RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11854
(141 letters)
>3eh7_A 4-hydroxybutyrate COA-transferase; citrate lyase, structural
genomics, PSI-2, protein structure initiative; HET: MSE;
2.05A {Porphyromonas gingivalis}
Length = 434
Score = 95.5 bits (238), Expect = 2e-24
Identities = 33/59 (55%), Positives = 38/59 (64%)
Query: 82 TLRQRAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEKAAFERL 140
+ + A V T R V YVVTE+GIA L GK+LRQRA ALI IA PD RE L K +R
Sbjct: 375 IIAEGAAVTTLRNEVDYVVTEYGIAQLKGKSLRQRAEALIAIAHPDFREELTKHLRKRF 433
Score = 53.1 bits (128), Expect = 2e-09
Identities = 14/51 (27%), Positives = 20/51 (39%)
Query: 10 AQVNKYMPRTFGDALVHQSHFDFACQVDGSLPLHPSKPPSPNEVAIGAGVV 60
++N+ MP GD L+H S D+ D + E AIG
Sbjct: 157 GEINRQMPYVHGDNLIHISKLDYIVMADYPIYSLAKPKIGEVEEAIGRNCA 207
>2oas_A ATOA, 4-hydroxybutyrate coenzyme A transferase; alpha beta protein,
structural genomics, PSI-2, protein STRU initiative;
HET: COA; 2.40A {Shewanella oneidensis}
Length = 436
Score = 90.9 bits (226), Expect = 1e-22
Identities = 38/60 (63%), Positives = 44/60 (73%)
Query: 82 TLRQRAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEKAAFERLK 141
L AGVVTTRAHVHY+VTE+G A L G++LR+RA ALINIA PD RE L + AFE
Sbjct: 366 VLSPGAGVVTTRAHVHYIVTEYGAANLKGRSLRERAQALINIAHPDFREQLSRDAFEVWG 425
Score = 50.5 bits (121), Expect = 2e-08
Identities = 18/51 (35%), Positives = 23/51 (45%)
Query: 10 AQVNKYMPRTFGDALVHQSHFDFACQVDGSLPLHPSKPPSPNEVAIGAGVV 60
A +N MPRT GD +H F + SLP+H +AIG V
Sbjct: 148 AHINPQMPRTHGDGFIHIDRFAAVYEQSASLPIHSFATGDAVSLAIGQHVA 198
>3gk7_A 4-hydroxybutyrate COA-transferase; alpha/beta protein; HET: SPD;
1.85A {Clostridium aminobutyricum} PDB: 3qdq_A*
Length = 448
Score = 89.0 bits (221), Expect = 7e-22
Identities = 27/60 (45%), Positives = 37/60 (61%)
Query: 82 TLRQRAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEKAAFERLK 141
+ A V T+R YVVTE+GIA + GK+L+ RA ALINIA PD ++ L+ +R
Sbjct: 376 FIDHGAAVTTSRNDADYVVTEYGIAEMKGKSLQDRARALINIAHPDFKDELKAEFEKRFN 435
Score = 52.1 bits (125), Expect = 6e-09
Identities = 16/51 (31%), Positives = 20/51 (39%)
Query: 10 AQVNKYMPRTFGDALVHQSHFDFACQVDGSLPLHPSKPPSPNEVAIGAGVV 60
A+VN +P +GD VH S D + LP E AIG
Sbjct: 153 AEVNDQVPVVYGDTFVHVSEIDKFVETSHPLPEIGLPKIGEVEAAIGKHCA 203
>3d3u_A 4-hydroxybutyrate COA-transferase; alpha-beta protein, structural
genomics, PSI-2, protein STRU initiative; 2.80A
{Porphyromonas gingivalis}
Length = 439
Score = 87.5 bits (217), Expect = 2e-21
Identities = 32/60 (53%), Positives = 38/60 (63%)
Query: 82 TLRQRAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEKAAFERLK 141
L++ A V T R V YVVTE+G+A L G TLRQRA AL IA PD R ALE+ R +
Sbjct: 372 ILKEGACVTTGRNEVDYVVTEYGVARLRGATLRQRAEALTAIAHPDFRPALEEEIRRRFE 431
Score = 49.3 bits (118), Expect = 5e-08
Identities = 16/51 (31%), Positives = 22/51 (43%)
Query: 10 AQVNKYMPRTFGDALVHQSHFDFACQVDGSLPLHPSKPPSPNEVAIGAGVV 60
A+VNK MP G+ L+H S +VD + S E+ IG
Sbjct: 154 AEVNKQMPFIGGENLIHISKLTHIIEVDEPIAEVLPPAGSDLELRIGQNCA 204
>3qli_A Coenzyme A transferase; COEN transferase; 1.90A {Yersinia pestis}
PDB: 3qlk_A 3s8d_A
