RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9705
(140 letters)
>1uqt_A Alpha, alpha-trehalose-phosphate synthase; glycosyltransferase,
transferase; HET: U2F; 2.0A {Escherichia coli} SCOP:
c.87.1.6 PDB: 1uqu_A* 2wtx_A* 1gz5_A*
Length = 482
Score = 146 bits (370), Expect = 6e-43
Identities = 39/119 (32%), Positives = 59/119 (49%)
Query: 1 MNLVAKEFVACQINEPPGVLIVSPFAGAGEQMHEALICNPYEIDAAAEVIHRALTMPEDE 60
MNLVAKE+VA Q PGVL++S FAGA ++ ALI NPY+ D A + RALTM E
Sbjct: 364 MNLVAKEYVAAQDPANPGVLVLSQFAGAANELTSALIVNPYDRDEVAAALDRALTMSLAE 423
Query: 61 RTLRMNYLRKREKVHDVNYWMRSFLKGMGTLITEDGDDVLPTTMQPVTLEDFDEYLSKY 119
R R + +D+N+W F+ + ++ + + + + +
Sbjct: 424 RISRHAEMLDVIVKNDINHWQECFISDLKQIVPRSAESQQRDKVATFPKLALEHHHHHH 482
>3t5t_A Putative glycosyltransferase; GTB fold, pseudoglycosyltransferase;
1.70A {Streptomyces hygroscopicus} PDB: 3t7d_A*
Length = 496
Score = 135 bits (342), Expect = 7e-39
Identities = 23/107 (21%), Positives = 36/107 (33%), Gaps = 3/107 (2%)
Query: 1 MNLVAKEFVACQINEPPGVLIVSPFAGAGEQMHE-ALICNPYEIDAAAEVIHRALTMPED 59
NL E E +I+S GA E + E NP+++ AE I AL
Sbjct: 384 QNLSTFEAPLVN--ERDADVILSETCGAAEVLGEYCRSVNPFDLVEQAEAISAALAAGPR 441
Query: 60 ERTLRMNYLRKREKVHDVNYWMRSFLKGMGTLITEDGDDVLPTTMQP 106
+R R + + W+++ L G+ P
Sbjct: 442 QRAEAAARRRDAARPWTLEAWVQAQLDGLAADHAARTATAERFDTAP 488
>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 = 38.3 bits (88), Expect = 3e-04
Identities = 36/212 (16%), Positives = 62/212 (29%), Gaps = 85/212 (40%)
Query: 1 MNLVAKEFVACQINE-PPGVLIVSPFAGA--GEQMHEALICNPY----EIDAAAEVIHRA 53
+L+ K ++ C+ + P VL +P + E + + L D +I +
Sbjct: 304 KSLLLK-YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 54 LT----------------MPED----ERTLR--------------MNYLRKR---EK--- 73
L P L +N L K EK
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK 422
Query: 74 -----VHDVNYWMRSFLKGMGTL---ITE--------DGDDVLPTTMQPVTLEDFDEYLS 117
+ + ++ L+ L I + D DD++P + D+Y
Sbjct: 423 ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL--------DQYFY 474
Query: 118 KYIGTH----EQA--WALL----LDYDGELWL 139
+IG H E L LD+ +L
Sbjct: 475 SHIGHHLKNIEHPERMTLFRMVFLDFR---FL 503
Score = 36.0 bits (82), Expect = 0.003
Identities = 20/98 (20%), Positives = 34/98 (34%), Gaps = 15/98 (15%)
Query: 40 PYEIDAAAEVIHRALTMPEDERTLRMNYLRKREKVHDVNYWMRSFLKGMGTLIT----ED 95
I + + R L E L + L V + W +F L+T +
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENCLLV--LLN---VQNAKAW-NAFNLSCKILLTTRFKQV 277
Query: 96 GDDVLPTTMQPVTLEDFDEYLSKYIGTHEQAWALLLDY 133
D + T ++L+ L T ++ +LLL Y
Sbjct: 278 TDFLSAATTTHISLDHHSMTL-----TPDEVKSLLLKY 310
