RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13952
(445 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 = 41.6 bits (97), Expect = 5e-04
Identities = 67/382 (17%), Positives = 115/382 (30%), Gaps = 136/382 (35%)
Query: 71 TLRFKPMLQRGIELLSL--------DPAWVSSA--SWYFLNVFGLRSIYAL--VLGENNA 118
TL + + +G+ +L D ++ S S + V L +LG
Sbjct: 202 TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPG 261
Query: 119 ADQSRQFQDQMSGAAVQMPVDPKAAFKAE---WE--------ALEI-----------YQH 156
+ + + GA A AE WE A+ + Y +
Sbjct: 262 -----ELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPN 316
Query: 157 QSALEGLAAEMIEVDMTDPSMMTEML--KG----------NLTNV-LPM---IVIGGWIN 200
S + + +E + PS ML N TN LP + I +N
Sbjct: 317 TSLPPSILEDSLENNEGVPS---PMLSISNLTQEQVQDYVNKTNSHLPAGKQVEI-SLVN 372
Query: 201 WMFSG---FVTTKVPFPLTLR-FKPMLQRGKYL-----TRSAFQMRRYYFNDEEVGYFLT 251
G V + P +L L++ K +R F R+ F++ FL
Sbjct: 373 ----GAKNLVVSG--PPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR----FL- 421
Query: 252 QKRTAPASNPMTDP--SMMTEMLKGNLTNVLPMI---VIGGWINWM-----------FSG 295
P+ P S + L +I ++ +++ F G
Sbjct: 422 ---------PVASPFHSHL-------LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG 465
Query: 296 FVTTKVPFPLTLRFKPMLQRGWINWMFSGFVTTKVPFPLT--LRFKP--------MLQRD 345
+ ++ R + R + W T F T L F P + R+
Sbjct: 466 SDLRVLSGSISERIVDCIIRLPVKW------ETTTQFKATHILDFGPGGASGLGVLTHRN 519
Query: 346 ILGNATFSPTGIELL---SLDP 364
G TG+ ++ +LD
Sbjct: 520 KDG------TGVRVIVAGTLDI 535
Score = 30.0 bits (67), Expect = 1.9
Identities = 61/425 (14%), Positives = 111/425 (26%), Gaps = 175/425 (41%)
Query: 69 PLTLRFKPMLQRGIELLSLDPAW-VSSASWYFLNVFGLRSIYALVLGENNAADQSR-QFQ 126
PLTL G SL+ V +AS++ A Q + QF
Sbjct: 8 PLTL------SHG----SLEHVLLVPTASFF-------------------IASQLQEQFN 38
Query: 127 DQMSGAAVQMPVDPKAAFKAEWEALEIYQHQSALEGLAAEMIEVDMTDPSMMTEMLKGNL 186
+ +P F A+ E + E L +
Sbjct: 39 KILP--------EPTEGFAADDEP------TTPAE-LVGK-------------------- 63
Query: 187 TNVLPMIVIGGWINWMFSGFVTTKVPFPLTLRFKPMLQRGKYLTRSAFQMRRYYFNDEEV 246
F G+V++ V +F +L L + F+ Y ++
Sbjct: 64 ----------------FLGYVSSLVEPSKVGQFDQVLN----LCLTEFE--NCYLEGNDI 101
Query: 247 -----------------------GYFLTQKRTAPASNPMTDPSMMTEMLKGNLTNVLPMI 283
Y + + ++ ++ + +GN ++
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQ----LV 157
Query: 284 VIGGWINWMFSGFVTTKVPFPLTLR-----FKPMLQRGWINWMFSGF-------VTTKVP 331
I F G T F LR + ++ I + + +
Sbjct: 158 AI-------FGGQGNTDDYFE-ELRDLYQTYHVLVGD-LIKFSAETLSELIRTTLDAEKV 208
Query: 332 FPLTLRFKPMLQR-------DILGNATFSPTGIELLSLDPAWVSSASWYFLNVFGLRSIY 384
F L L+ D L + S I ++ L + Y +
Sbjct: 209 FTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQL--------AHYV--------VT 252
Query: 385 ALVLGENNAADQSRQFQDQMSGAAVQMPVDPKAAFKAE---WEALEIYQH-QSALE---- 436
A +LG + + + GA A AE WE+ + + A+
Sbjct: 253 AKLLGFTPG-----ELRSYLKGATGHSQGLVTAVAIAETDSWESF--FVSVRKAITVLFF 305
Query: 437 -GLAA 440
G+
Sbjct: 306 IGVRC 310
>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 = 37.5 bits (86), Expect = 0.010
Identities = 60/347 (17%), Positives = 95/347 (27%), Gaps = 138/347 (39%)
Query: 4 YYFNDE--EVGY-FLTQK-RTAPASNPMTDPSMMTEML---KGNLTNVLPMIVIGGWINW 56
F +E + Y FL +T PSMMT M + L N +
Sbjct: 80 QKFVEEVLRINYKFLMSPIKTEQ-----RQPSMMTRMYIEQRDRLYNDNQV--------- 125
Query: 57 MFSGFVTTKVPFPLTLRFKPMLQRGIELLSLDPA-WVSSASWYFLNVFGL----RSIYAL 111
F V R +P L+ LL L PA V + G+ ++
Sbjct: 126 ----FAKYNVS-----RLQPYLKLRQALLELRPAKNVL--------IDGVLGSGKT---- 164
