RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7275
(150 letters)
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB:
1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 76.3 bits (187), Expect = 1e-17
Identities = 16/94 (17%), Positives = 34/94 (36%), Gaps = 6/94 (6%)
Query: 1 MYDTGFPYTELVVGIDIV---NHKYAIEWMQDFEVFQEALEADSSYISNLTRSMSLALDE 57
G + +D++ + ++ +D + L+ D S + M + E
Sbjct: 167 DLRLGATTIPALNKVDLLSEEEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTE 226
Query: 58 FYSTLKVVGFSSVSGEGTEELLQLIKLA---GED 88
++V+ S+ + EG E+L L D
Sbjct: 227 VLPPVRVLYLSAKTREGFEDLETLAYEHYCTCGD 260
>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 = 45.8 bits (108), Expect = 1e-06
Identities = 30/176 (17%), Positives = 63/176 (35%), Gaps = 53/176 (30%)
Query: 3 DTGFPYTELVVGIDIVNHKYAIEWMQDFEVFQEALEADSSYISNLTRSMSL----ALDEF 58
D +T+ G++I +EW+++ + D Y+ ++ S L L +
Sbjct: 204 DAEKVFTQ---GLNI------LEWLEN-----PSNTPDKDYLLSIPISCPLIGVIQLAHY 249
Query: 59 YSTLKVVG---------FSSVSGEGTEELL--QLIKLAG--EDYEKNYR--VE---WIRL 100
T K++G +G + L+ I E + + R + +I +
Sbjct: 250 VVTAKLLGFTPGELRSYLKGATGHS-QGLVTAVAIAETDSWESFFVSVRKAITVLFFIGV 308
Query: 101 RDEKA------KSEQLEKREQH-FALPTP---------QPLWASCDRGNCNLPTDK 140
R +A LE ++ +P+P + + ++ N +LP K
Sbjct: 309 RCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGK 364
Score = 28.1 bits (62), Expect = 1.3
Identities = 17/91 (18%), Positives = 29/91 (31%), Gaps = 38/91 (41%)
Query: 31 EVFQEALEADSSYIS-------NLTRS-------MSLALDEFYSTLKVVGFS-------- 68
++F+E E +SY + T+ M A + LK G
Sbjct: 1705 KIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAA---FEDLKSKGLIPADATFAG 1761
Query: 69 -SVSGE-----------GTEELLQLIKLAGE 87
S+ GE E L++++ G
Sbjct: 1762 HSL-GEYAALASLADVMSIESLVEVVFYRGM 1791
>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics,
nysgxrc T16, GTPase, PSI, protein structure initiative;
2.00A {Escherichia coli} SCOP: c.37.1.8
Length = 210
Score = 31.4 bits (72), Expect = 0.067
Identities = 9/29 (31%), Positives = 17/29 (58%)
Query: 54 ALDEFYSTLKVVGFSSVSGEGTEELLQLI 82
A+ F ++V FSS+ +G ++L Q +
Sbjct: 165 AVLAFNGDVQVETFSSLKKQGVDKLRQKL 193
>3gl5_A Putative DSBA oxidoreductase SCO1869; probable DSBA oxidoreductase
structural genomics, PSI-2, protein structure
initiative; HET: MSE; 2.15A {Streptomyces coelicolor A3}
Length = 239
Score = 29.9 bits (66), Expect = 0.25
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 17 IVNHKYAIEWMQDFEVFQEALEA 39
+++ Y + Q EVF +AL
Sbjct: 188 VLDRAYGVSGAQPAEVFTQALTQ 210
>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria,
structural genomics, structural genomics consortium,
SGC, unknown function; HET: GDP; 2.01A {Plasmodium
falciparum}
Length = 228
Score = 29.7 bits (67), Expect = 0.25
Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 4/59 (6%)
Query: 55 LDEFYSTLKVVGFSSVSGEGTEELLQLIKLAGEDYEKNYRVEWIRLRDEKAKSEQLEKR 113
LD + +K FS+++G G E+ + KN + E I L E+ + +L +
Sbjct: 172 LDNVKNPIKFSSFSTLTGVGVEQAKITAC----ELLKNDQAESILLDQEQLLNTKLGET 226
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 29.6 bits (67), Expect = 0.41
Identities = 14/109 (12%), Positives = 36/109 (33%), Gaps = 14/109 (12%)
