RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 002994
(860 letters)
>2ztg_A Alanyl-tRNA synthetase; class-II aminoacyl-tRNA synthetase,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase; HET: A5A; 2.20A {Archaeoglobus fulgidus}
Length = 739
Score = 745 bits (1925), Expect = 0.0
Identities = 180/720 (25%), Positives = 291/720 (40%), Gaps = 125/720 (17%)
Query: 1 MLQFKPIFL-GKVPRQVPRAATSQRCIRTNDVENVGRTSRHHTFFEMLGNFSFGD----- 54
+ F+P G P SQ CIR +D+++VGRT RH T FEM+ + +F
Sbjct: 101 IADFQPFVTSGVAPPPANPLTISQPCIRLDDLDSVGRTGRHLTLFEMMAHHAFNYPGKEI 160
Query: 55 YFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNF 114
Y+K E + + E E+GV E I +
Sbjct: 161 YWKNETVAYCTELLN---------------------------ELGVKKEDIVY---KEEP 190
Query: 115 WNSGATGPCGPCSEIYYDF---------HPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKD 165
W G G GPC E + + R+ + N + +
Sbjct: 191 WAGG--GNAGPCLEAIVGGLEVATLVFMNLEEHPEGDIEIKGARYRKMDNYIVDTGYGLE 248
Query: 166 DGSLEPLKQKNIDTGLGLERIARILQK--VPNNYETDLIFPIIKKASELANVSYAQSND- 222
+ + E + I+ V N E + + I+ ++S+LA + +
Sbjct: 249 RFVWASKGTPTVYDAIFPEVVDTIIDNSNVSFNREDERVRRIVAESSKLAGIMGELRGER 308
Query: 223 -----------------------RTNLNLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRR 259
+ + DH R I+++L DG+ PSN G GY+ R
Sbjct: 309 LNQLRKSVADTVGVSVEELEGIVVPLEKVYSLADHTRCILFMLGDGLVPSNAGAGYLARL 368
Query: 260 LIRRAVRTGRLLGIKGDGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREE 319
+IRR++R L + L + E ++ + + + E L+ E+
Sbjct: 369 MIRRSLRLAEELELG---------LDLYDLVEMHKKI---LGFEFDVPLSTVQEILELEK 416
Query: 320 LRFVQTLERGEKLLDQMLADALSRTRESGSVPRLSGQDAFLLYDTFGFPVEITKEVAEEH 379
R+ T+ +G +L+++++ +L D LYD+ G PVE+ +A E
Sbjct: 417 ERYRTTVSKGTRLVERLVERK----------KKLEKDDLIELYDSHGIPVELAVGIAAEK 466
Query: 380 GVSVDM-KGFDIEMENQRRQSQAAHNAVKLSVDDSADLAEKIPDTEFLGYDTLSAKAIVE 438
G V+M K E+ + +++ L + P TE L YD +
Sbjct: 467 GAEVEMPKDIYAELAKRHSKAEKVQE-------KKITLQNEYPATEKLYYDDPTLLEFEA 519
Query: 439 SLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVK 498
+V V+LNR+ FY ESGGQ D G+L G EV DV
Sbjct: 520 ----------EVIGVEGDFVILNRSAFYPESGGQDNDVGYLIANGGK------FEVVDVL 563
Query: 499 KSLGSVFVHKGTIREGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQ 558
+ V +H ++ EVG +V+ ++D +R R HH+ATH+L +L+KV+G Q
Sbjct: 564 E-ADGVVLH--VVKGAKPEVGTKVKGVIDSDVRWRHMRHHSATHVLLYSLQKVLGNHVWQ 620
Query: 559 AGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRAGAIAM 618
AG+ F + R D R + E++EIE L N I ++ + M +A+R +
Sbjct: 621 AGARKEFSKARLDVTHFRRPSEEEIKEIEMLANREILANKPIKWEWMDRIEAERKFGFRL 680
Query: 619 F--GEKYGEQVRVVEVPGVSMELCGGTHVNNTAEIRAFKIISEQGIASGIRRIEAVAGEA 676
+ G G ++RVV+V G ++ CGGTH +T EI KI+ + I G+ R E AGEA
Sbjct: 681 YQGGVPPGRKIRVVQV-GDDVQACGGTHCRSTGEIGMLKILKVESIQDGVIRFEFAAGEA 739
>1yfs_A Alanyl-tRNA synthetase; alpha-beta fold, helix-loop-helix motif,
amino acid binding, ligase; 2.08A {Aquifex aeolicus}
SCOP: a.203.1.1 d.104.1.1 PDB: 1yfr_A* 1riq_A 1yft_A
1ygb_A 3htz_A
Length = 465
Score = 646 bits (1668), Expect = 0.0
Identities = 189/440 (42%), Positives = 273/440 (62%), Gaps = 26/440 (5%)
Query: 1 MLQFKPIFLGKVPRQVPRAATSQRCIRT----NDVENVGRTSRHHTFFEMLGNFSFGDYF 56
M+ FK +FLG R RA + Q+C+R ND+E VG TSRHHTFFEMLGNFSFGDYF
Sbjct: 44 MVPFKNVFLGLEKRPYKRATSCQKCLRVSGKHNDLEQVGYTSRHHTFFEMLGNFSFGDYF 103
Query: 57 KKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWN 116
KKEAI++AWEF T LP +L++SVY+DD+EA+ IWN+ +G+P E I R+G +DNFW
Sbjct: 104 KKEAIEYAWEFVTEVLKLPKEKLYVSVYKDDEEAYRIWNEHIGIPSERIWRLGEEDNFWQ 163
Query: 117 SGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKN 176
G GPCGP SEIY D + + R++E +NLVFMQYN+ ++G L PL N
Sbjct: 164 MGDVGPCGPSSEIYVDRGEEYEGDE-------RYLEIWNLVFMQYNRDENGVLTPLPHPN 216
Query: 177 IDTGLGLERIARILQKVPNNYETDLIFPIIKKASELANVSYAQSNDRTNLNLKIIGDHLR 236
IDTG+GLERIA +LQ +N+E D+IFP+I+ E++ Y + T++ L++I DHLR
Sbjct: 217 IDTGMGLERIASVLQGKNSNFEIDIIFPLIQFGEEVSGKKYGE-KFETDVALRVIADHLR 275
Query: 237 AIVYLLSDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGDGRGNLEGAFLPSIAEKAIEL 296
AI + +SDGV PSN GRGYV+RR++RRA+R G LGI+ FL + +++
Sbjct: 276 AITFAISDGVIPSNEGRGYVIRRILRRAMRFGYKLGIE--------NPFLYKGVDLVVDI 327
Query: 297 STHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSRTRESGSVPRLSGQ 356
+++ + + +K EE RF++TL+ G + + +++ AL R+ LSG+
Sbjct: 328 MKEPYPELELSREFVKGIVKGEEKRFIKTLKAGMEYIQEVIQKALEEGRK-----TLSGK 382
Query: 357 DAFLLYDTFGFPVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVD-DSAD 415
+ F YDT+GFPV++ E+A E G+ +D++GF E+E QR +++ V +
Sbjct: 383 EVFTAYDTYGFPVDLIDEIAREKGLGIDLEGFQCELEEQRERARKHFKVEAKKVKPVYSH 442
Query: 416 LAEKIPDTEFLGYDTLSAKA 435
L E + F+G L
Sbjct: 443 LKELGKTSAFVGAAALEHHH 462
>3hy0_A Alanyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase, protein
biosynthesis, NUC binding, amino acid-binding,
ATP-binding, metal-binding; HET: G5A EPE; 1.90A
{Escherichia coli} PDB: 3hxz_A* 3hy1_A* 3hxv_A* 3hxu_A*
3hxw_A* 3hxx_A* 3hxy_A*
Length = 441
Score = 595 bits (1536), Expect = 0.0
Identities = 195/417 (46%), Positives = 263/417 (63%), Gaps = 36/417 (8%)
Query: 1 MLQFKPIFLGKVPRQVPRAATSQRCIRT----NDVENVGRTSRHHTFFEMLGNFSFGDYF 56
M QFK +FLG R RA TSQRC+R ND+ENVG T+RHHTFFEMLGNFSFGDYF
Sbjct: 43 MNQFKDVFLGLDKRNYSRATTSQRCVRAGGKHNDLENVGYTARHHTFFEMLGNFSFGDYF 102
Query: 57 KKEAIQWAWEFSTVE--FGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMG----- 109
K +AI +AW T E F LP RLW++VYE DDEA+EIW KEVG+P E I R+G
Sbjct: 103 KLDAILFAWLLLTSEKWFALPKERLWVTVYESDDEAYEIWEKEVGIPRERIIRIGDNKGA 162
Query: 110 --ADDNFWNSGATGPCGPCSEIYYDFHPDRGCS--DVDLGDDTRFIEFYNLVFMQYNKKD 165
A DNFW G TGPCGPC+EI+YD D R+IE +N+VFMQ+N++
