RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15697
(332 letters)
>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 = 51.2 bits (122), Expect = 3e-07
Identities = 61/397 (15%), Positives = 119/397 (29%), Gaps = 166/397 (41%)
Query: 63 THGPSKSSICRSIHEVVP--------VIVDTFFQRMVKWPEENL--NDIPMT-------F 105
+HG S+ + VP + + F + + + P E +D P T F
Sbjct: 12 SHG----SLEHVLL--VPTASFFIASQLQEQFNKILPE-PTEGFAADDEPTTPAELVGKF 64
Query: 106 LRKGGFPNVAGCVDG------TMVLIDAPNEHEDQFVNRNGDHALNVMAICGP------- 152
L G+ V+ V+ VL E E+ ++ N HAL +
Sbjct: 65 L---GY--VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHAL-AAKLLQENDTTLVK 118
Query: 153 ------NYKFYAVNA------NWPGSV-------HDARVMR------NSMVYRKFDE--- 184
NY A S +A+++ N+ Y F+E
Sbjct: 119 TKELIKNY-ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY--FEELRD 175
Query: 185 --EGWRPFPDAVI------LG---------DSAYP----LKEWLIPPRTRNPDAAADQRF 223
+ + +I L + + + EWL NP D+ +
Sbjct: 176 LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL-----ENPSNTPDKDY 230
Query: 224 LRCHKRTRRLIENSF---GILKEKFPCLNYMR------LSP-QFAGMVVLASTTLHN--- 270
L I S G+++ +Y+ +P + L T H+
Sbjct: 231 LLS-------IPISCPLIGVIQ----LAHYVVTAKLLGFTPGELRS--YLKGATGHSQGL 277
Query: 271 -----IALTIDRDNENQN------------VEIHD------------DEAEDDGEEE--- 298
IA T ++ + V ++ +++ ++ E
Sbjct: 278 VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP 337
Query: 299 --AVDDPDEIDEEEQPRQDRNN---PGTQRLA-RLLN 329
++ + E+ Q ++ N P +++ L+N
Sbjct: 338 MLSISNLT--QEQVQDYVNKTNSHLPAGKQVEISLVN 372
Score = 48.1 bits (114), Expect = 3e-06
Identities = 45/267 (16%), Positives = 84/267 (31%), Gaps = 75/267 (28%)
Query: 1 MTPFAFKEAFRLSATQVEFILEEIAPALTTPTERNVALSAKEKVLSCLHWMGVGSPYHII 60
TP + + + + ++ +A A T + + + K ++ L ++G
Sbjct: 258 FTPGELRSYLKGATGHSQGLVTAVAIA-ETDSWES-FFVSVRKAITVLFFIG-------- 307
Query: 61 GATHGPSKSSICRSIHEVVPVIVDTFFQRMVKWPEENLNDIP--MTFLRKGGFPNVAGCV 118
R +E P + +++ EN +P M L +++
Sbjct: 308 -----------VRC-YEAYPNT--SLPPSILEDSLENNEGVPSPM--L------SISNLT 345
Query: 119 DGTM-VLIDAPNEH--EDQFVN---RNGDHALNVMAICGPNYKFYAVNANWPGSVHDARV 172
+ ++ N H + V NG L V GP Y +N ++ A+
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVV---SGPPQSLYGLNL----TLRKAKA 398
Query: 173 MRNSMVYR-KFDEE----GWR------PF-----PDAV--ILGDSA-----YPLKEWLIP 209
R F E R PF A I D + K+ IP
Sbjct: 399 PSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 210 -PRTRNPDAAADQRFLRCHKRTRRLIE 235
T + +D R L + R+++
Sbjct: 459 VYDTFD---GSDLRVLS-GSISERIVD 481
Score = 31.2 bits (70), Expect = 0.55
Identities = 17/119 (14%), Positives = 33/119 (27%), Gaps = 49/119 (41%)
