RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15938
(209 letters)
>2d4r_A Hypothetical protein TTHA0849; start domain, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
unknown function; 2.40A {Thermus thermophilus} SCOP:
d.129.3.6
Length = 147
Score = 83.7 bits (207), Expect = 7e-21
Identities = 12/106 (11%), Positives = 29/106 (27%), Gaps = 6/106 (5%)
Query: 50 RKLVGYSREQMYEVVSDVENYKNFVPFCKKSVVTYKSEKKIIGSLTIGFPPIVESYTSNV 109
+ + E++Y + D+E K ++ + V + + +
Sbjct: 7 ERYIPAPPERVYRLAKDLEGLKPYLKEVESLEVVAREGARTRSRWVAVAMGKKVRWLEEE 66
Query: 110 TLDRPK-LIKANCFDGKLFDHLVTMWRFHRGLEDVPQSCVIDFYME 154
D + +G FD W F + + +
Sbjct: 67 EWDDENLRNRFFSPEG-DFDRYEGTWVF----LPEGEGTRVVLTLT 107
>1t17_A Conserved hypothetical protein;
beta-alpha-beta-BETA-beta-BETA-beta-BETA-helix,
structural G protein structure initiative, PSI, NESG;
NMR {Caulobacter crescentus} SCOP: d.129.3.6
Length = 148
Score = 83.6 bits (206), Expect = 7e-21
Identities = 29/148 (19%), Positives = 53/148 (35%), Gaps = 15/148 (10%)
Query: 50 RKLVGYSREQMYEVVSDVENYKNFVPFCKKSVVTYKSEKK----IIGSLTIGFPPIVESY 105
K++ Y+ +Q++E+V DV+ Y FVP+ + +GF + E +
Sbjct: 7 TKVLPYTPDQLFELVGDVDAYPKFVPWITGMRTWNGRVDGAVSTVDAEAQVGFSFLREKF 66
Query: 106 TSNVTLDRPKLIKANCFDGKLFDHLVTMWRFHRGLEDVPQSCVIDFYME----KAFFAEA 161
+ V D+ F L WRF + ++F +E A
Sbjct: 67 ATRVRRDKDARSIDVSLLYGPFKRLNNGWRFM----PEGDATRVEFVIEFAFKSALLDAM 122
Query: 162 EMRYGNRVLLTSMQMEKAFFAEAEMRYG 189
+R ++ F A A+ +G
Sbjct: 123 LAANVDRAA---GKLIACFEARAQQLHG 147
>3tfz_A Cyclase; helix-GRIP, BET V1-like superfamily, biosynthetic protein;
HET: CXS; 2.39A {Streptomyces SP}
Length = 172
Score = 71.5 bits (175), Expect = 6e-16
Identities = 21/143 (14%), Positives = 50/143 (34%), Gaps = 10/143 (6%)
Query: 52 LVGYSREQMYEVVSDVENYKNFVPFCKKSVVTYKSEKKIIGSLTIGFPPIVESYTSNVTL 111
V + ++EV++DV Y + P +K + + + + L + + ++TS L
Sbjct: 12 TVAAPADLVWEVLADVLGYADIFPPTEKVEILEEGQGYQVVRLHVDVAGEINTWTSRRDL 71
Query: 112 DRPKLI--KANCFDGKLFDHLVTMWRFHRGLEDVPQSCVIDFYMEKAFFAEA--EMRYGN 167
D + + + H+ WR + + + A + G
Sbjct: 72 DPARRVIAYRQLETAPIVGHMSGEWRAF---TLDAERTQLVLTHDFVTRAAGDDGLVAGK 128
Query: 168 RVLLTSMQMEKAFF---AEAEMR 187
+ +M +A + A++
Sbjct: 129 LTPDEAREMLEAVVERNSVADLN 151
>3tl1_A WHIE ORF VI, polyketide cyclase; helix-GRIP fold, polyketide C9-C14
aromatase/cyclase, linear beta-ketone intermediate; HET:
JRO; 1.80A {Streptomyces coelicolor} PDB: 3tvr_A 2kf2_A
Length = 159
Score = 61.8 bits (150), Expect = 2e-12
Identities = 15/106 (14%), Positives = 39/106 (36%), Gaps = 7/106 (6%)
Query: 52 LVGYSREQMYEVVSDVENYKNFVPFCKKSVVTYKSEKKIIGSLTI--GFPPIVESYTSNV 109
+ E ++ + +D+E + V + + K+ LT+ V S+ S