Sbjct: 163 PYASDNFWQMGDTGPCGPCTEIFYDHGDHIWGGPPGSPEEDGDRYIEIWNIVFMQFNRQA 222
Query: 166 DGSLEPLKQKNIDTGLGLERIARILQKVPNNYETDLIFPIIKKASELANVSYAQSNDRTN 225
DG++EPL + ++DT +GLERIA +LQ V +NY+ DL +I+ +++ + +N
Sbjct: 223 DGTMEPLPKPSVDTAMGLERIAAVLQHVNSNYDIDLFRTLIQAVAKVTGATD-----LSN 277
Query: 226 LNLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGDGRGNLEGAF 285
+L++I DH+R+ +L++DGV PSN RGYV+RR+IRRAVR G +LG K F
Sbjct: 278 KSLRVIADHIRSCAFLIADGVMPSNENRGYVLRRIIRRAVRHGNMLGAK--------ETF 329
Query: 286 LPSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSRTR 345
+ I++ D+K ++ ++ + LK EE +F +TLERG LLD+ LA T
Sbjct: 330 FYKLVGPLIDVMGSAGEDLKRQQAQVEQVLKTEEEQFARTLERGLALLDEELAKLSGDT- 388
Query: 346 ESGSVPRLSGQDAFLLYDTFGFPVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAA 402
L G+ AF LYDT+GFPV++T +V E + VD GF+ ME QRR+++ A
Sbjct: 389 -------LDGETAFRLYDTYGFPVDLTADVCRERNIKVDEAGFEAAMEEQRRRAREA 438
>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A
{Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A*
Length = 752
Score = 499 bits (1284), Expect = e-165
Identities = 177/736 (24%), Positives = 288/736 (39%), Gaps = 145/736 (19%)
Query: 1 MLQFKP-IFLGKVPRQVPRAATSQRCIRTNDVENVGRTSRHHTFFEMLGNFSFGD----- 54
++ F+P + G+ SQ IR D++NVG T RH T FEM+ + +F
Sbjct: 101 IMDFQPWVISGEADPPANPLVISQPSIRFTDIDNVGITGRHFTIFEMMAHHAFNYPGXPI 160
Query: 55 YFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNF 114
Y+ E ++ A+EF T E + + +N
Sbjct: 161 YWMDETVELAFEFFTKELXMXPEDITF-----------------------------KENP 191
Query: 115 WNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLE---- 170
W G G GP E+ Y R +E LVFMQY + + +
Sbjct: 192 WAGG--GNAGPAFEVLY-----------------RGLEVATLVFMQYXXAPENAPQDQVV 232
Query: 171 --------PLKQKNIDTGLGLERIARILQKVPNNYETDLIF----------------PII 206
P++ +DTG GLER+ + Q P Y+ L + I+
Sbjct: 233 VIXGEKYIPMETXVVDTGYGLERLVWMSQGTPTAYDAVLGYVVEPLXXMAGIEKIDEKIL 292
Query: 207 KKASELANVSYAQSND------------------------RTNLNLKIIGDHLRAIVYLL 242
+ S LA + + R + I DH +A+ ++L
Sbjct: 293 MENSRLAGMFDIEDLGDLRYLREQVAKRVGITVEELEKAIRPYELIYAIADHTKALTFML 352
Query: 243 SDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGDGRGNLEGAFLPSIAEKAIELSTHIDS 302
+DGV PSN+ GY+ R LIR+++R R LG++ L I I
Sbjct: 353 ADGVVPSNVXAGYLARLLIRKSIRHLRELGLE---------VPLSEIVALHIXELHKTFP 403
Query: 303 DVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSRTRESGSVPRLSGQDAFLLY 362
+ E ILE ++ EE + +TL RG L+ + +A + + + + Y
Sbjct: 404 EFXEMEDIILEMIELEEKXYAETLRRGSDLVRREIAKLKKKGIKE-----IPVEXLVTFY 458
Query: 363 DTFGFPVEITKEVAEEHGVSVDMK-GFDIEMENQRRQSQAAHNAVKLSVDDSADLAEKIP 421
++ G EI E+AE+ GV V++ F + + +++ +L + +P
Sbjct: 459 ESHGLTPEIVXEIAEKEGVKVNIPDNFYSMVAKEAERTKEEKG----EELVDFELLKDLP 514
Query: 422 DTEFLGYDTLSAKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYV 481
DT L Y+ +L + V+L+ T FY E GGQ D G L V
Sbjct: 515 DTRRLYYEDPFMXEFDAXVL----------RVIXDWVILDATAFYPEGGGQPYDTGVLIV 564
Query: 482 TQGTNQQTAVVEVKDVKKSLGSVFVHKGTIREGVLEVGREVEAIVDPKLRQRAKVHHTAT 541
V V +V+ + G G V +D R + HHT T
Sbjct: 565 NGRE------VXVTNVQXV--GXVIIHXVEDPGAFXEGMIVHGXIDWXRRIQHMRHHTGT 616
Query: 542 HLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQ 601
H+L AL +V+G+ QAGS + D R D + + + + EL EIE L N + + +
Sbjct: 617 HVLMGALVRVLGRHVWQAGSQLTTDWARLDISHYXRISEEELXEIEMLANRIVMEDRXVT 676
Query: 602 TKVMALDDAKRAGAIAMF--GEKYGEQVRVVEVPGVSMELCGGTHVNNTAEIRAFKIISE 659
+ + A++ ++ G G ++RVV + ++ CGGTH+ +T + I+
Sbjct: 677 WEWLPRTTAEQXYGFRLYQGGVVPGREIRVVXIEDWDVQACGGTHLPSTGLVGPIXILRT 736
Query: 660 QGIASGIRRIEAVAGE 675
+ I G+ RI GE
Sbjct: 737 ERIQDGVERIIFACGE 752
>2e1b_A PH0108, 216AA long hypothetical alanyl-tRNA synthetase;
zinc-binding motif, trans-editing enzyme, structural
genomics, NPPSFA; 2.70A {Pyrococcus horikoshii} SCOP:
b.43.3.6 d.67.1.2
Length = 216
Score = 275 bits (705), Expect = 3e-87
Identities = 65/253 (25%), Positives = 98/253 (38%), Gaps = 42/253 (16%)
Query: 420 IPDTEFLGYDTLSAKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFL 479
I T L Y+ K +V + D +LL++T FY GGQ D G +
Sbjct: 2 INMTRKLYYEDAYLKEAKG----------RVLEIRDNAILLDQTIFYPTGGGQPHDRGTI 51
Query: 480 YVTQGTNQQTAVVEVKDVKKSLGSVFVHKGTIREGVLEVGREVEAIVDPKLRQRAKVHHT 539
VEV DV K H +VG EVE +D R + HT
Sbjct: 52 NG----------VEVLDVYKDEEGNVWHVV-KEPEKFKVGDEVELKIDWDYRYKLMRIHT 100
Query: 540 ATHLLQAALKKVIGQETSQ-AGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDAN 598
HLL+ L +V+G+ Q GS ++ ++ R+D + L E+I L N ++
Sbjct: 101 GLHLLEHVLNEVLGEGNWQLVGSGMSVEKGRYDIAYPENLNK-YKEQIISLFNKYV---- 155
Query: 599 LLQTKVMALDDAKRAGAIAMFGEKYGEQVRVVEVPGVSMELCGGTHVNNTAEIRAFKIIS 658
G + ++ E R ++ + CGGTHV + EI K +
Sbjct: 156 ------------DEGGEVKIWWEGD---RRYTQIRDFEVIPCGGTHVKDIKEIGHIKKLK 200
Query: 659 EQGIASGIRRIEA 671
I G +R+E
Sbjct: 201 RSSIGRGKQRLEM 213
>3kew_A DHHA1 domain protein; structural genomics, PSI-2, tRNA synthase,
protein structure initiative; 2.00A {Clostridium
perfringens}
Length = 241
Score = 265 bits (681), Expect = 3e-83
Identities = 52/240 (21%), Positives = 93/240 (38%), Gaps = 20/240 (8%)
Query: 443 NGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLG 502
G+ + VLL++T F+ GGQ+GD G + ++V DV +
Sbjct: 17 KGEIIEVKEIDGKFHVLLDQTAFFPGGGGQMGDLGLI----------DGIKVLDVYEE-E 65
Query: 503 SVFVHKGTIREGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSL 562
H E + + ++ +D + R H HLL + G T G
Sbjct: 66 GKVYHVL---EKEPKKLKNLQCELDWERRFDGMQQHLGQHLLSGCFYDLFGANT--CGFH 120
Query: 563 VAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRAGAIAMFGEK 622
+ + D L + + E E+ N I + +++ + + K+ K
Sbjct: 121 LGKEISTVDIV--GFLDEKTIREAEKEANRLIFENLEVKSYAPSKKELKKVKTRR-ALPK 177
