RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11447
(360 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 = 4e-04
Identities = 36/210 (17%), Positives = 68/210 (32%), Gaps = 55/210 (26%)
Query: 182 IKVHHNNLRNTGSDLGTSL--EAFQ---DFDQRIS--LDIIGHSGETHSIP--------F 226
+ + H +L + + T+ A Q F++ + + E + +
Sbjct: 9 LTLSHGSLEHV-LLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 227 VTSNNLPRDNKQRLEVIKIM--HAHAQFCASGDYTLESIRASIQDLTTECAQHDDSILIV 284
V+S P Q +V+ + + D I L + Q +D+ L+
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND---------IHALAAKLLQENDTTLVK 118
Query: 285 LSDANLDRY----GIAPREMGE----AL--NAEAASVRAYAIFIGSLGDQAKRLT--QEL 332
+ + Y +A R + AL + + AIF G Q +EL
Sbjct: 119 TKEL-IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF----GGQGNTDDYFEEL 173
Query: 333 PAGRGFVCMDLTEIPQ-ILQQIF--SASLL 359
R DL + ++ + SA L
Sbjct: 174 ---R-----DLYQTYHVLVGDLIKFSAETL 195
Score = 38.9 bits (90), Expect = 0.002
Identities = 68/443 (15%), Positives = 118/443 (26%), Gaps = 153/443 (34%)
Query: 33 QQNDQHRDLFSVHVIDNPSPESELALLSSY----------GPDVPRDTLIRLVRA----- 77
+ ND H + ++ + L+ +Y L R V
Sbjct: 97 EGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL 156
Query: 78 ---FG----------EFREL--------------SDKSLLPYPYSTREA-------VHIV 103
FG E R+L S ++L +T +A ++I+
Sbjct: 157 VAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNIL 216
Query: 104 KHLQE--------------------GV--LGQHENTRKFNGYD-GRLDRELEAVIMVLEA 140
+ L+ GV L + T K G+ G L L+ +
Sbjct: 217 EWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQG 276
Query: 141 ------------FQDFDQRIRLDI-----IG-HSGETHSIPFVT---------------- 166
++ F +R I IG E + +
Sbjct: 277 LVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPS 336
Query: 167 ---SIKNLPRD---------NKQRLEVIKVH---HNNLRN---TGSDLGTSLEAFQDFDQ 208
SI NL ++ N +V N +N +G SL +
Sbjct: 337 PMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQ--SLYGLNLTLR 394
Query: 209 RISLDIIGHSGETHSIPFVTSNNLPRDNKQRLEVIKIMHAH----AQFCASGDYTLESIR 264
+ + IPF S + + + L V H+H A + D ++
Sbjct: 395 KAK---APSGLDQSRIPF--SERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVS 449
Query: 265 ASIQDLT-----TECAQ----HDDSILIVLSDANLDRYGIAPREMGEALNAEAASVRAYA 315
+ +D+ T SI + D + P + +A +
Sbjct: 450 FNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCII----RLPVKWETTTQFKATHI---- 501
Query: 316 IFIGSLGDQA-KRLTQELPAGRG 337
+ G G LT G G
Sbjct: 502 LDFGPGGASGLGVLTHRNKDGTG 524
Score = 38.1 bits (88), Expect = 0.005
Identities = 43/269 (15%), Positives = 74/269 (27%), Gaps = 75/269 (27%)
Query: 74 LVRAFGEFREL---SDKSLLP-YPYSTREAVHIVKHLQEGVLGQHENTRKFNGYDGRLDR 129
L + +++ +D Y +S + IV + T F G G+ R
Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDTYGFSILD---IVIN------NPVNLTIHFGGEKGKRIR 1685
Query: 130 ELEAVIMVLEAFQDFDQRIRLDIIGHSGETHSIPFVTSIKNLPR-DNKQ-RLEVIKVHHN 187
E + M+ E D + + + S F + L Q L
Sbjct: 1686 ENYSA-MIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL-------- 1736
Query: 188 NLRNTGSDLGTSLEAFQDFDQR--ISLDII--GHS-GE-------THSIPF--------- 226
AF+D + I D GHS GE +
Sbjct: 1737 --------TLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFY 1788
Query: 227 ---VTSNNLPRDNKQRLEVIKIMHAHAQFCASGDYTLESIRASIQDLTTECAQHDDSILI 283
+PRD R I + AS + ++Q + + ++
Sbjct: 1789 RGMTMQVAVPRDELGRSNYGMIAINPGRVAASFS------QEALQYVVERVGKRTGWLVE 1842
Query: 284 VLSDANLDRYG----IAPREMGE--ALNA 306
+ N + A G+ AL+
Sbjct: 1843 I---VNYNVENQQYVAA----GDLRALDT 1864
Score = 38.1 bits (88), Expect = 0.005
Identities = 43/270 (15%), Positives = 87/270 (32%), Gaps = 93/270 (34%)
Query: 136 MVLEAFQDFD--QRI--RLDIIGHSGETHSIPFVTSIKNLPRDNKQRLEV---------I 182
M ++ ++ Q + R D H +T+ SI ++ +N L + I
Sbjct: 1631 MGMDLYKTSKAAQDVWNRAD--NHFKDTYGF----SILDIVINNPVNLTIHFGGEKGKRI 1684
Query: 183 KVHHNNL-RNTGSDLGTSLEA-FQDFDQRISLDIIGHSGETHSI-----P--FVTSNNLP 233
+ +++ + T D E F++ ++ + S P +
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAA- 1743
Query: 234 RDNKQRLEVIK---IMHAHAQFCA--S-GDYT-LESIRASIQDLTTECAQHDDSILIV-- 284
E +K ++ A A F A S G+Y L S+ A + ++ E + +V
Sbjct: 1744 ------FEDLKSKGLIPADATF-AGHSLGEYAALASL-ADV--MSIE-----SLVEVVFY 1788
Query: 285 ----LSDA------NLDRYGIA---PREMGEALNAEAASVRAYAIFIGSLGDQAKRLTQE 331
+ A YG+ P + + + EA + + +
Sbjct: 1789 RGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEA----------------LQYVVER 1832
Query: 332 LPAGRGFVCMDLTEI-----PQILQQIFSA 356
+ G++ EI QQ +A
Sbjct: 1833 VGKRTGWLV----EIVNYNVEN--QQYVAA 1856
Score = 29.2 bits (65), Expect = 2.6
Identities = 12/52 (23%), Positives = 18/52 (34%), Gaps = 12/52 (23%)
Query: 307 EAASVRAYAIFIGSLGDQAKRLTQELPAGRGFVCMDLTEIPQILQQIFSASL 358
+A S R + GSL +P F+ LQ+ F+ L
Sbjct: 2 DAYSTRPLTLSHGSL-----EHVLLVPTASFFIA-------SQLQEQFNKIL 41
Score = 27.7 bits (61), Expect = 7.5
Identities = 11/67 (16%), Positives = 23/67 (34%), Gaps = 17/67 (25%)
Query: 294 GIAPREMGEALNAEAASVRAYAIFIGSLGDQAKRLTQELPAGRGFVCMDLTEI----PQI 349
G + MG L + + + ++ ++A ++ GF + +I P
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQ--DVW-----NRADNHFKDT---YGF---SILDIVINNPVN 1671
Query: 350 LQQIFSA 356
L F
Sbjct: 1672 LTIHFGG 1678
>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 = 40.6 bits (94), Expect = 8e-04
Identities = 59/415 (14%), Positives = 122/415 (29%), Gaps = 129/415 (31%)
Query: 2 GLKAFKQKLKEIQMSEYD---AKVYSEYSLPVQNQQ--NDQHRDLFSVHVIDNPSPESEL 56
