RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16066
(182 letters)
>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 = 36.8 bits (84), Expect = 0.003
Identities = 16/89 (17%), Positives = 34/89 (38%), Gaps = 19/89 (21%)
Query: 98 IQQESYTYKDPITEFLEHLYVSFDF----ESAREKLTECTEVLDNDFFLVACLDEFVENA 153
+ Y YKD ++ F + +FD + + L+ E +D+ ++ D +
Sbjct: 11 TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILS--KEEIDH---IIMSKDA--VSG 63
Query: 154 RLMIFETFCRIHQCISIQKESNVIDKIFD 182
L +F T K+ ++ K +
Sbjct: 64 TLRLFWTLL--------SKQEEMVQKFVE 84
Score = 34.8 bits (79), Expect = 0.013
Identities = 21/114 (18%), Positives = 46/114 (40%), Gaps = 30/114 (26%)
Query: 1 MFLNRPHYLNAIQTMCPHILRYLATAVIINRSKRNALKDLVKVIQQVS--RDLIIDMFLN 58
+F R +L+ R+L + + + NA ++ +QQ+ + I D N
Sbjct: 492 LF--RMVFLD---------FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD---N 537
Query: 59 RPHY---LNAIQTMCPHILRYLATAVIINRSKRNALKDLVKVI--QQESYTYKD 107
P Y +NAI L + +I ++ DL+++ ++ +++
Sbjct: 538 DPKYERLVNAIL----DFLPKIEENLICSKY-----TDLLRIALMAEDEAIFEE 582
Score = 31.4 bits (70), Expect = 0.18
Identities = 16/130 (12%), Positives = 42/130 (32%), Gaps = 25/130 (19%)
Query: 6 PHYLNAIQT--MCPHILRYLATAVIINRSKRNALKDLVKVIQQVSR-DLIIDMFLNRPHY 62
+ +A C + + + SK + ++ VS + L++
Sbjct: 23 SVFEDAFVDNFDCKDVQDMPKSIL----SKEE-IDHIIMSKDAVSGTLRLFWTLLSKQE- 76
Query: 63 LNAIQTMCPHILR----YLATAV-----------IINRSKRNALKDLVKVIQQESYTYKD 107
+Q +LR +L + + + +R+ L + +V + + +
Sbjct: 77 -EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 108 PITEFLEHLY 117
P + + L
Sbjct: 136 PYLKLRQALL 145
>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 = 36.2 bits (83), Expect = 0.005
Identities = 21/164 (12%), Positives = 50/164 (30%), Gaps = 53/164 (32%)
Query: 37 LKDLVKVIQQVSRDLIIDMFLNRPHYLNAIQTMCPHILRYLATAVIINRSKRNALKDLVK 96
++L + Q L+ D+ I+ + + T + + L ++++
Sbjct: 170 FEELRD-LYQTYHVLVGDL----------IKFSAETLSELIRTTLDAEKVFTQGL-NILE 217
Query: 97 VIQQESYTYKDPITEFLEHLYVSF-----------------------DFESAREKLTECT 133
++ S T P ++L + +S + S + T +
Sbjct: 218 WLENPSNT---PDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS 274
Query: 134 EVLDNDFFLVACL-------DEFVENARLMIFETF---CRIHQC 167
+ L + A + F + R I F R ++
Sbjct: 275 QGL-----VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEA 313
Score = 33.9 bits (77), Expect = 0.027
Identities = 24/116 (20%), Positives = 43/116 (37%), Gaps = 33/116 (28%)
Query: 22 YL--ATAVIINRSKRNAL----KDL---V------KVIQQVSRDL---IIDMFLNRP-HY 62
L A+ +I +N + KD+ V ++ +S + I+D + P +
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKW 490
Query: 63 LNAIQTMCPHILRY--LATAVIINRSKRNALKDL--VKVIQ--------QESYTYK 106
Q HIL + + + + RN KD V+VI + Y +K
Sbjct: 491 ETTTQFKATHILDFGPGGASGLGVLTHRN--KDGTGVRVIVAGTLDINPDDDYGFK 544
Score = 28.5 bits (63), Expect = 1.4
Identities = 19/137 (13%), Positives = 36/137 (26%), Gaps = 49/137 (35%)
Query: 10 NAIQTMCPH----ILRYLATAVIINR-SKRNALKDLVKVIQQVSRDLIIDMFL-----NR 59
+Q P Y A+ R + + + L V+++V + + N
Sbjct: 1791 MTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKR--TGWLVEIVNYNV 1848
Query: 60 PH--Y-----LNAIQTMCPHILRYLATAVIINRSKRNALKDLVKVIQQESYTYKDPITEF 112
+ Y L A+ T+ ++N K +