Query: 23 AIEWMQDFEVFQEALEADSSYI-----SNLTRSMSLALDEFYSTL---KVVGFSSVSGEG 74
+ + +V E + ++ ++ + L Y + KV+ S++ +G
Sbjct: 123 SAPTPYEDDVVNLFKEMEIPFVVVVNKIDVLGEKAEELKGLYESRYEAKVLLVSALQKKG 182
Query: 75 TEELLQLI-KLAGEDYEKNYRVEWIRLRDEKAKSEQLEKREQHFALPTP 122
+++ + I ++ D E Y + I + P
Sbjct: 183 FDDIGKTISEILPGDEEIPYLGDLID-----GGDLVILVVPIDLGAPKG 226
>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase,
cell division, cell cycle, SEP GTP-binding; 2.20A
{Burkholderia thailandensis}
Length = 223
Score = 29.2 bits (66), Expect = 0.44
Identities = 7/27 (25%), Positives = 12/27 (44%)
Query: 56 DEFYSTLKVVGFSSVSGEGTEELLQLI 82
+ L V FS++ G ++ LI
Sbjct: 179 AGYAGKLTVQLFSALKRTGLDDAHALI 205
>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell
cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima}
PDB: 3pr1_A
Length = 195
Score = 28.7 bits (65), Expect = 0.61
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 57 EFYSTLKVVGFSSVSGEGTEELLQLI 82
Y ++ SSV+GEG ELL LI
Sbjct: 163 SKYGEYTIIPTSSVTGEGISELLDLI 188
>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell
membrane, ION transport, transmembrane; HET: GNP; 1.90A
{Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*
Length = 165
Score = 28.6 bits (65), Expect = 0.62
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 64 VVGFSSVSGEGTEELLQLIKLAGED 88
VV S+ G EEL + I +A +D
Sbjct: 141 VVPLSAAKKMGIEELKKAISIAVKD 165
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 28.7 bits (64), Expect = 0.71
Identities = 10/56 (17%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 62 LKVVGFSSVSGEGTEELLQLIKLAGEDYEKNYRVEWIRLRDEKAKSEQLEKREQHF 117
L + S++ G G + + + I ++ +R EK E++E+ + +
Sbjct: 310 LNPIKISALKGTGIDLVKEEI------------IKTLRPLAEKVAREKIERELRRY 353
>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP;
1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A*
1svw_A*
Length = 195
Score = 28.3 bits (64), Expect = 0.81
Identities = 6/26 (23%), Positives = 12/26 (46%)
Query: 57 EFYSTLKVVGFSSVSGEGTEELLQLI 82
+++ FSS + +G +E I
Sbjct: 164 NIDPEDELILFSSETKKGKDEAWGAI 189
>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 = 28.0 bits (61), Expect = 0.89
Identities = 6/25 (24%), Positives = 11/25 (44%), Gaps = 1/25 (4%)
Query: 103 EKAKSEQLEKREQHFALPTPQPLWA 127
EK ++L+ + +A P A
Sbjct: 18 EKQALKKLQASLKLYA-DDSAPALA 41
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 1.0
Identities = 8/47 (17%), Positives = 19/47 (40%), Gaps = 7/47 (14%)
Query: 73 EGTEELLQLIKLAGEDYEKNYRVEWIRLRDEKAKSEQLEKR--EQHF 117
+ + A +D E EW + + E+ + ++ R ++ F
Sbjct: 104 ASKVMEQEWREKAKKDLE-----EWNQRQSEQVEKNKINNRIADKAF 145
>3va7_A KLLA0E08119P; carboxylase, ligase; HET: BTI; 2.60A {Kluyveromyces
lactis}
Length = 1236
Score = 28.1 bits (63), Expect = 1.2
Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 6/21 (28%)
Query: 7 PYTELVVGIDIVNHKYAIEWM 27
P TE+V G+D+V EWM
Sbjct: 327 PITEMVTGLDLV------EWM 341
>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA,
national P protein structural and functional analyses;
HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8
Length = 190
Score = 27.7 bits (62), Expect = 1.2
Identities = 5/30 (16%), Positives = 9/30 (30%)