+ ++ ++E+ Y + + +E P + +Q L++ DN
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN----DNQ------ 124
Query: 57 ALLSSYGPDVPRDTLIRLVRAFGEFRELSDKSLLPYPYSTREAVHIVKHLQEGVLG---- 112
+ + Y +V R +R + L L P ++ GVLG
Sbjct: 125 -VFAKY--NVSRLQPYLKLR-----QAL--LELRPAKN-------VLID---GVLGSGKT 164
Query: 113 --------QHENTRKFNG--Y---DGRLDRELEAVIMVLEAFQDFDQRIRLDIIGHSGET 159
++ K + + + E V+ +L+ ++D S
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSP-ETVLEMLQKLL-----YQIDPNWTSRSD 218
Query: 160 HSIPFVTSIKNLPRDNKQRLEVIKVHHNNL---RNTGSDLGTSLEAFQDFDQRISLDIIG 216
HS I ++ + +RL K + N L N + AF + +I
Sbjct: 219 HSSNIKLRIHSI-QAELRRLLKSKPYENCLLVLLNV-QNAKA-WNAF-NLSCKI------ 268
Query: 217 HSGETHSIPFVTSNNLPRD-------NKQRLEVIKIMHAHAQFCASGDYTLE----SIRA 265
+T+ R + I + H + D +
Sbjct: 269 ---------LLTT----RFKQVTDFLSAATTTHISLDHHSMTL--TPDEVKSLLLKYLDC 313
Query: 266 SIQDLTTE-CAQHDDSILIV---LSDA-----NLDRYGIAP--REMGEALNA-EAASVRA 313
QDL E + + I+ + D N + +LN E A R
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 314 Y----AIFIGSLGDQAKRLTQELPAGRGFVC-----MDLTEIPQILQQIFSASLL 359
++F A +P + + +++ ++ ++ SL+
Sbjct: 374 MFDRLSVF----PPSAH-----IPTIL--LSLIWFDVIKSDVMVVVNKLHKYSLV 417
Score = 39.1 bits (90), Expect = 0.003
Identities = 38/304 (12%), Positives = 84/304 (27%), Gaps = 92/304 (30%)
Query: 3 LKAFKQKLKEIQMSEYDAKVYSEYSLPV-QNQQNDQHRDLFSVHVIDNPSPESELALLSS 61
L F+ + +D K + + ++ D H+I + S L
Sbjct: 22 LSVFEDAFVD----NFDCKDVQDMPKSILSKEEID--------HIIMSKDAVSGTLRLF- 68
Query: 62 YGPDVPRDTLIRLVRAFGEFRELSDKSLLPYPYSTREAVHIVKHLQEGVLGQHENTRKFN 121
+V+ F E+ + Y + ++ ++ TR +
Sbjct: 69 ---WTLLSKQEEMVQKF--VEEVLRIN---YKF-------LMSPIKTEQRQPSMMTRMYI 113
Query: 122 GYDGRLDRELEAVIMVLEAFQDFDQRIRLDIIGHSGETHSIPFVTSIKNLPRDNKQRLEV 181
RL + Q F + N+ R Q
Sbjct: 114 EQRDRLYNDN----------QVFAKY----------------------NVSR--LQPYLK 139
Query: 182 IKVHHNNLRNT---------GSDLG-TSL--EAFQDFDQRISLD--I----IGHSGETHS 223
++ LR GS G T + + + + +D I + + +
Sbjct: 140 LRQALLELRPAKNVLIDGVLGS--GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET 197
Query: 224 IPFVTSNNLPRDNKQRLEVIKIMHAHAQFCASGDYTLESIRASIQDLTTECAQHDDSILI 283
+ L + + ++ + SI+A ++ L +++ L+
Sbjct: 198 V-LEMLQKLLYQIDPNW------TSRSDHSSNIKLRIHSIQAELRRLLKS-KPYENC-LL 248
Query: 284 VLSD 287
VL +
Sbjct: 249 VLLN 252
Score = 32.1 bits (72), Expect = 0.32
Identities = 17/99 (17%), Positives = 32/99 (32%), Gaps = 25/99 (25%)
Query: 247 HAHAQF-CASGDYTLESI-----RASIQDLTTECAQHDDSILIVLSDANLDRYGIAPREM 300
H H F Y + I A + + +C D +LS +D
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFEDAFVDNF--DCKDVQDMPKSILSKEEID--------- 52
Query: 301 GEALNAEAASVRAYAIFIGSLGDQAKRLTQELPAGRGFV 339
+ ++ A +F +L + + + Q+ FV
