; DNA-binding protein,
flavoprotein, FAD, mitochondrion, plastid, chromophore,
chloroplast; HET: FAD MHF; 1.9A {Arabidopsis thaliana}
PDB: 2vtb_A* 2ijg_X* 2vtb_B*
Length = 525
Score = 32.6 bits (75), Expect = 0.028
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 109 KKFDPNGTYKAKYQKELSDL 128
+ +DP G Y A + ++L L
Sbjct: 455 QNYDPEGEYVAFWLQQLRRL 474
>2j07_A Deoxyribodipyrimidine photo-lyase; flavoprotein,
nucleotide-binding, DNA repair; HET: FAD HDF; 1.95A
{Thermus thermophilus} SCOP: a.99.1.1 c.28.1.1 PDB:
1iqu_A* 1iqr_A* 2j08_A* 2j09_A*
Length = 420
Score = 31.7 bits (73), Expect = 0.047
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 109 KKFDPNGTYKAKYQKELSDLKAGKPV 134
++ DP G + ++ E PV
Sbjct: 375 ERHDPEGRWLKRWAPEYPSYAPKDPV 400
>3tvs_A Cryptochrome-1; circadian clock light entrainment, jetlag,
phosphorylation, gene regulation, signaling protein;
HET: TPO FAD; 2.30A {Drosophila melanogaster}
Length = 538
Score = 31.5 bits (72), Expect = 0.061
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 109 KKFDPNGTYKAKYQKELSDL 128
K+ DP+GTY +Y EL ++
Sbjct: 444 KRLDPDGTYIKQYVPELMNV 463
>2e0i_A 432AA long hypothetical deoxyribodipyrimidine PHO; photolyase, FAD,
DNA repair, lyase; HET: FAD; 2.80A {Sulfolobus tokodaii}
Length = 440
Score = 31.4 bits (72), Expect = 0.064
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 109 KKFDPNGTYKAKYQKELSDL 128
+KFDP + ++ +EL D+
Sbjct: 372 EKFDPEAKFIKEWVEELKDV 391
>1np7_A DNA photolyase; protein with FAD cofactor; HET: DNA FAD; 1.90A
{Synechocystis SP} SCOP: a.99.1.1 c.28.1.1
Length = 489
Score = 31.4 bits (72), Expect = 0.072
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 109 KKFDPNGTYKAKYQKELSDL 128
+++DP GTY + EL +L
Sbjct: 419 QQYDPQGTYLRHWLPELKNL 438
>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A
{Arabidopsis thaliana}
Length = 537
Score = 31.1 bits (71), Expect = 0.080
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 109 KKFDPNGTYKAKYQKELSDL 128
KK+DP+G Y + L D+
Sbjct: 429 KKYDPDGKYIRHFLPVLKDM 448
>2wq7_A RE11660P; lyase-DNA complex, DNA repair, DNA lesion, lyase; HET:
TDY Z FAD; 2.00A {Drosophila melanogaster} PDB: 2wb2_A*
2wq6_A* 3cvu_A* 3cvv_A* 3cvy_A* 3cvw_A* 3cvx_A*
Length = 543
Score = 31.1 bits (71), Expect = 0.090
Identities = 11/20 (55%), Positives = 11/20 (55%)
Query: 109 KKFDPNGTYKAKYQKELSDL 128
KK DP G Y KY ELS
Sbjct: 453 KKTDPQGHYIRKYVPELSKY 472
>1owl_A Photolyase, deoxyribodipyrimidine photolyase; DNA repair, flavin
enzyme, photoreactivating enzyme; HET: FAD; 1.80A
{Synechococcus elongatus} SCOP: a.99.1.1 c.28.1.1 PDB:
1owm_A* 1own_A* 1owo_A* 1owp_A* 1qnf_A* 1tez_A*
Length = 484
Score = 31.0 bits (71), Expect = 0.099
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 109 KKFDPNGTYKAKYQKELSDL 128
KKFD TY ++ EL +
Sbjct: 413 KKFDATATYIKRWLPELRHV 432
>1u3d_A Cryptochrome 1 apoprotein; photolyase, AMPPNP, signaling protein;
HET: FAD ANP NDS; 2.45A {Arabidopsis thaliana} SCOP:
