RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 014514
(423 letters)
>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp,
lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}
Length = 829
Score = 612 bits (1580), Expect = 0.0
Identities = 180/426 (42%), Positives = 258/426 (60%), Gaps = 3/426 (0%)
Query: 1 MARKKIREYDSKRLLKEHLKRLAGLDLQICSAQVTESTDFSELTNKEPWLSSSRLVVKPD 60
M+ K I E K LL + + + + + A+VT TD++ L PWL S LVVKPD
Sbjct: 1 MSAKAISEQTGKELLYKFICTTSAIQNRFKYARVTPDTDWARLLQDHPWLLSQNLVVKPD 60
Query: 61 MLFGKRGKSGLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQ--EYY 118
L +RGK GLV +NL L V ++K RLG E +G G + F++EPFVPH+Q E+Y
Sbjct: 61 QLIKRRGKLGLVGVNLTLDGVKSWLKPRLGQEATVGKATGFLKNFLIEPFVPHSQAEEFY 120
Query: 119 LSIVSDRLGCTISFSECGGIEIEENWDKVKTIFLPTEKHMTL-DACAPLIATLPLEFRGK 177
+ I + R G + F GG+++ + K + + + ++ + D L+ P + +
Sbjct: 121 VCIYATREGDYVLFHHEGGVDVGDVDAKAQKLLVGVDEKLNPEDIKKHLLVHAPEDKKEI 180
Query: 178 IGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPL 237
+ FI G+F ++DL F+++E+NP + Y LD+ ++D TA + KW +IEFP
Sbjct: 181 LASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDATADYICKVKWGDIEFPP 240
Query: 238 PFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASE 297
PFGR E++I LD K+ ASLK T+LNPKGRIWTMVAGGGASV+Y+DT+ DLG +E
Sbjct: 241 PFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVYSDTICDLGGVNE 300
Query: 298 LGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRA 357
L NY EYSGAP+E++ YA+ ++ T + + L+IGG IANFT+VA TF GI+RA
Sbjct: 301 LANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGKILIIGGSIANFTNVAATFKGIVRA 360
Query: 358 LREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 417
+R+ + LK + IFVRRGGPNYQ GL M +G+ GIP+ V+G E MT I A+
Sbjct: 361 IRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFGTETHMTAIVGMALG 420
Query: 418 CIMSAS 423
+
Sbjct: 421 HRPIPN 426
>3mwd_A ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_A*
Length = 425
Score = 504 bits (1301), Expect = e-179
Identities = 179/420 (42%), Positives = 257/420 (61%), Gaps = 3/420 (0%)
Query: 1 MARKKIREYDSKRLLKEHLKRLAGLDLQICSAQVTESTDFSELTNKEPWLSSSRLVVKPD 60
M+ K I E K LL + + + + + A+VT TD++ L PWL S LVVKPD
Sbjct: 1 MSAKAISEQTGKELLYKFICTTSAIQNRFKYARVTPDTDWARLLQDHPWLLSQNLVVKPD 60
Query: 61 MLFGKRGKSGLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQ--EYY 118
L +RGK GLV +NL L V ++K RLG E +G G + F++EPFVPH+Q E+Y
Sbjct: 61 QLIKRRGKLGLVGVNLTLDGVKSWLKPRLGQEATVGKATGFLKNFLIEPFVPHSQAEEFY 120
Query: 119 LSIVSDRLGCTISFSECGGIEIEENWDKVKTIFLPTEKHMTLDAC-APLIATLPLEFRGK 177
+ I + R G + F GG+++ + K + + + ++ + + L+ P + +
Sbjct: 121 VCIYATREGDYVLFHHEGGVDVGDVDAKAQKLLVGVDEKLNPEDIKKHLLVHAPEDKKEI 180
Query: 178 IGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPL 237
