RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15513
(77 letters)
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX,
paired domain, DNA-binding protein, gene regulation/DNA
complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP:
a.4.1.5
Length = 128
Score = 92.5 bits (229), Expect = 2e-26
Identities = 63/76 (82%), Positives = 71/76 (93%)
Query: 1 MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVERRIEEYK 60
MAA G+RPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPR+ATP++E RIEEYK
Sbjct: 29 MAADGIRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRIATPEIENRIEEYK 88
Query: 61 GENPAMFSWEIRDRLV 76
+P MFSWEIR++L+
Sbjct: 89 RSSPGMFSWEIREKLI 104
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple
frequency, 3D NMR, induced FIT, alternative splicing,
developmental protein; NMR {Homo sapiens}
Length = 159
Score = 89.5 bits (221), Expect = 6e-25
Identities = 58/76 (76%), Positives = 65/76 (85%)
Query: 1 MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVERRIEEYK 60
+A GVRPC ISRQLRVSHGCVSKIL RY ETGSIRPGVIGGSKP+VATP V +I +YK
Sbjct: 37 LAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIRPGVIGGSKPKVATPKVVEKIGDYK 96
Query: 61 GENPAMFSWEIRDRLV 76
+NP MF+WEIRDRL+
Sbjct: 97 RQNPTMFAWEIRDRLL 112
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription
factor, transcription/DNA complex; 2.25A {Homo sapiens}
SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Length = 149
Score = 89.1 bits (220), Expect = 1e-24
Identities = 58/76 (76%), Positives = 65/76 (85%)
Query: 1 MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVERRIEEYK 60
+A GVRPC ISRQLRVSHGCVSKIL RY ETGSI+PGVIGGSKP+VATP V +I EYK
Sbjct: 44 LAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKVATPKVVEKIAEYK 103
Query: 61 GENPAMFSWEIRDRLV 76
+NP MF+WEIRDRL+
Sbjct: 104 RQNPTMFAWEIRDRLL 119
>1ic8_A Hepatocyte nuclear factor 1-alpha; transcription regulation,
DNA-binding, POU domain, diabetes, disease mutation,
MODY3, transcription/DNA comple; 2.60A {Homo sapiens}
SCOP: a.4.1.1 a.35.1.1
Length = 194
Score = 41.4 bits (96), Expect = 3e-06
Identities = 4/27 (14%), Positives = 10/27 (37%)
Query: 50 PDVERRIEEYKGENPAMFSWEIRDRLV 76
+ +E E+P + ++ L
Sbjct: 14 AHQKAVVETLLQEDPWRVAKMVKSYLQ 40
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU,
homeo, protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 36.5 bits (83), Expect = 2e-04
Identities = 3/26 (11%), Positives = 10/26 (38%)
Query: 50 PDVERRIEEYKGENPAMFSWEIRDRL 75
+ ++ E+P + I+ +
Sbjct: 15 AEQRAEVDRMLSEDPWRAAKMIKGYM 40
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon
DNA, bipartite DNA-binding, HTH- motif, DNA binding
protein/DNA complex; 2.69A {Caenorhabditis elegans}
SCOP: a.4.1.2 a.4.1.2
Length = 141
Score = 30.4 bits (68), Expect = 0.030
Identities = 14/75 (18%), Positives = 27/75 (36%), Gaps = 5/75 (6%)
Query: 1 MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVERRIEEYK 60
M V +SR++ S C+ L G+ + + + + ER +
Sbjct: 18 MKLLNVSLHEMSRKISRSRHCIRVYLKDPVSYGTSKR----APRRKALSVRDERNVIR-A 72
Query: 61 GENPAMFSWEIRDRL 75
N + +IR+ L
Sbjct: 73 ASNSCKTARDIRNEL 87
>2nq5_A 5-methyltetrahydropteroyltriglutamate-- homocysteine
methyltransferase; structural genomics, target 6426D,
PSI; 1.90A {Streptococcus mutans} PDB: 3l7s_A 3l7r_A
3t0c_A
Length = 755
Score = 26.7 bits (59), Expect = 0.77
Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 10 VISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPD-VERRIEE 58
VIS + SHG + + I GV PRV T + V IE
Sbjct: 652 VISIETSRSHGDIIESFETAVYPLGIGLGVYDIHSPRVPTKEEVVANIER 701
>3mp6_A MBP, SGF29, maltose-binding periplasmic protein, linker, SAGA
associated factor 29; histone, tudor domain, histone
binding protei; HET: MLY MAL; 1.48A {Escherichia coli}
PDB: 3mp1_A* 3mp8_A*
Length = 522
Score = 26.4 bits (58), Expect = 1.0
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 6/55 (10%)
Query: 23 SKILNRYQETGSIRPGVIGGSKPRVATPDVERRIEEYKGENPAMFSWEIRDRLVI 77
+K+L RY ET + P ++ G+K D R+ + GE E+ RLV+
