RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 014998
(414 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 = 68.5 bits (167), Expect = 2e-12
Identities = 73/442 (16%), Positives = 129/442 (29%), Gaps = 115/442 (26%)
Query: 25 ELGFLVNRKCHGVRSSSSASASDSATGAAADPFSLIRHY-------GRCYWELSKARLSM 77
E +L H + +A LI++Y R K S
Sbjct: 92 ENCYLEGNDIHAL----AAKLLQENDTTLVKTKELIKNYITARIMAKR---PFDKKSNSA 144
Query: 78 LV-VATSGTG--FAL--GSGSTID----LAGLCWTCTGTMMVAA----SANSLNQLFEIS 124
L G A+ G G+T D L L + T ++V SA +L++L +
Sbjct: 145 LFRAVGEGNAQLVAIFGGQGNTDDYFEELRDL-YQ-TYHVLVGDLIKFSAETLSELIRTT 202
Query: 125 NDAKMKRTMRRPLPSGRISVRHAVTW------ASSVGVAGTALLAWKANMLTAGLAASNL 178
DA+ + G +++ + W + ++ + LA +
Sbjct: 203 LDAE------KVFTQG-LNI---LEWLENPSNTPDKDYLLSIPISCPLIGVIQ-LAHYVV 251
Query: 179 ILYAFVYTP---LKQIHPVNTWVGAIVGAIPPLLG--WTAAVGHVSLNGMILPAALYFW- 232
+TP + +V A+ W + V I + F+
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRK--AI---TVLFFI 306
Query: 233 ------QIPHFMALAYLCRNDYAAGGY----RMISLADAS----------------GQRT 266
P+ +L D M+S+++ + +
Sbjct: 307 GVRCYEAYPN-TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQ 365
Query: 267 ALVALRNCLYLVPLGYLAYDWGVTSGWFCLESSLITLAIS----AAAFSFYRDRTTQKAR 322
++L N G V SG SL L ++ A + R R
Sbjct: 366 VEISLVN-------GAKNL---VVSG---PPQSLYGLNLTLRKAKAPSGLDQSRIPFSER 412
Query: 323 K-MFHASLLYLPVFMSGLLFHR--LTDNQQSLPEEDSEKIVELSSSSETVPVES----ED 375
K F +LPV FH L + ++ + V ++ +PV D
Sbjct: 413 KLKFSNR--FLPVASP---FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSD 467
Query: 376 MNRKKKLSYYSSLGRQV-RAPV 396
+ R S + + R PV
Sbjct: 468 L-RVLSGSISERIVDCIIRLPV 488
Score = 42.7 bits (100), Expect = 2e-04
Identities = 86/487 (17%), Positives = 132/487 (27%), Gaps = 157/487 (32%)
Query: 16 SNRS---QHSSTELGFLVNRKCHGV----RSSSSASASDSATGAAAD--PFSLIRHYGRC 66
S R H S E LV + + + + G AAD P +
Sbjct: 5 STRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA------ 58
Query: 67 YWELSKAR-LSMLVVATSGTGFALGSGSTIDLAGLCWTCTGTMMVAASANSLNQLFEISN 125
EL + L V++ +G + L + N
Sbjct: 59 --ELV-GKFLGY--VSSLVEPSKVGQFDQVLNLCL--------------TEFENCYLEGN 99
Query: 126 D-----AKMKRTMRRPLPSGRISVRHAVTWASSVG------VAGTALLAWKANMLTAGLA 174
D AK+ + L + +++ +T A + + +AL A L
Sbjct: 100 DIHALAAKLLQENDTTLVKTKELIKNYIT-ARIMAKRPFDKKSNSALFR-AVGEGNAQLV 157
Query: 175 A-----SN-------L-ILYAFVYTPLKQIHPVNTWVGAIVGAIPPLLGWTAAVGHVSLN 221
A N L LY Y L V + + L+ T V
Sbjct: 158 AIFGGQGNTDDYFEELRDLYQ-TYHVL-----VGDLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 222 GMILPAALYFW-----QIPHFMALAYLCRNDYAAGGYRMISLADASGQRTALVALRNCLY 276
G+ + W P YL +I + Q V L
Sbjct: 212 GLNILE----WLENPSNTP---DKDYLL---SIPISCPLIGVI----QLAHYVVTAKLLG 257
Query: 277 LVPLGYLAYDWGVTSGWFCLESSLITLAISAA--AFSFYRDRTTQKARKMFHASLLYLPV 334
P +Y G T + + +AI+ SF+ RK + L
Sbjct: 258 FTPGELRSYLKGATG---HSQGLVTAVAIAETDSWESFF-----VSVRKA----ITVL-- 303
Query: 335 FMSGLLFHRLTDNQQSLPEEDSEKIVELSSSSETVP-------------VES--EDMNRK 379
