RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1373
(231 letters)
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 35.4 bits (81), Expect = 0.007
Identities = 11/56 (19%), Positives = 17/56 (30%), Gaps = 24/56 (42%)
Query: 126 DIQQGIPWETVTNCNNGGVIVLRSKRQEARTLALKQYEGKTVMYTALGSEWRPFGH 181
+G + V C G+++ K V SEWR F +
Sbjct: 37 RFSEG---DVV--CALCGLVL----------------SDKLV---DTRSEWRTFSN 68
>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 = 31.4 bits (70), Expect = 0.26
Identities = 33/268 (12%), Positives = 67/268 (25%), Gaps = 99/268 (36%)
Query: 41 ILFRRHYMITLEIPCRDKSYHWLLHWITVRGAKKTQHLSVETSFEKFDTGYVKTKYDFI- 99
IL + + L W + ++ +KF ++ Y F+
Sbjct: 45 ILSKEEIDHIIMSKDAVSGTLRLF-WTLLSKQEEM--------VQKFVEEVLRINYKFLM 95
Query: 100 ---------PSIGTHLFSYQGNWIR----------VERSRESTTL--------------- 125
PS+ T ++ Q + + V R + L
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI 155
Query: 126 -------------------DIQQ----GIPWETVTNCNNGGVIVLRSKRQEARTLALKQY 162
+Q I W + NCN+ ++ + + +
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL---EMLQKLLYQIDP- 211
Query: 163 EGKTVMYTALGS---------EW------RPFGHPKRRRPLNSVVLDSGVAD-RILN--- 203
+T+ R L +VL V + + N
Sbjct: 212 -----NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL--LVLL-NVQNAKAWNAFN 263
Query: 204 -RPRGIVTQRTVSPFQPIFSGTQRTMSL 230
+ ++T R + + T +SL
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISL 291
Score = 31.0 bits (69), Expect = 0.36
Identities = 18/129 (13%), Positives = 33/129 (25%), Gaps = 46/129 (35%)
Query: 42 LFRRHYMITLEIPCRDKSYHWL--------LHWITVRGAKKTQHLSVETSFEKF------ 87
LFR ++ + +L W T L ++ +
Sbjct: 492 LFRMVFL----------DFRFLEQKIRHDSTAWNASGSILNT--LQQLKFYKPYICDNDP 539
Query: 88 -DTGYVKTKYDFIPSIGTHLFSYQGNWIRVERSRESTTLDIQQGIPWETVTNCNNGGVIV 146
V DF+P I +L + T L ++ + I
Sbjct: 540 KYERLVNAILDFLPKIEENLICS-----------KYTDL-LRIAL-------MAEDEAIF 580
Query: 147 LRSKRQEAR 155
+ +Q R
Sbjct: 581 EEAHKQVQR 589
Score = 29.8 bits (66), Expect = 0.94
Identities = 36/215 (16%), Positives = 62/215 (28%), Gaps = 62/215 (28%)
Query: 5 ELIDSLSTNPY-------FGAGF------GLFG--LGAGAAILRKGAQIGTILFRRHYMI 49
++ D LS L L L + ++ T RR +I
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR--EVLTTNPRRLSII 333
Query: 50 TLEIPCRDKSYHWLLHWITVRGAKKTQHLSVETSFEKFDTGYVKTKYD----F-----IP 100
I RD W +W V K T +E+S + + +D F IP
Sbjct: 334 AESI--RDGLATWD-NWKHVNCDKLTT--IIESSLNVLEPAEYRKMFDRLSVFPPSAHIP 388
Query: 101 SIGTHLFSYQGNWIRVERSRESTTLDIQQGIPWETVTNCNNGGVIVLRSKRQEARTLALK 160
+I L W + D+ V + +L K
Sbjct: 389 TILLSLI-----W------FDVIKSDVM-----VVVNKLHK-------------YSLVEK 419
Query: 161 QYEGKTVMYTALGSEWRPFGHPKRRRPLNSVVLDS 195
Q + T+ ++ E + + L+ ++D
Sbjct: 420 QPKESTISIPSIYLELKV--KLENEYALHRSIVDH 452
>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 = 26.9 bits (59), Expect = 6.9
Identities = 9/27 (33%), Positives = 12/27 (44%), Gaps = 1/27 (3%)
Query: 16 FGAGFGLFGLGAGAAILRKGAQIGTIL 42
FG G G GLG + G + I+