Query: 53 VGSPYHIIGATHGPSKSSICRSIHEVVPVIVDTFFQRMVKWPEENLNDIPM--TFLRKGG 110
V SP+H S + + +I + V + +++ IP+ TF
Sbjct: 423 VASPFH----------SHL---LVPASDLINKDLVKNNVSFNAKDIQ-IPVYDTF----- 463
Query: 111 FPNVAGCVDGTMVLIDAPNEHED-QFVNRNGDHALNVMAICGPNYKFYAVNANWPGSVH 168
DG D + ++ + + I P W +
Sbjct: 464 --------DG-----------SDLRVLSGSISERIVDCIIRLP--------VKWETTTQ 495
Score = 30.4 bits (68), Expect = 0.93
Identities = 27/122 (22%), Positives = 41/122 (33%), Gaps = 38/122 (31%)
Query: 17 VEFILEEIAPALTTPTERNVALSAKEKVLSCLHWMGVGSP-YHIIGATH-GPSKSSICRS 74
+ I +++ + NV+ +AK+ + P Y T G S +
Sbjct: 436 SDLINKDLV-------KNNVSFNAKD--IQI--------PVYD----TFDG---SDLRVL 471
Query: 75 IHEVVPVIVDTFFQRMVKWPEENLNDIPMT----FLRKGGFPNVAGCV----DGTMV-LI 125
+ IVD + VKW E T F GG + DGT V +I
Sbjct: 472 SGSISERIVDCIIRLPVKW--ETTTQFKATHILDFGP-GGASGLGVLTHRNKDGTGVRVI 528
Query: 126 DA 127
A
Sbjct: 529 VA 530
>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 = 0.009
Identities = 45/331 (13%), Positives = 85/331 (25%), Gaps = 117/331 (35%)
Query: 34 RNVALSAKEKVLSCLHWMGVGSPYHIIGATHGPSKS----SICRSIHEVVPVIVDTFFQR 89
R L + + + GS G K+ +C S V
Sbjct: 141 RQALLELRPAKNVLIDGVL-GS---------G--KTWVALDVCLSYK------VQCKMDF 182
Query: 90 MVKW--------PEENLNDIPMTFLRKGGFPNVAGCVDGTMVLIDAPNEHEDQ----FVN 137
+ W PE L + L PN D + + + + + +
Sbjct: 183 KIFWLNLKNCNSPETVL--EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 138 RNGDHAL----NVMAICGPNYKFYAVNANWPGSVHDA-----RVM---RNSMV------- 178
+ ++ L NV +A +++ R V
Sbjct: 241 KPYENCLLVLLNV----------------QNAKAWNAFNLSCKILLTTRFKQVTDFLSAA 284
Query: 179 --YRKFDEEGWRPF-PD------AVILGDSA----------YPLKEWLIPPRTRNPDAAA 219
+ PD L P + +I R+ A
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW 344
Query: 220 DQ-RFLRCHKRTRRLIENSFGILKEK-----------FP----------CLNYMRLSPQF 257
D + + C + +IE+S +L+ FP L + +
Sbjct: 345 DNWKHVNC-DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403
Query: 258 AGMVVLASTTLHNIALTIDRDNENQNVEIHD 288
+VV LH +L +++ + + I
Sbjct: 404 VMVVV---NKLHKYSL-VEKQPKESTISIPS 430
>2ayu_A Nucleosome assembly protein; histone chaperone; 3.00A
{Saccharomyces cerevisiae} SCOP: d.305.1.1 PDB: 2z2r_A
Length = 417
Score = 32.2 bits (72), Expect = 0.20
Identities = 10/48 (20%), Positives = 20/48 (41%)
Query: 272 ALTIDRDNENQNVEIHDDEAEDDGEEEAVDDPDEIDEEEQPRQDRNNP 319
AL + + + + + +DE EDD DD + +E++
Sbjct: 364 ALEFEFEEDEEEADEDEDEEEDDDHGLEDDDGESAEEQDDFAGRPEQA 411
Score = 29.5 bits (65), Expect = 1.8
Identities = 9/42 (21%), Positives = 15/42 (35%)
Query: 280 ENQNVEIHDDEAEDDGEEEAVDDPDEIDEEEQPRQDRNNPGT 321
E +DE E D +E+ +D D E++
Sbjct: 363 AALEFEFEEDEEEADEDEDEEEDDDHGLEDDDGESAEEQDDF 404
