RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17890
(118 letters)
>3iag_C Recombining binding protein suppressor of hairless; protein-DNA
complex, signaling, transcription, notch, activator,
alternative splicing; HET: XYL; 2.00A {Mus musculus}
PDB: 3brg_C* 3nbn_A 2f8x_C 3v79_C*
Length = 422
Score = 142 bits (360), Expect = 2e-42
Identities = 63/92 (68%), Positives = 77/92 (83%)
Query: 27 DQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQL 86
+RLTREAM YL++R D ++ILHAKVAQKSYGNEKRFFCPPPC+YL G GW+ ++EQ+
Sbjct: 2 PKRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCPPPCVYLMGSGWKKKKEQM 61
Query: 87 LREGESEQAAQLCAFIGIGNSDQDMQQLDLNN 118
R+G SEQ +Q CAFIGIGNSDQ+MQQL+L
Sbjct: 62 ERDGCSEQESQPCAFIGIGNSDQEMQQLNLEG 93
>3brd_A LIN-12 and GLP-1 phenotype protein 1, isoform A; protein-DNA
complex, signaling, transcription, notch; HET: DNA;
2.21A {Caenorhabditis elegans} SCOP: b.1.18.1 b.2.5.8
b.42.7.1 PDB: 2fo1_A 1ttu_A* 3brf_A*
Length = 477
Score = 124 bits (312), Expect = 4e-35
Identities = 49/118 (41%), Positives = 72/118 (61%), Gaps = 20/118 (16%)
Query: 21 LHYRNDDQRLTREAMERYL--RDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEG 78
L + Q LT + M +L +++ + VI I HAKVAQKSYGNEKRFFCPPPCIYL G+G
Sbjct: 3 LGSGDSVQSLTSDRMIDFLSNKEKYECVISIFHAKVAQKSYGNEKRFFCPPPCIYLIGQG 62
Query: 79 WRLRQEQLLREGES------------------EQAAQLCAFIGIGNSDQDMQQLDLNN 118
W+L+++++ + ++ +QA +L A+IGIG+ + QQLD +
Sbjct: 63 WKLKKDRVAQLYKTLKASAQKDAAIENDPIHEQQATELVAYIGIGSDTSERQQLDFST 120
>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA
repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A
{Geobacillus}
Length = 670
Score = 30.2 bits (69), Expect = 0.14
Identities = 9/79 (11%), Positives = 23/79 (29%), Gaps = 4/79 (5%)
Query: 10 KVHYEGWVPH-SLHYRNDDQRLTREAMERYLRDRSDMVIVILHA-KVAQKSYGNEKRFFC 67
+ ++ Y R+ + + + D + + A + QK+ R
Sbjct: 59 SLAFDTIYAEGQRRYVESLSAYARQFLGQMEKPDVDAIEGLSPAISIDQKTTSRNPRSTV 118
Query: 68 PPPCIYLYGEGWRLRQEQL 86
+ RL ++
Sbjct: 119 GTVT--EIYDYLRLLFARI 135
>1dz3_A Stage 0 sporulation protein A; response regulator, domain
swapping; 1.65A {Bacillus stearothermophilus} SCOP:
c.23.1.1 PDB: 1qmp_A*
Length = 130
Score = 27.9 bits (63), Expect = 0.56
Identities = 6/23 (26%), Positives = 12/23 (52%)
Query: 26 DDQRLTREAMERYLRDRSDMVIV 48
DD R ++ Y+ + DM ++
Sbjct: 9 DDNRELVSLLDEYISSQPDMEVI 31
>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 = 28.3 bits (62), Expect = 0.65
Identities = 10/77 (12%), Positives = 27/77 (35%), Gaps = 20/77 (25%)
Query: 1 MIVCDPSQNKVHYEGWVPHSLHYRNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYG 60
++ P ++ + S++ + A+ R + D ++ K++
Sbjct: 416 LVEKQPKESTISI-----PSIYLELKVKLENEYALHRSIVDHYNI----------PKTFD 460
Query: 61 NEKRFFCPPPCI--YLY 75
++ PP + Y Y
Sbjct: 461 SDD---LIPPYLDQYFY 474
>2x5f_A Aspartate_tyrosine_phenylalanine pyridoxal-5' phosphate-dependent
aminotransferase...; HET: PLP EPE; 1.80A {Staphylococcus
aureus}
Length = 430
Score = 28.1 bits (63), Expect = 0.71
Identities = 3/30 (10%), Positives = 13/30 (43%)
Query: 23 YRNDDQRLTREAMERYLRDRSDMVIVILHA 52
+ D T +++ L+ + ++++
Sbjct: 167 IFDKDGHYTTDSLVEALQSYNKDKVIMILN 196
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.4 bits (60), Expect = 1.1
Identities = 6/32 (18%), Positives = 12/32 (37%)