Query: 53 LALDEFYSTLKVVGFSSVSGEGTEELLQLI 82
+ + S+ G+ E L I
Sbjct: 149 FEVPLSEIDKVFIPISAKFGDNIERLKNRI 178
>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent
factor, stress response, sporulation, large G-protein,
structural genomics, PSI; HET: G4P; 2.60A {Bacillus
subtilis} SCOP: b.117.1.1 c.37.1.8
Length = 342
Score = 27.5 bits (62), Expect = 1.5
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 56 DEFYSTLKVVGFSSVSGEGTEELLQLI 82
++ V S+V+ EG ELL +
Sbjct: 298 EKLTDDYPVFPISAVTREGLRELLFEV 324
>3n6r_A Propionyl-COA carboxylase, alpha subunit; protein complex,
biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
{Ruegeria pomeroyi}
Length = 681
Score = 27.7 bits (62), Expect = 2.0
Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 6/21 (28%)
Query: 7 PYTELVVGIDIVNHKYAIEWM 27
P TEL+ G+D+V E M
Sbjct: 298 PVTELITGVDLV------EQM 312
>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 = 26.7 bits (58), Expect = 3.6
Identities = 26/180 (14%), Positives = 55/180 (30%), Gaps = 56/180 (31%)
Query: 8 YTELVVGIDIVNHKYAIEWM---------QDFEVFQEALEADSSYI-----------SNL 47
+++ D V+ + W Q F +E L + ++ S +
Sbjct: 51 IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF--VEEVLRINYKFLMSPIKTEQRQPSMM 108
Query: 48 TRSMSLALDEFYSTLKVVGFSSVSGEGTEELLQLIK-----------------------L 84
TR D Y+ +V +VS + L+L + +
Sbjct: 109 TRMYIEQRDRLYNDNQVFAKYNVSRL--QPYLKLRQALLELRPAKNVLIDGVLGSGKTWV 166
Query: 85 AGE---DYE----KNYRVEWIRLRDEKAKSEQLEKREQHFALPTPQPLWASCDRGNCNLP 137
A + Y+ ++++ W+ L++ + LE Q + D N+
Sbjct: 167 ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEM-LQKLLYQIDPNWTSRSDHS-SNIK 224
>3u9t_A MCC alpha, methylcrotonyl-COA carboxylase, alpha-subunit; biotin
carboxylase, carboxyltransferase, BT domain, BCCP DOM
ligase; 2.90A {Pseudomonas aeruginosa} PDB: 3u9s_A
Length = 675
Score = 26.5 bits (59), Expect = 4.3
Identities = 7/21 (33%), Positives = 10/21 (47%), Gaps = 6/21 (28%)
Query: 7 PYTELVVGIDIVNHKYAIEWM 27
P TE + G+D+V W
Sbjct: 324 PVTEAITGLDLV------AWQ 338
>1udx_A The GTP-binding protein OBG; TGS domain, riken structural
genomics/proteomics initiative, RSGI, structural
genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1
c.37.1.8 d.242.1.1
Length = 416
Score = 26.4 bits (59), Expect = 4.4
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 62 LKVVGFSSVSGEGTEELLQLI 82
L V+ S+++G G L + +
Sbjct: 299 LAVLPVSALTGAGLPALKEAL 319
>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane
G-proteins, cell membrane, ION transport, transmembrane;
HET: GDP; 2.20A {Methanocaldococcus jannaschii}
Length = 188
Score = 25.6 bits (57), Expect = 5.4
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 64 VVGFSSVSGEGTEELLQLIKLAGED 88
VV S+ G EEL + I +A +D
Sbjct: 145 VVPLSAAKKMGIEELKKAISIAVKD 169
>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET:
MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10
PDB: 2qm7_A*
Length = 337
Score = 25.9 bits (57), Expect = 5.5
Identities = 8/54 (14%), Positives = 18/54 (33%), Gaps = 15/54 (27%)
Query: 63 KVVGFSSVSGEGTEELLQLIKLAGEDYEKNYRVEWIRLRDEKAKSEQLEKREQH 116
VV S + G+G + L I+ R + + ++ + +
Sbjct: 236 PVVTISGLHGKGLDSLWSRIE---------------DHRSKLTATGEIAGKRRE 274