+ FI G+F ++DL F+++E+NP + Y LD+ ++D TA + KW +IEFP
Sbjct: 181 LASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDATADYICKVKWGDIEFPP 240
Query: 238 PFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASE 297
PFGR E++I LD K+ ASLK T+LNPKGRIWTMVAGGGASV+Y+DT+ DLG +E
Sbjct: 241 PFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVYSDTICDLGGVNE 300
Query: 298 LGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRA 357
L NY EYSGAP+E++ YA+ ++ T + + L+IGG IANFT+VA TF GI+RA
Sbjct: 301 LANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGKILIIGGSIANFTNVAATFKGIVRA 360
Query: 358 LREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 417
+R+ + LK + IFVRRGGPNYQ GL M +G+ GIP+ V+G E MT I A+
Sbjct: 361 IRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFGTETHMTAIVGMALG 420
>2nu8_B SCS-beta, succinyl-COA synthetase beta chain; citric acid cycle,
heterotetramer, ligase, ATP-grAsp fold, R fold; HET:
COA; 2.15A {Escherichia coli} SCOP: c.23.4.1 d.142.1.4
PDB: 1scu_B* 2nu6_B* 1jkj_B* 2nu7_B* 2nu9_B* 2nua_B*
2scu_B* 1jll_B* 1cqj_B* 1cqi_B*
Length = 388
Score = 72.9 bits (180), Expect = 3e-14
Identities = 54/237 (22%), Positives = 84/237 (35%), Gaps = 31/237 (13%)
Query: 5 KIREYDSKRLLKEHLKRLAGLDLQICSAQVTESTDFSELTNKEPWLSSSRLVVKPDMLFG 64
+ EY +K+L + L + E + + VVK + G
Sbjct: 2 NLHEYQAKQLFARY-------GLPAPVGYACTTPR--EAEEAASKIGAGPWVVKCQVHAG 52
Query: 65 KRGKSGLVALNLDLAQVAEFVKGRLG-------TEVEMGGCKG-PITTFIVEPFVPHNQE 116
RGK+G V + + F + LG T G P+ +VE +E
Sbjct: 53 GRGKAGGVKVVNSKEDIRAFAENWLGKRLVTYQT-----DANGQPVNQILVEAATDIAKE 107
Query: 117 YYLSIVSDRLGCTISF--SECGGIEIEE----NWDKVKTIFLPTEKHMTLDACAPLIATL 170
YL V DR + F S GG+EIE+ + + L L L
Sbjct: 108 LYLGAVVDRSSRRVVFMASTEGGVEIEKVAEETPHLIHKVALDPLTGPMPYQGRELAFKL 167
Query: 171 PL--EFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAF 224
L + + MG+ +F + D + IE+NP + G+ LD + D A F
Sbjct: 168 GLEGKLVQQFTKIFMGLATIFLERDLALIEINPLVITKQGDLICLDGKLGADGNALF 224
>3ufx_B Succinyl-COA synthetase beta subunit; ATP-grAsp fold, ligase; HET:
GDP; 2.35A {Thermus aquaticus}
Length = 397
Score = 70.2 bits (173), Expect = 2e-13
Identities = 50/230 (21%), Positives = 94/230 (40%), Gaps = 24/230 (10%)
Query: 5 KIREYDSKRLLKEHLKRLAGLDLQICSAQVTESTDFSELTNKEPWLSSSRLVVKPDMLFG 64
+ EY +K +L + + + +V + + E R+V+K + G
Sbjct: 2 NLHEYQAKEILARY-------GVPVPPGKVAYTPE--EAKRIAEEFGK-RVVIKAQVHVG 51
Query: 65 KRGKSGLVALNLDLAQVAEFVKGRLGTEVEMGGCKG-PITTFIVEPFVPHNQEYYLSIVS 123
RGK+G V L + E + LG + KG + +V V +EYY ++
Sbjct: 52 GRGKAGGVKLADTPQEAYEKAQAILGMNI-----KGLTVKKVLVAEAVDIAKEYYAGLIL 106
Query: 124 DRLGCTISF--SECGGIEIEE----NWDKVKTIFLPTEKHMTLDACAPLIATLPLEFR-G 176
DR + S+ GG++IEE + + ++ K ++ LE
Sbjct: 107 DRAKKRVVLMLSKEGGVDIEEVAAERPEAIHKFWIDPHKGFRPFEAREMVKRAGLEGNLN 166
