RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 021671
(309 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 = 35.8 bits (82), Expect = 0.018
Identities = 52/330 (15%), Positives = 102/330 (30%), Gaps = 117/330 (35%)
Query: 47 FIGWSMWFSEYVFLERRWNKDEQTLKSGFKRLVDFPMPFWLALYVEGTRFTEAKLLAAQE 106
F+G ++ + F ++++ L L T F E L +
Sbjct: 64 FLG---------YVSSLVEPSKV---GQFDQVLN------LCL----TEF-ENCYLEGND 100
Query: 107 -YALSRGLPIPRNVLIPRTKGFVSAVNNMRSFVPAIYDCTVAVPKSQPPP---------- 155
+AL+ L + + +TK + ++++ A P +
Sbjct: 101 IHALAAKLLQENDTTLVKTKELI------KNYITAR--IMAKRPFDKKSNSALFRAVGEG 152
Query: 156 --TMVRMFRGQPSVVNV--EIRRHSMEELPKTADGIAQWCKDVFVTKDALLEKYLSRDT- 210
+V +F GQ + + E+R +L +T + D+ L + L R T
Sbjct: 153 NAQLVAIFGGQGNTDDYFEELR-----DLYQTYHVLVG---DLIKFSAETLSE-LIRTTL 203
Query: 211 -----FG--------LQERQDIGRPKKSLFVVVSWSCLLIFI------------------ 239
F L+ + P K + + SC LI +
Sbjct: 204 DAEKVFTQGLNILEWLENPSN--TPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPG 261
Query: 240 -LVKLFQWTS-----ILASWAAIAFS---AFFLLLVVGVMQILIQS-SESEHSTP-LKIT 288
L + + ++ + AIA + F + V + +L + P +
Sbjct: 262 ELRSYLKGATGHSQGLVTA-VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 289 P--HQD--------PTTERLLP-ISVKTLT 307
P +D P+ P +S+ LT
Sbjct: 321 PSILEDSLENNEGVPS-----PMLSISNLT 345
Score = 35.4 bits (81), Expect = 0.029
Identities = 39/245 (15%), Positives = 81/245 (33%), Gaps = 86/245 (35%)
Query: 101 LLAAQEYALSR---GLPIPRNV------LIPRTKGFVSAV-----NNMRSFVPAIYD--- 143
++ Y ++ G P + ++G V+AV ++ SF ++
Sbjct: 243 VIQLAHYVVTAKLLGFT-PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAIT 301
Query: 144 --------CTVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEELPKTADGIAQWCKDVF 195
C A P + PP+++ + S+ N E M L ++
Sbjct: 302 VLFFIGVRCYEAYPNTSLPPSIL-----EDSLENNEGVPSPM--LS---------ISNL- 344
Query: 196 VTKDALLEKYLSRDTFGLQERQDI--------------GRPKKSLFVVVSWSCLLIFILV 241
++ Y+++ L + + G P +SL+ + L
Sbjct: 345 --TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP-QSLYGLNLT-------LR 394
Query: 242 KLF------QWTSILASWAAIAFSAFFL---------LL---VVGVMQILIQSSESEHST 283
K Q + I S + FS FL LL + + L++++ S ++
Sbjct: 395 KAKAPSGLDQ-SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAK 453
Query: 284 PLKIT 288
++I
Sbjct: 454 DIQIP 458
Score = 35.0 bits (80), Expect = 0.031
Identities = 45/241 (18%), Positives = 73/241 (30%), Gaps = 88/241 (36%)
Query: 1 MGKE------HALVICNHRSDIDWLVGWVVAQRKGCLG-STLAIIKKEAKHLP--FIGW- 50
MG + A + N R+D K G S L I+ +L F G
Sbjct: 1631 MGMDLYKTSKAAQDVWN-RAD---------NHFKDTYGFSILDIVINNPVNLTIHFGGEK 1680
Query: 51 ---------SMWF---------SEYVFLERRWNKDEQTLKSGFKRLVDFPMPFWLALYVE 92
+M F +E +F E +E + F+ L+
Sbjct: 1681 GKRIRENYSAMIFETIVDGKLKTEKIFKE----INEHSTSYTFRSEKGL-----LSA--- 1728
Query: 93 GTRFTEAKLLAAQEYAL-----SRGLPIPRNVLIPRTKGF----------VSAVNNMRSF 137
T+FT+ L E A S+GL IP F ++++ ++ S
Sbjct: 1729 -TQFTQPALTLM-EKAAFEDLKSKGL-------IPADATFAGHSLGEYAALASLADVMSI 1779
Query: 138 VPAIYDCTV---------AVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEELPKTADGIA 188
+ V AVP+ + + M P V S E L + +
Sbjct: 1780 ESLVE--VVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASF---SQEALQYVVERVG 1834
Query: 189 Q 189
+
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 = 1.4
Identities = 16/103 (15%), Positives = 22/103 (21%), Gaps = 14/103 (13%)
Query: 117 RNVLIPRTKGFVSAVNNMRSFVPAIYDCTVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHS 176
VL V+A S + ++ + R
Sbjct: 317 APVLQTCEIRTVAADAQWLSPAYGRDTVAAHFTWVEDTAAVLPVVRR------------- 363