Query: 623 YGEQVRVVEVPGVSMELCGGTHVNNTAEIRAFKIISEQGIASGIRRIEAVAGEAFIEYIN 682
E++R+VE+ G+ + C G H NT +++ KI + RIE VAG + +
Sbjct: 178 TDEEIRIVEIVGLDLNACCGVHPRNTRDLQVIKIRRWEKHK-NATRIEYVAGNRAVSEGH 236
>1v4p_A Alanyl-tRNA synthetase; alanine-tRNA ligase, riken structural
genomics/proteomics initiative RSGI, structural
genomics; 1.45A {Pyrococcus horikoshii} SCOP: d.67.1.2
PDB: 1wxo_A 1v7o_A 1wnu_A 3rhu_A 3rfn_A
Length = 157
Score = 186 bits (474), Expect = 4e-55
Identities = 36/158 (22%), Positives = 63/158 (39%), Gaps = 16/158 (10%)
Query: 530 LRQRAKVHHTATHLLQAALKKVIGQETSQA-GSLVAFDRLRFDFNFHRPLLDTELEEIER 588
+ H+A H+++ A+ KV+G E + V ++ F R D E+ EIER
Sbjct: 1 MYSIEVRTHSALHVVKGAVVKVLGSEAKWTYSTYVKGNKGVLIVKFDRKPSDEEIREIER 60
Query: 589 LINGWIGDANLLQTKVMALDDAKRAGAIAMFGEKYGEQ---------VRVVEVPGVSMEL 639
L N + + ++ + ++A+ MFGE + ++VV + ++
Sbjct: 61 LANEKVKENAPIKIYELPREEAE-----KMFGEDMYDLFPVPEDVRILKVVVIEDWNVNA 115
Query: 640 CGGTHVNNTAEIRAFKIIS-EQGIASGIRRIEAVAGEA 676
C H T EI KI + G+ I E
Sbjct: 116 CNKEHTKTTGEIGPIKIRKVRFRKSKGLLEIHFELLEL 153
>2zvf_A Alanyl-tRNA synthetase; C-terminal, oligomerization domain,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase, nucleotide-binding; 3.20A {Archaeoglobus
fulgidus}
Length = 171
Score = 155 bits (394), Expect = 7e-44
Identities = 43/182 (23%), Positives = 78/182 (42%), Gaps = 13/182 (7%)
Query: 674 GEAFIEYINARDSYMKHLCSTLKVKDEEVTTRVEGLLEDLRTARNEVANLRAKAAVYKAS 733
GEA IE + + ++ S L+V+ ++ VE E+ + R E+ L++ A A
Sbjct: 2 GEAAIEAVEEMERLLREASSILRVEPAKLPKTVERFFEEWKDQRKEIERLKSVIADLWAD 61
Query: 734 TISSKAFTVGTSNEIRVLVESMDDMDADSLKSAAEYLVDTLQDPAAVVLGSCPDEGKVSL 793
+ +A + ++V+ E +D D +L+ AE L + A L + EGKV +
Sbjct: 62 ILMERAEEF---DSMKVVAEVVD-ADMQALQKLAERLAE---KGAVGCLMA-KGEGKVFV 113
Query: 794 IAAFSQGIVDLGIQAGKFIGPIAKLCGGGGGGRPNFAQAGGRKPENLSIALEKARADLVS 853
+ Q A + + I ++ G GGGR + AQ ++ + L+ L
Sbjct: 114 VTFSGQKY-----DARELLREIGRVAKGSGGGRKDVAQGAVQQLLDREEMLDVIFRFLSE 168
Query: 854 VL 855
Sbjct: 169 HE 170
>3g98_A Alanyl-tRNA synthetase; alpha and beta fold, aminoacyl-tRNA
synthetase, ATP-binding, cytoplasm, ligase,
nucleotide-binding; 1.85A {Aquifex aeolicus}
Length = 111
Score = 97.3 bits (243), Expect = 3e-24
Identities = 24/104 (23%), Positives = 50/104 (48%), Gaps = 3/104 (2%)
Query: 746 NEIRVLVESMDDMDADSLKSAAEYLVDTLQDPAAVVLGSCPDEGKVSLIAAFSQGIVDLG 805
+ + ++++ + L++ A+ L + V + S K++ + S+ I D
Sbjct: 7 GDFTLHYGVFEEVEPEELRNLADMLRQRTKK-DVVFIASR-KGDKINFVIGVSKEISD-K 63
Query: 806 IQAGKFIGPIAKLCGGGGGGRPNFAQAGGRKPENLSIALEKARA 849
+ A + I + K+ GGGGGR + AQ GG+ P+ A++ +
Sbjct: 64 VNAKEVIREVGKVLKGGGGGRADLAQGGGKAPDKFPEAVKLLKE 107
>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 = 64.1 bits (155), Expect = 2e-10
Identities = 97/668 (14%), Positives = 180/668 (26%), Gaps = 193/668 (28%)
Query: 40 HHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVG 99
HH FE Y K+ + F A + D I +KE
Sbjct: 5 HHMDFET----GEHQYQYKDILS--------VF-EDAFVDNFDCKDVQDMPKSILSKEE- 50
Query: 100 VPVEHIKRMGADDN-----FWNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFY 154
++HI + FW + E+ F + L + +F+
Sbjct: 51 --IDHIIMSKDAVSGTLRLFWTLLSKQ-----EEMVQKFVEEV------LRINYKFL--- 94
Query: 155 NLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNNYE--TDLIFPIIKKASEL 212
+ P+K + + ++ N+ + ++ +L
Sbjct: 95 --------------MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL 140
Query: 213 ANVSYAQSNDRTNLNLKIIG-----------DHLRA--IVYLLSDGVFPSNIGRGYVVRR 259
A R N+ I G D + + + +F N+
Sbjct: 141 RQ---ALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET 197
Query: 260 LIRRAVRTGRLLGIKGDGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREE 319
++ + + R + I+L H ++A +R+L+ E
Sbjct: 198 VLEMLQKLLYQIDPNWTSRSD---------HSSNIKLRIH---SIQAELRRLLKSKPYEN 245
Query: 320 ----LRFVQTLERGE------KLL----DQMLADALS--RTRESGSVPRLSG------QD 357
L VQ + K+L + + D LS T +
Sbjct: 246 CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 358 AFLLY---DTFGFPVEITKE-------VAEEHGVSVDMKGFDIEMEN-QRRQSQAAHNAV 406
L Y P E+ +AE ++ +N + +
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAES------IRDGLATWDNWKHVNCDKLTTII 359
Query: 407 KLSVD--DSADLAE------------KIPDTEFLGYDTLS-----AKAIVESLLVNGKPV 447
+ S++ + A+ + IP LS ++VN
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFPPSAHIP------TILLSLIWFDVIKSDVMVVVN---- 409
Query: 448 IKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLGSVFVH 507
K+ K S L+ + P I +Y+ E+K K +H
Sbjct: 410 -KLHKYS----LVEKQPKE----STISIPS-IYL-----------ELK--VKLENEYALH 446
Query: 508 KGTIREGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDR 567
+ + + + + ++ P L Q H HL + F
Sbjct: 447 RSIVDHYNIPKTFDSDDLIPPYLDQYF-YSHIGHHLKNI----------EHPERMTLFRM 495
Query: 568 LRFDFNFHRPLLDTELEEIERLINGWIGDANLLQT-----KVMALDDAK---RAGAIAMF 619
+ DF F L+ ++ N N LQ + +D K AI F
Sbjct: 496 VFLDFRF----LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF 551
Query: 620 GEKYGEQV 627
K E +
Sbjct: 552 LPKIEENL 559
Score = 59.1 bits (142), Expect = 6e-09
Identities = 57/374 (15%), Positives = 114/374 (30%), Gaps = 119/374 (31%)
Query: 493 EVKDVKKSLGSVFVHKGTIREGVLEVGREVEAIV---DPKLRQRAKVHHTATHLLQAALK 549
+ KDV+ S+ + E++ I+ D L L
Sbjct: 34 DCKDVQDMPKSILSKE------------EIDHIIMSKDAVSGTL--------RLFWTLLS 73
Query: 550 KVIGQETSQAGSLVAF--DRLRFDFNF---------HRPLLDTEL--EEIERLING--WI 594
K +E Q F + LR ++ F +P + T + E+ +RL N
Sbjct: 74 K--QEEMVQK-----FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 595 GDANL--------LQTKVMALDDAKRAGAIAMFGEKYGEQVRVVEVPGVSMELCGGTHVN 646
N+ L+ ++ L AK + G G+ ++V
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLG--SGKTWVALDV-------------- 170