Length = 455
Score = 85.2 bits (211), Expect = 1e-20
Identities = 21/52 (40%), Positives = 29/52 (55%)
Query: 87 AGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEKAAFE 138
V T R HY+VTE G L G + +RA +I +A PD R+ L +AA +
Sbjct: 400 GPVTTPRIDTHYIVTEFGAVNLKGLSSTERALRIIELAHPDFRDELTQAAKK 451
Score = 49.4 bits (118), Expect = 5e-08
Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 10 AQVNKYMPRTFGDAL-VHQSHFDFACQVDGSLPLHPSKPPSPNEVAIGAGVV 60
+VN+YMPR G+A +H S D + L P + P +I +
Sbjct: 178 VEVNRYMPRVQGEAAAIHISEVDAIVENHVPLIEMPVRSAIPEYTSISHIIA 229
>1xr4_A Putative citrate lyase alpha chain/citrate-ACP TR; the midwest
center for structural genomics, MCSG, structural
genomics; 2.37A {Salmonella typhimurium} SCOP: c.124.1.2
c.124.1.2
Length = 509
Score = 80.0 bits (197), Expect = 9e-19
Identities = 22/87 (25%), Positives = 30/87 (34%), Gaps = 12/87 (13%)
Query: 53 VAIGAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAGVVTTRAHVHYVVTEHGIAFLFGKT 112
V VT A V +VT+HGIA V R + + G+A + +
Sbjct: 421 VEKVLTTVTPGASVDVLVTDHGIA------------VNPARQDLLDNLRAAGVALMTIEQ 468
Query: 113 LRQRAHALINIAPPDHREALEKAAFER 139
L+QRA L P A
Sbjct: 469 LQQRAEQLTGKPQPIEFTDRVVAVVRY 495
Score = 43.0 bits (101), Expect = 7e-06
Identities = 11/66 (16%), Positives = 17/66 (25%), Gaps = 6/66 (9%)
Query: 10 AQVNKYMPRTFGDALVHQSHFDFACQVDGSLPLHP------SKPPSPNEVAIGAGVVTTR 63
+++ A + Q D QVD +P E+ I
Sbjct: 202 LLTEEWVEFPNYPASIAQDQVDLIVQVDEVGDPEKITAGAIRLSSNPRELLIARQAANVI 261
Query: 64 AHVHYV 69
H Y
Sbjct: 262 EHSGYF 267
>2nvv_A Acetyl-COA hydrolase/transferase family protein; alpha beta
protein, structural genomics, PSI-2, protein STRU
initiative; 2.70A {Porphyromonas gingivalis}
Length = 506
Score = 79.9 bits (197), Expect = 1e-18
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 87 AGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALI-NIAPPDHREALEKAA 136
A + V +++E G+A L GK R+RAH +I PD+R L +
Sbjct: 410 AHHDHSEHSVKVIISEWGVADLRGKNPRERAHEIIDKCVHPDYRPLLRQYL 460
Score = 34.0 bits (78), Expect = 0.009
Identities = 9/80 (11%), Positives = 14/80 (17%), Gaps = 29/80 (36%)
Query: 10 AQVNKYMPRTFGD-----------------------------ALVHQSHFDFACQVDGSL 40
++N P+ V + +
Sbjct: 157 VELNDKHPKEIMGMHDLCEPLDPPARRELPVYTPSDRIGKPYVQVDPAKIVGVVRTSEPN 216
Query: 41 PLHPSKPPSPNEVAIGAGVV 60
P P AIG V
Sbjct: 217 DESDFAPLDPVTQAIGDNVA 236
>2g39_A Acetyl-COA hydrolase; coenzyme A transferase, structural G PSI,
protein structure initiative, midwest center for struc
genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP:
c.124.1.2 c.124.1.2
Length = 497
Score = 76.8 bits (189), Expect = 1e-17
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 87 AGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALI-NIAPPDHREALEKAA 136
+ V T V +VTE G+A L G R+RA +I N P ++ L
Sbjct: 414 SHVDHTEHDVDILVTEQGLADLRGLAPRERARVIIENCVHPSYQAPLLDYF 464
Score = 28.6 bits (64), Expect = 0.68
Identities = 8/56 (14%), Positives = 13/56 (23%), Gaps = 7/56 (12%)
Query: 12 VNKYMPRTFGDALVHQSHFDFAC-------QVDGSLPLHPSKPPSPNEVAIGAGVV 60
+P T D + + D PP AI ++