F G+ + SLP E +E ++E VP V+ N
Sbjct: 304 FFIGVRCYEAY-PNTSLPPSILEDSLE---NNEGVPSPMLSISNLTQEQVQDYVNKTNSH 359
Query: 380 ----KKLS--------------YYSSL-G-----RQVRAPVAYA-SVAPFP--------- 405
K++ SL G R+ +AP S PF
Sbjct: 360 LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR 419
Query: 406 FLP--AP 410
FLP +P
Sbjct: 420 FLPVASP 426
Score = 33.9 bits (77), Expect = 0.13
Identities = 34/218 (15%), Positives = 58/218 (26%), Gaps = 77/218 (35%)
Query: 211 WTAAVGHV------SLNGMIL--PAALYFWQIPHFMALA--YLCRNDYAAGGYRMISLAD 260
W A H S+ +++ P L HF + R +Y+A + ++ D
Sbjct: 1646 WNRADNHFKDTYGFSILDIVINNPVNLTI----HFGGEKGKRI-RENYSAMIFE--TIVD 1698
Query: 261 ASGQRTALVA-----LRNCLYLVPLGYLAYDWGVTSGWFCLESSLIT----LAISAAAFS 311
+ + + + G L+ T T + AAF
Sbjct: 1699 GKLKTEKIFKEINEHSTSYTFRSEKGLLS----ATQ---------FTQPALTLMEKAAFE 1745
Query: 312 FYRDRTTQKARKMF--HASL-----L-----YLP-------VFMSGLLFHRLTDNQQ--- 349
+ + A F H SL L + VF G+ +
Sbjct: 1746 DLKSKGLIPADATFAGH-SLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGR 1804
Query: 350 ---------------SLPEEDSEKIVELSSSSETVPVE 372
S +E + +VE VE
Sbjct: 1805 SNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVE 1842
>3put_A Hypothetical conserved protein; structural genomics, PSI-biology,
protein structure initiati northeast structural genomics
consortium; 1.83A {Rhizobium etli cfn 42} PDB: 3otl_A*
Length = 166
Score = 28.6 bits (64), Expect = 2.8
Identities = 19/84 (22%), Positives = 31/84 (36%), Gaps = 2/84 (2%)
Query: 226 PAALYFWQIPHFMALAYLCRNDYAAGGYRMISLADASGQRTALVALRNCLYLVPLGYLAY 285
P + W H + D+ GG AD G A A + +VP + Y
Sbjct: 31 PESKRQWFACHGEWVPLEYALDFRPGGTERNYTADTDGLLHAYDA--RYIDIVPDTRIIY 88
Query: 286 DWGVTSGWFCLESSLITLAISAAA 309
+ + G + +SL+T+A
Sbjct: 89 AYEMKLGQTRISASLVTVAFDVEP 112
>1u19_A Rhodopsin; G protein-coupled receptor, membrane protein, retinal
protei photoreceptor, signaling protein; HET: MAN NAG
BMA RET PLM HTO HTG; 2.20A {Bos taurus} SCOP: f.13.1.2
PDB: 1hzx_A* 1gzm_A* 1l9h_A* 2g87_A* 2hpy_A* 2i35_A*
2i36_A* 2i37_A* 2ped_A* 3oax_A* 3c9l_A* 1jfp_A* 1ln6_A*
1f88_A* 3cap_A* 3dqb_A* 3pqr_A* 3pxo_A* 3c9m_A* 2x72_A*
...
Length = 349
Score = 27.7 bits (62), Expect = 7.4
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 196 TWVGAIVGAIPPLLGWT 212
TWV A+ A PPL+GW+
Sbjct: 161 TWVMALACAAPPLVGWS 177
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
0.321 0.131 0.400
Gapped
Lambda K H
0.267 0.0466 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,126,871
Number of extensions: 356962
Number of successful extensions: 638
Number of sequences better than 10.0: 1
Number of HSP's gapped: 633
Number of HSP's successfully gapped: 13
Length of query: 414
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 318
Effective length of database: 4,021,377
Effective search space: 1278797886
Effective search space used: 1278797886
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: 58 (26.8 bits)