Query: 177 KIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAFK 225
K+ ++ ++ ++ +D S E+NP + +G D + LDD A F+
Sbjct: 167 KLAQVLVALYRAYEGVDASIAEINPLVVTTDGGIVAADAKIVLDDNALFR 216
>2fp4_B Succinyl-COA ligase [GDP-forming] beta-chain, mitochondrial; active
site phosphohistidine residue; HET: NEP GTP; 2.08A {Sus
scrofa} SCOP: c.23.4.1 d.142.1.4 PDB: 2fpg_B* 2fpi_B*
2fpp_B* 1euc_B* 1eud_B*
Length = 395
Score = 68.3 bits (168), Expect = 9e-13
Identities = 53/245 (21%), Positives = 100/245 (40%), Gaps = 38/245 (15%)
Query: 5 KIREYDSKRLLKEHLKRLAGLDLQICSAQVTESTDFSELTNKEPWLSSSRLVVKPDMLFG 64
++EY SK+L+ ++ +++ V ++ + E L++ +V+K +L G
Sbjct: 2 NLQEYQSKKLMSDN-------GVKVQRFFVADTAN--EALEAAKRLNAKEIVLKAQILAG 52
Query: 65 KRGK-------SGLVALNLDLAQVAEFVKGRLG-------TEVEMGGCKG-PITTFIVEP 109
RGK G V L D V + K +G T +G + +V
Sbjct: 53 GRGKGVFSSGLKGGVHLTKDPEVVGQLAKQMIGYNLATKQT-----PKEGVKVNKVMVAE 107
Query: 110 FVPHNQEYYLSIVSDRLGCTISF--SECGGIEIEE----NWDKVKTIFLPTEKHMTLDAC 163
+ ++E YL+I+ DR S GG++IEE N + + + + +
Sbjct: 108 ALDISRETYLAILMDRSCNGPVLVGSPQGGVDIEEVAASNPELIFKEQIDIIEGIKDSQA 167
Query: 164 APLIATLPL--EFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDD 220
+ L + + D I ++ +F +D + +E+NPF G+ D + DD
Sbjct: 168 QRMAENLGFLGPLQNQAADQIKKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDD 227
Query: 221 TAAFK 225
A F+
Sbjct: 228 NAEFR 232
>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 = 55.6 bits (133), Expect = 2e-08
Identities = 51/364 (14%), Positives = 109/364 (29%), Gaps = 97/364 (26%)
Query: 2 ARKKIREYDSKRLLKEHL---------KRLAGLDLQICSAQVTESTDFSELTNKEPWLSS 52
+ ++R + + L K +L C +T T F ++T+ ++
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS-CKILLT--TRFKQVTDFLSAATT 286
Query: 53 SRL-VVKPDMLFGKRGKSGLVALNLD-----------------LAQVAEFVKGRLGT--E 92
+ + + M L+ LD L+ +AE ++ L T
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346
Query: 93 VEMGGCKGPITTFI---VEPFVPHN-QEYY--LSIVSD----------RLGCTISFSECG 136
+ C +TT I + P ++ + LS+ + + S+
Sbjct: 347 WKHVNCD-KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405
Query: 137 GIEIE-------ENWDKVKTIFLP-------------TEKHMTL------DACAPLIATL 170
+ + E K TI +P H ++ +
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465
Query: 171 PLEFRGKIGDFIM---------GVFAVFQD--LDFSFIEMNPFTLVNGEPYPLDMRGELD 219
P I +F+ LDF F+E + + + G +
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK----IRHDSTAWNASGSIL 521
Query: 220 DTAA-FKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSAS-----LKFTVLNPKGRIW 273
+T K +K + P + R++++ F+ ++E S L+ ++ I+
Sbjct: 522 NTLQQLKFYKPYICDNDPK-YERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIF 580
Query: 274 TMVA 277
Sbjct: 581 EEAH 584
Score = 50.6 bits (120), Expect = 8e-07
Identities = 49/324 (15%), Positives = 102/324 (31%), Gaps = 92/324 (28%)