Sbjct: 186 TRTPIPLTRVDDRIGSTAIPIPPEKIVAIVINDQPDSPSTVLPPDGETQAIANHLI 241
>2hj0_A Putative citrate lyase, ALFA subunit; alpha beta protein.,
structural genomics, PSI-2, protein STR initiative; HET:
CIT; 2.70A {Streptococcus mutans}
Length = 519
Score = 56.1 bits (135), Expect = 3e-10
Identities = 17/75 (22%), Positives = 28/75 (37%), Gaps = 14/75 (18%)
Query: 53 VAIGAGVVTTRAHVHYVVTEHGIAF-LFGKTLRQRAGVVTTRAHVHYVVTEHGIAFLFGK 111
V V+T V VVTE GIA L + + + L +
Sbjct: 425 VDKVNTVITPGTSVDVVVTEVGIAINPNRPDLIEYF-------------KDLKVPQLTIE 471
Query: 112 TLRQRAHALINIAPP 126
L+++A+A++ P
Sbjct: 472 ELKEKAYAIVGNPQP 486
Score = 53.0 bits (127), Expect = 3e-09
Identities = 15/50 (30%), Positives = 19/50 (38%), Gaps = 2/50 (4%)
Query: 87 AGVVTTRAHVHYVVTEHGIAF-LFGKTLRQRAHALINIAPPDHREALEKA 135
V+T V VVTE GIA L + + + E EKA
Sbjct: 429 NTVITPGTSVDVVVTEVGIAINPNRPDLIEYFKD-LKVPQLTIEELKEKA 477
Score = 43.4 bits (102), Expect = 6e-06
Identities = 8/57 (14%), Positives = 15/57 (26%), Gaps = 6/57 (10%)
Query: 10 AQVNKYMPRTFGDALVHQSHFDFACQVDGSLPLHP------SKPPSPNEVAIGAGVV 60
+ +P + Q+ D+ VD +P E+ I
Sbjct: 205 IVTDTLVPYPNTPISIPQTDVDYIVVVDAIGDPEGIAKGATRYTKNPKELLIAEYAA 261
>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 = 34.3 bits (78), Expect = 0.009
Identities = 28/119 (23%), Positives = 40/119 (33%), Gaps = 38/119 (31%)
Query: 43 HPSKPPSPNEVA--------IGAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAGVVTTRA 94
+PS P + + IG V AH YVVT + F G+ G
Sbjct: 221 NPSNTPDKDYLLSIPISCPLIG---VIQLAH--YVVTAKLLGFTPGELRSYLKGATG--- 272
Query: 95 HVHYVVTEHGIA-----------------FLF--GKTLR-QRAHALINIAPPDHREALE 133
H +VT IA LF G +R A+ ++ P ++LE
Sbjct: 273 HSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG--VRCYEAYPNTSLPPSILEDSLE 329
Score = 27.3 bits (60), Expect = 1.9
Identities = 22/117 (18%), Positives = 32/117 (27%), Gaps = 55/117 (47%)
Query: 80 GKTLRQRAGV---VTTRAHVHY----------VVTE--HGIAFLF----GKTLRQRAHAL 120
G L + + V RA H+ +V + F GK +R+ A+
Sbjct: 1632 GMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAM 1691
Query: 121 INIAPPDHRE------------------------------------ALEKAAFERLK 141
I D + +EKAAFE LK
Sbjct: 1692 IFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLK 1748
>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 = 32.2 bits (72), Expect = 0.029
Identities = 7/26 (26%), Positives = 13/26 (50%), Gaps = 4/26 (15%)
Query: 35 QVDGSLPLH-PSKPPSPNEVAIGAGV 59
++ SL L+ P+ +AI A +
Sbjct: 24 KLQASLKLYADDSAPA---LAIKATM 46
>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 = 0.24
Identities = 12/127 (9%), Positives = 32/127 (25%), Gaps = 45/127 (35%)
Query: 29 HFDFACQVDGSLPLHPSKPPSPNEVAIGAGVVTTR-----------AHVHYVVTEHGIAF 77
F+ +C++ ++TTR H + H +
Sbjct: 261 AFNLSCKI----------------------LLTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 78 LFGKTLRQRAGVVTTRAHV--HYVVTEHGIAF-LFGKTLRQRAHALINIAPPDHREALEK 134
+ + R V+T + + +++R + +
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDG---------LATWDNWKH 349
Query: 135 AAFERLK 141
++L
Sbjct: 350 VNCDKLT 356
Score = 26.0 bits (56), Expect = 5.6
Identities = 2/19 (10%), Positives = 8/19 (42%)