Sbjct: 10 TIAAPMELVWNMTNDIEKWPGLFSEYASVEVLGRDDDKVTFRLTMHPDADGKVWSWVSER 69
Query: 110 TLDRPKL-IKANCFDGKLFDHLVTMWRFHRGLEDVPQSCVIDFYME 154
D ++A + F ++ +W + + + V+ + +
Sbjct: 70 VADPVTRTVRAQRVETGPFQYMNIVWEY----AETAEGTVMRWTQD 111
>3tvq_A Multifunctional cyclase-dehydratase-3-O-methyl TR TCMN;
tetracenomycin, aromatase, taxifolin, dihyroquercet
helix-GRIP fold; HET: DQH; 1.67A {Streptomyces
glaucescens} PDB: 2rer_A 2res_A 2rez_A
Length = 169
Score = 59.6 bits (144), Expect = 1e-11
Identities = 22/162 (13%), Positives = 52/162 (32%), Gaps = 13/162 (8%)
Query: 52 LVGYSREQMYEVVSDVENYKNFVPFCKKSVVTYKSEKKIIGSLTIGFPP--IVESYTSNV 109
+V E +++V +D+E + ++ + + L V + S+
Sbjct: 10 VVNAPFELVWDVTNDIEAWPELFSEYAEAEILRQDGDGFDFRLKTRPDANGRVWEWVSHR 69
Query: 110 TLDRPKL-IKANCFDGKLFDHLVTMWRFHRGLEDVPQSCVIDFYME-----KAFFAEAEM 163
D+ ++A+ + F ++ W + V + + E A F A M
Sbjct: 70 VPDKGSRTVRAHRVETGPFAYMNLHWTY----RAVAGGTEMRWVQEFDMKPGAPFDNAHM 125
Query: 164 RYG-NRVLLTSMQMEKAFFAEAEMRYGKPTIPIHRLPVNVAQ 204
N +M+ K + + + ++ Q
Sbjct: 126 TAHLNTTTRANMERIKKIIEDRHREGQRTPASVLPTELHAQQ 167
>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 = 42.9 bits (100), Expect = 4e-05
Identities = 34/229 (14%), Positives = 70/229 (30%), Gaps = 47/229 (20%)
Query: 1 MSFAPVKTTSSTLLKKCIPSYNAIPLIYTQQKSFFNIADTFSKKKEYLGRKLVGYSREQM 60
++ + + L Y P ++ NI + L R L + +
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL----KSKP 242
Query: 61 YE----VVSDVENYKNFVPF---CKKSVVT-YKSEKKIIGSLTIGFPPIVESYTSNVTLD 112
YE V+ +V+N K + F CK + T +K + + T + ++ +T D
Sbjct: 243 YENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDH-HSMTLTPD 301
Query: 113 RPKLIKANCFDGKLFD----------HLVTMWRFHRGLEDVPQSCVIDFYMEKAFFAEAE 162
K + D + D +++ + D D +
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRLSI--IAESIRDGL--ATWDNW---------- 347
Query: 163 MRYGNRVLLTSMQMEKAFFAEAEMR--YGKPTIPIHRLPVNVAQKYKVP 209
L T ++ AE R + + ++ P + +P
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV----FPPSA----HIP 388
Score = 27.1 bits (59), Expect = 4.8
Identities = 10/89 (11%), Positives = 25/89 (28%), Gaps = 30/89 (33%)
Query: 15 KKCIPSYNAIPLIYTQQK---------SFFNIA------------DTFSKKK---EYLGR 50
+ + YN IP + + +I F +L +
Sbjct: 447 RSIVDHYN-IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ 505
Query: 51 KL--VGYS---REQMYEVVSDVENYKNFV 74
K+ + + + ++ YK ++
Sbjct: 506 KIRHDSTAWNASGSILNTLQQLKFYKPYI 534
>3lao_A Enoyl-COA hydratase/isomerase; alpha-beta sandwich, structural
genomics, PSI-2, protein structure initiative; HET: MSE;
2.40A {Pseudomonas aeruginosa}
Length = 258
Score = 32.2 bits (74), Expect = 0.082
Identities = 17/89 (19%), Positives = 27/89 (30%), Gaps = 8/89 (8%)
Query: 109 VTLDRPKLIKANCFDGKLFDHLVTMWRFHRGLEDVPQSCVIDFYMEKAFFAEA---EMRY 165