Query: 7 REYDSKRLLKEHLKRLAGLDLQICSA-QVTESTDFSELTNKEPWLSSSRLVVKPDMLFGK 65
R Y +R RL D Q+ + V+ + +L L ++ V+ + G
Sbjct: 110 RMYIEQR------DRLYN-DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL----IDGV 158
Query: 66 RG--KSGLVALNLDLAQVAEFVKGRLGTEV---EMGGCKGPITTFIVEPFVPHNQEYYLS 120
G K+ + D+ + V+ ++ ++ + C P T ++E Q+
Sbjct: 159 LGSGKTWVAL---DVCL-SYKVQCKMDFKIFWLNLKNCNSPET--VLEML----QKLLYQ 208
Query: 121 IVSDRLGCTISFSECGGIEIEENWDKVKTIFLPTEKHM-------------TLDA----C 163
I + + S + L ++ + +A C
Sbjct: 209 IDPN--WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC 266
Query: 164 APLIATLPLEFRGK-IGDFIMG-----VFAVFQDLDFS----------FIEMNPFTL--- 204
L+ T R K + DF+ + + + +++ P L
Sbjct: 267 KILLTT-----RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 205 -VNGEPYPLDMRGEL--DDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASL 261
+ P L + E D A + N+K N + ++ + ES ++ L+ +
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKH-VNCD------KLTTIIESSLNVLEPAEYRKM 374
Query: 262 --KFTVLNPKG---------RIWT 274
+ +V P IW
Sbjct: 375 FDRLSVF-PPSAHIPTILLSLIWF 397
>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 = 55.4 bits (133), Expect = 3e-08
Identities = 56/331 (16%), Positives = 96/331 (29%), Gaps = 95/331 (28%)
Query: 15 LKEHLKRLAGLDLQICSAQVTESTDFSELTNKEPWLSSSRLVVKPDMLF--GKRGKSGLV 72
L+ +LK G + +A TD + E + S R + +LF G R
Sbjct: 263 LRSYLKGATGHSQGLVTAVAIAETD-----SWESFFVSVRKAIT--VLFFIGVRCYEAYP 315
Query: 73 ALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFV-------PHNQEYYLSIV-SD 124
+L + + + ++ G M +T V+ +V P ++ +S+V
Sbjct: 316 NTSLPPSILEDSLENNEGVPSPMLSISN-LTQEQVQDYVNKTNSHLPAGKQVEISLVNGA 374
Query: 125 RLGCTISFSECG-------------GIEIEENWD-----------KVKTIFLPT-----E 155
+ + G + D K FLP
Sbjct: 375 K-----NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHS 429
Query: 156 KHMTLDACAPLIATLP---LEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPL 212
+ A + L + F K D + V+ F +G
Sbjct: 430 HLLV-PASDLINKDLVKNNVSFNAK--DIQIPVYDTF----------------DGS---- 466
Query: 213 DMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLD---EKTSASLKFTVLNPK 269
D+R L + + + I P+ + + H LD S T N
Sbjct: 467 DLR-VLSGSISERIVD--CIIRLPVKWETTTQFKAT--HILDFGPGGASGLGVLTHRNKD 521
Query: 270 GRIWTMVAGGGASVIYADTVGDLGYASELGN 300
G G VI A T+ D+ + G
Sbjct: 522 GT--------GVRVIVAGTL-DINPDDDYGF 543
Score = 54.3 bits (130), Expect = 6e-08
Identities = 56/315 (17%), Positives = 82/315 (26%), Gaps = 141/315 (44%)
Query: 113 HNQEYY----LSIVSDR-LGCTISFSECGGIEIEENWDKVKTIFLPTEKHMTLDACAPLI 167
H ++ Y L IV + + TI F G I EN+ M +
Sbjct: 1652 HFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSA-----------MIFETIV--- 1697
Query: 168 ATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDT------ 221