Score = 29.1 bits (64), Expect = 2.0
Identities = 7/44 (15%), Positives = 17/44 (38%)
Query: 280 ENQNVEIHDDEAEDDGEEEAVDDPDEIDEEEQPRQDRNNPGTQR 323
+ + + ++D EE+ ++ D E QD ++
Sbjct: 367 FEFEEDEEEADEDEDEEEDDDHGLEDDDGESAEEQDDFAGRPEQ 410
Score = 28.0 bits (61), Expect = 4.5
Identities = 9/44 (20%), Positives = 19/44 (43%)
Query: 276 DRDNENQNVEIHDDEAEDDGEEEAVDDPDEIDEEEQPRQDRNNP 319
++E + E D+E +DD E D ++++ + P
Sbjct: 369 FEEDEEEADEDEDEEEDDDHGLEDDDGESAEEQDDFAGRPEQAP 412
>3cx5_F Cytochrome B-C1 complex subunit 6; complex III, electron transfer
complex, cytochrome BC1 complex,
mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ
HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces
cerevisiae} SCOP: f.28.1.1 PDB: 3cxh_F* 1ezv_H* 1kb9_F*
1p84_F* 2ibz_H* 1kyo_F*
Length = 146
Score = 31.0 bits (69), Expect = 0.28
Identities = 9/34 (26%), Positives = 18/34 (52%)
Query: 276 DRDNENQNVEIHDDEAEDDGEEEAVDDPDEIDEE 309
D D + + DD+ +++ EEE D +++ E
Sbjct: 50 DEDEDEDEDDDDDDDEDEEEEEEVTDQLEDLREH 83
Score = 30.6 bits (68), Expect = 0.34
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 278 DNENQNVEIHDDEAEDDGEEEAVDDPDEIDEEEQPRQD 315
+ E + E D++ ++D +E+ DD DE +EEE+ D
Sbjct: 38 EGEEKEEENGDEDEDEDEDEDDDDDDDEDEEEEEEVTD 75
Score = 29.9 bits (66), Expect = 0.60
Identities = 11/37 (29%), Positives = 20/37 (54%)
Query: 276 DRDNENQNVEIHDDEAEDDGEEEAVDDPDEIDEEEQP 312
E + +DE ED+ E++ DD ++ +EEE+
Sbjct: 37 AEGEEKEEENGDEDEDEDEDEDDDDDDDEDEEEEEEV 73
Score = 26.4 bits (57), Expect = 10.0
Identities = 7/36 (19%), Positives = 20/36 (55%)
Query: 276 DRDNENQNVEIHDDEAEDDGEEEAVDDPDEIDEEEQ 311
+ + E ++ ++D +E+ +D D+ D+E++
Sbjct: 32 HEEKAAEGEEKEEENGDEDEDEDEDEDDDDDDDEDE 67
>2d4v_A Isocitrate dehydrogenase; alpha and beta protein,
isocitrate/isopropylmalate dehydrogenase-like fold,
oxidoreductase; HET: FLC NAD; 1.90A {Acidithiobacillus
thiooxidans}
Length = 429
Score = 30.4 bits (69), Expect = 0.86
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 8/33 (24%)
Query: 77 EVVPVIVDTFFQRMVKWPEE-------NLN-DI 101
+ VI D F Q+++ PE+ NLN D
Sbjct: 289 IIKDVIADNFLQQILLRPEDYSVVATLNLNGDY 321
>1q1r_A Putidaredoxin reductase; glutathione reductase fold,
oxidoreductase; HET: FAD; 1.91A {Pseudomonas putida}
SCOP: c.3.1.5 c.3.1.5 d.87.1.1 PDB: 1q1w_A* 3lb8_A*
Length = 431
Score = 30.3 bits (69), Expect = 0.98
Identities = 10/54 (18%), Positives = 20/54 (37%), Gaps = 5/54 (9%)
Query: 166 SVHDARVMRNSMVYRKFDEEGWRPFPDAVILGDSAYPLKEWLIPPRTRNPDAAA 219
+V+ ++ + + +LGD + PLKE + + A A
Sbjct: 376 TVNRPVEF---NQSKQIITDRLPV--EPNLLGDESVPLKEIIAAAKAELSSAPA 424
>1hqs_A Isocitrate dehydrogenase; glyoxylate bypass, bsidh, tricarboxylic