Score = 29.4 bits (65), Expect = 0.37
Identities = 8/75 (10%), Positives = 22/75 (29%), Gaps = 15/75 (20%)
Query: 79 YWM--------RSFLKGMGTLIT--EDGDDVLPTTMQ--PVTLEDFDEYLSKYIGTHEQA 126
+W+ + L+ + L+ + + + L + + +
Sbjct: 185 FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244
Query: 127 WALL-LD--YDGELW 138
LL L + + W
Sbjct: 245 NCLLVLLNVQNAKAW 259
>3e1t_A Halogenase; flavoprotein; HET: FAD; 2.05A {Chondromyces crocatus}
Length = 512
Score = 34.5 bits (79), Expect = 0.006
Identities = 16/124 (12%), Positives = 33/124 (26%), Gaps = 14/124 (11%)
Query: 17 PGVLIV-------SPFAGAGEQMHEALICNPYEIDAAAEVIHRALTMPEDERTLRMNYLR 69
G+ +V P +G +H A A I+ L E+ + R
Sbjct: 296 NGMALVGDAACFVDPVFSSG--VHLATYSA----LLVARAINTCLAGEMSEQRCFEEFER 349
Query: 70 KREKVHDVNYWM-RSFLKGMGTLITEDGDDVLPTTMQPVTLEDFDEYLSKYIGTHEQAWA 128
+ + + Y +F + + E F ++ E +
Sbjct: 350 RYRREYGNFYQFLVAFYDMNQDTDSYFWSARKIINTEERANEAFVRLIAGRSNLDEPVFQ 409
Query: 129 LLLD 132
+
Sbjct: 410 SVAK 413
>3i3l_A Alkylhalidase CMLS; flavin-dependent halogenase, chloramphenicol
biosynthesis, halogenation reaction, structural
genomics; HET: FAD; 2.20A {Streptomyces venezuelae}
Length = 591
Score = 31.1 bits (70), Expect = 0.12
Identities = 10/62 (16%), Positives = 21/62 (33%), Gaps = 6/62 (9%)
Query: 22 VSPFAGAGEQMHEALICNPYEIDAAAEVIHRALTMPEDERTLRMNYLRKREKVHDVNYWM 81
P G +H A +AA I R +++ + Y R + ++ +
Sbjct: 320 TDPLFSQG--VHLASQS----AVSAAAAIDRITRHGDEKDAVHAWYNRTYREAYEQYHQF 373
Query: 82 RS 83
+
Sbjct: 374 LA 375
>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 = 30.0 bits (67), Expect = 0.24
Identities = 22/140 (15%), Positives = 38/140 (27%), Gaps = 53/140 (37%)
Query: 1 MNLVAKEFVACQINEPPGVLIVSPFAGAGEQMHEAL------IC--NPYEIDAAAEVIHR 52
M+L A + + A + I NP + IH
Sbjct: 1633 MDLYKTSKAAQDV-----------WNRADNHFKDTYGFSILDIVINNPVNL-----TIHF 1676
Query: 53 ALTMPEDERTLRMNYLRKREKVHDVNYWMRSFLKGMGTLITEDGDDVLPTTMQPVTLEDF 112
E + +R NY +I E D T + + ++
Sbjct: 1677 G---GEKGKRIRENYSA---------------------MIFETIVDGKLKT-EKI-FKEI 1710
Query: 113 DEYLSKYIGTHEQAWALLLD 132
+E+ + Y E+ LL
Sbjct: 1711 NEHSTSYTFRSEKG---LLS 1727
Score = 28.1 bits (62), Expect = 1.1
Identities = 20/131 (15%), Positives = 38/131 (29%), Gaps = 65/131 (49%)
Query: 21 IVSPF-----AGAGEQMHEALICNPYEIDAAAEVIHRALTMPEDERTLRMNYLRKREKVH 75
+ SPF A + +++ L+ N +A + +P V+
Sbjct: 423 VASPFHSHLLVPASDLINKDLVKNNVSFNAKD------IQIP----------------VY 460
Query: 76 DVNYWMRSFLKGMGTLITEDGDD-------VLPT-----TMQPVTLEDFDEYLSKYIGTH 123
D T DG D + PV ++ +++ TH
Sbjct: 461 D----------------TFDGSDLRVLSGSISERIVDCIIRLPV---KWET-TTQFKATH 500
