RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6412
(181 letters)
>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 = 40.8 bits (95), Expect = 1e-04
Identities = 36/234 (15%), Positives = 62/234 (26%), Gaps = 97/234 (41%)
Query: 1 MASVWKRLQRVNKRAAKFQF-----------TASFHQLILESTSKW---TPSKLSIVWTR 46
W+ ++A F S ILE + + PS
Sbjct: 285 ETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPS-------- 336
Query: 47 RSRRVVTEPMLWEPTMTDPLRGVVVWAV-------PENKTISVTLFKDPRNHELEDKEWT 99
PML ++++ + V V P K + ++L +N
Sbjct: 337 --------PML---SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN--------- 376
Query: 100 FIIEDISSGGKRRPLATAVLNMNKY-ASVDSTQH-----QMNLEF--------------- 138
++ G + L L + K A Q + L+F
Sbjct: 377 LVV-----SGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHL 431
Query: 139 -KPCTKKIVSATLDLT----------LSC-VF-------LREGKATINRRITNQ 173
P + I DL + V+ LR +I+ RI +
Sbjct: 432 LVPASDLINK---DLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDC 482
Score = 39.3 bits (91), Expect = 4e-04
Identities = 16/84 (19%), Positives = 26/84 (30%), Gaps = 34/84 (40%)
Query: 13 KRAAKF--QF---TASFHQLILESTS------------KWTPSKLSI-VW-TR-----RS 48
+R KF +F + FH +L S + + I V+ T R
Sbjct: 411 ERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRV 470
Query: 49 ----------RRVVTEPMLWEPTM 62
++ P+ WE T
Sbjct: 471 LSGSISERIVDCIIRLPVKWETTT 494
Score = 28.1 bits (62), Expect = 1.9
Identities = 12/37 (32%), Positives = 16/37 (43%), Gaps = 4/37 (10%)
Query: 105 ISSGGKRRPL--ATAVLNMNKYASVDST--QHQMNLE 137
+ G R L T VLN K +D Q ++LE
Sbjct: 1853 YVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLE 1889
>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 = 30.2 bits (67), Expect = 0.36
Identities = 20/140 (14%), Positives = 41/140 (29%), Gaps = 42/140 (30%)
Query: 1 MASVWKRLQRVNKRAAKFQFTASFHQL-------------ILESTSKWTPSKLSIVWTRR 47
+ W + VN +S + L + ++ LS++W
Sbjct: 340 GLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDV 399
Query: 48 SRRVVTEPMLWEPTMTDPLRGVVVWAVPENKTISVTLFKDPRNHELEDKEWTFIIEDISS 107
+ + M+ + + L ++ + K P KE T I I
Sbjct: 400 IKS---DVMV----VVNKLH---------KYSL---VEKQP-------KESTISIPSIYL 433
Query: 108 GGKRRPLATAVLN---MNKY 124
K + L+ ++ Y
Sbjct: 434 ELKVKLENEYALHRSIVDHY 453
Score = 26.4 bits (57), Expect = 6.4
Identities = 25/150 (16%), Positives = 47/150 (31%), Gaps = 37/150 (24%)
Query: 37 PSKLSIVWTRRSRRVVTEPMLWEPTMTDPLRGVVVWAVPENKTISVTL-FKDPRNHELED 95
P +LSI+ + W D + V + I +L +P E
Sbjct: 327 PRRLSIIA----ESIRDGLATW-----DNWKHVNCDKL--TTIIESSLNVLEP--AEYRK 373
Query: 96 KEWTFII--EDISSGGKRRPLATAVL-----NMNKYASVDSTQ--HQMNL---EFKPCTK 143
+ + T +L ++ K + H+ +L + K T
Sbjct: 374 MFDRLSVFPPSA-------HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426
Query: 144 KIVSATLDLTLSCVFLREGKATINRRITNQ 173
I S L+L + E + ++R I +
Sbjct: 427 SIPSIYLELKVKL----ENEYALHRSIVDH 452