Sbjct: 1849 ENQQYVAAGDLRALDTVTN----------VLNFIKLQKID-------------------- 1878
Query: 113 LEHLYVSFDFESAREKL 129
+ L S E L
Sbjct: 1879 IIELQKSLSLEEVEGHL 1895
>3e2d_A Alkaline phosphatase; cold-adaptation, metalloenzyme, dimer,
psychrophilic bacteria, crystallography, hydrolase;
1.40A {Vibrio SP}
Length = 502
Score = 31.4 bits (71), Expect = 0.16
Identities = 18/115 (15%), Positives = 34/115 (29%), Gaps = 44/115 (38%)
Query: 84 NRSKRNALKDLVKVIQQESYTYKDPITEFL-------------EHLYVSFDFESAREK-- 128
+SKR ++L+ +++ Y + + + ++
Sbjct: 180 LKSKRKDDRNLLTEAEKDGYQLAFNRNMLDDAKGDKLLGLFAYSGMDDGIAYSNKKKSGE 239
Query: 129 -----LTECTE----VLDND---FFLVACLDEFVE-----------NARLMIFET 160
L E T+ +L D FFL VE +A M+ E
Sbjct: 240 RTQPSLKEMTQKALNILSKDEDGFFL------MVEGGQIDWAGHSNDAGTMLHEL 288
>3ju1_A Enoyl-COA hydratase/isomerase family protein; alpha-beta structure,
structural genomics, PSI-2, protein ST initiative; HET:
MSE; 2.30A {Shewanella oneidensis}
Length = 407
Score = 29.3 bits (66), Expect = 0.73
Identities = 14/76 (18%), Positives = 21/76 (27%), Gaps = 15/76 (19%)
Query: 57 LNRPHYLNAI-QTMCPHILRYL--------ATAVIINRSKRNAL------KDLVKVIQQE 101
LN LNA+ M + L V+++ S A + L
Sbjct: 57 LNVEKALNALDLDMVRAMTVQLNLWKKDPLIACVVLDGSGEKAFCAGGDVRALYHASVAA 116
Query: 102 SYTYKDPITEFLEHLY 117
+ F E Y
Sbjct: 117 KGQVTEVAKVFFEEEY 132
Score = 28.2 bits (63), Expect = 1.5
Identities = 7/22 (31%), Positives = 9/22 (40%), Gaps = 1/22 (4%)
Query: 3 LNRPHYLNAI-QTMCPHILRYL 23
LN LNA+ M + L
Sbjct: 57 LNVEKALNALDLDMVRAMTVQL 78
>1mlw_A Tryptophan 5-monooxygenase; aromatic amino acid hydroxylase
catalytic domain fold, oxidoreductase; HET: HBI; 1.71A
{Homo sapiens} SCOP: d.178.1.1 PDB: 3hf6_A* 3hf8_A*
3hfb_A* 3e2t_A*
Length = 301
Score = 28.9 bits (64), Expect = 0.81
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 93 DLVKVIQQESYTYKDPITEFLEHLYVSFDFESAREKLTECTEVLDNDF 140
D +QE IT F + +VS FE A+EK+ E T+ + F
Sbjct: 254 DPKITCKQEC-----LITTFQDVYFVSESFEDAKEKMREFTKTIKRPF 296
>1phz_A Protein (phenylalanine hydroxylase); aromatic amino acid
hydroxylase, phosphorylation, intrasteric regulation,
allosteric regulation; 2.20A {Rattus norvegicus} SCOP:
d.58.18.3 d.178.1.1 PDB: 2phm_A
Length = 429
Score = 28.9 bits (64), Expect = 0.97
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 5/48 (10%)
Query: 93 DLVKVIQQESYTYKDPITEFLEHLYVSFDFESAREKLTECTEVLDNDF 140
+L K QE +TEF YV+ F A+EK+ + F
Sbjct: 368 ELEKTACQEY-----SVTEFQPLYYVAESFSDAKEKVRTFAATIPRPF 410
>1j8u_A Phenylalanine-4-hydroxylase; ferrous iron, 2-His-1-carboxylate
facial triad, tetrahydrobiopterin, oxidoreductase; HET:
H4B; 1.50A {Homo sapiens} SCOP: d.178.1.1 PDB: 1j8t_A*
1kw0_A* 1lrm_A* 1mmk_A* 1mmt_A* 4anp_A* 2pah_A 1pah_A
3pah_A* 4pah_A* 5pah_A* 6pah_A* 1tdw_A 1tg2_A* 1dmw_A*
Length = 325
Score = 28.9 bits (64), Expect = 1.0
Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 5/48 (10%)
Query: 93 DLVKVIQQESYTYKDPITEFLEHLYVSFDFESAREKLTECTEVLDNDF 140
+L K Q +TEF YV+ F A+EK+ + F
Sbjct: 266 ELEKTAIQNY-----TVTEFQPLYYVAESFNDAKEKVRNFAATIPRPF 308
>1toh_A Tyroh, tyrosine hydroxylase; neurotransmitter biosynthesis,
non-heme iron, P substrate; 2.30A {Rattus norvegicus}