>1u08_A Hypothetical aminotransferase YBDL; alpha beta protein; HET: PLP;
2.35A {Escherichia coli} SCOP: c.67.1.1
Length = 386
Score = 26.0 bits (58), Expect = 6.1
Identities = 8/41 (19%), Positives = 13/41 (31%)
Query: 35 EALEADSSYISNLTRSMSLALDEFYSTLKVVGFSSVSGEGT 75
+ L A+ + L D + L + EGT
Sbjct: 279 DMLRAEPEHYLALPDFYRQKRDILVNALNESRLEILPCEGT 319
>2o2k_A Methionine synthase; C-shaped, twisted anti-parallel beta sheet,
beta-meander region, transferase; 1.60A {Homo sapiens}
Length = 355
Score = 25.5 bits (56), Expect = 7.2
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 64 VVGFSSVSGEGTEELLQLIKLAGEDYEKNYRVEWIRLRDEKAKSEQLEKR 113
+G +V+ G EEL + + G+DY V+ + R +A +E+L +R
Sbjct: 173 YLGLFAVACFGVEELSKAYEDDGDDYSSIM-VKALGDRLAEAFAEELHER 221
>2q1w_A Putative nucleotide sugar epimerase/ dehydratase; rossman fold,
protein-NAD complex, sugar binding protein; HET: NAD;
2.19A {Bordetella bronchiseptica}
Length = 333
Score = 25.7 bits (57), Expect = 8.0
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 83 KLAGEDYEKNYRVEWIRLR 101
K A EDY + ++++ R
Sbjct: 167 KSANEDYLEYSGLDFVTFR 185
>1ulz_A Pyruvate carboxylase N-terminal domain; biotin carboxylase; 2.20A
{Aquifex aeolicus} SCOP: b.84.2.1 c.30.1.1 d.142.1.2
Length = 451
Score = 25.5 bits (57), Expect = 8.5
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 7 PYTELVVGIDIV 18
P +E+V GIDIV
Sbjct: 297 PVSEMVTGIDIV 308
>2w70_A Biotin carboxylase; ligase, ATP-binding, fatty acid biosynthesis,
nucleotide-BIN lipid synthesis, ATP-grAsp domain,
fragment screening; HET: L22; 1.77A {Escherichia coli}
PDB: 1bnc_A 2j9g_A* 2v58_A* 2v59_A* 2v5a_A* 2vr1_A*
2w6m_A* 1dv1_A* 2w6o_A* 2w6n_A* 2w6q_A* 2w6z_A* 2w6p_A*
2w71_A* 3jzf_A* 3jzi_A* 3rv3_A* 3rup_A* 1dv2_A* 3rv4_A*
...
Length = 449
Score = 25.5 bits (57), Expect = 8.6
Identities = 5/12 (41%), Positives = 10/12 (83%)
Query: 7 PYTELVVGIDIV 18
P TE++ G+D++
Sbjct: 298 PVTEMITGVDLI 309
>2vpq_A Acetyl-COA carboxylase; bacteria, ATP-grAsp domain, biotin
carboxylase, ligase; HET: ANP; 2.1A {Staphylococcus
aureus}
Length = 451
Score = 25.5 bits (57), Expect = 9.5
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 7 PYTELVVGIDIV 18
P TE+V GID+V
Sbjct: 298 PVTEMVTGIDLV 309
>3ouz_A Biotin carboxylase; structural genomics, center for structural
genomics of infec diseases, csgid, alpha-beta fold,
cytosol, LIG; HET: MSE ADP SRT TLA; 1.90A {Campylobacter
jejuni subsp} PDB: 3ouu_A*
Length = 446
Score = 25.5 bits (57), Expect = 9.5
Identities = 6/12 (50%), Positives = 9/12 (75%)
Query: 7 PYTELVVGIDIV 18
+E+V GIDI+
Sbjct: 302 CVSEMVSGIDII 313
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
0.315 0.133 0.391
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,337,932
Number of extensions: 126828
Number of successful extensions: 296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 291
Number of HSP's successfully gapped: 40
Length of query: 150
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 65
Effective length of database: 4,328,508
Effective search space: 281353020
Effective search space used: 281353020
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.2 bits)