Sbjct: 504 FGPG-GASGLGVLTHRNKDGTGVRVIV 529
>2ebd_A 3-oxoacyl-[acyl-carrier-protein] synthase 3; FABH, aquifex VF5,
lipid metabolism, structural genomics; 2.10A {Aquifex
aeolicus}
Length = 309
Score = 26.7 bits (60), Expect = 7.4
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 22 LFGLGAGAAILRKGAQIGTIL 42
LFG GAGA ++ + IL
Sbjct: 155 LFGDGAGAVVVTRSEDKSDIL 175
>4dfe_A 3-oxoacyl-[acyl-carrier-protein] synthase 3; ssgcid, seattle
structural genomics center for infectious DI
transferase; 2.35A {Burkholderia xenovorans}
Length = 333
Score = 26.3 bits (59), Expect = 7.9
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 22 LFGLGAGAAILRKGAQIGTILFRRH 46
LFG GAGA IL+ + G + H
Sbjct: 171 LFGDGAGAVILQASDEPGVLASALH 195
>2x3e_A 3-oxoacyl-[acyl-carrier-protein] synthase 3; HED, transferase,
acyltransferase, lipid synthesis, multifun enzyme; 1.81A
{Pseudomonas aeruginosa}
Length = 331
Score = 26.3 bits (59), Expect = 8.5
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 22 LFGLGAGAAILRKG 35
LFG GAGA +LR G
Sbjct: 156 LFGDGAGAVVLRAG 169
>1hnj_A Beta-ketoacyl-acyl carrier protein synthase III; FABH, transferase;
HET: MLC; 1.46A {Escherichia coli} SCOP: c.95.1.2
c.95.1.2 PDB: 1hn9_A* 1hnh_A* 1hnd_A* 1hnk_A 1mzs_A*
2eft_A* 2gyo_A* 3il9_A 1ebl_A*
Length = 317
Score = 26.3 bits (59), Expect = 8.6
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 22 LFGLGAGAAILRKGAQIGTILFRRH 46
+FG GAGAA+L + G I H
Sbjct: 156 IFGDGAGAAVLAASEEPGIISTHLH 180
>3h78_A PQS biosynthetic enzyme; PQSD, anthranilic acid, anthraniloyl-COA,
transferase; HET: BE2; 1.70A {Pseudomonas aeruginosa
PAO1} PDB: 3h76_A 3h77_A*
Length = 359
Score = 26.4 bits (59), Expect = 8.9
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 22 LFGLGAGAAILRKG 35
L G GAGA ++ G
Sbjct: 181 LLGDGAGAVVVSAG 194
>3me7_A Putative uncharacterized protein; electron transfer protein,
electron transport, structural GE PSI-2, protein
structure initiative; 1.50A {Aquifex aeolicus} PDB:
3me8_A
Length = 170
Score = 25.8 bits (57), Expect = 9.8
Identities = 8/67 (11%), Positives = 17/67 (25%), Gaps = 3/67 (4%)
Query: 65 HWITVRGAKKTQHLSVETSFEKFDTGYVKTKYDFIPSIGTHLFSYQGNWIRVERSRESTT 124
W V+ + + D ++ DFI + S +
Sbjct: 94 GWKVVKAKTSED---LFKLLDAIDFRFMTAGNDFIHPNVVVVLSPELQIKDYIYGVNYNY 150
Query: 125 LDIQQGI 131
L+ +
Sbjct: 151 LEFVNAL 157
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
0.322 0.138 0.426
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,618,526
Number of extensions: 210476
Number of successful extensions: 356
Number of sequences better than 10.0: 1
Number of HSP's gapped: 354
Number of HSP's successfully gapped: 22
Length of query: 231
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 141
Effective length of database: 4,188,903
Effective search space: 590635323
Effective search space used: 590635323
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 (21.9 bits)
S2: 56 (25.2 bits)