Query: 79 WRLRQEQLLREGESEQAAQLCAFIGIGNSDQD 110
WR Q + L+E ++ + D +
Sbjct: 90 WREEQRKRLQELDAASKVMEQEWREKAKKDLE 121
>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2,
protein structure initiative, NE SGX research center
for structural genomics; 2.04A {Staphylococcus aureus}
Length = 133
Score = 25.9 bits (58), Expect = 2.4
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 26 DDQRLTREAMERYLRDRSDMVIV 48
+DQ + R+AM + ++ D I+
Sbjct: 10 EDQNMLRQAMVQLIKLHGDFEIL 32
>2qsj_A DNA-binding response regulator, LUXR family; structural genomics,
PSI-2, protein structure initiative; 2.10A
{Silicibacter pomeroyi dss-3}
Length = 154
Score = 25.6 bits (57), Expect = 3.9
Identities = 6/23 (26%), Positives = 8/23 (34%)
Query: 26 DDQRLTREAMERYLRDRSDMVIV 48
DD L R + L + V
Sbjct: 10 DDHHLIRAGAKNLLEGAFSGMRV 32
>4aio_A Limit dextrinase; hydrolase, pullulanase, glycoside hydrolase
family 13; 1.90A {Hordeum vulgare} PDB: 2x4c_A* 2y4s_A*
2y5e_A* 2x4b_A
Length = 884
Score = 25.9 bits (57), Expect = 4.2
Identities = 14/35 (40%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 72 IYLYGEGWRLRQEQLLREGESEQAAQLCAF-IGIG 105
IYLYGEGW + + G +QL GIG
Sbjct: 504 IYLYGEGWDFAEVARNQRG--INGSQLNMSGTGIG 536
>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic
region; yeast protein, ATP binding protein; 2.25A
{Saccharomyces cerevisiae} SCOP: c.37.1.6
Length = 290
Score = 25.4 bits (54), Expect = 5.6
Identities = 13/42 (30%), Positives = 18/42 (42%), Gaps = 4/42 (9%)
Query: 63 KRFFCPPPCIYLYGEGWRLRQEQLLRE--GESEQAAQLCAFI 102
F +YG WRL+QE L G+ Q+ AF+
Sbjct: 206 GIVFTTDNINNVYG--WRLQQEHELISKVGKGMTDEQVHAFV 245
>2ya1_A Putative alkaline amylopullulanase; hydrolase, glycoside hydrolase;
HET: BGC GLC; 2.25A {Streptococcus pneumoniae}
Length = 1014
Score = 25.2 bits (55), Expect = 6.9
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 70 PCIYLYGEGWRL 81
P + + GEGWR
Sbjct: 671 PNLIMLGEGWRT 682
>2jjm_A Glycosyl transferase, group 1 family protein; anthrax, nucleotide,
carbohydrate; 3.10A {Bacillus anthracis} PDB: 3mbo_A*
Length = 394
Score = 25.0 bits (55), Expect = 8.0
Identities = 5/31 (16%), Positives = 12/31 (38%)
Query: 19 HSLHYRNDDQRLTREAMERYLRDRSDMVIVI 49
H + + R+ ++SD+V +
Sbjct: 133 HGTDITVLGSDPSLNNLIRFGIEQSDVVTAV 163
>3klo_A Transcriptional regulator VPST; REC domain, HTH domain,
DNA-binding, transcription regulation; HET: C2E TAR;
2.80A {Vibrio cholerae} PDB: 3kln_A*
Length = 225
Score = 24.5 bits (54), Expect = 8.8
Identities = 3/24 (12%), Positives = 9/24 (37%)
Query: 26 DDQRLTREAMERYLRDRSDMVIVI 49
D + ++ L + + + I
Sbjct: 14 SDVCMQSRLLKEALESKLPLALEI 37
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
0.322 0.138 0.432
Gapped
Lambda K H
0.267 0.0645 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,852,732
Number of extensions: 96923
Number of successful extensions: 310
Number of sequences better than 10.0: 1
Number of HSP's gapped: 308
Number of HSP's successfully gapped: 34
Length of query: 118
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 37
Effective length of database: 4,440,192
Effective search space: 164287104
Effective search space used: 164287104
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 (21.9 bits)
S2: 51 (23.6 bits)