RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2995
(429 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 = 55.8 bits (134), Expect = 2e-08
Identities = 77/439 (17%), Positives = 135/439 (30%), Gaps = 169/439 (38%)
Query: 21 GRARYF--F----NTTNPINLLASPSQLDEAKRLVDDYKKGKELPGKTLDEVWRAKDLVD 74
G A+ F NT + +E L D Y+ L G + A+ L +
Sbjct: 152 GNAQLVAIFGGQGNTDDY---------FEE---LRDLYQTYHVLVGDLIKFS--AETLSE 197
Query: 75 SAFHPQTGEKMIIFG-------RMSAQVPMNVFITGAMLTFYKSTPAVVFWQWFNQSFNA 127
EK+ G + P ++ ++ P + Q
Sbjct: 198 LIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC----PLIGVIQ-------- 245
Query: 128 VVNYT---NRSGGSPVDESLLIKSYCAATG------SAVATAL-----SLNHLAKKAPPI 173
+ +Y G +P + L ATG +AVA A S +KA +
Sbjct: 246 LAHYVVTAKLLGFTPGE---LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV 302
Query: 174 -F---AR---LVPFSAVAAANMVNIPFMRNKEITDGLPVYDANNNLIGNSQKAAVTGISM 226
F R P +++ + + + E +G+P M
Sbjct: 303 LFFIGVRCYEAYPNTSLPPSIL-----EDSLENNEGVPSP-------------------M 338
Query: 227 VVVSRIGMATPGMSELLIKSYCAAT------GSAVATAL--------------SL----N 262
+ +S +++ ++ Y T G V +L SL
Sbjct: 339 LSIS-------NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL 391
Query: 263 HLAK-KAP----------------------PIFARLVPF-SA--VAAANMVNIPFMRNKE 296
L K KAP P+ + PF S V A++++N ++N
Sbjct: 392 TLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS---PFHSHLLVPASDLINKDLVKNNV 448
Query: 297 ITDG----LPVYDANN--NLIGNSQKAAVTGISMVVVSRI-------GMAT------PGM 337
+ +PVYD + +L S + + ++ + AT PG
Sbjct: 449 SFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGG 508
Query: 338 I-GIPVILNYLERKGT-IR 354
G+ V L + + GT +R
Sbjct: 509 ASGLGV-LTHRNKDGTGVR 526
Score = 52.0 bits (124), Expect = 3e-07
Identities = 90/500 (18%), Positives = 154/500 (30%), Gaps = 166/500 (33%)
Query: 29 TTNPINL---------LASPSQLDEAKRLVDDYKKGKELPGKTLDEVWRAKDLVDSAFHP 79
+T P+ L L + A +L + + K LP T + + A
Sbjct: 5 STRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNK--ILPEPT-EGFAADDEPTTPA--- 58
Query: 80 QTGEKMIIF-GRMSAQV-PMNVFITGAMLTFYKSTPAVVFWQWFNQSF-------NAVVN 130
E + F G +S+ V P V +L + + F +
Sbjct: 59 ---ELVGKFLGYVSSLVEPSKVGQFDQVL-------NLCLTE-FENCYLEGNDIHALAAK 107
Query: 131 YTNRSGGSPVDESLLIKSYCAA-----------TGSAVATALS----------------- 162
+ + V LIK+Y A + SA+ A+
Sbjct: 108 LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD 167
Query: 163 -----LNHLAKKAPPIFARLVPFSAVAAANMVNIPFMRNKEITDGLPVYDANNN------ 211
L L + + L+ FSA + ++ K T GL + + N
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 212 ------------LIGNSQKAAVTGISMVVVSRIGMATPGMSELLIKSYCAATG------S 253
LIG Q A VV +++ TPG L ATG +
Sbjct: 228 KDYLLSIPISCPLIGVIQLA-----HYVVTAKLLGFTPGE---LRSYLKGATGHSQGLVT 279
Query: 254 AVATAL-----SLNHLAKKAPPI-F---AR---LVPFSAVAAAN--------------MV 287
AVA A S +KA + F R P +++ + M+
Sbjct: 280 AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML 339
Query: 288 NIPFMRNKEITDGLPVYDANNNLIGNSQKAAVT---GISMVVVSRIGMATPGMIGIPVIL 344
+I + +++ D + + N+ + ++ ++ G +VVS G P L