SCOP: d.178.1.1 PDB: 2toh_A* 2xsn_A
Length = 343
Score = 28.9 bits (64), Expect = 1.0
Identities = 9/50 (18%), Positives = 15/50 (30%), Gaps = 5/50 (10%)
Query: 93 DLVKVIQQESYTYKDPITEFLEHLYVSFDFESAREKLTECTEVLDNDFFL 142
D Q + +VS F A++KL + F +
Sbjct: 259 DPDTAAVQPY-----QDQTYQPVYFVSESFNDAKDKLRNYASRIQRPFSV 303
>3a5y_A GENX, putative lysyl-tRNA synthetase; aminoacyl-tRNA synthetase
paralog, translation, lysyl- synthetase, lysyladenylate
analog; HET: KAA; 1.90A {Escherichia coli} PDB: 3a5z_A*
3g1z_A*
Length = 345
Score = 27.9 bits (63), Expect = 1.6
Identities = 17/77 (22%), Positives = 25/77 (32%), Gaps = 6/77 (7%)
Query: 91 LKDLVKVIQQESYTYKDPITEFLEHLYVSFDFESAREKLTE------CTEVLDNDFFLVA 144
L+ ++ ES +Y+ +LE +S D RE + D D L
Sbjct: 155 LQQVLDCPAAESLSYQQAFLRYLEIDPLSADKTQLREVAAKLDLSNVADTEEDRDTLLQL 214
Query: 145 CLDEFVENARLMIFETF 161
VE TF
Sbjct: 215 LFTFGVEPNIGKEKPTF 231
>3bpt_A 3-hydroxyisobutyryl-COA hydrolase; coenzyme A,
beta-hydroxyisobutyryl acid, querceti structural
genomics consortium, SGC; HET: QUE; 1.50A {Homo
sapiens}
Length = 363
Score = 27.7 bits (62), Expect = 2.4
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 3 LNRPHYLNAI-QTMCPHILRYL 23
LNRP +LNA+ M I L
Sbjct: 21 LNRPKFLNALTLNMIRQIYPQL 42
Score = 27.7 bits (62), Expect = 2.4
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 57 LNRPHYLNAI-QTMCPHILRYL 77
LNRP +LNA+ M I L
Sbjct: 21 LNRPKFLNALTLNMIRQIYPQL 42
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2
PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D*
2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D*
3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Length = 1524
Score = 27.4 bits (61), Expect = 2.9
Identities = 9/51 (17%), Positives = 16/51 (31%)
Query: 90 ALKDLVKVIQQESYTYKDPITEFLEHLYVSFDFESAREKLTECTEVLDNDF 140
+ +L +V+ Y DP L + V E+ E +
Sbjct: 119 SATELEQVLYFSKYIVLDPKGAILNGVPVEKRQLLTDEEYRELRYGKQETY 169
>3na5_A Phosphoglucomutase; isomerase, metal binding; HET: BTB; 1.70A
{Salmonella enterica subsp} PDB: 3olp_A 2fuv_A*
Length = 570
Score = 27.3 bits (61), Expect = 3.1
Identities = 10/59 (16%), Positives = 19/59 (32%), Gaps = 8/59 (13%)
Query: 78 ATAVIINRSKRNALKDLVKV--------IQQESYTYKDPITEFLEHLYVSFDFESAREK 128
T V+ +R+ L V + D + F+E L D + ++
Sbjct: 193 VTKVVEDRANALLAGGLQGVKRISLDAAMASGHVKAVDLVQPFVEGLADIVDMAAIQKA 251
>2j5i_A P-hydroxycinnamoyl COA hydratase/lyase; vanillin, aldolase,
crotonase, coenzyme-A; 1.8A {Pseudomonas fluorescens}
PDB: 2j5i_B 2vss_A* 2j5i_I 2vss_F* 2vsu_A* 2vss_E*
2vsu_F* 2vsu_E* 2vsu_C*
Length = 276
Score = 26.4 bits (59), Expect = 6.0
Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 3/25 (12%)
Query: 3 LNRPHYLNAIQTMCPHILRYLATAV 27
LNRP NA M P + R + +
Sbjct: 24 LNRPEKRNA---MSPTLNREMIDVL 45
Score = 26.4 bits (59), Expect = 6.0
Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 3/25 (12%)
Query: 57 LNRPHYLNAIQTMCPHILRYLATAV 81
LNRP NA M P + R + +
Sbjct: 24 LNRPEKRNA---MSPTLNREMIDVL 45
>3njd_A Enoyl-COA hydratase; ssgcid, mycobacerium smegmatis, structu
genomics, seattle structural genomics center for
infectious lyase; 1.75A {Mycobacterium smegmatis} PDB:
3njb_A
Length = 333