D + +F++++ F E +G L T
Sbjct: 1698 ------------DGKLKTEKIFKEINEHSTSYT-F---RSE------KGLLSATQFTQPA 1735
Query: 222 ------AAFKNFKKWANIEFPLPF-GRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWT 274
AAF++ K I F G HSL E + L
Sbjct: 1736 LTLMEKAAFEDLKSKGLIPADATFAG----------HSLGE-------YAAL-------- 1770
Query: 275 MVAGGGA-SVIYADTV------GDLGY----ASELG--NYAEYSGAPN------EEEVLQ 315
+ S+ V G ELG NY + P +E LQ
Sbjct: 1771 -ASLADVMSI--ESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQ 1827
Query: 316 YARVVIDCATADPDGRKRALLIGGG---IANFTDVATTFN---------GIIRALRE--- 360
Y V++ G I N +N G +RAL
Sbjct: 1828 Y---VVERVGKR----------TGWLVEIVN-------YNVENQQYVAAGDLRALDTVTN 1867
Query: 361 -----KESKLKAARM 370
K K+ +
Sbjct: 1868 VLNFIKLQKIDIIEL 1882
Score = 38.9 bits (90), Expect = 0.003
Identities = 22/111 (19%), Positives = 37/111 (33%), Gaps = 29/111 (26%)
Query: 2 ARKKIREYDSKRLLKEHLKRLA--------GLDLQICSAQVTESTDFSELTNKEP--W-- 49
A I + K + + K + G DL++ S ++E + + P W
Sbjct: 435 ASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERI-VDCII-RLPVKWET 492
Query: 50 ---LSSSRLVVKPDMLFGKRGKSGLVALNLDLAQVAEFVKGRLGTEVEMGG 97
++ ++ FG G SGL L G G V + G
Sbjct: 493 TTQFKATHILD-----FGPGGASGLGVL------THRNKDGT-GVRVIVAG 531
Score = 36.6 bits (84), Expect = 0.017
Identities = 73/447 (16%), Positives = 124/447 (27%), Gaps = 165/447 (36%)
Query: 6 IRE-YDSKRLLKEHLKRLAGLDLQICSAQVTESTD-FSELTNKEPWLSSSRLVVKPDMLF 63
+R+ Y + +L L + + L ++ F++ N WL + PD +
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP--SNTPDKDY 230
Query: 64 GKRGKSGLVALNL-DLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIV 122
S ++ L + Q+A + + T + F P +
Sbjct: 231 ---LLSIPISCPLIGVIQLAHY-----------------VVTAKLLGFTPGE-------L 263
Query: 123 SDRL-GCTISFSECGG-------IEIEENWDKVKTIFLPTEKHMTLDACAPLIATLPLEF 174
L G T I ++W+ F + I L
Sbjct: 264 RSYLKGATG----HSQGLVTAVAIAETDSWES----F--------FVSVRKAITVL---- 303
Query: 175 RGKIGDFIMGVFAVFQDLDFSFIEMNPFTLV----NGEPYPLDM---RGELDDTAAFKNF 227
F +GV + + + P L N E P M L
Sbjct: 304 ------FFIGVRC--YEA-YPNTSLPPSILEDSLENNEGVPSPMLSISN-LTQEQVQDYV 353
Query: 228 KKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLN-PKGRIWTMVAGGGASVIYA 286
K N P ++ SL N K + V+G
Sbjct: 354 NK-TNSHLP----------------AGKQVEISLV----NGAKNLV---VSG-------- 381
Query: 287 DTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTD 346
L Y L + AP+ + Q +R+ P +R L F
Sbjct: 382 -PPQSL-YG--LNLTLRKAKAPSGLD--Q-SRI--------P-FSERKLKFS---NRFLP 422
Query: 347 VATTFNGIIRALREKESK-LKAARMHIF--VRRGGPNYQTGLAKMRALGEELGIPLEVYG 403
VA+ F+ S L A I + + ++ +++ IP VY
Sbjct: 423 VASPFH----------SHLLVPASDLINKDLVKNNVSFN---------AKDIQIP--VY- 460
Query: 404 PEATMTG---------ICKQAIDCIMS 421
T G I ++ +DCI+
Sbjct: 461 --DTFDGSDLRVLSGSISERIVDCIIR 485
Score = 32.7 bits (74), Expect = 0.26