Query: 124 EQAWALLLDYD 134
+LD+
Sbjct: 501 ------ILDFG 505
>3atr_A Conserved archaeal protein; saturating double bonds, archaeal
membrane precursor, like 2 geranylgeranylglyceryl
phosphate; HET: FDA; 1.80A {Sulfolobus acidocaldarius}
PDB: 3atq_A*
Length = 453
Score = 27.5 bits (61), Expect = 1.7
Identities = 17/104 (16%), Positives = 34/104 (32%), Gaps = 21/104 (20%)
Query: 22 VSPFAGAGEQMHEALICNPYEIDAAAEVIHRALTMPEDERTLRMNYLRKREKVHDVNYWM 81
V+P G G A+I AA+ I A + + + ++
Sbjct: 294 VNPVHGGG--KGSAMIS----GYCAAKAILSAFETGDFSASGLWDMNIC---------YV 338
Query: 82 RSFLKGMGTLITEDGDDVLPTTMQPVTLEDFDEYLSKYIGTHEQ 125
+ +L D+ +Q ++ +D + + K I E
Sbjct: 339 NEYGAKQASL------DIFRRFLQKLSNDDINYGMKKKIIKEED 376
>3bpj_A Eukaryotic translation initiation factor 3 subuni; EIF3S1,
structural genomics, limited proteolysis,
phosphoprotein, protein biosynthesis; 1.85A {Homo
sapiens}
Length = 80
Score = 25.6 bits (56), Expect = 2.7
Identities = 8/25 (32%), Positives = 12/25 (48%), Gaps = 3/25 (12%)
Query: 103 TMQPVTLEDFDEY---LSKYIGTHE 124
M P + +DF E+ L I +E
Sbjct: 7 AMNPSSRDDFTEFGKLLKDKITQYE 31
>2l7q_A Conserved protein found in conjugate transposon; NESG, structural
genomics, PSI-biology; NMR {Bacteroides vulgatus}
Length = 124
Score = 26.0 bits (57), Expect = 3.5
Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 1/41 (2%)
Query: 76 DVNYWMRSF-LKGMGTLITEDGDDVLPTTMQPVTLEDFDEY 115
Y +R F G G+L EDG + P + F Y
Sbjct: 43 GTVYTLRYFQPDGKGSLKMEDGTVLKPNDRYLLNEWKFRLY 83
>3nyi_A FAT acid-binding protein; stearic acid, DEGV family protein,
structural genomics, PSI- protein structure initiative;
HET: STE; 1.90A {Eubacterium ventriosum}
Length = 297
Score = 26.5 bits (59), Expect = 3.6
Identities = 5/27 (18%), Positives = 12/27 (44%), Gaps = 1/27 (3%)
Query: 94 EDGDDVLPTTMQPVTLEDFDEYLSKYI 120
D + P T P ++E + + ++
Sbjct: 56 VDDPKLFPKTSLP-SVESYADVFRSFV 81
>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural
genomics consortium, ATP- hydrolase, magnesium,
metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo
sapiens}
Length = 357
Score = 25.9 bits (57), Expect = 5.5
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 91 LITEDGDDVLPTTMQPVTLEDFDEYLSK 118
L T D + P ++P+ DF+
Sbjct: 306 LQTADIATITPDQVRPIAYIDFENAFRT 333
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 25.9 bits (57), Expect = 5.7
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 91 LITEDGDDVLPTTMQPVTLEDFDEYLSK 118
L E ++ + M+ + L DF E L K
Sbjct: 337 LKPEQVKNMSASEMRNIRLSDFTESLKK 364
