RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4843
(277 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 = 44.3 bits (104), Expect = 3e-05
Identities = 47/326 (14%), Positives = 93/326 (28%), Gaps = 132/326 (40%)
Query: 10 YLRTAYPIDPETVTENTGLIKLSLPILGQSDVIYYMCTKENRTLG--------------- 54
YL + PI S P++G + +Y+ T + LG
Sbjct: 230 YLLSI-PI--------------SCPLIGVIQLAHYVVTA--KLLGFTPGELRSYLKGATG 272
Query: 55 ------TAGGAAHSSVWVHLGQETFLQI--EAYEKLIPFWLAIVIIVTCLGFSSL--FSG 104
TA A + W E+F +A L F++ G +
Sbjct: 273 HSQGLVTAVAIAETDSW-----ESFFVSVRKAITVL--FFI---------GVRCYEAYPN 316
Query: 105 LNL-------------GLMS-------LNRTDL-KII--CNTGTEHERKYAKTIIPVREH 141
+L G+ S L + + + N+ ++ +++ ++
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN 376
Query: 142 ----GN----YLLCSILLGTEHERKYAKTIIPVRE----------------HGNYLLCSI 177
G Y L L + ++ IP E H + L
Sbjct: 377 LVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLL---- 432
Query: 178 LLGNVMVNSTFTILLDDITSGLVAVIGSTLAIVIFGEISPQAVCSRHG--LMIGAKTINV 235
++ D+ V+ + I ++ + G L + + +I+
Sbjct: 433 -------VPASDLINKDLVKNNVSFNAKDIQIPVY--------DTFDGSDLRVLSGSISE 477
Query: 236 TKVVMILTFPL------AYPISKILD 255
V I+ P+ + + ILD
Sbjct: 478 RIVDCIIRLPVKWETTTQFKATHILD 503
Score = 38.9 bits (90), Expect = 0.002
Identities = 52/335 (15%), Positives = 104/335 (31%), Gaps = 106/335 (31%)
Query: 7 LGRYLR-TAYPIDPETVTENTGLIKLSL-----PILGQSDVIYYMCTKENRTLGTAGGAA 60
+G++L + ++P V + ++ L L L +D+
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI------------------- 101
Query: 61 HSSVWVHLGQETFLQIEAYEKLI-PFWLAIVII---VTCLGFSSLFSGLNLG---LMSL- 112
H+ L QE + ++LI + A ++ S+LF + G L+++
Sbjct: 102 HALA-AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF 160
Query: 113 ----NRTD----LKIICNTGTEHERKYAKTIIP-VREHGNYLLCSILLGTEHERKYAKTI 163
N D L+ + T Y + ++ L I + E+ + + +
Sbjct: 161 GGQGNTDDYFEELRDLYQT-------YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 164 -------IPVREHGNYLLCSIL----------LGNVMVNSTFTIL------LDDITSGLV 200
P L SI L + +V T +L L G
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV--TAKLLGFTPGELRSYLKGAT 271
Query: 201 AVIGSTL-AIVI--------FGEISPQAVCSRHGLM--IGAKTINVTKVVMILTFPLAYP 249
+ A+ I F +A+ ++ IG + +P
Sbjct: 272 GHSQGLVTAVAIAETDSWESFFVSVRKAI----TVLFFIGVRC--------YEAYPNTSL 319
Query: 250 ISKILDWILGEEIG------NV--YTRERLKELVK 276
IL+ L G ++ T+E++++ V
Sbjct: 320 PPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVN 354
>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 = 34.1 bits (77), Expect = 0.052
Identities = 41/303 (13%), Positives = 81/303 (26%), Gaps = 93/303 (30%)
Query: 19 PETVTE-NTGLIKLSLPILGQSDVIYYMCTKENRTLGTAGGAAHSSVWVHLGQETFLQIE 77
+ + L++L P ++ +I + G+ + + +
Sbjct: 134 LQPYLKLRQALLELR-P--AKNVLIDGV-----------LGSGKTW----VALDV-CLSY 174
Query: 78 AYEKLIP---FWLAI------VIIVTCLGFSSLFSGLNLGLMSLNRTDLKIICNTGTEHE 128
+ + FWL + ++ L L ++ S + I +
Sbjct: 175 KVQCKMDFKIFWLNLKNCNSPETVLEML--QKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232
Query: 129 RKYAKTIIPVREHGNYLL-----------------CSILLGTEHERKYAKTIIPVREHGN 171
+ ++ + + N LL C ILL T R K +
Sbjct: 233 EL--RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT---RF--KQVTDFLSAAT 285
Query: 172 YLLCSILLGNVMVNSTFT------IL---LDDITSGL--VAVIGSTLAIVIFGEISPQAV 220
S+ + T T +L LD L + + + I E +
Sbjct: 286 TTHISL----DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL 341
Query: 221 CSRHGLMIGAKTINVTKVVMILTFPLAYPISKILDWILGEEIGNVYTRERLKEL------ 274
+ K +N K+ I I L+ + E R+ L
Sbjct: 342 ATWDNW----KHVNCDKLTTI--------IESSLNVLEPAEY-----RKMFDRLSVFPPS 384
Query: 275 VKI 277
I
Sbjct: 385 AHI 387
Score = 28.3 bits (62), Expect = 3.6
Identities = 18/92 (19%), Positives = 27/92 (29%), Gaps = 30/92 (32%)
Query: 67 HLGQETFLQIEAYEKLIPF--------WLAIVIIVTCLGFSSLFSGLNLGLMSLNRTDLK 118
HL IE E++ F +L I +++ S LN L L
Sbjct: 480 HLKN-----IEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT----LQ--QL- 527
Query: 119 IICNTGTEHERKYAKTIIPVREHGNYLLCSIL 150
+ Y I L+ +IL
Sbjct: 528 ----------KFYKPYICDNDPKYERLVNAIL 549
>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 = 27.3 bits (60), Expect = 5.0
Identities = 6/34 (17%), Positives = 14/34 (41%), Gaps = 8/34 (23%)
Query: 204 GSTLAIVIF----GEISPQAVCSRHGLMIGAKTI 233
++ G++ VC+ GL++ K +
Sbjct: 28 KVYPPKIVERFSEGDV----VCALCGLVLSDKLV 57
>3ftj_A MACB, macrolide export ATP-binding/permease protein MACB;
macrolide-specific pump, ABC-type transporter; 2.00A
{Actinobacillus actinomycetemcomitans}
Length = 226
Score = 26.9 bits (60), Expect = 6.2
Identities = 7/26 (26%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 193 DDITSGL-VAVIGSTLAIVIFGEISP 217
DD+ V V+ + IF +P
Sbjct: 98 DDVDQSNQVVVLDESAKKAIFANENP 123
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 0.140 0.415
Gapped
Lambda K H
0.267 0.0541 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,263,919
Number of extensions: 253865
Number of successful extensions: 448
Number of sequences better than 10.0: 1
Number of HSP's gapped: 447
Number of HSP's successfully gapped: 11
Length of query: 277
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 185
Effective length of database: 4,133,061
Effective search space: 764616285
Effective search space used: 764616285
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: 57 (26.2 bits)