Identities = 42/249 (16%), Positives = 61/249 (24%), Gaps = 119/249 (47%)
Query: 201 PFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIE--FPLP-----FGRVLSSTESFIHSL 253
P TL +G ++E +P L E F L
Sbjct: 8 PLTLSHG------------------------SLEHVLLVPTASFFIASQLQ--EQFNKIL 41
Query: 254 ----------DEKTS-ASL--KFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGN 300
DE T+ A L KF LGY S L
Sbjct: 42 PEPTEGFAADDEPTTPAELVGKF----------------------------LGYVSSL-- 71
Query: 301 YAEYSGAPNEEEVLQYARVVIDC---------------ATADPDGRKRALLIGGGIANFT 345
E S ++VL + + A + + I N+
Sbjct: 72 -VEPSKVGQFDQVL---NLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYI 127
Query: 346 DVATTFN---------GIIRALREKESKLKAARMHIFVRRGGP-NYQTGLAKMRALGEEL 395
+ RA+ E ++L A IF GG N ++R L
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVGEGNAQLVA----IF---GGQGNTDDYFEELRDLY--- 177
Query: 396 GIPLEVYGP 404
+ Y
Sbjct: 178 ----QTYHV 182
>2nn6_I 3'-5' exoribonuclease CSL4 homolog; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: b.40.4.5 b.84.4.2
Length = 209
Score = 32.0 bits (72), Expect = 0.23
Identities = 9/42 (21%), Positives = 18/42 (42%)
Query: 107 VEPFVPHNQEYYLSIVSDRLGCTISFSECGGIEIEENWDKVK 148
V Y L+ + LG ++ SE G + +W +++
Sbjct: 146 VISLGDAQSNYLLTTAENELGVVVAHSESGIQMVPISWCEMQ 187
>3iyl_A Outer capsid VP4; non-enveloped virus, membrane penetration
protein, autocleav myristol group, icosahedral virus;
HET: MYR; 3.30A {Grass carp reovirus} PDB: 3k1q_I
Length = 648
Score = 30.2 bits (67), Expect = 1.3
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 8/58 (13%)
Query: 248 SFIHSLDEKTSA----SLKFTVLNPKGRIWTMVAGGGAS----VIYADTVGDLGYASE 297
SF + D ++A LK VLNP G++W V A+ I +D G + +E
Sbjct: 19 SFTPTSDMTSTAAPAIDLKPGVLNPTGKLWRPVGTSVATIDSLAIVSDRFGQYSFVNE 76
>3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA,
exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A
{Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A
Length = 179
Score = 29.2 bits (65), Expect = 1.9
Identities = 6/36 (16%), Positives = 11/36 (30%)
Query: 113 HNQEYYLSIVSDRLGCTISFSECGGIEIEENWDKVK 148
LS + +G + E+ D +K
Sbjct: 123 IGDNLRLSTKEEEMGVLRALCSNCKTEMVREGDILK 158
>1wvf_A 4-cresol dehydrogenase [hydroxylating] flavoprote subunit;
flavoprotein, electron-transfer, FAD, oxidoreductase;
HET: FAD; 1.30A {Pseudomonas putida} SCOP: d.58.32.1
d.145.1.1 PDB: 1wve_A* 1dii_A* 1diq_A*
Length = 520
Score = 28.8 bits (65), Expect = 3.7
Identities = 11/56 (19%), Positives = 20/56 (35%), Gaps = 12/56 (21%)
Query: 370 MHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPE--ATMTGICKQAID--CIMS 421
+ F + G Y+ + + YGP I K+A+D I++
Sbjct: 461 LDEFEKEGYAVYRVNTRFQDRVAQS-------YGPVKRKLEHAI-KRAVDPNNILA 508
>2zj3_A Glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1;