acid cycle, oxidoreductase, protein phosphorylation,
NADP; HET: CME CIT; 1.55A {Bacillus subtilis} SCOP:
c.77.1.1
Length = 423
Score = 29.2 bits (66), Expect = 1.8
Identities = 15/68 (22%), Positives = 25/68 (36%), Gaps = 9/68 (13%)
Query: 42 EKVLSCLHWMGVGSPYHIIGATHGPSKSSICRSIHEVVPVIVDTFFQRMVKWPEE----- 96
+KV + + + A S++ I + I D F Q+++ P E
Sbjct: 246 DKVFTWAQYDRIAEEQGKDAANKAQSEAEAAGKI-IIKDSIADIFLQQILTRPNEFDVVA 304
Query: 97 --NLN-DI 101
NLN D
Sbjct: 305 TMNLNGDY 312
>1tyo_A Isocitrate dehydrogenase; enzyme-ethenonadp complex,
oxidoreductase; HET: ENP; 2.15A {Aeropyrum pernix} PDB:
1v94_A 1xgv_A 1xkd_A*
Length = 435
Score = 29.2 bits (66), Expect = 2.2
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 8/29 (27%)
Query: 81 VIVDTFFQRMVKWPEE-------NLN-DI 101
I D Q+++ P + NLN D
Sbjct: 284 RIADNMLQQIITRPWDYQVIVAPNLNGDY 312
>1twf_F ABC23, DNA-directed RNA polymerases I, II, and III 23 KD
polypeptide; transcription, mRNA, multiprotein complex;
HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP:
a.143.1.2 PDB: 1i3q_F 1i6h_F 1k83_F* 1nik_F 1nt9_F
1pqv_F 1r5u_F 1r9s_F* 1r9t_F* 1sfo_F* 1twa_F* 1twc_F*
1i50_F* 1twg_F* 1twh_F* 1wcm_F 1y1v_F 1y1w_F 1y1y_F
1y77_F* ...
Length = 155
Score = 28.5 bits (63), Expect = 2.2
Identities = 6/43 (13%), Positives = 15/43 (34%)
Query: 276 DRDNENQNVEIHDDEAEDDGEEEAVDDPDEIDEEEQPRQDRNN 318
+ + N D + E +EE ++ + + E +
Sbjct: 5 EEAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKT 47
>2e0c_A 409AA long hypothetical NADP-dependent isocitrate dehydrogenase;
homedimer, oxidoreductase; 2.00A {Sulfolobus tokodaii
str} PDB: 2dht_A 2e5m_A*
Length = 409
Score = 29.1 bits (66), Expect = 2.2
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 8/29 (27%)
Query: 81 VIVDTFFQRMVKWPEE-------NLN-DI 101
I D FQ+++ PEE N+N D
Sbjct: 271 RIADNMFQQIIIRPEEYDIILAPNVNGDY 299
>2iv0_A Isocitrate dehydrogenase; oxidoreductase, tricarboxylic acid cycle,
domain swapping, phosphorylation, aromatic cluster,
NADP; 2.5A {Archaeoglobus fulgidus}
Length = 412
Score = 28.8 bits (65), Expect = 2.6
Identities = 9/29 (31%), Positives = 13/29 (44%), Gaps = 8/29 (27%)
Query: 81 VIVDTFFQRMVKWPEE-------NLN-DI 101
I D FQ+++ +E NLN D
Sbjct: 274 RIADNMFQQILTRTDEYDVIALPNLNGDY 302
>3dms_A Isocitrate dehydrogenase [NADP]; struc genomics, seattle structural
genomics center for infectious ssgcid, glyoxylate
bypass, manganese; 1.65A {Burkholderia pseudomallei}
PDB: 1pb1_A* 1ai3_A* 1ika_A* 1ai2_A* 1p8f_A* 1pb3_A
1sjs_A 3icd_A 3lcb_C* 4icd_A* 5icd_A* 9icd_A* 1bl5_A*
1cw7_A* 1idd_A 1ide_A* 1hj6_A* 7icd_A 8icd_A* 6icd_A ...