a.99.1.1 c.28.1.1 PDB: 1u3c_A*
Length = 509
Score = 31.0 bits (71), Expect = 0.10
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 109 KKFDPNGTYKAKYQKELSDL 128
KFDPNG Y ++ ELS L
Sbjct: 424 YKFDPNGEYVRRWLPELSRL 443
>1dnp_A DNA photolyase; DNA repair, electron transfer, excitation energy
transfer, carbon-carbon, lyase (carbon-carbon); HET: DNA
FAD MHF; 2.30A {Escherichia coli} SCOP: a.99.1.1
c.28.1.1
Length = 471
Score = 31.0 bits (71), Expect = 0.10
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 109 KKFDPNGTYKAKYQKELSDLKA 130
+KFD G + ++ EL D+
Sbjct: 406 EKFDHEGEFIRQWLPELRDVPG 427
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 30.6 bits (68), Expect = 0.15
Identities = 22/115 (19%), Positives = 37/115 (32%), Gaps = 22/115 (19%)
Query: 35 DLDQILKN-------DRLFNNYYNCLLDKGKCSPD---GQELKNK---LPDAIATECKSC 81
++D I+ + RLF LL K + + L+ L I TE
Sbjct: 50 EIDHIIMSKDAVSGTLRLFW----TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ--- 102
Query: 82 SEKQKEGSKKIFKYLIDNKPEQWAELEKKFDPNGTYKAKYQKELSDLKAGKPVKI 136
+Q +++ D K K ++ L +L+ K V I
Sbjct: 103 --RQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI 155
Score = 25.6 bits (55), Expect = 7.5
Identities = 22/114 (19%), Positives = 34/114 (29%), Gaps = 34/114 (29%)
Query: 27 YTTKYDNVDLDQILKNDRLF--NNYYNCLL------DK-------GKCSPDGQEL---KN 68
K + L+ RL Y NCLL + C + L +
Sbjct: 221 SNIKLRIHSIQAELR--RLLKSKPYENCLLVLLNVQNAKAWNAFNLSC----KILLTTRF 274
Query: 69 K-LPDAI--ATECKSCSEKQKEG-----SKKIF-KYLIDNKPEQWAELEKKFDP 113
K + D + AT + K + KYL D +P+ +P
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCRPQDLPREVLTTNP 327
>2kav_A Sodium channel protein type 2 subunit alpha; voltage-gated sodium
channel, alternative splicing, disease epilepsy,
glycoprotein, ION transport; NMR {Homo sapiens} PDB:
2kbi_A
Length = 129
Score = 29.0 bits (65), Expect = 0.32
Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 7/56 (12%)
Query: 73 AIATECKSCSEKQKEGSKKIFKYLIDNKPEQWAELEKKFDPNGTYKAKYQKELSDL 128
+A+E + S +E ++ + + + E W KFDP+ T ++ +LSD
Sbjct: 20 HMASE--NFSVATEESAEPLSEDDFEMFYEVWE----KFDPDATQFIEF-AKLSDF 68
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 0.59
Identities = 8/23 (34%), Positives = 11/23 (47%), Gaps = 6/23 (26%)
Query: 83 EKQK----EGSKKIFKYLIDNKP 101
EKQ + S K+ Y D+ P
Sbjct: 18 EKQALKKLQASLKL--YADDSAP 38
>1yqf_A Hypothetical protein LMAJ011689; structural genomics, PSI, protein
structure initiative, STRU genomics of pathogenic
protozoa consortium, SGPP; 2.30A {Leishmania major}
SCOP: d.25.1.1
Length = 203
Score = 28.0 bits (62), Expect = 0.77
Identities = 5/49 (10%), Positives = 16/49 (32%), Gaps = 1/49 (2%)
Query: 64 QELKNKLPDAIATECKSCSEKQKEGSKKIFKYLIDNKPEQWAELEKKFD 112
L + + E + ++ ++ ++ +L K F+
Sbjct: 25 AALADATRRELEEEMGRSDKPEQPTPPAGWQ-VVRKPGTCTFDLTKSFE 72
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase,
chromosomal rearrangement, ATP-binding, transferase,