Sbjct: 340 SISNLTQEQVQDYV---NKTNSHLPAGKQVEISLVNGAKNLVVS----------GPPQSL 386
Query: 345 NYLERKGTIRHLKWAPTAI----------QIGLLAVFLTFTTPMCCALF------PQQTP 388
L T+R K AP+ + ++ FL +P F P
Sbjct: 387 YGLNL--TLRKAK-APSGLDQSRIPFSERKLKFSNRFLPVASP-----FHSHLLVPASDL 438
Query: 389 IQISSLEPELQERAKKLNPP 408
I ++ + AK + P
Sbjct: 439 INKDLVKNNVSFNAKDIQIP 458
Score = 43.1 bits (101), Expect = 2e-04
Identities = 52/249 (20%), Positives = 79/249 (31%), Gaps = 88/249 (35%)
Query: 68 RAKDLVDSAFHPQTGEKMIIFGRMSAQVPMNVFITGAMLTFYKSTPAVVFWQWFNQSFNA 127
L DS + E G S PM + I+ T V
Sbjct: 320 PPSILEDSLEN---NE-----GVPS---PM-LSISNL-------TQEQVQ---------D 351
Query: 128 VVNYTNRSGGSPVDESLLIKSYCAA-----TGSAVA-TALSLNHLAK-KAP--------- 171
VN TN P + + I A +G + L+L L K KAP
Sbjct: 352 YVNKTNSHL--PAGKQVEISLVNGAKNLVVSGPPQSLYGLNL-TLRKAKAPSGLDQSRIP 408
Query: 172 -------------PIFARLVPF-SA--VAAANMVNIPFMRNKEITDG----LPVYDANN- 210
P+ + PF S V A++++N ++N + +PVYD +
Sbjct: 409 FSERKLKFSNRFLPVAS---PFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG 465
Query: 211 -NLIGNSQKAAVTGISMVVVSRI-------GMAT------PG-MSEL--LIKSYCAATGS 253
+L S + + ++ + AT PG S L L TG
Sbjct: 466 SDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGV 525
Query: 254 AVATALSLN 262
V A +L+
Sbjct: 526 RVIVAGTLD 534
Score = 28.5 bits (63), Expect = 5.7
Identities = 16/82 (19%), Positives = 24/82 (29%), Gaps = 32/82 (39%)
Query: 341 PVILNYLERKGTIRHLKWAPTAIQIGLLAVFLTFTTPMCCALFPQQTPIQISSLEPELQE 400
P+ L++ G++ H P Q LQE
Sbjct: 8 PLTLSH----GSLEH-----------------VLLVPTASFFIASQ-----------LQE 35
Query: 401 RAKKLNPPPTERAKKLNPPPTV 422
+ K+ P PTE + P T
Sbjct: 36 QFNKILPEPTEGFAADDEPTTP 57
>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 = 44.1 bits (103), Expect = 7e-05
Identities = 59/483 (12%), Positives = 122/483 (25%), Gaps = 193/483 (39%)
Query: 22 RARYFFNTTNPINLLASPSQLDEAKRLVD-----DYK----------KGKELPGK----T 62
F T LL+ ++ ++ V+ +YK + + +
Sbjct: 63 GTLRLFWT-----LLSKQEEM--VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115
Query: 63 LDEVWRAKDLVDSAFHPQTGEKMIIFGR---MSAQVPMNVFITGAMLTFYKSTPAV---- 115
D ++ + + + + R + + NV I G +L K+ A+
Sbjct: 116 RDRLYNDNQVFAKYNVSR--LQPYLKLRQALLELRPAKNVLIDG-VLGSGKTWVALDVCL 172
Query: 116 -----------VFWQWFNQSFNAVVNYTNRSGGSPVDESLLIKSYCAATGSAVATALSLN 164
+FW +N N + E++L L
Sbjct: 173 SYKVQCKMDFKIFW----------LNLKNCN----SPETVLEM---------------LQ 203
Query: 165 HLAKKAPPIFARLVPFSAVAAANMVNIP------------FMRNKEITDGLPVYD--ANN 210
L ++ P + + NI +++K + L V N
Sbjct: 204 KL-------LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA 256
Query: 211 NLIGNSQKAAVTGISMVVVSRIGMATPGMSELLIKSYCAATGSAVATALSLNHLAK---- 266
A +++ +R K +A T +SL+H +
Sbjct: 257 KAW----NAFNLSCKILLTTRF------------KQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 267 -KAPPIFARLVPFSAVAAANMVNIPFMRNKEITDGLPVYDANNNLIGNSQKAAVTGISMV 325
+ + + + + D LP + +T
Sbjct: 301 DEVKSLLLKYL-----------------DCRPQD-LP-------------REVLTTNPRR 329
Query: 326 VVSRIGMATPGMIGIPVILNYLERKGTIRHLKWAP--TAIQIGLLAVFLTFTTP------ 377
+ +I I + L +H+ T I+ L P
