RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16952
(161 letters)
>1csh_A Citrate synthase; lyase(OXO-acid); HET: AMX; 1.65A {Gallus gallus}
SCOP: a.103.1.1 PDB: 1amz_A* 1csi_A* 1csr_A* 1css_A*
1al6_A* 6csc_A* 2cts_A* 3enj_A 1cts_A 4cts_A 1csc_A*
2csc_A* 3csc_A* 4csc_A* 5csc_A 5cts_A* 6cts_A* 5csc_B
Length = 435
Score = 34.2 bits (79), Expect = 0.011
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 9/57 (15%)
Query: 2 RVKIIKEFVLQNFPTTPLLNYALEVEKITTS------KKPNLILNVD---GVIAVAF 49
R +EF L++ P+ P+ ++ KI + K N NVD GV+ +
Sbjct: 327 RYTCQREFALKHLPSDPMFKLVAQLYKIVPNVLLEQGKAKNPWPNVDAHSGVLLQYY 383
>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 = 34.1 bits (77), Expect = 0.018
Identities = 16/98 (16%), Positives = 25/98 (25%), Gaps = 37/98 (37%)
Query: 29 ITTSKKPNLILNVDGVIAVAFVDLLRHSGSFTREEAQEYVEMGAINGLFRGQELLYAGMP 88
+TT K + + + L HS + T +E + L L Y
Sbjct: 270 LTTRFKQ--VTDFLSAATTTHISLDHHSMTLTPDEVKS---------LL----LKYLDCR 314
Query: 89 ISDVLKQNMGIGGVLSLLWFQRQLPPYVCKF--LEMSL 124
D LP V +S+
Sbjct: 315 PQD--------------------LPREVLTTNPRRLSI 332
Score = 33.7 bits (76), Expect = 0.024
Identities = 21/130 (16%), Positives = 43/130 (33%), Gaps = 45/130 (34%)
Query: 1 MRVKIIKEFVLQNFPTTPLLNYALEVEKITTSKKPNLILNVDGVIAVAFVDLLRHSGSFT 60
R+ II E +++ T N+ + + K +I + +++L
Sbjct: 328 RRLSIIAES-IRDGLAT-WDNW----KHVNCDKLTTIIE--------SSLNVL------E 367
Query: 61 REEAQEYVEMGAINGLFRGQELLYAGMPISDVLKQNMGIGGVLSLLWFQRQLPPY----- 115
E ++ + ++ F I +LSL+WF +
Sbjct: 368 PAEYRKMFDRLSV---FP------PSAHIPT---------ILLSLIWF--DVIKSDVMVV 407
Query: 116 VCKFLEMSLM 125
V K + SL+
Sbjct: 408 VNKLHKYSLV 417
>2p2w_A Citrate synthase; transferase, structural genomics, NPPSFA,
national project O structural and functional analyses;
HET: FLC; 1.90A {Thermotoga maritima}
Length = 367
Score = 33.6 bits (78), Expect = 0.019
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 2 RVKIIKEFVLQNFPTTPLLNYALEVEKITTSKKP-NLILNVD 42
R +K + ++FP + L A ++E+ S K N+ NVD
Sbjct: 259 RAVFLKRVLQEHFPDSKLFRIASKLEEYIVSNKIKNIYPNVD 300
>3tqg_A 2-methylcitrate synthase; energy metabolism, transferase; 2.30A
{Coxiella burnetii}
Length = 375
Score = 33.2 bits (77), Expect = 0.025
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 4/44 (9%)
Query: 2 RVKIIKEF---VLQNFPTTPLLNYALEVEKITTSKKPNLILNVD 42
R IIK + + N L + + +E +K L N+D
Sbjct: 269 RNAIIKSWAQKLAPNAADGYLFDISDAIENTMQDEK-KLFPNLD 311
>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 = 31.5 bits (70), Expect = 0.058
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 8/35 (22%)
Query: 109 QRQLPPYVCKFLEMSLMVTA-DHGPAVSGAHN-TI 141
++Q K L+ SL + A D PA+ A T+
Sbjct: 18 EKQ----ALKKLQASLKLYADDSAPAL--AIKATM 46
Score = 26.5 bits (57), Expect = 3.0
Identities = 5/23 (21%), Positives = 9/23 (39%), Gaps = 7/23 (30%)
Query: 25 EVEKITTSKK-------PNLILN 40
++K+ S K P L +
Sbjct: 21 ALKKLQASLKLYADDSAPALAIK 43