Query: 647 NTAEIRAFKIISEQGIASGIRRIEAVAGEAFIEYINAR-----DSYMKHLCSTLKVKDEE 701
++K+ + + F ++N + ++ ++ L L D
Sbjct: 171 ----CLSYKVQCKMD------------FKIF--WLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 702 VTTRVEGL------LEDLRTA-RNEVANLRAKAA------VYKASTISSKAFTVGTSNEI 748
T+R + + ++ R + + + V A AF +
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW--NAFNLSC---- 266
Query: 749 RVLVESMDDMDADSLKSAAEYLVDTLQDPAAVVLGSCPDEGKVSLIAAF-SQGIVDLGIQ 807
++L+ + D L +A + +L + PDE K SL+ + DL +
Sbjct: 267 KILLTTRFKQVTDFLSAATTTHI-SLDH---HSMTLTPDEVK-SLLLKYLDCRPQDLPRE 321
Query: 808 AGKFIGPIA-KLCG 820
P +
Sbjct: 322 VLT-TNPRRLSIIA 334
Score = 59.1 bits (142), Expect = 6e-09
Identities = 72/463 (15%), Positives = 147/463 (31%), Gaps = 120/463 (25%)
Query: 356 QDAFL----LYDTFGFPVEI-TKE-----VAEEHGVSVDMKGFDIEMENQRRQSQAAHNA 405
+DAF+ D P I +KE + + VS ++ F + Q
Sbjct: 26 EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQE-------EM 78
Query: 406 VKLSVDDSADLAEKIPDTEFLGYDTLSAKAIVESL-----------LVNGKPVIK---VS 451
V+ V++ + +FL + + S+ L N V VS
Sbjct: 79 VQKFVEEVLR-----INYKFL-MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132
Query: 452 KGSDVEVLLNRTPFY-AESGGQIGDYGFLYVTQGTNQQTAVVEV---KDVKKSL-GSVF- 505
+ L R + G L G+ + ++V V+ + +F
Sbjct: 133 RLQPYLKL--RQALLELRPAKNVLIDGVL----GSGKTWVALDVCLSYKVQCKMDFKIFW 186
Query: 506 VHKGTIR--EGVLEVGREVEAIVDPKLRQRAKVHHTA---THLLQAALKKVIGQETSQAG 560
++ E VLE+ +++ +DP R+ H +QA L++++ +
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL-KSKPYEN 245
Query: 561 SLVAFDRLR----FD-FNFH-RPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRAG 614
L+ ++ ++ FN + LL T +++ ++ T ++LD
Sbjct: 246 CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA-------ATTTHISLDHHSMT- 297
Query: 615 AIAMFGEKYGEQVRVVEVPGVSMELCGGTHVNNTAEIRAFKIISEQGIASGIRRIEAVAG 674
L + R + E + + R ++
Sbjct: 298 ----LTPDE------------VKSLLL-----KYLDCRPQDLPRE--VLTTNPRRLSIIA 334
Query: 675 EAFIEYINARDSYMKHLCSTLKVKDEEVTTRVEGLLEDLRTARNEVANLRAKAAVYKAST 734
E+ + + D++ KH V +++TT +E L L E A R ++ +
Sbjct: 335 ESIRDGLATWDNW-KH------VNCDKLTTIIESSLNVL-----EPAEYR---KMFDRLS 379
Query: 735 ISSKAFTVGTSNEIRVLV---------ESMDDMDADSLKSAAE 768
+ F +L + M ++ S E
Sbjct: 380 V----FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE 418
Score = 47.2 bits (111), Expect = 3e-05
Identities = 69/484 (14%), Positives = 139/484 (28%), Gaps = 127/484 (26%)
Query: 33 NVGRTSRHHTFFEMLGNFSF---GDYFKKEAIQWAWEFSTVEFGLPANRLWIS-VYED-- 86
N+ + T EML + ++ + + RL S YE+
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
Query: 87 ---DDEAFEIWNKEVGVPVEHIKRMGADDNFWNSGATGPCGPCSEIYYDFHPDRGCSDVD 143
+ + N + WN+ F + C +
Sbjct: 248 LVLLN----VQNAKA----------------WNA---------------F--NLSCKILL 270
Query: 144 LGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNNYETDL-- 201
TRF + + + + + L + + +L K + DL
Sbjct: 271 T---TRFKQVTDFLSAATTTH-------ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320
Query: 202 ----IFP-----IIKKASELANVS--YAQSN-DRTNLNLKIIGDHL-----RAIVYLLSD 244
P I + + + N D+ ++ + L R + LS
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS- 379
Query: 245 GVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGDGRGNLEGAFLPSIAEKAIELSTHIDSDV 304
VFP + I LL + ++ + + + K + S ++
Sbjct: 380 -VFPPSA--------HI-----PTILLSLIW---FDVIKSDVMVVVNKLHKYSL-VEKQP 421
Query: 305 KAREQRI--LEELKREELRFVQTLERGEKLLDQMLADALSRTRESGSVPRLSGQDAFLLY 362
K I + + +L L R ++D + +T +S + F +
Sbjct: 422 KESTISIPSIYLELKVKLENEYALHR--SIVDH---YNIPKTFDSDDLIPPYLDQYFYSH 476
Query: 363 DTFGF---PVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVDDSADL--- 416
G +E + + V +D + F +E + R A NA ++ L
Sbjct: 477 --IGHHLKNIEHPERMTLFRMVFLDFR-F---LEQKIRHDSTAWNASGSILNTLQQLKFY 530
Query: 417 ----AEKIPDTEFLGYDTLSAKAIVESLLVNGKPVIKVSKGSD-VEVLLN--RTPFYAES 469
+ P E L + L + + SK +D + + L + E+
Sbjct: 531 KPYICDNDPKYERLVNA-------ILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEA 583
Query: 470 GGQI 473
Q+
Sbjct: 584 HKQV 587
>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 = 62.4 bits (151), Expect = 5e-10
Identities = 114/621 (18%), Positives = 194/621 (31%), Gaps = 201/621 (32%)
Query: 140 SDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNNYET 199
+ +L +F+ + +EP K D ++L +E
Sbjct: 56 TPAELV--GKFLGYV-----------SSLVEPSKVGQFD---------QVLNLCLTEFEN 93
Query: 200 DLIFPIIKKASE---LANVSYAQSNDRTNLNLKIIGDHLRAIVYLLSDGVFPSNIGRGYV 256
+ + ++ LA Q ND T + K + ++ Y+ + + +
Sbjct: 94 CYL-----EGNDIHALA-AKLLQENDTTLVKTKEL---IKN--YITARIMAKRPFDKKS- 141
Query: 257 VRRLIRRAVRTG--RLLGIKGDGRGNLEGAFLPSIAEKAIEL------STHIDSDVKARE 308
+ RAV G +L+ I G G+GN + F E EL + D+
Sbjct: 142 -NSALFRAVGEGNAQLVAIFG-GQGNTDDYF-----E---ELRDLYQTYHVLVGDLIKFS 191
Query: 309 QRILEELKREELRFVQTLERGEKLLDQMLADALSRTRESGSVPRLSGQDAFLLYDTFGFP 368
L EL R L + +G L+ + + L + P +LL P
Sbjct: 192 AETLSELIRTTLDAEKVFTQG---LN--ILEWL---ENPSNTP----DKDYLLSIPISCP 239
Query: 369 VEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVDDS--ADLAEKIPDTEFL 426
+ I GV Q AH V + +L +
Sbjct: 240 L-I--------GVI-----------------QLAHYVVTAKLLGFTPGELRSYLKGATGH 273
Query: 427 GYDTLSAKAI-----VESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYV 481
++A AI ES V+ + I V F+ IG
Sbjct: 274 SQGLVTAVAIAETDSWESFFVSVRKAITVL-------------FF------IG-----VR 309
Query: 482 TQGTNQQTAVVEVKDVKKSLGSVFVHKGTIREGV----LEV-G---REVEAIVD---PKL 530
T++ ++ SL EGV L + +V+ V+ L
Sbjct: 310 CYEAYPNTSL-PPSILEDSL--------ENNEGVPSPMLSISNLTQEQVQDYVNKTNSHL 360
Query: 531 RQRAKVH----HTATHL-----------LQAALKKV---IGQETSQAGSLVAFD--RLRF 570
+V + A +L L L+K G + S+ + F +L+F
Sbjct: 361 PAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSR----IPFSERKLKF 416