polymorphism, cell division; 2.30A {Homo sapiens} PDB:
2w99_A 2w9f_A 2w9z_A
Length = 271
Score = 26.6 bits (59), Expect = 2.5
Identities = 6/38 (15%), Positives = 17/38 (44%), Gaps = 8/38 (21%)
Query: 89 SKKIFKYLIDNKPEQWAELEKKFDPNGTYKAKYQKELS 126
+ ++ + ++ + E+ P+ +Y QKE+
Sbjct: 24 NDRVLRAML--------KAEETCAPSVSYFKCVQKEVL 53
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation,
ATP-BIN cell division, disease mutation, kinase; 3.00A
{Homo sapiens}
Length = 306
Score = 26.7 bits (59), Expect = 2.5
Identities = 7/35 (20%), Positives = 16/35 (45%), Gaps = 8/35 (22%)
Query: 92 IFKYLIDNKPEQWAELEKKFDPNGTYKAKYQKELS 126
+ + L+ LE+++ P +Y Q+E+
Sbjct: 41 VLQSLL--------RLEERYVPRASYFQCVQREIK 67
>1zro_A Erythrocyte binding antigen region II; EBA-175, RII, DBL, invasion,
HOST, malaria, disease, glycophorin, glycan, sialic
acid; HET: SO4; 2.25A {Plasmodium falciparum} SCOP:
a.264.1.1 a.264.1.1 PDB: 1zrl_A*
Length = 602
Score = 26.9 bits (59), Expect = 2.7
Identities = 9/71 (12%), Positives = 25/71 (35%), Gaps = 5/71 (7%)
Query: 67 KNKLPDAIATECKSCSEKQKEGSK-----KIFKYLIDNKPEQWAELEKKFDPNGTYKAKY 121
++ ++CK+ + + + ++ I +W L K+++ K
Sbjct: 191 RDNRAKLPKSKCKNNALYEACEKECIDPCMKYRDWIIRSKFEWHTLSKEYETQKVPKENA 250
Query: 122 QKELSDLKAGK 132
+ L + K
Sbjct: 251 ENYLIKISENK 261
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin,
cell cycle, signaling protein; 2.90A {Human herpesvirus
8} SCOP: a.74.1.1 a.74.1.1
Length = 257
Score = 26.3 bits (58), Expect = 3.1
Identities = 7/35 (20%), Positives = 16/35 (45%), Gaps = 8/35 (22%)
Query: 92 IFKYLIDNKPEQWAELEKKFDPNGTYKAKYQKELS 126
IF ++ E+E +F + + +Q+ L+
Sbjct: 21 IFYNIL--------EIEPRFLTSDSVFGTFQQSLT 47
>2vac_A Twinfilin-2; transferase, actin binding, phosphorylation,
cofilin-like, cytoskeleton, actin-binding, protein
tyrosine kinase-9; 1.70A {Homo sapiens}
Length = 134
Score = 25.7 bits (56), Expect = 4.3
Identities = 12/56 (21%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 73 AIATECKSCSEKQKEGSKKIFKYLIDNKPEQWAELEKKFDPNGTYKAKYQKELSDL 128
E K K + GS ++ K +I+++ L +P G + Y + + L
Sbjct: 5 HATEELKEFFAKARAGSVRLIKVVIEDEQLV---LGASQEPVGRWDQDYDRAVLPL 57
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.9 bits (56), Expect = 4.9
Identities = 6/47 (12%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 82 SEKQKEGSKKIFKYLIDNKPEQWAE-LEKKFDPNGTYKAKYQKELSD 127
S+ ++ ++ K ++ ++ +E +EK N + ++
Sbjct: 105 SKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDA 151
>3ky9_A Proto-oncogene VAV; calponin homology domain, DBL homology domain,
pleckst homology domain, C1 domain, guanine-nucleotide
releasing FA metal-binding; 2.73A {Homo sapiens} PDB:
2d86_A
Length = 587
Score = 25.8 bits (56), Expect = 5.9
Identities = 17/120 (14%), Positives = 33/120 (27%), Gaps = 13/120 (10%)
Query: 16 QLVAGKPAGEKYTTKY----DNVDLDQILKNDRLFNNYYNCLLDKGKCSPDG-------Q 64
L+ K G+ Y K + + DR + + L G +
Sbjct: 433 ALLICKRRGDSYDLKDFVNLHSFQVRDDSSGDRDNKKWSHMFLLIEDQGAQGYELFFKTR 492