>3o8j_A 2-methylcitrate synthase; short chain fatty acids, propionate
metabolism, 2-methylcitr cycle, PRPC or 2-MCS, GLTA or
CS, 2-methy synthase; 2.41A {Salmonella enterica}
Length = 404
Score = 32.1 bits (74), Expect = 0.062
Identities = 8/44 (18%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 2 RVKIIKEF---VLQNFPTTPLLNYALEVEKITTSKKPNLILNVD 42
R ++IK + + + + + A +E + K + N+D
Sbjct: 298 RHQVIKRVAKQLSEEGGSLKMYHIADRLETVMWETK-KMFPNLD 340
>1a59_A Citrate synthase; cold-activity; HET: COA CIT; 2.09A {Antarctic
bacterium ds2-3r} SCOP: a.103.1.1
Length = 378
Score = 31.7 bits (73), Expect = 0.087
Identities = 8/44 (18%), Positives = 18/44 (40%), Gaps = 4/44 (9%)
Query: 2 RVKIIKEF---VLQNFPTTPLLNYALEVEKITTSKKPNLILNVD 42
RV +K +++++ +L +E K + N+D
Sbjct: 278 RVPTMKSALDAMIKHYDRPEMLGLYNGLEAAMEEAK-QIKPNLD 320
>3e2v_A 3'-5'-exonuclease; structural genomics, hydrolase, PSI-2, protein
initiative, NEW YORK SGX research center for structural
GEN nysgxrc; 1.50A {Saccharomyces cerevisiae}
Length = 401
Score = 31.6 bits (71), Expect = 0.093
Identities = 9/69 (13%), Positives = 25/69 (36%), Gaps = 10/69 (14%)
Query: 3 VKIIKEFVLQNFPTTPLLNYALEVEKITTSKKPNLILNVDGVIAVAFVDLLRHSGSFTRE 62
V+I++ F + F ++ ++S + V+ HS + +
Sbjct: 211 VQILERF-VVGFTDEKDTFQLQKLGASSSSGFYKFHPDRKLVV---------HSFTGSAI 260
Query: 63 EAQEYVEMG 71
+ Q+ + +
Sbjct: 261 DLQKLLNLS 269
>3ipw_A Hydrolase TATD family protein; niaid, ssgcid, seattle structural
genomics center for infect disease, dysentery, liver
abcess; 1.95A {Entamoeba histolytica hm-1}
Length = 325
Score = 30.8 bits (70), Expect = 0.15
Identities = 12/54 (22%), Positives = 17/54 (31%), Gaps = 13/54 (24%)
Query: 34 KPNLILNVDGVIAVAFVDLLRHSGSFTREEAQEYVEMGA---INGLF-RGQELL 83
K GV+ H T EE + + G + G + ELL
Sbjct: 187 KELGYNGCKGVV---------HCFDGTEEEMNQILNEGWDIGVTGNSLQSIELL 231
>1iom_A Citrate synthase; open form, riken structural genomics/proteomics
in RSGI, structural genomics, lyase; 1.50A {Thermus
thermophilus} SCOP: a.103.1.1 PDB: 1ixe_A*
Length = 377
Score = 29.8 bits (68), Expect = 0.38
Identities = 6/45 (13%), Positives = 15/45 (33%), Gaps = 9/45 (20%)
Query: 2 RVKIIKEF---VLQNFPTTPLLNYALEVEKITT----SKK--PNL 37
R ++++ V + + VE+ + PN+
Sbjct: 267 RAGVLEKLARLVAEKHGHSKEYQILKIVEEEAGKVLNPRGIYPNV 311
>2xio_A Putative deoxyribonuclease tatdn1; hydrolase; 1.19A {Homo sapiens}
Length = 301
Score = 28.8 bits (65), Expect = 0.64
Identities = 14/54 (25%), Positives = 19/54 (35%), Gaps = 14/54 (25%)
Query: 34 KPNLILNVDGVIAVAFVDLLRHSGSFTREEAQEYVEMGA---ING--LFRGQEL 82
K N V GV+ HS T+E A +++ NG L L
Sbjct: 159 KRNRDRCVGGVV---------HSFDGTKEAAAALIDLDLYIGFNGCSLKTEANL 203
>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP
ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1
c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D*
1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D*
2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D
2w6e_D ...