Query: 571 D--FN-----FHRPLLDTELEEI-ERLINGWIG-DANLLQTKVMALDDAK--RAGAIAMF 619
F FH LL + I + L+ + +A +Q V D R +
Sbjct: 417 SNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLS---- 472
Query: 620 GEKYGEQVR-VVEVPGVSMELC---GGTHV-----NNTAEIRAFKIISEQGIASGIRRIE 670
G V ++ +P V E TH+ + + ++ G +G+R I
Sbjct: 473 GSISERIVDCIIRLP-VKWETTTQFKATHILDFGPGGASGLGVLTHRNKDG--TGVRVI- 528
Query: 671 AVAGEAFIEYINARDSY-MKH 690
VAG ++ IN D Y K
Sbjct: 529 -VAGT--LD-INPDDDYGFKQ 545
Score = 56.2 bits (135), Expect = 4e-08
Identities = 57/277 (20%), Positives = 91/277 (32%), Gaps = 106/277 (38%)
Query: 355 GQDAFLLYDTFGFPVEITKEV---AEEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVD 411
G D LY T + ++V A+ H D GF I +N V L++
Sbjct: 1632 GMD---LYKTS----KAAQDVWNRADNH--FKDTYGFSI-------LDIVINNPVNLTIH 1675
Query: 412 DSADLAEKIPDTEFLGYDTLSAKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGG 471
+ ++I + Y + + IV+ L + + K ++ F
Sbjct: 1676 FGGEKGKRIRE----NYSAMIFETIVDGKLKT-EKIFK-----EINEHSTSYTFR----- 1720
Query: 472 QIGDYGFLYVTQGTNQQTA--VVEV---KDVKK-------------SLG---------SV 504
+ G L TQ Q A ++E +D+K SLG V
Sbjct: 1721 --SEKGLLSATQ--FTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADV 1776
Query: 505 F--------VHK-G-TIREGV--LEVGREVEAI--VDPKLRQRAKVHHTATHLLQAALKK 550
V G T++ V E+GR + ++P +V A Q AL+
Sbjct: 1777 MSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINP-----GRV---AASFSQEALQY 1828
Query: 551 V---IGQET-------------SQ---AGSLVAFDRL 568
V +G+ T Q AG L A D +
Sbjct: 1829 VVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTV 1865
Score = 56.2 bits (135), Expect = 5e-08
Identities = 101/649 (15%), Positives = 181/649 (27%), Gaps = 238/649 (36%)
Query: 279 GNLEGAFL-PSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQML 337
G+LE L P+ ++ I +L+ + F + L
Sbjct: 14 GSLEHVLLVPT--------ASFF----------IASQLQEQ---FNKILPEP-------- 44
Query: 338 ADALSRTRESGSVPRLSGQDAFLLYDTFGFPVEITKEVAEEHGVSVD------------- 384
+ + E + L G+ FL G+ ++ V D
Sbjct: 45 TEGFAADDEPTTPAELVGK--FL-----GY---VSSLVEPSKVGQFDQVLNLCLTEFENC 94
Query: 385 -MKGFDIEMENQRRQSQAAHN-AVKLSVDDSADLAEKIPDTEFLGYDTLSAKAIVESLLV 442
++G DI H A KL ++ L + + + K + + ++
Sbjct: 95 YLEGNDI------------HALAAKLLQENDTTLVKT--------KELI--KNYITARIM 132
Query: 443 NGKPVIKVSKGSDVEVLL-----NRTPFYAESGGQ--IGDYGF-----LYVTQGTNQQTA 490
+P K S + L A GGQ DY F LY T
Sbjct: 133 AKRPFDKKSNSA----LFRAVGEGNAQLVAIFGGQGNTDDY-FEELRDLYQTYHVLVGDL 187
Query: 491 VVEVKDVKKSLGSVFVHKGTIREGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALK- 549
+ + L + + L + +E + +P +LL +
Sbjct: 188 IKFSAETLSELIRTTLDAEKVFTQGLNI---LEWLENPSNT------PDKDYLLSIPISC 238
Query: 550 KVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDD 609
+IG Q V +L L E+ + G G + L V A+
Sbjct: 239 PLIG--VIQLAHYVVTAKL----------LGFTPGELRSYLKGATGHSQGL---VTAV-- 281
Query: 610 AKRAGAIAM------FGEKYGEQVRVV---------EVPGVSMELCGGTHVNNTAEIRAF 654
AIA F + + V+ P S+ I
Sbjct: 282 -----AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP----------PSILED 326
Query: 655 KIISEQGIAS---GIRRIEAVAGEAFIEY---------------INARDSY--------M 688
+ + +G+ S I + + ++ +N + +
Sbjct: 327 SLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSL 386
Query: 689 KHLCSTL-KVK-----DE----------EVTTR----------------VEGLLEDLRTA 716
L TL K K D+ + + R + + +DL
Sbjct: 387 YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDL--V 444
Query: 717 RNEVANLRAKA---AVYKASTISSKAFTVGTSNEIRVLVESMDDMDAD---SLKSAAEYL 770
+N V+ AK VY T V + + +V+ + + + + A ++
Sbjct: 445 KNNVS-FNAKDIQIPVY--DTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHI 501
Query: 771 VDTLQDPAAVVLGSCPDEGKVSLIAAFSQGIVD-LG---IQAGKF-IGP 814
+D G P G S + + D G I AG I P
Sbjct: 502 LD---------FG--P--GGASGLGVLTHRNKDGTGVRVIVAGTLDINP 537
Score = 53.9 bits (129), Expect = 2e-07
Identities = 103/604 (17%), Positives = 171/604 (28%), Gaps = 243/604 (40%)
Query: 339 DALSRTR----ESGS------VPRLSGQDAFLLYDTFG--FPVEITKEVAEEHGVSVDMK 386
DA S TR GS VP S A L + F P E T+ A +
Sbjct: 2 DAYS-TRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILP-EPTEGFAAD-------- 51
Query: 387 GFDIEMENQRRQSQAAHNAVKLSVDDSADLAEKIPDTEFLGYDTLSAKAIVESLLVNGKP 446
D+ AE + +FLGY V SL+ K
Sbjct: 52 ------------------------DEPTTPAELV--GKFLGY--------VSSLVEPSKV 77
Query: 447 VIKVSKGSDVEVL---LNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEV-KDVKKSLG 502
G +VL L F E+ +L +G + ++ ++ +L
Sbjct: 78 ------GQFDQVLNLCLTE--F--ENC-------YL---EGNDIHALAAKLLQENDTTLV 117
Query: 503 SVFVHKGTIR---EGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALK---KVI---- 552
K I+ + R + K ++A L +A + +++
Sbjct: 118 KT---KELIKNYITARIMAKRPFD-----------KKSNSA--LFRAVGEGNAQLVAIFG 161
Query: 553 GQETSQAG-SLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAK 611
GQ G + F+ LR + + L+ ++ A L + DA+
Sbjct: 162 GQ-----GNTDDYFEELRDLYQTYHVLVGDLIKFS----------AETLSELIRTTLDAE 206
Query: 612 RAGAIAMFGEKYGEQVRVVE-------VPGVSMELCGGTHVNNTAEIRAFKIISEQGIAS 664
+ + + + ++E P L + I + +I G+
Sbjct: 207 KV---------FTQGLNILEWLENPSNTPDKDY-LL-------SIPI-SCPLI---GVIQ 245
Query: 665 GIRRIEAVAGEAFIEYINARDSYMKHLCSTLKVKDEEVTTRVEGLL---EDLRTARNEVA 721
Y+ L E+ + ++G + L TA
Sbjct: 246 ------------LAHYVVT--------AKLLGFTPGELRSYLKGATGHSQGLVTA----- 280
Query: 722 NLRAKAAVYKASTISSKAFTVGTSNEIRVL----VESMDDMDADSLKSAAEYLVDTLQD- 776
A+ A T S ++F V I VL V + SL L D+L++
Sbjct: 281 -----VAI--AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL--PPSILEDSLENN 331
Query: 777 -----PAAVVLG---------------SCPDEGKV--SLIAAFSQGIVDLGIQAGKFIGP 814
P + P +V SL+ +V GP
Sbjct: 332 EGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS---------GP 382