Query: 112 VLGENNAAD--QSRQFQDQMSGAAVQMPVDPKAAFKAEW----------EALEIYQ---H 156
+ A D S + Q +M FK W LE+ Q +
Sbjct: 165 WV----ALDVCLSYKVQCKMD-------------FKIFWLNLKNCNSPETVLEMLQKLLY 207
Query: 157 QSALEGLAAEMIEVD-MTDPSMMTEMLKGNLTNVLP-------MIVIGG-WINWMFSGF- 206
Q + D ++ + ++ L +L ++V+ ++ F
Sbjct: 208 QIDPNWTS----RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263
Query: 207 ------VTTKVPFPLTLRFKPMLQRGKYLTRSAFQMRRYYFNDEEVGYFLTQKRTAP--- 257
+TT R K +T + + + LT
Sbjct: 264 LSCKILLTT---------------RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308
Query: 258 --ASNPMTD-PSMMTEMLKGNLTNVLPMIV--IGG--------WINW 291
D P E+L N P + I W NW
Sbjct: 309 KYLDCRPQDLPR---EVLTTN-----PRRLSIIAESIRDGLATWDNW 347
>3ihu_A Transcriptional regulator, GNTR family; YP_298823.1, DNA binding
protein, structural genomics, joint for structural
genomics, JCSG; HET: MSE; 1.92A {Ralstonia eutropha}
Length = 222
Score = 28.4 bits (64), Expect = 4.5
Identities = 5/33 (15%), Positives = 11/33 (33%)
Query: 149 EALEIYQHQSALEGLAAEMIEVDMTDPSMMTEM 181
E L++ + GL A + + +
Sbjct: 86 ETLDVLDVAERMTGLLARAATRGSGNQPQVQAL 118
Score = 27.3 bits (61), Expect = 8.0
Identities = 5/19 (26%), Positives = 8/19 (42%)
Query: 424 EALEIYQHQSALEGLAAEM 442
E L++ + GL A
Sbjct: 86 ETLDVLDVAERMTGLLARA 104
>3zu3_A Putative reductase YPO4104/Y4119/YP_4011; oxidoreductase, fatty
acid biosynthesis II, short-chain dehydrogenase
reductase superfamily; HET: NAI; 1.80A {Yersinia pestis}
PDB: 3zu4_A* 3zu5_A* 3zu2_A*
Length = 405
Score = 28.1 bits (62), Expect = 6.8
Identities = 15/80 (18%), Positives = 26/80 (32%), Gaps = 6/80 (7%)
Query: 110 ALVLGENN----AADQSRQFQDQMSGAAVQM--PVDPKAAFKAEWEALEIYQHQSALEGL 163
LV+G + AA + F V P + + W + +A +GL
Sbjct: 50 VLVIGASTGYGLAARITAAFGCGADTLGVFFERPGEEGKPGTSGWYNSAAFHKFAAQKGL 109
Query: 164 AAEMIEVDMTDPSMMTEMLK 183
A+ I D + +
Sbjct: 110 YAKSINGDAFSDEIKQLTID 129
>3c7j_A Transcriptional regulator, GNTR family; structural genomics, PSI-2,
protein structure initiative, midwest center for STR
genomics; HET: MSE; 2.10A {Pseudomonas syringae PV}
Length = 237
Score = 27.7 bits (62), Expect = 7.1
Identities = 5/19 (26%), Positives = 10/19 (52%)
Query: 149 EALEIYQHQSALEGLAAEM 167
+A++ Y + LE A +
Sbjct: 96 DAVDAYALRILLESEALRL 114
Score = 27.7 bits (62), Expect = 7.1
Identities = 5/19 (26%), Positives = 10/19 (52%)
Query: 424 EALEIYQHQSALEGLAAEM 442
+A++ Y + LE A +
Sbjct: 96 DAVDAYALRILLESEALRL 114
>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 = 28.3 bits (63), Expect = 7.6
Identities = 9/58 (15%), Positives = 22/58 (37%), Gaps = 1/58 (1%)
Query: 117 NAADQSRQFQDQMSGAAVQMPVDPKAAFKAEWEALEIYQHQSALEGLAAEMIEVDMTD 174
A + + A Q+ + P+A + ++ L+ Y+ + E +D+
Sbjct: 762 TALEHKVVNGNSADAAYAQVEIQPRANIQLDFPELKPYKQVKQIAPAELE-GLLDLER 818
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
0.323 0.136 0.423
Gapped
Lambda K H
0.267 0.0525 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,077,703
Number of extensions: 419244
Number of successful extensions: 876
Number of sequences better than 10.0: 1
Number of HSP's gapped: 873
Number of HSP's successfully gapped: 13
Length of query: 445
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 348
Effective length of database: 3,993,456
Effective search space: 1389722688
Effective search space used: 1389722688
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 59 (27.0 bits)