>1r3e_A TRNA pseudouridine synthase B; RNA modification, pseudouridylation,
lyase-RNA complex; HET: FHU; 2.10A {Thermotoga maritima}
SCOP: b.122.1.1 d.265.1.2 PDB: 1ze2_A* 2ab4_A* 1ze1_A
Length = 309
Score = 25.7 bits (57), Expect = 5.8
Identities = 9/34 (26%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 93 TEDGD-DVLPTTMQPVTLEDFDEYLSKYIGTHEQ 125
T D +V+ VT E+ E + ++G ++Q
Sbjct: 79 TFDITGEVVEERECNVTEEEIREAIFSFVGEYDQ 112
>2l3b_A Conserved protein found in conjugate transposon; beta, structural
genomics, PSI-biology; NMR {Bacteroides
thetaiotaomicron}
Length = 130
Score = 25.3 bits (55), Expect = 5.8
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 67 YLRKREKVHDVNYWMRSF-LKGMGTLITEDGDDVLPTTMQPVTLEDFDEY 115
L + + + Y++R F G GTL DG +LP + P+ E F Y
Sbjct: 35 QLHRDGRFEETKYFIRYFQPDGAGTLKMSDGTVLLPNDLYPLPGETFRLY 84
>3fbu_A Acetyltransferase, GNAT family; structur genomics, PSI2, MCSG,
protein structure initiative, midwest for structural
genomics; HET: COA; 1.80A {Bacillus anthracis str}
Length = 168
Score = 25.2 bits (56), Expect = 6.2
Identities = 7/32 (21%), Positives = 17/32 (53%)
Query: 106 PVTLEDFDEYLSKYIGTHEQAWALLLDYDGEL 137
T ED +++K +G + + + ++L + L
Sbjct: 38 VFTEEDTRNFVNKNMGENAKNFPVILIGENIL 69
>3szv_A Pyroglutatmate porin OPDO; beta-barrel, channel, bacterial outer
membrane, membrane Pro; HET: C8E; 1.45A {Pseudomonas
aeruginosa} PDB: 2y0k_A*
Length = 401
Score = 25.2 bits (54), Expect = 9.7
Identities = 10/41 (24%), Positives = 14/41 (34%)
Query: 94 EDGDDVLPTTMQPVTLEDFDEYLSKYIGTHEQAWALLLDYD 134
GDD P + + E++W L DYD
Sbjct: 280 ISGDDPYPYIAGSDPYLVNFIQIGDFGNVDERSWQLRYDYD 320
>3t24_A Porin; beta-barrel, channel, bacterial outer membrane, membrane
Pro; HET: C8E; 2.40A {Pseudomonas aeruginosa}
Length = 401
Score = 25.1 bits (54), Expect = 9.9
Identities = 6/44 (13%), Positives = 11/44 (25%)
Query: 95 DGDDVLPTTMQPVTLEDFDEYLSKYIGTHEQAWALLLDYDGELW 138
GD + + E++W DY+
Sbjct: 280 SGDTGFAYINGADPYLVNFIQIGDFANKDEKSWQARYDYNFAGV 323
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 0.424
Gapped
Lambda K H
0.267 0.0629 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,371,998
Number of extensions: 142715
Number of successful extensions: 445
Number of sequences better than 10.0: 1
Number of HSP's gapped: 441
Number of HSP's successfully gapped: 29
Length of query: 140
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 56
Effective length of database: 4,356,429
Effective search space: 243960024
Effective search space used: 243960024
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: 52 (24.0 bits)