RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1958
(202 letters)
>3rbn_A DNA mismatch repair protein MLH1; structural genomics, structural
genomics consortium, SGC, DN mismatch repair,
endonucleases, protein binding; HET: DNA; 2.16A {Homo
sapiens}
Length = 284
Score = 109 bits (274), Expect = 1e-29
Identities = 41/87 (47%), Positives = 55/87 (63%)
Query: 112 TSNKKYKRREIKLSSVRDLRGEIEKQKSSQLCEVFRKLSFVGCATPCMCLIQHETKLYIV 171
T+ +RR I L+SV L+ EI +Q L E+ SFVGC P L QH+TKLY++
Sbjct: 24 TAACTPRRRIINLTSVLSLQEEINEQGHEVLREMLHNHSFVGCVNPQWALAQHQTKLYLL 83
Query: 172 NVTYVLEELFYQLMLHDFGNFGVFRFE 198
N T + EELFYQ++++DF NFGV R
Sbjct: 84 NTTKLSEELFYQILIYDFANFGVLRLS 110
>3na3_A DNA mismatch repair protein MLH1; MUTL protein homolog 1, DNA damag
repair, structural genomics consortium, SGC, protein
bindin; HET: DNA ATP; 2.50A {Homo sapiens}
Length = 348
Score = 75.6 bits (187), Expect = 1e-16
Identities = 31/43 (72%), Positives = 39/43 (90%)
Query: 6 VNVHPTKHEVHFLHEDTIIERVQSMLEKTLLGSNTSRVFYTQT 48
VNVHPTKHEVHFLHE++I+ERVQ +E LLGSN+SR+++TQT
Sbjct: 306 VNVHPTKHEVHFLHEESILERVQQHIESKLLGSNSSRMYFTQT 348
>3h4l_A DNA mismatch repair protein PMS1; ATP binding, DNA repair, DNA
damage, nucleus, phosphop DNA binding protein, protein
binding; HET: DNA ANP; 2.50A {Saccharomyces cerevisiae}
Length = 367
Score = 54.1 bits (131), Expect = 4e-09
Identities = 8/36 (22%), Positives = 15/36 (41%)
Query: 6 VNVHPTKHEVHFLHEDTIIERVQSMLEKTLLGSNTS 41
VNV P K + +E +I+ ++ L +
Sbjct: 329 VNVTPDKRVILLHNERAVIDIFKTTLSDYYNRQELA 364
>1h7s_A PMS1 protein homolog 2; DNA repair, GHL ATPase, mismatch repair,
HNPCC; 1.95A {Homo sapiens} SCOP: d.14.1.3 d.122.1.2
PDB: 1h7u_A* 1ea6_A*
Length = 365
Score = 52.2 bits (126), Expect = 2e-08
Identities = 6/30 (20%), Positives = 14/30 (46%)
Query: 6 VNVHPTKHEVHFLHEDTIIERVQSMLEKTL 35
+NV P K ++ E ++ +++ L
Sbjct: 334 INVTPDKRQILLQEEKLLLAVLKTSLIGMF 363
>1b63_A MUTL; DNA mismatch repair, ATPase; HET: ANP; 1.90A {Escherichia
coli K12} SCOP: d.14.1.3 d.122.1.2 PDB: 1nhh_A* 1nhi_A*
1bkn_A 1nhj_A* 1b62_A*
Length = 333
Score = 40.5 bits (96), Expect = 1e-04
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 6 VNVHPTKHEVHFLHEDTIIERVQSMLEKTL 35
VNVHP KHEV F + + + + L
Sbjct: 303 VNVHPAKHEVRFHQSRLVHDFIYQGVLSVL 332
>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 = 30.8 bits (69), Expect = 0.33
Identities = 25/170 (14%), Positives = 42/170 (24%), Gaps = 81/170 (47%)
Query: 37 GSNTSRVFYTQTKLPSFSTE--PPTTKAKPSSTSSNTNNTTTTTTPAYKLVRTDASEQKL 94
G + SR+ +++ K FS P +P
Sbjct: 401 GLDQSRIPFSERK-LKFSNRFLP-------------------VASP-------------- 426
Query: 95 DRFLSKYIADQRATSKQTSNKKYKRREIKLSSVRDLRGEIEKQKSSQL-CEVF------- 146
F S + A+ +DL + + V+
Sbjct: 427 --FHSHLLVP--ASDLI---------------NKDLVKNNVSFNAKDIQIPVYDTFDGSD 467
Query: 147 -RKLSFVGCATP--CMCLIQ---HETKLYIVNVTYVLEELFYQLMLHDFG 190
R LS G + C+I+ T++L DFG
Sbjct: 468 LRVLS--GSISERIVDCIIRLPVKWETTTQFKATHIL----------DFG 505
Score = 30.4 bits (68), Expect = 0.45
Identities = 18/101 (17%), Positives = 34/101 (33%), Gaps = 15/101 (14%)