Length = 482
Score = 28.4 bits (64), Expect = 1.0
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 68 VEMGAINGLFRGQELLYAGMPIS 90
+ M GL RGQ++L +G PI
Sbjct: 65 IAMDGTEGLVRGQKVLDSGAPIR 87
>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability,
potential tentoxin binding hydrolase; 3.20A {Spinacia
oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB:
1kmh_B*
Length = 498
Score = 28.1 bits (63), Expect = 1.5
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 68 VEMGAINGLFRGQELLYAGMPIS 90
V M A +GL RG E++ G P+S
Sbjct: 77 VAMSATDGLTRGMEVIDTGAPLS 99
>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC
F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP:
a.69.1.1 b.49.1.1 c.37.1.11
Length = 473
Score = 27.7 bits (62), Expect = 1.7
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 68 VEMGAINGLFRGQELLYAGMPIS 90
+ M + +GL RG E++ G PIS
Sbjct: 62 IAMASTDGLIRGMEVIDTGAPIS 84
>2f3o_A PFLD, PFL2, pyruvate formate-lyase 2; glycerol dehydratase, glycyl
R hyperthermophilic, unknown function; HET: PGE; 2.90A
{Archaeoglobus fulgidus}
Length = 776
Score = 27.6 bits (61), Expect = 2.2
Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 10/53 (18%)
Query: 56 SGSFTREEAQEYVE-----MGAINGLF-RGQELLYAGMPISDVLKQNMGIGGV 102
G RE A + + I F E ++G + Q + IGG
Sbjct: 292 EGRINRELAFDILANLWIKTNEIVPAFDSLLEQYFSGQATN----QAVTIGGC 340
>1o7x_A Citrate synthase; lyase, tricarboxylic acid cycle; 2.7A {Sulfolobus
solfataricus} SCOP: a.103.1.1
Length = 377
Score = 27.5 bits (62), Expect = 2.2
Identities = 8/47 (17%), Positives = 17/47 (36%), Gaps = 6/47 (12%)
Query: 2 RVKIIKEF---VLQNF-PTTPLLNYALEVEKITTS--KKPNLILNVD 42
R KI K+ +++ A ++E++ + N D
Sbjct: 267 RAKIFKKLALTLIERNADARRYFEIAQKLEELGIKQFSSKGIYPNTD 313
>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 = 3.0
Identities = 17/67 (25%), Positives = 23/67 (34%), Gaps = 17/67 (25%)
Query: 82 LLYAGMPISDVLKQNMGIGGVLSLLWFQRQLPPY--VCKFLEMSLMVTADHGPAVSGAHN 139
LL PIS L IG ++ QL Y K L + + +G
Sbjct: 231 LLSI--PISCPL-----IG----VI----QLAHYVVTAKLLGFTPGELRSYLKGATGHSQ 275
Query: 140 TIVCARA 146
+V A A
Sbjct: 276 GLVTAVA 282
>2ifc_A Citrate synthase; oxaloacetate, EC 2.3.3.1, transferase; 1.70A
{Thermoplasma acidophilum} PDB: 2r9e_A* 2r26_A*
Length = 385
Score = 27.1 bits (61), Expect = 3.2
Identities = 11/49 (22%), Positives = 16/49 (32%), Gaps = 10/49 (20%)
Query: 2 RVKIIKEF---VLQNFP-TTPLLNYALEVEKITT----SKKPNLILNVD 42
R KI K + P + A ++E SK + N D
Sbjct: 272 RAKIFKGIAEKLSSKKPEVHKVYEIATKLEDFGIKAFGSKG--IYPNTD 318
>3kd8_A 2,3-bisphosphoglycerate-independent phosphoglycerate mutase;
structural genomics, PSI-2, protein genomics, MCSG,
glycolysis isomerase; 2.60A {Thermoplasma acidophilum}
PDB: 3idd_A
Length = 399
Score = 26.7 bits (58), Expect = 4.4
Identities = 8/33 (24%), Positives = 10/33 (30%), Gaps = 1/33 (3%)
Query: 107 WFQRQLPPYVCKFLEMSLMVTADHG-PAVSGAH 138
R + P + VT DH P H
Sbjct: 319 DIDRAMEPLKSIGDHAVICVTGDHSTPCSFKDH 351
>1vgm_A 378AA long hypothetical citrate synthase; open form, transferase;