Query: 815 IAKLCGGGGGGRPNFAQAG---------GRKPEN----LSIA-------LEKARADLVSV 854
L G R A +G RK + L +A L A +
Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKD 442
Query: 855 LSEK 858
L +
Sbjct: 443 LVKN 446
Score = 41.2 bits (96), Expect = 0.002
Identities = 43/261 (16%), Positives = 78/261 (29%), Gaps = 85/261 (32%)
Query: 84 YEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNS-G-------ATGPCGPCSEIYYDFHP 135
Y+ A ++WN+ AD++F ++ G P + F
Sbjct: 1636 YKTSKAAQDVWNR-------------ADNHFKDTYGFSILDIVINNP----VNLTIHFGG 1678
Query: 136 DRGCSDVDLGDDTRFI-EFYNLVFMQYNKKDDGSLEPLKQ-KNIDTGLGLERIARILQKV 193
++G + I E Y+ M + DG L+ K K I+ E +
Sbjct: 1679 EKG----------KRIRENYS--AMIFETIVDGKLKTEKIFKEIN-----EHSTSYTFRS 1721
Query: 194 PNN--YETDLIF--PIIKKASELANVSYAQSND---RTNLNLKII--GDH-------LRA 237
T F P + + A D + + G H L +
Sbjct: 1722 EKGLLSATQ--FTQPAL-----TL-MEKAAFEDLKSKGLIPADATFAG-HSLGEYAALAS 1772
Query: 238 I--VYLLSDGVFPSNIGRGYVVR---RLIRRAVRTGRLLGIKGDGRGNLEGAFLPSIAEK 292
+ V + V VV ++ AV L G S +++
Sbjct: 1773 LADVMSIESLV--------EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE 1824
Query: 293 AIELSTHIDSDVKAREQRILE 313
A++ ++ V R ++E
Sbjct: 1825 ALQ---YVVERVGKRTGWLVE 1842
Score = 40.0 bits (93), Expect = 0.004
Identities = 52/294 (17%), Positives = 80/294 (27%), Gaps = 93/294 (31%)
Query: 252 GRG---Y----VVRRLIRRA-VRTGRLLG--IKGDGRGN-------LEGAFLPSIAEKAI 294
G G Y + + RA G I N G I E
Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYS 1689
Query: 295 ELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQ-------MLAD--ALSRT- 344
+ D K + ++I +E+ E T + LL + A
Sbjct: 1690 AMIFETIVDGKLKTEKIFKEIN-EHSTSY-TFRSEKGLLSATQFTQPALTLMEKAAFEDL 1747
Query: 345 RESGSVPRLSGQDAFLLYDTF-GFPVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQA-A 402
+ G +P DA F G H S+ G E + A A
Sbjct: 1748 KSKGLIP----ADAT-----FAG------------H--SL---G-----EY----A-ALA 1771
Query: 403 HNAVKLSVDDSADL--------AEKIPDTEFLGYDTLSAKAIVESLLVNGKPVIKVSKGS 454
A +S++ ++ +P E LG AI + +
Sbjct: 1772 SLADVMSIESLVEVVFYRGMTMQVAVPRDE-LGRSNYGMIAINPGRVAASFSQEALQYV- 1829
Query: 455 DVEVLLNRTPFYAE------SGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLG 502
VE + RT + E Q YV G + A+ V +V +
Sbjct: 1830 -VERVGKRTGWLVEIVNYNVENQQ-------YVAAGDLR--ALDTVTNVLNFIK 1873
Score = 37.0 bits (85), Expect = 0.032
Identities = 44/311 (14%), Positives = 83/311 (26%), Gaps = 108/311 (34%)
Query: 553 GQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLL-QTKVMALDDAK 611
G+ + S + F+ + + E + + LL T+
Sbjct: 1681 GKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYT--FRSEKGLLSATQF------- 1731
Query: 612 RAGA-IAMFGEKYGEQVRVVEVPGVSMELCGGTHVNNTAEIRAFKIISEQGIASGIRRIE 670
A+ E AF+ + +G+ I
Sbjct: 1732 ---TQPALT----------------------------LMEKAAFEDLKSKGL---IPADA 1757
Query: 671 AVAGEAFI----EYINARDSYMKHLCST---LKVKD--EEVTTRVEGLLEDLRTARNEVA 721
AG EY A L S + ++ E V R G+ + R+E+
Sbjct: 1758 TFAG----HSLGEY-AA-------LASLADVMSIESLVEVVFYR--GMTMQVAVPRDELG 1803
Query: 722 NLR-AKAAVYKASTISSKAFTVGTSNEIRVLVESMDDMDADSLKSAAEYLVDTLQDPAAV 780
A+ +S + ++ +VE + L Y V+ Q
Sbjct: 1804 RSNYGMIAINPGRVAAS-----FSQEALQYVVERVGK-RTGWLVEIVNYNVENQQ----Y 1853
Query: 781 VLGSCPDEGKVSLIAAFSQGIVDLGIQAGKFIGPIAKLCGGGGGGRPNFAQAGGRKPENL 840
V G + + + + + +Q I I +L
Sbjct: 1854 VAA-----GDLRALDTVTNVLNFIKLQK---I-DIIEL--------------------QK 1884
Query: 841 SIALEKARADL 851
S++LE+ L
Sbjct: 1885 SLSLEEVEGHL 1895
>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A
{Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1
d.67.1.1 d.104.1.1 PDB: 1nyq_A*
Length = 645
Score = 41.0 bits (97), Expect = 0.002
Identities = 31/139 (22%), Positives = 61/139 (43%), Gaps = 32/139 (23%)
Query: 538 HTATHLLQAALKKV-------IGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLI 590
H+ HL+ A+K++ +G +DF+ + + + E+IE+ +
Sbjct: 75 HSTAHLMAHAIKRLYGNVKFGVGPVIE--------GGFYYDFDIDQNISSDDFEQIEKTM 126
Query: 591 NGWIGDANLLQTKVMALDDAKRAGAIAMF-GEKY----------GEQVRVVEVPGVSMEL 639
+ + ++ KV++ R A +F ++Y E V + G +L
Sbjct: 127 KQIVNENMKIERKVVS-----RDEAKELFSNDEYKLELIDAIPEDENVTLYSQ-GDFTDL 180
Query: 640 CGGTHVNNTAEIRAFKIIS 658
C G HV +TA+I+ FK++S
Sbjct: 181 CRGVHVPSTAKIKEFKLLS 199
>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 = 38.0 bits (87), Expect = 0.003
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 14/44 (31%)
Query: 395 QRRQSQAAHNAVKLSVDDSADLAEKIPDTEFLGYDTLSAKAIVE 438
+++ + ++KL DDSA P L+ KA +E
Sbjct: 18 EKQALKKLQASLKLYADDSA------P--------ALAIKATME 47
>1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, mRNA, aminoacylati
translational regulation, protein/RNA, ligase-RNA
complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A
{Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1
d.104.1.1
Length = 642
Score = 37.5 bits (88), Expect = 0.017
Identities = 27/144 (18%), Positives = 48/144 (33%), Gaps = 39/144 (27%)
Query: 538 HTATHLLQAALKK-------VIGQETSQAGSLVAFDRLRF--DFNFHRPLLDTELEEIER 588
H+ HLL A+K+ IG F D + R L ++E +E+
Sbjct: 73 HSCAHLLGHAIKQLWPHTKMAIGPVIDNG----------FYYDVDLDRTLTQEDVEALEK 122
Query: 589 LINGWIGDANLLQTKVMALDDAKRAGAIAMF---GEKY-----------GEQVRVVEVPG 634
++ + K ++ A F GE Y ++ +
Sbjct: 123 RMHELAEKNYDVIKKKVS-----WHEARETFANRGESYKVSILDENIAHDDKPGLYFH-E 176
Query: 635 VSMELCGGTHVNNTAEIRAFKIIS 658
+++C G HV N FK++
Sbjct: 177 EYVDMCRGPHVPNMRFCHHFKLMK 200
>1tke_A Threonyl-tRNA synthetase; ligase; 1.46A {Escherichia coli} SCOP:
d.15.10.1 d.67.1.1 PDB: 1tje_A 1tkg_A* 1tky_A*
Length = 224
Score = 34.8 bits (81), Expect = 0.070
Identities = 18/101 (17%), Positives = 34/101 (33%), Gaps = 18/101 (17%)