Sbjct: 330 L---------SIIA-ESIRDGLATWDNWKHVNCDKLTTIIE-----SSLNVLEPAEYRKM 374
Query: 378 -MCCALFPQQTPIQISSL----------EPE--LQERAKK-LNPPPTERAKKLNPPPTVG 423
++FP I L + + + K L +K T+
Sbjct: 375 FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL-------VEKQPKESTIS 427
Query: 424 YYN 426
+
Sbjct: 428 IPS 430
Score = 32.9 bits (74), Expect = 0.22
Identities = 32/207 (15%), Positives = 56/207 (27%), Gaps = 77/207 (37%)
Query: 9 LDKPRWDQNTYWGRARYFFNTTNPINLLASPSQLDEA---KRLVDDYKKGKELPGKTLDE 65
++K + ++T + I L +E + +VD Y K L
Sbjct: 417 VEK-QPKESTI---------SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDL-- 464
Query: 66 VWRAKDLVDS------AFH---PQTGEKMIIFGRMSAQVPMNVFITGAMLTFYKSTPAVV 116
+D H + E+M +F VF L F
Sbjct: 465 ---IPPYLDQYFYSHIGHHLKNIEHPERMTLFRM--------VF-----LDF-------- 500
Query: 117 FWQWFNQSFNAVVNYTNRSGGSPVDESLLIKSYCAATGSAVATALSL----NHLAKKAPP 172
++ Q R + A+GS + T L ++ P
Sbjct: 501 --RFLEQKI--------RHDSTA----------WNASGSILNTLQQLKFYKPYICDND-P 539
Query: 173 IFARLVP----FSAVAAANMVNIPFMR 195
+ RLV F N++ +
Sbjct: 540 KYERLVNAILDFLPKIEENLICSKYTD 566
>3u9g_A Zinc finger CCCH-type antiviral protein 1; zinc finger protein;
1.80A {Rattus norvegicus}
Length = 229
Score = 29.4 bits (65), Expect = 1.7
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 232 IGMATPGMSELLIKSYCAATGS 253
+GMA PG+ + K CA G
Sbjct: 3 LGMADPGVCCFITKILCAHGGR 24
>3oh8_A Nucleoside-diphosphate sugar epimerase (SULA FAMI; DUF1731_C,
northeast structural genomics consortium, NESG, C
PSI-biology; 2.00A {Corynebacterium glutamicum}
Length = 516
Score = 29.3 bits (66), Expect = 3.1
Identities = 15/67 (22%), Positives = 24/67 (35%), Gaps = 16/67 (23%)
Query: 43 DEAKRLVD--DYKKGKELPGKTLDEV--WRAKDLV-DSAFHPQTGEKMIIFGRMSAQVPM 97
D + D + LP TL + +R L+ D F + + P+
Sbjct: 100 DGGTLITDSVSTR----LPASTLTGMFAYRQTQLIEDLKFLSR-------TSTLFDGSPL 148
Query: 98 NVFITGA 104
V ITG+
Sbjct: 149 TVAITGS 155
>3hjz_A Transaldolase B; parachlorococcus, marine, cyanobacteria; HET: MSE;
1.90A {Prochlorococcus marinus str}
Length = 334
Score = 28.4 bits (63), Expect = 4.5
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 5/70 (7%)
Query: 29 TTNPINLLASPSQLDEAKRLVDD-YKKGKELPGKTLDEVWRAKDLVDSAFHPQTGEKM-- 85
TTNP +LA+ ++ + +L+D + + E+ K+ VD G+++
Sbjct: 34 TTNPSLILAA-AKNPDYVKLIDKAIESSENTLPNGFSEIELIKETVDQVS-VFFGKEILK 91
Query: 86 IIFGRMSAQV 95
II GR+S +V
Sbjct: 92 IISGRVSTEV 101
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 0.133 0.396
Gapped
Lambda K H
0.267 0.0502 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,633,145
Number of extensions: 410027
Number of successful extensions: 973
Number of sequences better than 10.0: 1
Number of HSP's gapped: 966
Number of HSP's successfully gapped: 24
Length of query: 429
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 333
Effective length of database: 4,021,377
Effective search space: 1339118541
Effective search space used: 1339118541
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: 59 (27.0 bits)