RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15314
(232 letters)
>3akj_A CTKA; protein kinase, transferase; 2.00A {Helicobacter pylori} PDB:
3akk_A* 3akl_A*
Length = 325
Score = 34.1 bits (77), Expect = 0.032
Identities = 13/77 (16%), Positives = 21/77 (27%), Gaps = 27/77 (35%)
Query: 105 QFERLVVLDYIIRNTDRGNDNWLIKYTQPDIQSNAPSGIERENEMQDATDWNVVDKADIR 164
F + V D ++ N DR N NW + + +
Sbjct: 140 FFWDMFVADTLLGNFDRHNGNWGFLRAS--------------------------NSKEYQ 173
Query: 165 LA-AIDNGLAFPFKHPD 180
+A D G + D
Sbjct: 174 IAPIFDCGSCLYPQADD 190
>1syy_A Ribonucleoside-diphosphate reductase beta chain; DIIRON, oxygen
activation, iron coupled radical, immune EVAS
replication, oxidoreductase; 1.70A {Chlamydia
trachomatis} SCOP: a.25.1.2 PDB: 4d8g_A 4d8f_A 2ani_A
Length = 346
Score = 30.0 bits (68), Expect = 0.70
Identities = 13/73 (17%), Positives = 26/73 (35%), Gaps = 3/73 (4%)
Query: 143 IERENEMQDATDWNVVDKADIRLAAIDNGLAFPFKHPDSWRAYPYHWA--WLPQAKVPFS 200
++ + N+ K + +D P K+ +W Y A WLP ++P
Sbjct: 1 MQADILDGKQKRVNLNSKRLVNCNQVDVNQLVPIKYKWAWEHYLNGCANNWLPT-EIPMG 59
Query: 201 IETRDLVQPLLAD 213
+ L++
Sbjct: 60 KDIELWKSDRLSE 72
>4a58_A Ribonucleoside-diphosphate reductase small chain; oxidoreductase,
epstein-BARR virus, R2 subunit; 1.68A {Human herpesvirus
4} PDB: 4a5c_A 4a5d_A 4a5e_A 4a5f_A 4a5h_A 4a5i_A 4a5j_A
Length = 324
Score = 28.4 bits (64), Expect = 2.2
Identities = 2/29 (6%), Positives = 5/29 (17%), Gaps = 3/29 (10%)
Query: 174 FPFKHPDSWRAYPYHWA--WLPQAKVPFS 200
+ H W + +
Sbjct: 28 YVRDHEGFACLTVETHRNRWFAA-HIVLT 55
>3v47_C Flagellin; innate immunity, leucine-rich repeat, innate immune
receptor system; HET: NAG; 2.47A {Salmonella enterica
subsp}
Length = 425
Score = 28.0 bits (61), Expect = 2.9
Identities = 8/23 (34%), Positives = 9/23 (39%), Gaps = 3/23 (13%)
Query: 1 MRGQILNLNQALK---DGKSPVQ 20
I L QA + DG S Q
Sbjct: 13 FTSNIKGLTQASRNANDGISIAQ 35
>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 = 27.7 bits (61), Expect = 3.7
Identities = 13/62 (20%), Positives = 20/62 (32%), Gaps = 25/62 (40%)
Query: 194 QAKVPFS-----IETRDLV------QPLLADMN--FVQDLCNLT----------PVQIFC 230
Q+++PFS R L LL + +DL PV +
Sbjct: 404 QSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPV--YD 461
Query: 231 TY 232
T+
Sbjct: 462 TF 463
Score = 27.7 bits (61), Expect = 4.0
Identities = 40/272 (14%), Positives = 75/272 (27%), Gaps = 110/272 (40%)
Query: 28 GSFQ---MFVDGYKDA----EFWLR--RFELEPL-----------PAGLALSFQLQF-ER 66
GS Q M +D YK + + W R + P L + F + +R
Sbjct: 1625 GS-QEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR 1683
Query: 67 LVVGSFQMFVDGYKDAEFWLRRFDLEPLPAGLALSFQIQFERLVVLDYIIRNTDRGNDNW 126
+ M + D + + E + +F+ + L T
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLL-------SAT------- 1729
Query: 127 LIKYTQP-----------DIQSN---------------------APSGI----------- 143
++TQP D++S + + +
Sbjct: 1730 --QFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVF 1787
Query: 144 ERENEMQDATDWNVVDKADIRLAAIDNGLAFPFKHPDSWRAYPYHWAWLPQAKVPFSIE- 202
R MQ A + + +++ + AI+ G A Q + + +E
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVA---------------ASFSQEALQYVVER 1832