Query: 177 MEELPKTADGIAQWCKDVFVTKDALLEKYLSRDTF-GLQERQD 218
+EE W K V L Y F L D
Sbjct: 364 LEEALVPFAARPHWGKVFTVPAGELRALYPRLADFGALAGALD 406
>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 = 4.6
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 14/61 (22%)
Query: 130 AVNN-MRSFVPAIYDC-----TVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEE---L 180
A+N +R +V +V P P PT+VR F+ SV+ E + +E L
Sbjct: 164 AINEALRDWVATFEYTHYLIGSVVGP--HPYPTIVRDFQ---SVIGREAKAQILEAEGQL 218
Query: 181 P 181
P
Sbjct: 219 P 219
>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 = 4.7
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 14/61 (22%)
Query: 130 AVNN-MRSFVPAIYDC-----TVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEE---L 180
A+N R +V + T A P P PTMVR F+ ++ +E R + L
Sbjct: 195 AINEAFRDWVANADNTYYCFGTAAGP--HPFPTMVRDFQ---RIIGMEARVQIQGQAGRL 249
Query: 181 P 181
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 = 4.7
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 14/61 (22%)
Query: 130 AVNN-MRSFVPAIYDC-----TVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEE---L 180
A N +R ++ + +V P P P MVR F+ SV+ E++R S+E L
Sbjct: 191 ATNEAIRDWITNVRTTFYILGSVVGP--HPYPMMVRDFQ---SVIGEEVKRQSLELFGRL 245
Query: 181 P 181
P
Sbjct: 246 P 246
>3q8i_A Odorant binding protein; 2.00A {Anopheles gambiae}
Length = 124
Score = 27.0 bits (59), Expect = 4.8
Identities = 8/34 (23%), Positives = 15/34 (44%)
Query: 176 SMEELPKTADGIAQWCKDVFVTKDALLEKYLSRD 209
+M++L + D + Q C F ++A L
Sbjct: 2 TMKQLTNSMDMMRQACAPKFKVEEAELHGLRKSI 35
>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 = 26.8 bits (58), Expect = 6.1
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 23/48 (47%)
Query: 215 ERQDIGRPKKSLFVVVSWSCLLIFILVKLFQWTSILA--SWAAIAFSA 260
E+Q + + + SL KL+ A S A+A A
Sbjct: 18 EKQALKKLQASL---------------KLY------ADDSAPALAIKA 44
>1qop_B Tryptophan synthase beta chain; lyase, carbon-oxygen lyase,
tryptophan biosynthesis, pyridoxal phosphate; HET: IPL
PLP; 1.4A {Salmonella typhimurium} SCOP: c.79.1.1 PDB:
1k7e_B* 1k7f_B* 1kfb_B* 1k3u_B* 1tjp_B* 1wbj_B* 2cli_B*
2clk_B* 2cll_B* 2j9x_B* 3cep_B* 1kfc_B* 1k8x_B* 1kfj_B*
1kfk_B* 2rh9_B* 2rhg_B* 2j9y_B* 1cw2_B* 1a5s_B* ...
Length = 396
Score = 27.5 bits (62), Expect = 6.4
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 14/61 (22%)
Query: 130 AVNN-MRSFVPAIYDC-----TVAVPKSQPPPTMVRMFRGQPSVVNVEIRRHSMEE---L 180
A N +R + + T A P P PT+VR F+ ++ E + +++ L
Sbjct: 168 ACNEALRDWSGSYETAHYMLGTAAGP--HPYPTIVREFQ---RMIGEETKAQILDKEGRL 222
Query: 181 P 181
P
Sbjct: 223 P 223
>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 = 26.4 bits (58), Expect = 9.0
Identities = 10/69 (14%), Positives = 22/69 (31%)
Query: 13 RSDIDWLVGWVVAQRKGCLGSTLAIIKKEAKHLPFIGWSMWFSEYVFLERRWNKDEQTLK 72
I+ + G L + I K + + + + +L R +
Sbjct: 59 EQRIELGEVALFETEAGALAGAMIIRKTPSDWDTDLWEDLAIDKAYYLHRIMVSRAFSGI 118
Query: 73 SGFKRLVDF 81
S K+++ F
Sbjct: 119 SLSKQMIYF 127
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
0.324 0.137 0.428
Gapped
Lambda K H
0.267 0.0533 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,788,420
Number of extensions: 279497
Number of successful extensions: 600
Number of sequences better than 10.0: 1
Number of HSP's gapped: 594
Number of HSP's successfully gapped: 16
Length of query: 309
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 216
Effective length of database: 4,105,140
Effective search space: 886710240
Effective search space used: 886710240
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: 57 (26.2 bits)