>1lgp_A Cell cycle checkpoint protein CHFR; FHA, tungstate, domain
swapping; 2.00A {Homo sapiens} SCOP: b.26.1.2 PDB:
1lgq_A
Length = 116
Score = 26.7 bits (59), Expect = 2.9
Identities = 10/41 (24%), Positives = 18/41 (43%), Gaps = 10/41 (24%)
Query: 72 WAVPENKTISVTLFKDPRNH---ELEDKEWTFIIEDISSGG 109
+ P NK +S +H +++K +ED S+ G
Sbjct: 36 LSFPSNKLVS-------GDHCRIVVDEKSGQVTLEDTSTSG 69
>1v4e_A Octoprenyl-diphosphate synthase; trans-type prenyltransferase,
thermophilic; 2.28A {Thermotoga maritima} SCOP:
a.128.1.1 PDB: 1v4j_A 1wkz_A 1vg2_A 1wl3_A 1wl0_A 1wl2_A
1v4h_A 1v4i_A 1v4k_A 2azl_A 1wl1_A 1vg4_A 1vg3_A 1vg6_A
1vg7_A
Length = 299
Score = 27.2 bits (61), Expect = 3.0
Identities = 16/86 (18%), Positives = 28/86 (32%), Gaps = 26/86 (30%)
Query: 105 ISSGGKR-RPLATAVLNMNKYASVDSTQHQMNL----EFKPCTKKIVSATL------DLT 153
+ GK R + K V+ + ++ E + A+L D
Sbjct: 36 LPLYGKMLRVR--LSILSFKNRGVEIGEDAISSLAALEL------VHLASLLHDDVIDGA 87
Query: 154 LSCVFLREGKATINRRITNQKRHSSV 179
R GK TIN ++ ++V
Sbjct: 88 R----FRRGKETINFMYGDK---AAV 106
>3n6y_A Immunoglobulin-like protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE PG4; 1.50A {Pseudomonas aeruginosa}
Length = 137
Score = 26.7 bits (58), Expect = 3.2
Identities = 9/53 (16%), Positives = 18/53 (33%)
Query: 51 VVTEPMLWEPTMTDPLRGVVVWAVPENKTISVTLFKDPRNHELEDKEWTFIIE 103
+ P + P + VV + V ++ HE+ EW ++
Sbjct: 71 LYLTPGVVTPDGQRHDKFEVVQKLVPGAPTDVMAYEFTEPHEVVKGEWRLMVF 123
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 26.6 bits (59), Expect = 5.3
Identities = 13/81 (16%), Positives = 20/81 (24%), Gaps = 23/81 (28%)
Query: 105 ISSGGKR-RPLAT-AVLNMNKYASVDSTQHQMNL----EFKPCTKKIVSATL------DL 152
I + GK RPL S+ + + E + +L D
Sbjct: 41 IETPGKLLRPLLLLTFTYSIDRRSIMDPRI-LEAAAIVEL------LHVVSLLQDDVMDQ 93
Query: 153 TLSCVFLREGKATINRRITNQ 173
R G T +
Sbjct: 94 HD----QRRGIKTPRAMYGDG 110
>3nqr_A Magnesium and cobalt efflux protein CORC; structural genomics,
PSI-2, protein structure initiative, MI center for
structural genomics; HET: AMP; 2.00A {Salmonella
typhimurium}
Length = 127
Score = 25.1 bits (56), Expect = 9.7
Identities = 8/20 (40%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 74 VPENKTISVTL--FKDPRNH 91
VPE+K + L F+ R H
Sbjct: 81 VPESKRVDRMLKEFRSQRYH 100
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
0.319 0.129 0.388
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,614,688
Number of extensions: 138217
Number of successful extensions: 187
Number of sequences better than 10.0: 1
Number of HSP's gapped: 185
Number of HSP's successfully gapped: 13
Length of query: 181
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 93
Effective length of database: 4,244,745
Effective search space: 394761285
Effective search space used: 394761285
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: 54 (24.6 bits)