RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 016254
(392 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 = 36.2 bits (83), Expect = 0.022
Identities = 52/330 (15%), Positives = 102/330 (30%), Gaps = 117/330 (35%)
Query: 130 FIGWSMWFSEYVFLERRWNKDEQTLKSGFKRLVDFPMPFWLALYVEGTRFTEAKLLAAQE 189
F+G ++ + F ++++ L L T F E L +
Sbjct: 64 FLG---------YVSSLVEPSKV---GQFDQVLN------LCL----TEF-ENCYLEGND 100
Query: 190 -YALSRGLPIPRNVLIPRTKGFVSAVNNMRSFVPAIYDCTVAVPKSQPPP---------- 238
+AL+ L + + +TK + ++++ A P +
Sbjct: 101 IHALAAKLLQENDTTLVKTKELI------KNYITAR--IMAKRPFDKKSNSALFRAVGEG 152
Query: 239 --TMVRMFRGQPSVVNV--EIRRHSMEELPKTADGIAQWCKDVFVTKDALLEKYLSRDT- 293
+V +F GQ + + E+R +L +T + D+ L + L R T
Sbjct: 153 NAQLVAIFGGQGNTDDYFEELR-----DLYQTYHVLVG---DLIKFSAETLSE-LIRTTL 203
Query: 294 -----FG--------LQERQDIGRPKKSLFVVVSWSCLLIFI------------------ 322
F L+ + P K + + SC LI +
Sbjct: 204 DAEKVFTQGLNILEWLENPSN--TPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPG 261
Query: 323 -LVKLFQWTS-----ILASWAAIAFS---AFFLLLVVGVMQILIQS-SESEHSTP-LKIT 371
L + + ++ + AIA + F + V + +L + P +
Sbjct: 262 ELRSYLKGATGHSQGLVTA-VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 372 P--HQD--------PTTERLLP-ISVKTLT 390
P +D P+ P +S+ LT
Sbjct: 321 PSILEDSLENNEGVPS-----PMLSISNLT 345
Score = 35.4 bits (81), Expect = 0.037
Identities = 39/245 (15%), Positives = 81/245 (33%), Gaps = 86/245 (35%)
Query: 184 LLAAQEYALSR---GLPIPRNV------LIPRTKGFVSAV-----NNMRSFVPAIYD--- 226
++ Y ++ G P + ++G V+AV ++ SF ++
Sbjct: 243 VIQLAHYVVTAKLLGFT-PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAIT 301
Query: 227 --------CTVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEELPKTADGIAQWCKDVF 278
C A P + PP+++ + S+ N E M L ++
Sbjct: 302 VLFFIGVRCYEAYPNTSLPPSIL-----EDSLENNEGVPSPM--LS---------ISNL- 344
Query: 279 VTKDALLEKYLSRDTFGLQERQDI--------------GRPKKSLFVVVSWSCLLIFILV 324
++ Y+++ L + + G P +SL+ + L
Sbjct: 345 --TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP-QSLYGLNLT-------LR 394
Query: 325 KLF------QWTSILASWAAIAFSAFFL---------LL---VVGVMQILIQSSESEHST 366
K Q + I S + FS FL LL + + L++++ S ++
Sbjct: 395 KAKAPSGLDQ-SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAK 453
Query: 367 PLKIT 371
++I
Sbjct: 454 DIQIP 458
Score = 35.4 bits (81), Expect = 0.038
Identities = 45/241 (18%), Positives = 73/241 (30%), Gaps = 88/241 (36%)
Query: 84 MGKE------HALVICNHRSDIDWLVGWVVAQRKGCLG-STLAIIKKEAKHLP--FIGW- 133
MG + A + N R+D K G S L I+ +L F G
Sbjct: 1631 MGMDLYKTSKAAQDVWN-RAD---------NHFKDTYGFSILDIVINNPVNLTIHFGGEK 1680
Query: 134 ---------SMWF---------SEYVFLERRWNKDEQTLKSGFKRLVDFPMPFWLALYVE 175
+M F +E +F E +E + F+ L+
Sbjct: 1681 GKRIRENYSAMIFETIVDGKLKTEKIFKE----INEHSTSYTFRSEKGL-----LSA--- 1728
Query: 176 GTRFTEAKLLAAQEYAL-----SRGLPIPRNVLIPRTKGF----------VSAVNNMRSF 220
T+FT+ L E A S+GL IP F ++++ ++ S
Sbjct: 1729 -TQFTQPALTLM-EKAAFEDLKSKGL-------IPADATFAGHSLGEYAALASLADVMSI 1779
Query: 221 VPAIYDCTV---------AVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEELPKTADGIA 271
+ V AVP+ + + M P V S E L + +
Sbjct: 1780 ESLVE--VVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASF---SQEALQYVVERVG 1834
Query: 272 Q 272
+
Sbjct: 1835 K 1835
>2vfr_A Xylitol oxidase, alditol oxidase; FAD, sugar, polyol, flavin,
flavoprotein, oxidoreductase; HET: FAD; 1.1A
{Streptomyces coelicolor} PDB: 2vfs_A* 2vft_A* 2vfu_A*
2vfv_A*
Length = 422
Score = 29.6 bits (66), Expect = 1.9
Identities = 16/103 (15%), Positives = 22/103 (21%), Gaps = 14/103 (13%)
Query: 200 RNVLIPRTKGFVSAVNNMRSFVPAIYDCTVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHS 259
VL V+A S + ++ + R
Sbjct: 317 APVLQTCEIRTVAADAQWLSPAYGRDTVAAHFTWVEDTAAVLPVVRR------------- 363
Query: 260 MEELPKTADGIAQWCKDVFVTKDALLEKYLSRDTF-GLQERQD 301
+EE W K V L Y F L D