Query: 25 VHQSHFDFACQVDGSLPLH 43
+ + + +++ LH
Sbjct: 428 IPSIYLELKVKLENEYALH 446
>3qr3_A Endoglucanase EG-II; TIM barrel, hydrolase; 2.05A {Hypocrea
jecorina}
Length = 340
Score = 27.6 bits (61), Expect = 1.5
Identities = 12/45 (26%), Positives = 16/45 (35%)
Query: 25 VHQSHFDFACQVDGSLPLHPSKPPSPNEVAIGAGVVTTRAHVHYV 69
V+ + FDF C DG+ PP N H+V
Sbjct: 8 VNIAGFDFGCTTDGTCVTSKVYPPLKNFTGSNNYPDGIGQMQHFV 52
>3b73_A PHIH1 repressor-like protein; winged-helix-turn-helix, structural
genomics, PSI-2, protein structure initiative; 2.12A
{Haloarcula marismortui atcc 43049}
Length = 111
Score = 26.5 bits (58), Expect = 2.2
Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 17/73 (23%)
Query: 42 LHPSKPPSPNEVAIGAGVVTTRAHVHY---VVTEHGIAFLFGKTLRQRAGVVTTRAHVHY 98
+H SP E+ + +++ V + +H + + Y
Sbjct: 22 IHEEGNGSPKELEDRDEIRISKSSVSRRLKKLADHDLLQPLANGV--------------Y 67
Query: 99 VVTEHGIAFLFGK 111
V+TE G A+L G+
Sbjct: 68 VITEEGEAYLNGE 80
>3uw2_A Phosphoglucomutase/phosphomannomutase family PROT; structural
genomics, seattle structural genomics center for
infectious disease; 1.95A {Burkholderia thailandensis}
Length = 485
Score = 25.7 bits (57), Expect = 7.2
Identities = 13/47 (27%), Positives = 19/47 (40%), Gaps = 12/47 (25%)
Query: 34 CQVDGSLPLH---PSKPPSPNEVAIGAGVVTTRAHVHYVVTEHGIAF 77
+DG+ P H P+ P N + A + T A + G AF
Sbjct: 226 TDIDGNFPNHHPDPAHP--ENLQDVIAKLKATDAEI-------GFAF 263
>2uz8_A Eukaryotic translation elongation factor 1 epsilon-1; protein
biosynthesis, aminoacyl-tRNA synthetase, GST, nuclear
protein, RNA-binding protein; HET: MSE; 2.0A {Homo
sapiens}
Length = 174
Score = 25.1 bits (55), Expect = 7.4
Identities = 5/47 (10%), Positives = 15/47 (31%), Gaps = 7/47 (14%)
Query: 96 VHYVVTEHGIAFLFGKTLRQRAH-------ALINIAPPDHREALEKA 135
++V + +L G T ++A + + + +
Sbjct: 48 AAHLVKQANKEYLLGSTAEEKAMVQQWLEYRVTQVDGHSSKNDIHTL 94
>1p5d_X PMM, phosphomannomutase; alpha/beta protein, phosphohexomutase,
phosphoserine, enzyme complex, enzyme-metal complex,
isomerase; HET: SEP G1P; 1.60A {Pseudomonas aeruginosa}
SCOP: c.84.1.1 c.84.1.1 c.84.1.1 d.129.2.1 PDB: 1k35_A*
1p5g_X* 1pcj_X* 1pcm_X* 1k2y_X* 2h5a_X* 2h4l_X* 2fkf_A*
3rsm_A 3bkq_X* 3c04_A* 2fkm_X*
Length = 463
Score = 25.7 bits (57), Expect = 7.6
Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 12/47 (25%)
Query: 34 CQVDGSLPLH---PSKPPSPNEVAIGAGVVTTRAHVHYVVTEHGIAF 77
C+VDG+ P H P KP N + A V A + G+AF
Sbjct: 204 CEVDGNFPNHHPDPGKP--ENLKDLIAKVKAENADL-------GLAF 241
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 0.136 0.419
Gapped
Lambda K H
0.267 0.0742 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,356,437
Number of extensions: 140528
Number of successful extensions: 428
Number of sequences better than 10.0: 1
Number of HSP's gapped: 411
Number of HSP's successfully gapped: 43
Length of query: 141
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 57
Effective length of database: 4,356,429
Effective search space: 248316453
Effective search space used: 248316453
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 (21.6 bits)
S2: 52 (23.8 bits)