2.00A {Sulfolobus tokodaii}
Length = 378
Score = 26.0 bits (58), Expect = 5.9
Identities = 9/47 (19%), Positives = 14/47 (29%), Gaps = 6/47 (12%)
Query: 2 RVKIIKEF---VLQNF-PTTPLLNYALEVEKITTS--KKPNLILNVD 42
R KI K + A +EK+ ++ N D
Sbjct: 268 RAKIFKTLAKSFAEKNENVKKYYEIAERIEKLGVDTFGSKHIYPNTD 314
>1r9d_A Glycerol dehydratase; radical SAM, lyase; 1.80A {Clostridium
butyricum} SCOP: c.7.1.1 PDB: 1r8w_A 1r9e_A
Length = 787
Score = 26.4 bits (58), Expect = 6.1
Identities = 12/56 (21%), Positives = 23/56 (41%), Gaps = 10/56 (17%)
Query: 53 LRHSGSFTREEAQEYVE-----MGAINGLF-RGQELLYAGMPISDVLKQNMGIGGV 102
+ + T + AQE ++ + IN + + G P+ QN+ +GG
Sbjct: 296 YENDKNITDKFAQELIDCIWIKLNDINKVRDEISTKHFGGYPMY----QNLIVGGQ 347
>2ibp_A Citrate synthase; disulfide bond, homodimer, thermophilic, C
transferase; 1.60A {Pyrobaculum aerophilum}
Length = 409
Score = 26.0 bits (58), Expect = 6.7
Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 8/49 (16%)
Query: 2 RVKIIKEF---VLQNF-PTTPLLNYALEVEKITTS----KKPNLILNVD 42
R KI KEF + F L A +E+ S ++ L NVD
Sbjct: 298 RAKIFKEFSRDYVAKFGDPQNLFAIASAIEQEVLSHPYFQQRKLYPNVD 346
>3msu_A Citrate synthase; helix bundle, APHA-beta fold, csgid, center for
structural G of infectious diseases, transferase; HET:
OAA; 1.84A {Francisella tularensis}
Length = 427
Score = 26.1 bits (58), Expect = 6.9
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 2 RVKIIKEF---VLQNF--PTTPLLNYALEVEKITTS----KKPNLILNVD---GVI 45
R +K+ +L PLL A ++E+I + L NVD G+I
Sbjct: 319 RATAMKKNCEEILAKLGHSDNPLLTVAKKLEEIALQDEFFIERKLFSNVDFYSGII 374
>2h12_A Citrate synthase; acidophIle, acetic acid resistance, allostery,
transferase; HET: CMX; 1.85A {Acetobacter aceti}
Length = 436
Score = 25.7 bits (57), Expect = 7.9
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 12/56 (21%)
Query: 2 RVKIIKEFVLQNFPTT-----PLLNYALEVEKITTS----KKPNLILNVD---GVI 45
R KI+++ + PLL+ A+E+EKI S + L NVD G+I
Sbjct: 322 RAKIMQQTCHEVLTELGIKDDPLLDLAVELEKIALSDDYFVQRKLYPNVDFYSGII 377
>3qe2_A CPR, P450R, NADPH--cytochrome P450 reductase; cypor, antley-bixler
syndrome, flavoprotein, FMN, FAD, oxidoreductase; HET:
FAD FMN NAP; 1.75A {Homo sapiens} PDB: 3qfc_A* 3qfr_A*
1amo_A* 1j9z_A* 1ja0_A* 1ja1_A* 3es9_A* 3ojw_A* 3ojx_A*
3fjo_A* 1b1c_A*
Length = 618
Score = 25.8 bits (57), Expect = 8.6
Identities = 5/22 (22%), Positives = 12/22 (54%)
Query: 48 AFVDLLRHSGSFTREEAQEYVE 69
F D++ G+ +A +Y++
Sbjct: 583 TFYDIVAELGAMEHAQAVDYIK 604
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 0.139 0.399
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,446,013
Number of extensions: 145552
Number of successful extensions: 373
Number of sequences better than 10.0: 1
Number of HSP's gapped: 373
Number of HSP's successfully gapped: 29
Length of query: 161
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 75
Effective length of database: 4,300,587
Effective search space: 322544025
Effective search space used: 322544025
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: 53 (24.0 bits)