Sbjct: 53 -HIIMSKDAVSGTLRLF-WTLLSKQEEMVQK------FV 83
>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 = 36.9 bits (84), Expect = 0.004
Identities = 10/23 (43%), Positives = 15/23 (65%), Gaps = 3/23 (13%)
Query: 7 KQKLKEIQMSEYDAKVYSEYSLP 29
KQ LK++Q S K+Y++ S P
Sbjct: 19 KQALKKLQAS---LKLYADDSAP 38
>4fev_A Aminoglycoside 3'-phosphotransferase APHA1-IAB; pyrazolopyrimidine,
PP1, protein kinase inhibitor; HET: KAN PP1; 1.89A
{Acinetobacter baumannii} PDB: 4feu_A* 4few_A* 4fex_A*
4ej7_A* 3r78_A*
Length = 272
Score = 29.6 bits (66), Expect = 1.3
Identities = 12/47 (25%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 36 DQHRDLFSV-HVIDNPSPESELALLSSYGPDVPRDTLIRLVRAFGEF 81
D+++DL + + + SP + L YG D P ++ EF
Sbjct: 225 DRYQDLAILWNCLGEFSPSLQKRLFQKYGIDNPDMNKLQFHLMLDEF 271
>3p1v_A Metallo-endopeptidase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-biology; HET: MSE; 1.93A {Bacteroides ovatus atcc
8483} PDB: 4df9_A*
Length = 407
Score = 28.9 bits (64), Expect = 3.0
Identities = 6/39 (15%), Positives = 16/39 (41%), Gaps = 3/39 (7%)
Query: 36 DQHRDLFSVHVIDNPSPESELALLSSYGPDVPRDTLIRL 74
+ F++ + +PS +S +S + + T +
Sbjct: 193 RSMKSKFNIVAVASPSTDSG---VSVPRENQWKQTAVHS 228
>3u7b_A Endo-1,4-beta-xylanase; TIM barrel, hydrolase; HET: NAG BMA MAN;
1.94A {Fusarium oxysporum}
Length = 327
Score = 28.2 bits (63), Expect = 4.6
Identities = 4/42 (9%), Positives = 14/42 (33%)
Query: 3 LKAFKQKLKEIQMSEYDAKVYSEYSLPVQNQQNDQHRDLFSV 44
L+ ++ +E D ++ + + D + +
Sbjct: 231 LQGLADLGVDVAYTELDIRMNTPATQQKLQTNADAYARIVGS 272
>3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription
regulation, DNA-directed RNA polymer
nucleotidyltransferase; HET: MLY; 2.05A {Escherichia
coli k-12} PDB: 3n4m_B* 1lb2_B* 3n97_B* 1xs9_D
Length = 86
Score = 25.5 bits (56), Expect = 9.5
Identities = 14/48 (29%), Positives = 19/48 (39%), Gaps = 4/48 (8%)
Query: 310 SVRAY----AIFIGSLGDQAKRLTQELPAGRGFVCMDLTEIPQILQQI 353
+VR+ A I +GD +R EL LTEI +L
Sbjct: 20 TVRSANCLXAEAIHYIGDLVQRTEVELLXTPNLGXXSLTEIXDVLASR 67
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
0.319 0.135 0.383
Gapped
Lambda K H
0.267 0.0544 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,449,290
Number of extensions: 334853
Number of successful extensions: 940
Number of sequences better than 10.0: 1
Number of HSP's gapped: 934
Number of HSP's successfully gapped: 21
Length of query: 360
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 265
Effective length of database: 4,049,298
Effective search space: 1073063970
Effective search space used: 1073063970
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 (21.7 bits)
S2: 58 (26.5 bits)