RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11853
(61 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 = 65.9 bits (161), Expect = 5e-15
Identities = 23/51 (45%), Positives = 34/51 (66%)
Query: 9 IFRSMSFFMAANVRKAVAEGRGDAIPIFLSEIPLLFKRGIIKPNVAIVQVS 59
FR ++ F+ N RKAV E R D IP+F E+P + ++ I+ +VAIVQ+S
Sbjct: 78 HFRHITNFVGGNSRKAVEENRADFIPVFFYEVPSMIRKDILHIDVAIVQLS 128
>3gk7_A 4-hydroxybutyrate COA-transferase; alpha/beta protein; HET: SPD;
1.85A {Clostridium aminobutyricum} PDB: 3qdq_A*
Length = 448
Score = 65.2 bits (159), Expect = 8e-15
Identities = 17/51 (33%), Positives = 29/51 (56%)
Query: 9 IFRSMSFFMAANVRKAVAEGRGDAIPIFLSEIPLLFKRGIIKPNVAIVQVS 59
F +F + + R ++AEG G +P+F E+P L ++ I +V +V VS
Sbjct: 74 NFTFEGWFTSPSTRGSIAEGHGQFVPVFFHEVPSLIRKDIFHVDVFMVMVS 124
>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 = 64.3 bits (157), Expect = 2e-14
Identities = 22/50 (44%), Positives = 28/50 (56%)
Query: 10 FRSMSFFMAANVRKAVAEGRGDAIPIFLSEIPLLFKRGIIKPNVAIVQVS 59
R FF R + G D +PIFLSE+P LF+ G K + AI+QVS
Sbjct: 70 LRHRCFFGGVPTRPLLQSGDADYVPIFLSEVPKLFRSGEQKIDTAIIQVS 119
>3d3u_A 4-hydroxybutyrate COA-transferase; alpha-beta protein, structural
genomics, PSI-2, protein STRU initiative; 2.80A
{Porphyromonas gingivalis}
Length = 439
Score = 64.4 bits (157), Expect = 2e-14
Identities = 19/50 (38%), Positives = 26/50 (52%)
Query: 10 FRSMSFFMAANVRKAVAEGRGDAIPIFLSEIPLLFKRGIIKPNVAIVQVS 59
F+ N R A + R D IP E+P LF++G +VA+VQVS
Sbjct: 76 VHPTLNFLEGNSRPASRDRRVDFIPCHFHEVPELFRQGFFPLDVAVVQVS 125
>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 = 61.4 bits (149), Expect = 2e-13
Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 9 IFRSMSFFMAANVRKAVAEGRGDAIPIFLSEIPLLFKRGII-KPNVAIVQVS 59
+ R M F + + +RKA+ G I LSE + + P++A+++ +
Sbjct: 82 LARRMPFQVDSTLRKAINAGEVMFIDQHLSETVEQLRNHQLKLPDIAVIEAA 133
>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 = 56.8 bits (137), Expect = 8e-12
Identities = 10/53 (18%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 8 SIFRSMSFFMAANVRKAVAEGRGDAIPIFLSEIPLLFKRGII-KPNVAIVQVS 59
++ + ++R + G + LS + + G K +VAI++V+
Sbjct: 76 AVKFRTPYQSNKDLRNLINNGSTSYFDLHLSTLAQDLRYGFYGKVDVAIIEVA 128
>3qli_A Coenzyme A transferase; COEN transferase; 1.90A {Yersinia pestis}
PDB: 3qlk_A 3s8d_A
Length = 455
Score = 50.5 bits (121), Expect = 1e-09
Identities = 12/57 (21%), Positives = 19/57 (33%), Gaps = 8/57 (14%)
Query: 10 FRSMSFFMAANVRKAVAEGRGDA-------IPIFLSEIPLLFKRGIIKPNVAIVQVS 59
+ S F+ A R + G D +P + P L I + + VS
Sbjct: 94 IKPYSMFVTAVERALIRRGIEDGGRKVVNYVPSNFHQAPRLLAEE-IGIDTFMHTVS 149
>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 = 32.6 bits (74), Expect = 0.003
Identities = 13/63 (20%), Positives = 22/63 (34%), Gaps = 4/63 (6%)
Query: 1 MMITHILS--IFRSMSFFMAANVRKAVAEGRGDAIPIFLSEI--PLLFKRGIIKPNVAIV 56
+I HI + + S + V A++EG + I S I +VA +
Sbjct: 108 PLIDHIKNGVVTNITSSGLRDKVGAAISEGIMENPVIIRSHGGRARAIATDDIHIDVAFL 167
Query: 57 QVS 59
Sbjct: 168 GAP 170
>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 = 32.3 bits (73), Expect = 0.004
Identities = 10/62 (16%), Positives = 25/62 (40%), Gaps = 4/62 (6%)
Query: 2 MITHILS--IFRSMSFFMAANVRKAVAEGRGDAIPIFLS--EIPLLFKRGIIKPNVAIVQ 57
+I HI + + + + + + + ++ G + S L + G + +VA +