glucosamine-6-phosphate synthase, aldose/ketose
isomerase, rossmann-like fold; HET: G6P; 1.90A {Homo
sapiens} PDB: 2zj4_A* 2v4m_A*
Length = 375
Score = 27.8 bits (63), Expect = 7.1
Identities = 9/48 (18%), Positives = 20/48 (41%), Gaps = 6/48 (12%)
Query: 125 RLGCTISFSECGGIEIEENWDKVKTIFLPTEKHMTLDACAPLIATLPL 172
R G + + E +N + I +P ++D +++ +PL
Sbjct: 306 RQGRPVVICDKEDTETIKNTKRT--IKVPH----SVDCLQGILSVIPL 347
>1moq_A Glucosamine 6-phosphate synthase; glutamine amidotransferase; HET:
GLP MES; 1.57A {Escherichia coli} SCOP: c.80.1.1 PDB:
1mor_A* 1mos_A*
Length = 368
Score = 27.8 bits (63), Expect = 7.2
Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 6/48 (12%)
Query: 125 RLGCTISFSECGGIEIEENWDKVKTIFLPTEKHMTLDACAPLIATLPL 172
R G F++ + + + I +P + AP+ T+PL
Sbjct: 299 RGGQLYVFADQDAGFVSSDNMHI--IEMPH----VEEVIAPIFYTVPL 340
>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid
recognition, receptor immunity, lipid binding,
glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO
MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*
Length = 606
Score = 27.7 bits (62), Expect = 8.0
Identities = 15/65 (23%), Positives = 24/65 (36%), Gaps = 7/65 (10%)
Query: 18 HLKRLAGLDLQICSAQVTESTDFSELTN-KEPWLSSSRLVVKPDMLFGKRGKSGLVAL-N 75
+ L LDL C + E + L + L+ + + F SGL +L N
Sbjct: 54 NFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSF-----SGLTSLEN 108
Query: 76 LDLAQ 80
L +
Sbjct: 109 LVAVE 113
>1lqt_A FPRA; NADP+ derivative, oxidoreductase, structural G PSI, protein
structure initiative, TB structural genomics consortium,
TBSGC; HET: FAD ODP; 1.05A {Mycobacterium tuberculosis}
SCOP: c.3.1.1 c.4.1.1 PDB: 1lqu_A* 2c7g_A*
Length = 456
Score = 27.9 bits (62), Expect = 8.3
Identities = 16/103 (15%), Positives = 28/103 (27%), Gaps = 9/103 (8%)
Query: 312 EVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALR---------EKE 362
+ + + PD ++ G DVA L E
Sbjct: 127 DFVGWYNAHPHFEQVSPDLSGARAVVIGNGNVALDVARILLTDPDVLARTDIADHALESL 186
Query: 363 SKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPE 405
+ I RRG ++R L + G+ + + E
Sbjct: 187 RPRGIQEVVIVGRRGPLQAAFTTLELRELADLDGVDVVIDPAE 229
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
0.320 0.138 0.407
Gapped
Lambda K H
0.267 0.0715 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,698,613
Number of extensions: 428588
Number of successful extensions: 1048
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1029
Number of HSP's successfully gapped: 28
Length of query: 423
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 327
Effective length of database: 4,021,377
Effective search space: 1314990279
Effective search space used: 1314990279
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 (26.5 bits)