Query: 571 DFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRAGAIAMF---GEKYGEQV 627
D + R L ++E +E+ ++ + K + A F GE Y +
Sbjct: 105 DVDLDRTLTQEDVEALEKRMHELAEKNYDVIKKKV-----SWHEARETFANRGESYKVSI 159
Query: 628 RVVEVPG---VSM-------ELCGGTHVNNTAEIRAFKIIS 658
+ + ++C G HV N FK++
Sbjct: 160 LDENIAHDDKPGLYFHEEYVDMCRGPHVPNMRFCHHFKLMK 200
>2iew_A Inositol polyphosphate multikinase; ATP-grAsp fold related,
transferase; 2.00A {Saccharomyces cerevisiae} PDB:
2if8_A*
Length = 363
Score = 34.1 bits (77), Expect = 0.16
Identities = 15/116 (12%), Positives = 31/116 (26%), Gaps = 17/116 (14%)
Query: 83 VYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSGATGPCGPCSEIYYDFHPDRGCSDV 142
+YE D E +E+ N + + DD+ + +
Sbjct: 262 IYEGDPERWELLNDVDKLMRDDFIDDDDDDD------DNDDDDDDDAEGSSEGPKDKKTT 315
Query: 143 DLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNNYE 198
I+F + D+ + G+E + I K ++
Sbjct: 316 GSLSSMSLIDFAHSEITPGKGYDENVI-----------EGVETLLDIFMKFLEHHH 360
>2qh8_A Uncharacterized protein; conserved domain protein, structural
genomics, PSI-2, MCSG, BIG_563.1, protein structure
initiative; HET: HIS; 2.20A {Vibrio cholerae o1 biovar
eltor str} PDB: 3lkv_A*
Length = 302
Score = 32.6 bits (74), Expect = 0.46
Identities = 16/107 (14%), Positives = 38/107 (35%), Gaps = 7/107 (6%)
Query: 718 NEVANLRAKAAVYKASTISSKAFTVGTSNEIRVLVESM-DDMDA------DSLKSAAEYL 770
N V+ + I T S +++ +++ + D +++ SA E +
Sbjct: 153 NAVSLMELLKLSAAKHGIKLVEATALKSADVQSATQAIAEKSDVIYALIDNTVASAIEGM 212
Query: 771 VDTLQDPAAVVLGSCPDEGKVSLIAAFSQGIVDLGIQAGKFIGPIAK 817
+ V G+ + IA+ +G+Q ++ I +
Sbjct: 213 IVAANQAKTPVFGAATSYVERGAIASLGFDYYQIGVQTADYVAAILE 259
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 31.9 bits (72), Expect = 1.1
Identities = 22/179 (12%), Positives = 61/179 (34%), Gaps = 25/179 (13%)
Query: 571 DFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRAGAIAMFGEKYGEQVRVV 630
N +L+++ + + L+++ V D +G+ + V
Sbjct: 366 KLNDRNVASMVKLDKVPVMDEIYDLTKELIESCVKNKDLKSPCELAIEKTFSFGKTKKNV 425
Query: 631 EVPGVSME----LCGGTHVN-------------------NTAEIRAFKIISEQGIASGIR 667
++ E L G + +N + +G+A+GIR
Sbjct: 426 KINIFEKEEGKNLLGPSILNEIYVYDGNVIGIPESFDGVKEEFKDFLEKGKSEGVATGIR 485
Query: 668 RIEAVAGEAF--IEYINARDSYMKHLCSTLKVKDEEVTTRVEGLLEDLRTARNEVANLR 724
I+A+ + +E ++ + + ++ +++ + ++N+V ++R
Sbjct: 486 YIDALCFKITSKLEEAFVSNTTEFKVKVPIVRSLSDINLKIDDIALKQIMSKNKVIDVR 544
>3lft_A Uncharacterized protein; ABC, ATPase, cassette, L-Trp, PSI, MCSG,
structural genomics center for structural genomics; HET:
MSE TRP; 1.35A {Streptococcus pneumoniae}
Length = 295
Score = 31.5 bits (71), Expect = 1.2
Identities = 24/107 (22%), Positives = 44/107 (41%), Gaps = 7/107 (6%)
Query: 718 NEVANLRAKAAVYKASTISSKAFTVGTSNEIRVLVESM-DDMDA------DSLKSAAEYL 770
N + A + + ++ + F V ++NEI V M +DA +++ S +
Sbjct: 146 NSKTQVEEFKAYAEKAGLTVETFAVPSTNEIASTVTVMTSKVDAIWVPIDNTIASGFPTV 205
Query: 771 VDTLQDPAAVVLGSCPDEGKVSLIAAFSQGIVDLGIQAGKFIGPIAK 817
V + Q + S +V +A+ DLG+ GK I + K
Sbjct: 206 VSSNQSSKKPIYPSATAMVEVGGLASVVIDQHDLGVATGKMIVQVLK 252
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 31.5 bits (71), Expect = 1.4
Identities = 22/179 (12%), Positives = 61/179 (34%), Gaps = 25/179 (13%)
Query: 571 DFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRAGAIAMFGEKYGEQVRVV 630
N +L+++ + + L+++ V D +G+ + V
Sbjct: 366 KLNDRNVASMVKLDKVPVMDEIYDLTKELIESCVKNKDLKSPCELAIEKTFSFGKTKKNV 425
Query: 631 EVPGVSME----LCGGTHVN-------------------NTAEIRAFKIISEQGIASGIR 667
++ E L G + +N + +G+A+GIR
Sbjct: 426 KINIFEKEEGKNLLGPSILNEIYVYDGNVIGIPESFDGVKEEFKDFLEKGKSEGVATGIR 485
Query: 668 RIEAVAGEAF--IEYINARDSYMKHLCSTLKVKDEEVTTRVEGLLEDLRTARNEVANLR 724
I+A+ + +E ++ + + ++ +++ + ++N+V ++R
Sbjct: 486 YIDALCFKITSKLEEAFVSNTTEFKVKVPIVRSLSDINLKIDDIALKQIMSKNKVIDVR 544
>1af8_A Actinorhodin polyketide synthase acyl carrier Pro; acyl carrier
protein, solution STR antibiotic biosynthesis; NMR
{Streptomyces coelicolor} SCOP: a.28.1.1 PDB: 2af8_A
2k0x_A* 2k0y_A 2kg6_A* 2kg8_A* 2kg9_A* 2kga_A* 2kgc_A*
2kgd_A* 2kge_A*
Length = 86
Score = 28.7 bits (64), Expect = 1.7
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 2/33 (6%)
Query: 410 VDDSADLAEKIPDTEF--LGYDTLSAKAIVESL 440
D DL+ D F +GYD+L+ L
Sbjct: 20 ETDGTDLSGDFLDLRFEDIGYDSLALMETAARL 52
>2du3_A O-phosphoseryl-tRNA synthetase; alpha4 tetramer, ligase/RNA
complex; HET: SEP; 2.60A {Archaeoglobus fulgidus} PDB:
2du4_A 2du5_A* 2du6_A*
Length = 534
Score = 31.0 bits (70), Expect = 1.8
Identities = 26/156 (16%), Positives = 60/156 (38%), Gaps = 13/156 (8%)
Query: 582 ELEEIERLINGWIGDANLLQTKVMALDDAKRAGAIAMFGEKYGEQVRV-VEVPGVSMELC 640
+++E+ + G ++++T + +A GE G VRV V + +LC
Sbjct: 367 KVKEVPQTAVGLKIAQSIVETAEKHASEPSPCSFLAFEGEMMGRNVRVYVVEEEENTKLC 426
Query: 641 GGTHVNNTA----------EIRAFKIISEQGIASGIRRIEAVAGEAF--IEYINARDSYM 688
G + N + + ++ E+G+ +GIR I+ A A +E R+
Sbjct: 427 GPAYANEVVVYKGDIYGIPKTKKWRSFFEEGVPTGIRYIDGFAYYAARKVEEAAMREQEE 486
Query: 689 KHLCSTLKVKDEEVTTRVEGLLEDLRTARNEVANLR 724
+ + + ++ + + + ++R
Sbjct: 487 VKVKARIVENLSDINLYIHENVRRYILWKKGKIDVR 522
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 665
Score = 30.7 bits (69), Expect = 2.6
Identities = 22/179 (12%), Positives = 61/179 (34%), Gaps = 25/179 (13%)
Query: 571 DFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRAGAIAMFGEKYGEQVRVV 630
N +L+++ + + L+++ V D +G+ + V
Sbjct: 366 KLNDRNVASMVKLDKVPVMDEIYDLTKELIESCVKNKDLKSPCELAIEKTFSFGKTKKNV 425
Query: 631 EVPGVSME----LCGGTHVN-------------------NTAEIRAFKIISEQGIASGIR 667
++ E L G + +N + +G+A+GIR
Sbjct: 426 KINIFEKEEGKNLLGPSILNEIYVYDGNVIGIPESFDGVKEEFKDFLEKGKSEGVATGIR 485
Query: 668 RIEAVAGEAF--IEYINARDSYMKHLCSTLKVKDEEVTTRVEGLLEDLRTARNEVANLR 724