Score = 26.3 bits (58), Expect = 6.0
Identities = 7/25 (28%), Positives = 9/25 (36%), Gaps = 1/25 (4%)
Query: 3 LNRPHYLNAI-QTMCPHILRYLATA 26
NRP NAI + + A
Sbjct: 50 FNRPEKGNAIVADTPLELSALVERA 74
Score = 26.3 bits (58), Expect = 6.0
Identities = 7/25 (28%), Positives = 9/25 (36%), Gaps = 1/25 (4%)
Query: 57 LNRPHYLNAI-QTMCPHILRYLATA 80
NRP NAI + + A
Sbjct: 50 FNRPEKGNAIVADTPLELSALVERA 74
>2np9_A DPGC; protein inhibitor complex, oxidoreductase; HET: YE1; 2.45A
{Streptomyces toyocaensis} PDB: 2pg8_A*
Length = 440
Score = 26.3 bits (58), Expect = 6.3
Identities = 7/25 (28%), Positives = 10/25 (40%), Gaps = 3/25 (12%)
Query: 3 LNRPHYLNAIQTMCPHILRYLATAV 27
+ R LNA + + TAV
Sbjct: 182 MCRDDRLNAE---DGQQVDDMETAV 203
Score = 26.3 bits (58), Expect = 6.3
Identities = 7/25 (28%), Positives = 10/25 (40%), Gaps = 3/25 (12%)
Query: 57 LNRPHYLNAIQTMCPHILRYLATAV 81
+ R LNA + + TAV
Sbjct: 182 MCRDDRLNAE---DGQQVDDMETAV 203
>1ltz_A Phenylalanine-4-hydroxylase; oxidoreductase, dihydrobiopterin,
bacterial enzyme; HET: HBI; 1.40A {Chromobacterium
violaceum} SCOP: d.178.1.1 PDB: 1ltv_A 1ltu_A*
Length = 297
Score = 26.1 bits (57), Expect = 7.2
Identities = 6/39 (15%), Positives = 14/39 (35%), Gaps = 5/39 (12%)
Query: 93 DLVKVIQQESYTYKDPITEFLEHLYVSFDFESAREKLTE 131
DL++++ I F + +V F+ +
Sbjct: 223 DLMRIMNTRY-----RIDTFQKTYFVIDSFKQLFDATAP 256
>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 = 26.0 bits (58), Expect = 8.1
Identities = 5/29 (17%), Positives = 15/29 (51%), Gaps = 5/29 (17%)
Query: 27 VIINRSKRNAL-----KDLVKVIQQVSRD 50
++++R NA+ +++V ++ R
Sbjct: 37 LVVSRPPTNAMTRQVYREIVAAADELGRR 65
>3t3w_A Probable enoyl-COA hydratase; ssgcid, structural genomics,
seattle ST genomics center for infectious disease,
lyase; 1.80A {Mycobacterium thermoresistibile} PDB:
3ome_A
Length = 279
Score = 25.7 bits (57), Expect = 9.1
Identities = 6/15 (40%), Positives = 8/15 (53%), Gaps = 2/15 (13%)
Query: 3 LNRPHYLNAI--QTM 15
LNRP NA + +
Sbjct: 35 LNRPEAANAQNPELL 49
Score = 25.7 bits (57), Expect = 9.1
Identities = 6/15 (40%), Positives = 8/15 (53%), Gaps = 2/15 (13%)
Query: 57 LNRPHYLNAI--QTM 69
LNRP NA + +
Sbjct: 35 LNRPEAANAQNPELL 49
>3l3s_A Enoyl-COA hydratase/isomerase family protein; crotonase
superfamily, dimer of trimers, PSI-2, NYSGXRC,
structural genomics; 2.32A {Ruegeria pomeroyi}
Length = 263
Score = 25.7 bits (57), Expect = 9.9
Identities = 4/29 (13%), Positives = 11/29 (37%), Gaps = 5/29 (17%)
Query: 27 VIINRSKRNAL-----KDLVKVIQQVSRD 50
+ + R+ + L L +++ D
Sbjct: 20 LTLGRAPAHPLSRAMIAALHDALRRAMGD 48
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
0.329 0.140 0.413
Gapped
Lambda K H
0.267 0.0785 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,742,493
Number of extensions: 153620
Number of successful extensions: 613
Number of sequences better than 10.0: 1
Number of HSP's gapped: 607
Number of HSP's successfully gapped: 47
Length of query: 182
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 94
Effective length of database: 4,244,745
Effective search space: 399006030
Effective search space used: 399006030
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 54 (24.5 bits)