+ LDR K N FD + L + E+ C + F + F A E+
Sbjct: 25 IGLDRAG--KRNAFDSAMLADLALAMGEYERSEES--RCAVLFAHGEHFTAGLDLMELAP 80
Query: 166 GNRV-LLTSMQMEKAFFAEAEMRYGKPTI 193
+ + R KP +
Sbjct: 81 KLAASGFRYPDGGVDPWGVVQPRRSKPLV 109
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.9 bits (66), Expect = 0.31
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 18/44 (40%)
Query: 78 KKSVVTYKSEKKIIGSLTIGFPPIVESYTSNVTLDRPKL-IKAN 120
K+++ KK+ SL + + +S P L IKA
Sbjct: 19 KQAL------KKLQASLKL-YAD--DS--------APALAIKAT 45
>3r6h_A Enoyl-COA hydratase, ECHA3; ssgcid, mycobacerium marinum, structura
genomics, seattle structural genomics center for
infectious lyase; 1.75A {Mycobacterium marinum M}
Length = 233
Score = 29.9 bits (68), Expect = 0.43
Identities = 11/90 (12%), Positives = 26/90 (28%), Gaps = 13/90 (14%)
Query: 109 VTLDRPKLIKANCFDGKLFDHLVTMWRFHRGLEDVPQSCVIDFYMEKAFFAEA---EMRY 165
+ +D K+ N + L + ++ + F +
Sbjct: 18 IRMDDGKV---NVLGPTMQQALNEAI---DAADRDNVGALVIAGNHRVFSGGFDLKVLTS 71
Query: 166 GNRVLLTSMQMEKAFFAEAE--MRYGKPTI 193
G ++ M + F + + Y KP +
Sbjct: 72 GEAK--PAIDMLRGGFELSYRLLSYPKPVV 99
>2le1_A Uncharacterized protein; structural genomics, northeast structural
genomics consortiu PSI-2, protein structure initiative,
unknown function; NMR {Thermobifida fusca}
Length = 151
Score = 29.0 bits (64), Expect = 0.70
Identities = 16/138 (11%), Positives = 31/138 (22%), Gaps = 11/138 (7%)
Query: 58 EQMYEVVSDVENYKNFVPFCKKSVVTYKSEKKIIGSLTIGFPPIVESYTSNVTLDRPKLI 117
++ +V D + P + S G E V D
Sbjct: 15 ADVWTLVGDFSAIHRWHPQVSAPTLRGASPHTPGAERVFGAGTEEELVERLVERDESARR 74
Query: 118 KANCFDGK---LFDHLVTMWRFHRGLEDVPQSCVI----DFYMEKAFFAEAEMRYGNRVL 170
+ +H + + + C + F E E G+ V
Sbjct: 75 LVYTMPDPPFPITNHRAVL----EVVPRDDRHCTVVWTAMFDCSPETARELESVIGDGVF 130
Query: 171 LTSMQMEKAFFAEAEMRY 188
+ + E +
Sbjct: 131 AVGLNALAERYGRLEHHH 148
>3ot6_A Enoyl-COA hydratase/isomerase family protein; structural genomics,
PSI-2, protein structure initiative; 2.50A {Pseudomonas
syringae PV}
Length = 232
Score = 29.1 bits (66), Expect = 0.75
Identities = 11/92 (11%), Positives = 23/92 (25%), Gaps = 19/92 (20%)
Query: 109 VTLDRPKLIKANCFDGKLFDHLVTMWRFHRGLEDVPQ--SCVIDFYMEKAFFAEA---EM 163
+TL+ K+ N + L+ + + VI M
Sbjct: 19 LTLNNGKV---NAISPDVIIAFNAA------LDQAEKDRAIVIVTGQPGILSGGYDLKVM 69
Query: 164 RYGNRVLLTSMQMEKAFFAEAE--MRYGKPTI 193
++ + A + + P I
Sbjct: 70 TSSAEA---AINLVAQGSTLARRMLSHPFPII 98
>3qxi_A Enoyl-COA hydratase ECHA1; structural genomics, seattle structural
genomics center for infectious disease, ssgcid,
tuberculosis; 2.20A {Mycobacterium marinum}
Length = 265
Score = 28.7 bits (65), Expect = 1.4