Sbjct: 364 LEEALVPFAARPHWGKVFTVPAGELRALYPRLADFGALAGALD 406
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 29.1 bits (65), Expect = 3.0
Identities = 13/63 (20%), Positives = 27/63 (42%), Gaps = 16/63 (25%)
Query: 78 AETFQLMGKEHA-------LVICNHRS--DIDWLVGWVV-AQRKGCLGSTLAIIKKEAKH 127
+ +Q + ++ +V N S D++ L+ ++ ++ G LG L I
Sbjct: 516 TDYYQSIYAKYGAKGSTLIVVPFNQGSKQDVEALIEFIYDTEKNGGLGWDLDAI------ 569
Query: 128 LPF 130
+PF
Sbjct: 570 IPF 572
>2o2e_A Tryptophan synthase beta chain; amino-acid biosynthesis, tryptophan
biosynthesis, structural genomics; 2.20A {Mycobacterium
tuberculosis} PDB: 2o2j_A
Length = 422
Score = 28.0 bits (63), Expect = 5.5
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 14/61 (22%)
Query: 213 AVNN-MRSFVPAIYDC-----TVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEE---L 263
A+N R +V + T A P P PTMVR F+ ++ +E R + L
Sbjct: 195 AINEAFRDWVANADNTYYCFGTAAGP--HPFPTMVRDFQ---RIIGMEARVQIQGQAGRL 249
Query: 264 P 264
P
Sbjct: 250 P 250
>1x1q_A Tryptophan synthase beta chain; structural genomics, riken
structural genomics/proteomics initiative, RSGI, NPPSFA;
2.50A {Thermus thermophilus}
Length = 418
Score = 28.0 bits (63), Expect = 5.5
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 14/61 (22%)
Query: 213 AVNN-MRSFVPAIYDC-----TVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEE---L 263
A N +R ++ + +V P P P MVR F+ SV+ E++R S+E L
Sbjct: 191 ATNEAIRDWITNVRTTFYILGSVVGP--HPYPMMVRDFQ---SVIGEEVKRQSLELFGRL 245
Query: 264 P 264
P
Sbjct: 246 P 246
>1v8z_A Tryptophan synthase beta chain 1; beta+alpha, riken structural
genomics/proteomics initiative, structural genomics,
lyase; HET: PLP; 2.21A {Pyrococcus furiosus} SCOP:
c.79.1.1 PDB: 1wdw_B*
Length = 388
Score = 27.9 bits (63), Expect = 5.6
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 14/61 (22%)
Query: 213 AVNN-MRSFVPAIYDC-----TVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEE---L 263
A+N +R +V +V P P PT+VR F+ SV+ E + +E L
Sbjct: 164 AINEALRDWVATFEYTHYLIGSVVGP--HPYPTIVRDFQ---SVIGREAKAQILEAEGQL 218
Query: 264 P 264
P
Sbjct: 219 P 219
>2oh1_A Acetyltransferase, GNAT family; YP_013287.1, structural genom joint
center for structural genomics, JCSG, protein structu
initiative; HET: MSE UNL; 1.46A {Listeria monocytogenes
str}
Length = 179
Score = 27.1 bits (60), Expect = 7.1
Identities = 15/100 (15%), Positives = 30/100 (30%), Gaps = 7/100 (7%)
Query: 72 VELYADAETF-------QLMGKEHALVICNHRSDIDWLVGWVVAQRKGCLGSTLAIIKKE 124
+L D + Q H + N I+ + G L + I K
Sbjct: 28 NDLMIDTARWLKESGSTQWSDILHGFDVHNIEQRIELGEVALFETEAGALAGAMIIRKTP 87
Query: 125 AKHLPFIGWSMWFSEYVFLERRWNKDEQTLKSGFKRLVDF 164
+ + + + +L R + S K+++ F
Sbjct: 88 SDWDTDLWEDLAIDKAYYLHRIMVSRAFSGISLSKQMIYF 127
>3i7j_A Beta-lactamase MB2281C; alpha-beta protein., structural genomics,
PSI-2, protein structure initiative; 2.20A
{Mycobacterium bovis}
Length = 280
Score = 27.0 bits (60), Expect = 10.0
Identities = 14/65 (21%), Positives = 25/65 (38%)
Query: 73 ELYADAETFQLMGKEHALVICNHRSDIDWLVGWVVAQRKGCLGSTLAIIKKEAKHLPFIG 132
+++ADA T Q G + L + DW +G+ + K + + H G
Sbjct: 172 QMHADATTVQFPGLDGVLPGYGVQRPNDWGLGFEIRNSKSPHWTGECNSTRTFGHFGQSG 231
Query: 133 WSMWF 137
+W
Sbjct: 232 GFIWV 236
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
0.325 0.137 0.433
Gapped
Lambda K H
0.267 0.0692 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,071,585
Number of extensions: 364180
Number of successful extensions: 743
Number of sequences better than 10.0: 1
Number of HSP's gapped: 735
Number of HSP's successfully gapped: 17
Length of query: 392
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 297
Effective length of database: 4,049,298
Effective search space: 1202641506
Effective search space used: 1202641506
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.2 bits)