Length = 427
Score = 28.8 bits (65), Expect = 2.6
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 8/29 (27%)
Query: 81 VIVDTFFQRMVKWPEE-------NLN-DI 101
I D F Q+++ P E NLN D
Sbjct: 290 SIADAFLQQILLRPAEYDVIATLNLNGDY 318
>3c2q_A Uncharacterized conserved protein; putative LOR/SDH, structural
genomics, PSI-2, protein structure initiative; 2.00A
{Methanococcus maripaludis S2}
Length = 345
Score = 27.8 bits (62), Expect = 4.6
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 251 MRLSPQFAGMVVLASTTLHNIA 272
MR + MV++ ST LH++A
Sbjct: 267 MRTTVMDKKMVIMLSTLLHSVA 288
>2zd7_A VPS75, vacuolar protein sorting-associated protein 75; histone
chaperone, VPS75, NAP1, nucleus, phosphoprotein; 1.85A
{Saccharomyces cerevisiae} PDB: 3q66_A* 3q68_A* 3c9d_A
3c9b_A 3q33_B* 3q35_B* 3dm7_A
Length = 264
Score = 27.8 bits (61), Expect = 5.3
Identities = 5/32 (15%), Positives = 11/32 (34%)
Query: 288 DDEAEDDGEEEAVDDPDEIDEEEQPRQDRNNP 319
+DE + G D D+ + ++
Sbjct: 224 EDEEGESGLSADGDSEDDDGSLGEVDLPLSDE 255
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.0 bits (59), Expect = 6.3
Identities = 10/43 (23%), Positives = 20/43 (46%), Gaps = 5/43 (11%)
Query: 280 ENQNVEIHD-DEAEDDGEEE----AVDDPDEIDEEEQPRQDRN 317
E Q + + D A E+E A D +E ++ + + ++N
Sbjct: 92 EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKN 134
>3h0g_F DNA-directed RNA polymerases I, II, and III subunit rpabc2;
transcription, multi-protein complex, DNA- binding,
magnesium; 3.65A {Schizosaccharomyces pombe}
Length = 142
Score = 26.6 bits (58), Expect = 8.3
Identities = 6/31 (19%), Positives = 14/31 (45%)
Query: 288 DDEAEDDGEEEAVDDPDEIDEEEQPRQDRNN 318
+DEA ++ DE++ ++ Q +
Sbjct: 6 EDEAFGMDGAVMEEEVDELEMIDENGQSQQG 36
>1nvp_C Transcription initiation factor IIA beta chain; transcription
regulation, DNA, complex, transcription/DNA complex;
2.10A {Homo sapiens} SCOP: b.56.1.1
Length = 76
Score = 25.3 bits (55), Expect = 8.8
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 288 DDEAEDDGEEEAVDDPDEIDEEEQPRQD 315
D + E++ D DE +E ++
Sbjct: 6 DGQVEEEPLNSEDDVSDEEGQELFDTEN 33
>4af8_A Metacaspase MCA2; hydrolase, cysteine peptidase, caspase/hemoglobin
fold; 1.40A {Trypanosoma brucei} PDB: 4afp_A 4afv_A
4afr_A
Length = 367
Score = 27.3 bits (59), Expect = 9.1
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 2/37 (5%)
Query: 149 ICGPNYKFYAVNANWPGSVHDARVMRNSMVYRKFDEE 185
G NY Y +A G +D + M ++ R
Sbjct: 97 FIGINY--YGTSAALSGCCNDVKQMLATLQKRGLPIN 131
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
0.320 0.137 0.422
Gapped
Lambda K H
0.267 0.0431 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,442,586
Number of extensions: 338216
Number of successful extensions: 791
Number of sequences better than 10.0: 1
Number of HSP's gapped: 754
Number of HSP's successfully gapped: 39
Length of query: 332
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 238
Effective length of database: 4,077,219
Effective search space: 970378122
Effective search space used: 970378122
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 (21.8 bits)
S2: 57 (26.5 bits)