Query: 6 VNVHPTKHEVHFLHED--TIIERVQSMLEKTLLGSN--TSRVFYTQT-KLPSFSTEPPTT 60
V +P +HF E I E +M+ +T++ T ++F S++
Sbjct: 1665 VINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEK- 1723
Query: 61 KAKPSSTSSNTNNT----TTTTTPAYKLVRTDASEQKLDRF 97
S T T T A++ +++ F
Sbjct: 1724 -----GLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATF 1759
>1z7s_1 Human coxsackievirus A21; picornavirus, capsid protein, viral
protein, icosahedral virus; HET: MYR G; 3.20A {Human
coxsackievirus A21} PDB: 1z7z_1*
Length = 298
Score = 29.0 bits (64), Expect = 1.1
Identities = 14/75 (18%), Positives = 24/75 (32%), Gaps = 1/75 (1%)
Query: 27 VQSMLEKTLLGSNTSRVFYTQTKLPSFSTEPPTTKAKPSSTSSNTNNTTTTTTPAYKLVR 86
+ + ++ L S T+ S E P A + S + T +
Sbjct: 6 IDTAIKNALRVSQPPSTQSTEATSGVNSQEVPALTAVETGASGQAIPSDVVETRHVVNYK 65
Query: 87 TDASEQKLDRFLSKY 101
T SE L+ F +
Sbjct: 66 T-RSESCLESFFGRA 79
>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 = 3.0
Identities = 7/46 (15%), Positives = 18/46 (39%)
Query: 92 QKLDRFLSKYIADQRATSKQTSNKKYKRREIKLSSVRDLRGEIEKQ 137
Q+LD + R +K+ + +R+ ++ + +K
Sbjct: 99 QELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKA 144
>1gkm_A Histidase, HAL, histidine ammonia-lyase; histidine degradation;
HET: MDO; 1.0A {Pseudomonas putida} SCOP: a.127.1.2 PDB:
1b8f_A* 1gkj_A* 1eb4_A* 1gk3_A 1gk2_A
Length = 507
Score = 27.2 bits (61), Expect = 4.9
Identities = 7/31 (22%), Positives = 14/31 (45%)
Query: 73 NTTTTTTPAYKLVRTDASEQKLDRFLSKYIA 103
T+ A + +R++ + DRF + I
Sbjct: 454 KTSAKLEKARQALRSEVAHYDRDRFFAPDIE 484
>3cf4_A Acetyl-COA decarboxylase/synthase alpha subunit; methanomicrobia,
iron-nikel-sulfur, 4Fe-NI-4S, oxidoreductas; 2.00A
{Methanosarcina barkeri}
Length = 807
Score = 27.1 bits (59), Expect = 5.1
Identities = 8/59 (13%), Positives = 20/59 (33%)
Query: 102 IADQRATSKQTSNKKYKRREIKLSSVRDLRGEIEKQKSSQLCEVFRKLSFVGCATPCMC 160
I + +K+ + +K K ++ + +L + + + C C C
Sbjct: 21 INNIVGAAKEAAEEKEKELVNAGPTLFPGLEGYRDDWNFKLLDRYEPVITPMCDQCCYC 79
>3b8k_A PDCE2;, dihydrolipoyllysine-residue acetyltransferase; central
beta-sheet surrounded by five alpha-helices; 8.80A {Homo
sapiens}
Length = 239
Score = 26.1 bits (58), Expect = 8.4
Identities = 13/52 (25%), Positives = 22/52 (42%), Gaps = 5/52 (9%)
Query: 100 KYIADQRATSKQTSNKKYKRREIKLSSVRDLRGEIEKQKSSQLCEVFRKLSF 151
+ IA + SKQT Y ++ + V +R E+ K + K+S
Sbjct: 22 RVIAQRLMQSKQTIPHYYLSIDVNMGEVLLVRKELNKILEGRS-----KISV 68
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
0.317 0.130 0.370
Gapped
Lambda K H
0.267 0.0549 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,682,611
Number of extensions: 131582
Number of successful extensions: 271
Number of sequences better than 10.0: 1
Number of HSP's gapped: 271
Number of HSP's successfully gapped: 18
Length of query: 202
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 113
Effective length of database: 4,216,824
Effective search space: 476501112
Effective search space used: 476501112
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 (21.7 bits)
S2: 55 (25.4 bits)