Identities = 17/89 (19%), Positives = 27/89 (30%), Gaps = 14/89 (15%)
Query: 109 VTLDRPKLIKANCFDGKLFDHLVTMWRFHRGLEDVPQ-SCVIDFYMEKAFFAEA---EMR 164
+T++RPK N + + L L+ S I +F A
Sbjct: 28 ITINRPK--AKNSVNAAVSRALADAM---DRLDADAGLSVGILTGAGGSFCAGMDLKAFA 82
Query: 165 YGNRVLLTSMQMEKAFFAEAEMRYGKPTI 193
G ++ +E E KP I
Sbjct: 83 RG-----ENVVVEGRGLGFTERPPAKPLI 106
>4di1_A Enoyl-COA hydratase ECHA17; structural genomics, seattle structural
genomics center for infectious disease, ssgcid,
tuberculosis, ortholog; 2.25A {Mycobacterium marinum}
Length = 277
Score = 27.9 bits (63), Expect = 2.1
Identities = 18/90 (20%), Positives = 33/90 (36%), Gaps = 12/90 (13%)
Query: 109 VTLDRPKLIKANCFDGKLFDHLVTMWRFHRGLEDVPQSCVIDFYMEKAFFAEA---EMRY 165
+ + RP N +++ +V +D+ V+ F + F A E+R
Sbjct: 37 LVVSRP---PTNAMTRQVYREIVAAADELGRRDDI--GAVVLFGGHEIFSAGDDMPELRT 91
Query: 166 GN--RVLLTSMQMEKAFFAEAEMRYGKPTI 193
N + +A A A + KPT+
Sbjct: 92 LNAPEADTAARVRLEAIDAVAAIP--KPTV 119
>3qk8_A Enoyl-COA hydratase ECHA15; ssgcid, NIH, niaid, SBRI, UW, emerald
biostructures, structu genomics; 1.60A {Mycobacterium
marinum M} PDB: 3q1t_A
Length = 272
Score = 27.5 bits (62), Expect = 2.8
Identities = 15/87 (17%), Positives = 28/87 (32%), Gaps = 22/87 (25%)
Query: 109 VTLDRPKLIKANCFDGKLFDHLVTMWRFHRGLEDVPQSCVI------------DF-YMEK 155
+ LD P L N ++ L +W DV V+ F +++
Sbjct: 27 LVLDSPGL---NSVGPQMHRDLADVWPVIDRDPDV--RVVLVRGEGKAFSSGGSFELIDE 81
Query: 156 AFFAEAE----MRYGNRVLLTSMQMEK 178
MR ++L + ++K
Sbjct: 82 TIGDYEGRIRIMREARDLVLNLVNLDK 108
>2ppy_A Enoyl-COA hydratase; beta-oxidation, fatty acid metabol lyase,
structural genomics, NPPSFA; 2.16A {Geobacillus
kaustophilus}
Length = 265
Score = 27.1 bits (61), Expect = 3.9
Identities = 15/92 (16%), Positives = 27/92 (29%), Gaps = 15/92 (16%)
Query: 109 VTLDRPKLIKANCFDGKLFDHLVTMWRFHRGLEDVPQSCVIDFY--MEKAFFAEA---EM 163
+ L K+N +D + + R D+ VI + K F A A +
Sbjct: 22 IHLHIN---KSNSYDLEFYKEFNAAIDDIRFDPDI--KVVI-VMSDVPKFFSAGADINFL 75
Query: 164 RYGNR--VLLTSMQMEKAFFAEAEMRYGKPTI 193
R + + + A + I
Sbjct: 76 RSADPRFKTQFCLFCNETLDKIARSP--QVYI 105
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 0.136 0.403
Gapped
Lambda K H
0.267 0.0794 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,191,323
Number of extensions: 185386
Number of successful extensions: 302
Number of sequences better than 10.0: 1
Number of HSP's gapped: 299
Number of HSP's successfully gapped: 17
Length of query: 209
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 120
Effective length of database: 4,216,824
Effective search space: 506018880
Effective search space used: 506018880
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: 55 (24.8 bits)