Query: 65 ELKNKLPDAIATECKSCSEKQKEGSKKIFKYLIDNKPEQWAELEKKFDPNGTYKAKYQKE 124
ELK K + + + + F+ + + GT+ Y+
Sbjct: 493 ELKKKWMEQFEMAISNIYPENATANGHDFQMFSFEETTSCKACQMLL--RGTFYQGYRCH 550
>3mq4_A Mglur7, metabotropic glutamate receptor 7; glutamate receptors,
dimerization, glutamic acid BIN structural genomics,
structural genomics consortium; HET: Z99; 2.80A {Homo
sapiens} PDB: 2e4z_A*
Length = 481
Score = 25.6 bits (56), Expect = 6.1
Identities = 12/43 (27%), Positives = 19/43 (44%)
Query: 79 KSCSEKQKEGSKKIFKYLIDNKPEQWAELEKKFDPNGTYKAKY 121
C E ++ G KK+ KY+ + A F+ NG +Y
Sbjct: 403 GVCPEMEQAGGKKLLKYIRNVNFNGSAGTPVMFNKNGDAPGRY 445
>4dck_A Sodium channel protein type 5 subunit alpha; IQ-motif, EF-hand,
voltage-gated sodium channel regulation, CTD binds to
FGF13 and CAM. CAM binds to Ca2+.; 2.20A {Homo sapiens}
PDB: 2kbi_A
Length = 168
Score = 25.4 bits (55), Expect = 6.8
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 5/47 (10%)
Query: 82 SEKQKEGSKKIFKYLIDNKPEQWAELEKKFDPNGTYKAKYQKELSDL 128
S +E ++ + + D E W KFDP T +Y LSD
Sbjct: 4 SVATEESTEPLSEDDFDMFYEIWE----KFDPEATQFIEY-SVLSDF 45
>2wau_A VAR2CSA, erythrocyte membrane protein 1 (pfemp1); chondroitin
sulphate A, membrane protein DBL, malaria; 3.00A
{Plasmodium falciparum}
Length = 302
Score = 25.2 bits (55), Expect = 8.1
Identities = 12/55 (21%), Positives = 22/55 (40%), Gaps = 9/55 (16%)
Query: 67 KNKLPDAIATECKSCSEKQKEGSK---------KIFKYLIDNKPEQWAELEKKFD 112
+N+L + + T C S GS K + I K +++ L ++D
Sbjct: 191 RNELYENMVTACNSAKCNTSNGSVDKKECTEACKNYSNFILIKKKEYQSLNSQYD 245
>3gju_A Putative aminotransferase; pyridoxal phosphate, PLP-dependent
transferase-like fold, ST genomics, joint center for
structural genomics, JCSG; HET: MSE LLP PLP; 1.55A
{Mesorhizobium loti} PDB: 3fcr_A*
Length = 460
Score = 25.3 bits (56), Expect = 8.3
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 9 VGLFLAVQLVAGKPAGEKY 27
G+ AV+ VA K +
Sbjct: 381 DGMLAAVEFVADKDDRVFF 399
>1zps_A PRA-CH, phosphoribosyl-AMP cyclohydrolase; histidine biosynthesis;
1.70A {Methanothermobacterthermautotrophicus} SCOP:
b.168.1.1
Length = 138
Score = 24.6 bits (54), Expect = 9.2
Identities = 5/26 (19%), Positives = 12/26 (46%)
Query: 93 FKYLIDNKPEQWAELEKKFDPNGTYK 118
++ + ++ + + K FDP Y
Sbjct: 111 YRSIDGDELKVREDAVKVFDPEEIYG 136
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
0.314 0.134 0.394
Gapped
Lambda K H
0.267 0.0545 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,106,793
Number of extensions: 115917
Number of successful extensions: 316
Number of sequences better than 10.0: 1
Number of HSP's gapped: 312
Number of HSP's successfully gapped: 46
Length of query: 136
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 52
Effective length of database: 4,356,429
Effective search space: 226534308
Effective search space used: 226534308
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.2 bits)