Sbjct: 106 LIEHIKNGVVRQIYTSGLRGKLGEEISAGLMENPVQIHSHGGRVKLIQSGELNIDVAFLG 165
Query: 58 VS 59
V
Sbjct: 166 VP 167
>2ww4_A 4-diphosphocytidyl-2C-methyl-D-erythritol kinase; non-mevalonate
pathway, isoprenoid biosynthesis, transferase; HET: ADP;
2.00A {Escherichia coli} PDB: 1oj4_A*
Length = 283
Score = 28.0 bits (63), Expect = 0.15
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 7/42 (16%)
Query: 15 FFMAANVRKAVAEGRGDAI-PIFLSEIPLLFKRGIIKPNVAI 55
F+ A AEG G+ + P+ E L + P V+I
Sbjct: 144 VFVRG--HAAFAEGVGEILTPVDPPEKWYL----VAHPGVSI 179
>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 = 27.3 bits (60), Expect = 0.24
Identities = 10/64 (15%), Positives = 22/64 (34%), Gaps = 24/64 (37%)
Query: 1 MMITHILSIFRSM---------SFFM-------AANVRKAVAEGRGDAIPIFLSEIPLLF 44
+ + + F + + F AA ++A D + S + ++F
Sbjct: 1736 LTLMEK-AAFEDLKSKGLIPADATFAGHSLGEYAALA--SLA----DVMS-IESLVEVVF 1787
Query: 45 KRGI 48
RG+
Sbjct: 1788 YRGM 1791
>1uek_A 4-(cytidine 5'-diphospho)-2C-methyl-D-erythritol kinase;
non-mevalonate pathway, GHMP superfamily; 1.70A {Thermus
thermophilus} SCOP: d.14.1.5 d.58.26.5
Length = 275
Score = 27.1 bits (61), Expect = 0.25
Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 5/33 (15%)
Query: 24 AVAEGRGDAI-PIFLSEIPLLFKRGIIKPNVAI 55
A A G G+ + P+ L +P + + P + +
Sbjct: 135 AEARGVGERLKPLALPPVPAV----VFFPGLRV 163
>3kpa_A Probable ubiquitin fold modifier conjugating ENZY; UBL conjugation
pathway, ligase, structural genomics, PSI; 2.20A
{Leishmania major}
Length = 168
Score = 25.3 bits (55), Expect = 1.0
Identities = 9/28 (32%), Positives = 14/28 (50%), Gaps = 3/28 (10%)
Query: 24 AVAEGRGDAIPIFLSEIPLLFKRGIIKP 51
+A G G P E+P + + G +KP
Sbjct: 144 VLALGLG---PWLSIEVPAMVEEGYLKP 168
>2v8p_A 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase;
nucleotide-binding, isoprene biosynthesis, transferase,
ATP-binding, non-mevalonate; HET: CDP ADP; 2.1A {Aquifex
aeolicus} PDB: 2v2v_A* 2v2q_A* 2v34_A* 2v2z_A* 2vf3_A*
Length = 271
Score = 24.8 bits (55), Expect = 1.5
Identities = 6/34 (17%), Positives = 13/34 (38%), Gaps = 6/34 (17%)
Query: 24 AVAEGRGDAIPIFLSEIPLLFKRG--IIKPNVAI 55
A+ G+G+ L + ++ P V+
Sbjct: 143 AIGRGKGEV----LEPVETEISGKITLVIPQVSS 172
>1nkq_A Hypothetical 28.8 kDa protein in PSD1-SKO1 intergenic region;
dimer, PSI, protein structure initiative; 2.20A
{Saccharomyces cerevisiae} SCOP: d.177.1.1
Length = 259
Score = 23.9 bits (52), Expect = 3.7
Identities = 13/53 (24%), Positives = 20/53 (37%), Gaps = 17/53 (32%)
Query: 13 MSFFMAANVRKAVAEGR---------GDAIPIFLSEIPLLFKRGIIKPNVAIV 56
MS+ RK + GR ++ P + P F +KP +IV
Sbjct: 1 MSYNYLKAARKIICIGRNYAAHIKELNNSTP----KQPFFF----LKPTSSIV 45
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
0.334 0.145 0.400
Gapped
Lambda K H
0.267 0.0660 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 885,844
Number of extensions: 39599
Number of successful extensions: 204
Number of sequences better than 10.0: 1
Number of HSP's gapped: 201
Number of HSP's successfully gapped: 17
Length of query: 61
Length of database: 6,701,793
Length adjustment: 32
Effective length of query: 29
Effective length of database: 5,808,321
Effective search space: 168441309
Effective search space used: 168441309
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 51 (23.6 bits)