Query: 203 ----TRDLVQPLLADMNFVQDLCNLTPVQIFC 230
T LV+ N+ N+ Q
Sbjct: 1833 VGKRTGWLVEI--V--NY-----NVENQQYVA 1855
>3olj_A Ribonucleoside-diphosphate reductase subunit M2; metal-binding,
HRRM2, oxidoreductase; 2.10A {Homo sapiens}
Length = 286
Score = 26.7 bits (59), Expect = 5.9
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 174 FPFKHPDSWRAYPYHWA--WLPQAKVPFSIETRDL 206
FP ++ D W+ Y A W + +V S + +
Sbjct: 19 FPIEYHDIWQMYKKAEASFWTAE-EVDLSKDIQHW 52
>1jk0_A RNR Y2, ribonucleoside-diphosphate reductase small chain 1;
ribonucleotide reductase, oxidoreductase; 2.80A
{Saccharomyces cerevisiae} SCOP: a.25.1.2 PDB: 1smq_A
Length = 419
Score = 26.8 bits (59), Expect = 7.1
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 174 FPFKHPDSWRAYPYHWA--WLPQAKVPFSIETRDLVQPL 210
FP K+ + W+AY A W + ++ S + D +
Sbjct: 109 FPIKYHEIWQAYKRAEASFWTAE-EIDLSKDIHDWNNRM 146
>2p1i_A Ribonucleotide reductase, small chain; F222 twinning, plasmodb
PY03671, S genomics consortium, SGC, oxidoreductase;
2.70A {Plasmodium yoelii yoelii}
Length = 349
Score = 26.7 bits (59), Expect = 7.7
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 3/35 (8%)
Query: 174 FPFKHPDSWRAYPYHWA--WLPQAKVPFSIETRDL 206
P +P+ W Y A W + ++ S + +D
Sbjct: 44 HPIMYPEVWNFYKKAEASFWTAE-EIDLSSDLKDF 77
>1h0o_A Ribonucleoside-diphosphate reductase; oxidoreductase,
ribonucleotide reductase, dinuclear metal-cluster; 2.2A
{Mus musculus} SCOP: a.25.1.2 PDB: 1h0n_A 1w68_A 1w69_A
1xsm_A 2uw2_A 3hf1_A 2vux_A
Length = 390
Score = 26.4 bits (58), Expect = 8.1
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 174 FPFKHPDSWRAYPYHWA--WLPQAKVPFSIETRDL 206
FP ++ D W+ Y A W + +V S + +
Sbjct: 84 FPIEYHDIWQMYKKAEASFWTAE-EVDLSKDIQHW 117
>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 = 26.7 bits (58), Expect = 9.0
Identities = 12/77 (15%), Positives = 22/77 (28%), Gaps = 19/77 (24%)
Query: 84 FWLRRFDLEPLPAGLALSFQIQFERLVVLDYIIRNTDRGNDNWLIKYTQPDIQSNAPSGI 143
FW L + F E ++ ++Y +L + + PS +
Sbjct: 68 FWT----LLSKQEEMVQKF---VEEVLRINY----------KFL--MSPIKTEQRQPSMM 108
Query: 144 ERENEMQDATDWNVVDK 160
R Q +N
Sbjct: 109 TRMYIEQRDRLYNDNQV 125
>1jk0_B RNR Y4, ribonucleoside-diphosphate reductase small chain 2;
ribonucleotide reductase, oxidoreductase; 2.80A
{Saccharomyces cerevisiae} SCOP: a.25.1.2 PDB: 1sms_A
Length = 345
Score = 26.3 bits (58), Expect = 9.6
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 174 FPFKHPDSWRAYPYHWA--WLPQAKVPFSIETRDL 206
FP K+ + W AY A W + ++ + +T D
Sbjct: 38 FPIKYHEIWAAYKKVEASFWTAE-EIELAKDTEDF 71
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
0.324 0.140 0.446
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,745,168
Number of extensions: 225513
Number of successful extensions: 554
Number of sequences better than 10.0: 1
Number of HSP's gapped: 553
Number of HSP's successfully gapped: 22
Length of query: 232
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 142
Effective length of database: 4,188,903
Effective search space: 594824226
Effective search space used: 594824226
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 56 (25.3 bits)