I+A+ + +E ++ + + ++ +++ + ++N+V ++R
Sbjct: 486 YIDALCFKITSKLEEAFVSNTTEFKVKVPIVRSLSDINLKIDDIALKQIMSKNKVIDVR 544
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 648
Score = 30.0 bits (67), Expect = 3.8
Identities = 22/179 (12%), Positives = 61/179 (34%), Gaps = 25/179 (13%)
Query: 571 DFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRAGAIAMFGEKYGEQVRVV 630
N +L+++ + + L+++ V D +G+ + V
Sbjct: 366 KLNDRNVASMVKLDKVPVMDEIYDLTKELIESCVKNKDLKSPCELAIEKTFSFGKTKKNV 425
Query: 631 EVPGVSME----LCGGTHVN-------------------NTAEIRAFKIISEQGIASGIR 667
++ E L G + +N + +G+A+GIR
Sbjct: 426 KINIFEKEEGKNLLGPSILNEIYVYDGNVIGIPESFDGVKEEFKDFLEKGKSEGVATGIR 485
Query: 668 RIEAVAGEAF--IEYINARDSYMKHLCSTLKVKDEEVTTRVEGLLEDLRTARNEVANLR 724
I+A+ + +E ++ + + ++ +++ + ++N+V ++R
Sbjct: 486 YIDALCFKITSKLEEAFVSNTTEFKVKVPIVRSLSDINLKIDDIALKQIMSKNKVIDVR 544
>1nq4_A Oxytetracycline polyketide synthase acyl carrier protein; solution
structure, dynamics, ACP, biosynthetic protein; NMR
{Streptomyces rimosus} SCOP: a.28.1.1
Length = 95
Score = 27.9 bits (62), Expect = 4.8
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 410 VDDSADLAEKIPDTEF--LGYDTLSAKAIVESL 440
++S DL + D F LGYD+L+ V +
Sbjct: 19 EEESIDLGGDVEDVAFDALGYDSLALLNTVGRI 51
>1yvr_A RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein, 60 kDa; heat
repeat, VON willebrand factor A, rossmann fold, midas
motif', RNA binding protein; 1.95A {Xenopus laevis}
SCOP: a.118.25.1 c.62.1.5 PDB: 1yvp_A 2i91_A
Length = 538
Score = 29.8 bits (66), Expect = 5.0
Identities = 23/147 (15%), Positives = 42/147 (28%), Gaps = 14/147 (9%)
Query: 711 EDLRTARNEVANLRAKAAVYKASTISSKAFTVGTSNEIRVLVESMDDMDADSLKSAAEYL 770
R + + A+ A S K T + ++ M+ L S
Sbjct: 335 HGNRGKLRWIPDTSIVEALDNAFYKSFK-LVEPTGKRFLLAIDVSASMNQRVLGSIL--- 390
Query: 771 VDTLQDPAAVVLGSCPDEGKVSLIAAFSQGIVDLGIQAGKFIGPIAKLCGGGGGGRPNFA 830
AA + K S + AFS ++ I + + + G + A
Sbjct: 391 --NASVVAAAMCMLVARTEKDSHMVAFSDEMLPCPITVNMLLHEVVEKMSDITMGSTDCA 448
Query: 831 QAGGRKPENLSIALE-KARADLVSVLS 856
+ A + AD+ V +
Sbjct: 449 LP-------MLWAQKTNTAADIFIVFT 468
>3osq_A Maltose-binding periplasmic protein, green fluore protein;
engineered protein, sensor protein, fluorescent protein,
MBP maltose sensor; HET: C12 MAL; 1.90A {Escherichia
coli}
Length = 661
Score = 29.8 bits (66), Expect = 5.3
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 3/46 (6%)
Query: 79 LWISVYEDDD---EAFEIWNKEVGVPVEHIKRMGADDNFWNSGATG 121
+WI+ + + E + + K+ G+ V ++ F ATG
Sbjct: 45 IWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATG 90
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP:
a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*
Length = 549
Score = 29.6 bits (66), Expect = 5.8
Identities = 17/79 (21%), Positives = 26/79 (32%), Gaps = 2/79 (2%)
Query: 278 RGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKR--EELRFVQTLERGEKLLDQ 335
R FL +A EL ID + + + L+ + L R + Q
Sbjct: 50 RLERIANFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQ 109
Query: 336 MLADALSRTRESGSVPRLS 354
L R G+VP+
Sbjct: 110 FSRQMLDRKLLLGNVPKQM 128
>3k85_A D-glycero-D-manno-heptose 1-phosphate kinase; bacteriodes
thetaiotaomicron, protein structure initiative II(PSI
II), nysgxrc; 2.28A {Bacteroides thetaiotaomicron}
Length = 357
Score = 29.1 bits (65), Expect = 6.2
Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 3/25 (12%)
Query: 801 IVDLGIQAGKFIGPIAKLCGGGGGG 825
D+ AG + K+ G GGGG
Sbjct: 280 AFDVATGAGA-MA--GKVSGAGGGG 301
>4dxb_A RG13, maltose-binding periplasmic protein, beta-lactama chimera;
TEM, beta-lactamase, MBP, allosteric regulation, zinc
bindin maltose binding; 2.29A {Escherichia coli} PDB:
4dxc_A
Length = 637
Score = 29.2 bits (65), Expect = 7.7
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 3/46 (6%)
Query: 79 LWISVYEDDD---EAFEIWNKEVGVPVEHIKRMGADDNFWNSGATG 121
+WI+ + + E + + K+ G+ V ++ F ATG
Sbjct: 9 IWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATG 54
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.2 bits (62), Expect = 7.8
Identities = 13/60 (21%), Positives = 24/60 (40%), Gaps = 4/60 (6%)
Query: 291 EKAIELSTHIDSDVKAREQRILEELKRE-ELRFVQTLERGEKLLDQMLA--DALSRTRES 347
E+ L +D+ K EQ E+ K++ E + E+ EK A + ++
Sbjct: 93 EQRKRLQ-ELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDA 151
>3cb6_A FACT complex subunit SPT16; peptidase homology domain, histone
binding module, histone H chaperone, PITA-bread fold;
1.84A {Schizosaccharomyces pombe} PDB: 3cb5_A
Length = 444
Score = 28.7 bits (64), Expect = 8.9
Identities = 19/120 (15%), Positives = 38/120 (31%), Gaps = 18/120 (15%)
Query: 655 KIISEQGIASGIRRIEAVAGEAFIEYINARDSYMKHLCSTLKVKDEEVTTRVEGLLEDLR 714
+ I G+ + G+ E+ DS + + S + D L
Sbjct: 126 EYIRATNKKVGVFPKDKTQGKFINEW----DSIFEPVKSEFNLVD------ASLGLAKCL 175
Query: 715 TA--RNEVANLRAKAAVYKASTISSKAFTVGTSNEIRVLVESMDDMDADSLKSAAEYLVD 772
E+AN++ AS +S + +E+ ++ + E L+D
Sbjct: 176 AIKDEQELANIK------GASRVSVAVMSKYFVDELSTYIDQGKKITHSKFSDQMESLID 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
0.318 0.136 0.387
Gapped
Lambda K H
0.267 0.0750 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 13,556,579
Number of extensions: 902661
Number of successful extensions: 2380
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2302
Number of HSP's successfully gapped: 57
Length of query: 860
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 758
Effective length of database: 3,853,851
Effective search space: 2921219058
Effective search space used: 2921219058
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 62 (27.6 bits)