RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 018906
(349 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 = 51.2 bits (122), Expect = 4e-07
Identities = 50/332 (15%), Positives = 91/332 (27%), Gaps = 133/332 (40%)
Query: 43 KREAVLKEFGSNLPDLGLGDRETDHDFMAVCKEGYMVPKMKCEPLPR--NKLLSPVIFH- 99
+ FG G + ++ A+ E + K+K E + + N+ + F
Sbjct: 1670 VNLTIH--FG------GEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRS 1721
Query: 100 -EGRLVQRPT----PLVALLTFLWMPIGI-ILSILRVYTNIPLPERLAWYNYKLLGIKVV 153
+G L T P AL + L+ IP A
Sbjct: 1722 EKGLLSA--TQFTQP--ALTL-----MEKAAFEDLKSKGLIPADATFA------------ 1760
Query: 154 VKGTPPPAPKNGQSGVLFICNHRTVLDPVVTAVALGRKISCVTYS-ISKFTEIISPIKAV 212
G S LG Y+ ++ +++S V
Sbjct: 1761 -----------GHS--------------------LGE------YAALASLADVMSIESLV 1783
Query: 213 ALSREREKDAAHIKQLLEEGDLV--ICPEGTTCREPFLL------RFSALFAELTDRIVP 264
+ R G + P R + + R +A F++ + V
Sbjct: 1784 EVVFYR-------------GMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVV 1830
Query: 265 VAINTKQSVFHGTTLPPELTVKGGKSAIEVANY----IQRVLAGTL-GFEC-TNLTRKDK 318
+ + +E+ NY Q V AG L + TN+ K
Sbjct: 1831 ERVGKRTGWL-----------------VEIVNYNVENQQYVAAGDLRALDTVTNVLNFIK 1873
Query: 319 YSILAGTDGRVPSKKEK-EKEKERLKIQEMED 349
+K + ++ L ++E+E
Sbjct: 1874 ------------LQKIDIIELQKSLSLEEVEG 1893
Score = 38.5 bits (89), Expect = 0.004
Identities = 61/386 (15%), Positives = 105/386 (27%), Gaps = 161/386 (41%)
Query: 1 MVEHFAKTFLG--------------VDKVIGTELEVTKS-GRATGFAKKPGVLVGEHKRE 45
+ F +L D + E+ K+ A AK+P +
Sbjct: 87 CLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRP---FDKKSNS 143
Query: 46 AVLKE-----------FGSNLPDLGLGDRET--D-------------HDFMAVCKEGYMV 79
A+ + FG G G+ + + D + E
Sbjct: 144 ALFRAVGEGNAQLVAIFG------GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAE---- 193
Query: 80 PKMKCEPLPRNKLLSPVIFHEG----RLVQRP--TPLVALLT--FLWMP-IGIILSILRV 130
L R L + +F +G ++ P TP L + P IG+I
Sbjct: 194 ---TLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI------ 244
Query: 131 YTNIPLPERLAWYNYKLLGIKVVVK--GTPPPAPKNGQSGVLFICNHRTVLDPVVTAVAL 188
+LA Y V K G P ++ G +VTAVA
Sbjct: 245 --------QLAHY-------VVTAKLLGFTPGELRSYLKGAT------GHSQGLVTAVA- 282
Query: 189 GRKISCVTYSISKFTEIISPIKAVALSREREKDAAHIKQLLEEGDLVICPEGTTCREPFL 248
I+ S F + KA+ + I G C E +
Sbjct: 283 ---IAETD-SWESFFVSVR--KAITV-------LFFI--------------GVRCYEAY- 314
Query: 249 LRFSALFAELTDRIVPVAINTKQSVFHGTTLP-PELTVKGGKSAIEVANYIQRVLAGTLG 307
++L + + S+ + +P P L++
Sbjct: 315 -PNTSLPPSIL----------EDSLENNEGVPSPMLSISN-------------------- 343
Query: 308 FECTNLTRKDKYSILAGTDGRVPSKK 333
LT++ + T+ +P+ K
Sbjct: 344 -----LTQEQVQDYVNKTNSHLPAGK 364
>3fvv_A Uncharacterized protein; unknown function, structural genomics,
PSI,MCSG, protein STR initiative, midwest center for
structural genomics; 2.10A {Bordetella pertussis}
Length = 232
Score = 38.5 bits (90), Expect = 0.001
Identities = 17/61 (27%), Positives = 23/61 (37%), Gaps = 6/61 (9%)
Query: 1 MVEHFAKTFLGVDKVIGTELEVTKSGRATGFAKKPGVLVGEHKREAV---LKEFGSNLPD 57
+ A+ GV +I T+ E + GR TG + E K V L G L D
Sbjct: 121 VTAPIAR-AFGVQHLIATDPEY-RDGRYTGRIEGT-PSFREGKVVRVNQWLAGMGLALGD 177
Query: 58 L 58
Sbjct: 178 F 178
>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 = 36.0 bits (82), Expect = 0.018
Identities = 28/167 (16%), Positives = 55/167 (32%), Gaps = 53/167 (31%)
Query: 205 IISPIKAVALSREREKDAAHIKQLLEE------GDLVICPEGTTCR-EPFL-LRFSALFA 256
++SPI + ++ + + ++ E D + + R +P+L LR AL