Sbjct: 462 TKVLARYPETTTFYPAIVIGTK-----RDGTCRL-RFDGEEEVDKETEVTRRLVL 510
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 25.0 bits (54), Expect = 2.7
Identities = 8/20 (40%), Positives = 9/20 (45%), Gaps = 6/20 (30%)
Query: 1 MAAAGVRPCVISRQLRVSHG 20
M A RP L +SHG
Sbjct: 1 MDAYSTRP------LTLSHG 14
>4emt_A Transmembrane protein 173; alpha/beta fold, innate immune sensor,
C-DI-GMP, C-DI-AMP, M protein; HET: C2E; 1.50A {Homo
sapiens} PDB: 4emu_A
Length = 188
Score = 24.9 bits (54), Expect = 2.9
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 46 RVATPDVERRIEEYKGENPAMFSWEIRDRLVI 77
R+ P+++ RI Y + + RL I
Sbjct: 16 RLILPELQARIRTYNQHYNNLLRGAVSQRLYI 47
>3o1n_A 3-dehydroquinate dehydratase; structural genomics, center for
structural genomics of infec diseases, csgid, TIM
barrel, lyase; 1.03A {Salmonella enterica subsp} PDB:
3s42_A 3l2i_A* 3lb0_A 3nnt_A* 3oex_A 3m7w_A 1gqn_A
1l9w_A* 1qfe_A*
Length = 276
Score = 25.1 bits (54), Expect = 3.0
Identities = 6/32 (18%), Positives = 16/32 (50%)
Query: 27 NRYQETGSIRPGVIGGSKPRVATPDVERRIEE 58
+ +T ++R V+G P++ + + I +
Sbjct: 22 SNAMKTVTVRDLVVGEGAPKIIVSLMGKTITD 53
>4ef4_A Transmembrane protein 173; sting/MITA/ERIS/MPYS/TMEM173, innate
immune system, type I interferon, dimerization,
C-DI-GMP; HET: C2E; 2.15A {Homo sapiens} PDB: 4ef5_A
Length = 265
Score = 24.7 bits (53), Expect = 3.3
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 46 RVATPDVERRIEEYKGENPAMFSWEIRDRLVI 77
R+ P+++ RI Y + + RL I
Sbjct: 55 RLILPELQARIRTYNQHYNNLLRGAVSQRLYI 86
>2w48_A Sorbitol operon regulator; SORC, activator, repressor,
DNA-binding, transcription, transcription regulator,
transcription regulation; 3.20A {Klebsiella pneumoniae}
Length = 315
Score = 24.4 bits (53), Expect = 4.3
Identities = 9/48 (18%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 11 ISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVERRIEE 58
I+R+L + +S++L R +E G + + +E+++++
Sbjct: 27 IARELGIYRTTISRLLKRGREQGIVTIAINY---DYNENLWLEQQLKQ 71
>2ov7_A 50S ribosomal protein L1; 2.30A {Thermus thermophilus} PDB:
2oum_A 2vpl_A
Length = 137
Score = 23.4 bits (51), Expect = 7.3
Identities = 5/20 (25%), Positives = 8/20 (40%)
Query: 42 GSKPRVATPDVERRIEEYKG 61
G PR + +V + G
Sbjct: 48 GIDPRRSDQNVRGTVSLPHG 67
>3nrg_A TETR family transcriptional regulator; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI-2; 2.56A {Chloroflexus aurantiacus}
Length = 217
Score = 23.6 bits (51), Expect = 8.8
Identities = 4/30 (13%), Positives = 11/30 (36%)
Query: 10 VISRQLRVSHGCVSKILNRYQETGSIRPGV 39
+ S +++ + GS+ P +
Sbjct: 126 TMQVIRHGSFAYFKQLVEQGIADGSLVPDL 155
>1t7l_A 5-methyltetrahydropteroyltriglutamate-- homocysteine
methyltransferase; TIM barrel, methyltetrahydrofolate,
zinc; 2.00A {Thermotoga maritima} PDB: 3bq5_A 3bq6_A
1xdj_A 1xr2_A* 1xpg_A*
Length = 766
Score = 23.6 bits (51), Expect = 9.4
Identities = 6/25 (24%), Positives = 10/25 (40%), Gaps = 1/25 (4%)
Query: 35 IRPGVIGGSKPRVATPD-VERRIEE 58
I GV P V + + + +E
Sbjct: 696 IGVGVWDIHSPAVPSINEMREIVER 720
>1i1q_A Anthranilate synthase component I; tryptophan biosynthesis, lyase;
HET: TRP; 1.90A {Salmonella typhimurium} SCOP: d.161.1.1
PDB: 1i7q_A 1i7s_A*
Length = 520
Score = 23.4 bits (51), Expect = 9.6
Identities = 8/37 (21%), Positives = 12/37 (32%), Gaps = 5/37 (13%)
Query: 25 ILNRYQETG---SIRPGVIGGSKPRVATPDVERRIEE 58
+Y I P I G++PR D +
Sbjct: 310 SSLKYDAASRQIEIYP--IAGTRPRGRRADGTLDRDL 344
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
0.321 0.137 0.415
Gapped
Lambda K H
0.267 0.0565 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,262,618
Number of extensions: 62993
Number of successful extensions: 177
Number of sequences better than 10.0: 1
Number of HSP's gapped: 176
Number of HSP's successfully gapped: 21
Length of query: 77
Length of database: 6,701,793
Length adjustment: 46
Effective length of query: 31
Effective length of database: 5,417,427
Effective search space: 167940237
Effective search space used: 167940237
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (23.8 bits)