Sbjct: 94 LMSPI------KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR-QALL- 145
Query: 257 ELTD-RIVPVAINTKQSVFHGTTLPPELTVKG-GKS--AIEVAN--YIQRVLAG-----T 305
EL + V + G V G GK+ A++V +Q +
Sbjct: 146 ELRPAKNV---------LIDG--------VLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
Query: 306 LGFECT---------NLTRKDKYSILAGTDGRVPSKKEKEKEKERLK 343
L + L + + + +D K + L+
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR 235
>1umk_A B5R, NADH-cytochrome B5 reductase; flavoprotein, beta barrel,
FAD-binding domain, NADH-binding domain, oxidoreductase;
HET: FAD; 1.75A {Homo sapiens} SCOP: b.43.4.2 c.25.1.1
PDB: 1ndh_A* 1i7p_A* 1ib0_A* 1qx4_A*
Length = 275
Score = 30.9 bits (70), Expect = 0.52
Identities = 27/100 (27%), Positives = 37/100 (37%), Gaps = 22/100 (22%)
Query: 88 PRNKLLSPVIFHEGRL--VQRPTPLVALLTF--------LWMPIG--IILS-------IL 128
P L SP I + RL + + F L +P+G I LS ++
Sbjct: 6 PAITLESPDIKYPLRLIDREIISHDTRRFRFALPSPQHILGLPVGQHIYLSARIDGNLVV 65
Query: 129 RVYTNIPLPERLAWYNYKLLGIKVVVKGTPPPAPKNGQSG 168
R YT I + + L IKV K T P P G+
Sbjct: 66 RPYTPISSDDDK---GFVDLVIKVYFKDTHPKFPAGGKMS 102
>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease,
double strand DNA repair, protein-DNA CO hydrolase-DNA
complex; HET: DNA; 2.80A {Bacillus subtilis} PDB:
3u44_A*
Length = 1232
Score = 30.7 bits (69), Expect = 0.82
Identities = 15/63 (23%), Positives = 22/63 (34%), Gaps = 10/63 (15%)
Query: 222 AAHIKQLLEEGDLVICPEGTTCREP------FLLR----FSALFAELTDRIVPVAINTKQ 271
A I++L+ V + T R LLR + EL + +PV N
Sbjct: 556 AKEIRKLISSPFKVYDGKKKTHRNIQYRDIVILLRSMPWAPQIMEELRAQGIPVYANLTS 615
Query: 272 SVF 274
F
Sbjct: 616 GYF 618
>1iuq_A Glycerol-3-phosphate acyltransferase; open twisted alpha/beta, four
helix bundle; 1.55A {Cucurbita moschata} SCOP: c.112.1.1
PDB: 1k30_A
Length = 367
Score = 29.0 bits (64), Expect = 2.6
Identities = 28/160 (17%), Positives = 50/160 (31%), Gaps = 45/160 (28%)
Query: 169 VLFICNHRTVLDPVVTAVALGRKIS-------------------CVTYSISKFTEIISPI 209
V+ I NH+T DP + ++ L + C +SI + +
Sbjct: 132 VVLISNHQTEADPAIISLLLEKTNPYIAENTIFVAGDRVLADPLCKPFSIGRNLICVYSK 191
Query: 210 KAVA----LSREREKDA----AHIKQLLEEGDLVIC--PEGTTCR------EPFLLRFSA 253
K + L+ + K + LL G +I P G R E + F A
Sbjct: 192 KHMFDIPELTETKRKANTRSLKEMALLLRGGSQLIWIAPSGGRDRPDPSTGEWYPAPFDA 251
Query: 254 ----LFAELTDR------IVPVAINTKQSVFHGTTLPPEL 283
L + P+A+ + + + E+
Sbjct: 252 SSVDNMRRLIQHSDVPGHLFPLALLCHDIMPPPSQVEIEI 291
>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain,
TGF-beta, epigenetics, methylation, K9ME3, K14AC,
transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB:
3u5m_A* 3u5o_A* 3u5p_A*
Length = 207
Score = 27.5 bits (60), Expect = 6.0
Identities = 11/38 (28%), Positives = 19/38 (50%), Gaps = 9/38 (23%)
Query: 62 DRETDHDFMAVCKEGYMVPKMKCEPLPRNKLLSPVIFH 99
D + + D+ AVC+ G + + CE P+ +FH
Sbjct: 2 DDDPNEDWCAVCQNGGDL--LCCEKCPK-------VFH 30
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 0.138 0.407
Gapped
Lambda K H
0.267 0.0462 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,466,417
Number of extensions: 342067
Number of successful extensions: 710
Number of sequences better than 10.0: 1
Number of HSP's gapped: 708
Number of HSP's successfully gapped: 13
Length of query: 349
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 255
Effective length of database: 4,077,219
Effective search space: 1039690845
Effective search space used: 1039690845
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: 58 (26.8 bits)