RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2376
(896 letters)
>3tka_A Ribosomal RNA small subunit methyltransferase H; HET: SAM CTN PG4;
2.25A {Escherichia coli}
Length = 347
Score = 384 bits (990), Expect = e-127
Identities = 137/281 (48%), Positives = 190/281 (67%), Gaps = 6/281 (2%)
Query: 392 LNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGNKIT 451
L+EA+N LNI R +GIYID TFG+GGHS IL +LG++GRL+AID+D +++++ I
Sbjct: 46 LDEAVNGLNI---RPDGIYIDGTFGRGGHSRLILSQLGEEGRLLAIDRDPQAIAVAKTID 102
Query: 452 DSRFSIIHNCFTELDIILKKYN-IKKIDGILFDLGISSNQINNELRGFSFLLDGPLDMRM 510
D RFSIIH F+ L + + + I KIDGIL DLG+SS Q+++ RGFSF+ DGPLDMRM
Sbjct: 103 DPRFSIIHGPFSALGEYVAERDLIGKIDGILLDLGVSSPQLDDAERGFSFMRDGPLDMRM 162
Query: 511 DITRGISASKWLANATEFNIKKVIQDYGEERFAKKIAKEIVHYRSITPITRTKQLVEIIL 570
D TRG SA++WL A E +I V++ YGEERFAK+IA+ IV P+TRTK+L E++
Sbjct: 163 DPTRGQSAAEWLQTAEEADIAWVLKTYGEERFAKRIARAIVERNREQPMTRTKELAEVVA 222
Query: 571 KSIRGNKRYKNPATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFHSLEDRI 630
+ ++K+PATRTFQA+RI++N EL+ + ALK L GR+ +ISFHSLEDRI
Sbjct: 223 AATPVKDKFKHPATRTFQAVRIWVNSELEEIEQALKSSLNVLAPGGRLSIISFHSLEDRI 282
Query: 631 VKNFINFNTKIPHIDRRLPIYNYLFEPKMKFLARCKPKKKL 671
VK F+ N++ P + LP+ + + + KL
Sbjct: 283 VKRFMRENSRGPQVPAGLPMTEEQLKKLGGR--QLRALGKL 321
>1wg8_A Predicted S-adenosylmethionine-dependent methyltransferase;
S-adenosyl-methyltransferase, MRAW; HET: SAM; 2.00A
{Thermus thermophilus} SCOP: a.60.13.1 c.66.1.23
Length = 285
Score = 350 bits (902), Expect = e-114
Identities = 95/244 (38%), Positives = 145/244 (59%), Gaps = 8/244 (3%)
Query: 392 LNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGNKIT 451
EA++ L + R G+Y+DAT G GH+ ILER GR+I +D+D E+V+ +
Sbjct: 11 YQEALDLLAV---RPGGVYVDATLGGAGHARGILER---GGRVIGLDQDPEAVARAKGLH 64
Query: 452 DSRFSIIHNCFTELDIILKKYNIKKIDGILFDLGISSNQINNELRGFSFLLDGPLDMRMD 511
+++ F L L ++++DGIL DLG+SS +++ RGFS+ +GPLDMRM
Sbjct: 65 LPGLTVVQGNFRHLKRHLAALGVERVDGILADLGVSSFHLDDPSRGFSYQKEGPLDMRMG 124
Query: 512 ITRGISASKWLANATEFNIKKVIQDYGEERFAKKIAKEIVHYRSITPITRTKQLVEIILK 571
G +A + + + +++++ GEE A +IA+ IV R PI T QL EI+ K
Sbjct: 125 -LEGPTAKEVVNRLPLEALARLLRELGEEPQAYRIARAIVAAREKAPIETTTQLAEIVRK 183
Query: 572 SIRGNKRYKNPATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFHSLEDRIV 631
++ + +PA +TFQA+RIY+N EL L L+ + L GR+VVI+FHSLEDR+V
Sbjct: 184 AVGFRRA-GHPARKTFQALRIYVNDELNALKEFLEQAAEVLAPGGRLVVIAFHSLEDRVV 242
Query: 632 KNFI 635
K F+
Sbjct: 243 KRFL 246
>1m6y_A S-adenosyl-methyltransferase MRAW; SAM-dependent methyltransferase
fold, protein-cofactor product complex, structural
genomics, PSI; HET: SAH; 1.90A {Thermotoga maritima}
SCOP: a.60.13.1 c.66.1.23 PDB: 1n2x_A*
Length = 301
Score = 336 bits (864), Expect = e-109
Identities = 108/266 (40%), Positives = 156/266 (58%), Gaps = 15/266 (5%)
Query: 392 LNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGNKI- 450
+ E I +L I +D T G+GGHS ILE R+I ID D+E + + +
Sbjct: 15 VREVIEFLKP---EDEKIILDCTVGEGGHSRAILEHCPG-CRIIGIDVDSEVLRIAEEKL 70
Query: 451 --TDSRFSIIHNCFTELDIILKKYNIKKIDGILFDLGISSNQINNELRGFSFLLDGPLDM 508
R S+ + E D +LK I+K+DGIL DLG+S+ Q+ E RGF+F + PLDM
Sbjct: 71 KEFSDRVSLFKVSYREADFLLKTLGIEKVDGILMDLGVSTYQLKGENRGFTFEREEPLDM 130
Query: 509 RMDITRGISASKWLANATEFNIKKVIQDYGEE-RFAKKIAKEIVHYRSITPITRTKQLVE 567
RMD+ ++A K L E + ++I +YGEE RFA++IA++IV R P+ T LV+
Sbjct: 131 RMDLESEVTAQKVLNELPEEELARIIFEYGEEKRFARRIARKIVENR---PLNTTLDLVK 187
Query: 568 IILKSIRGNKRY---KNPATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFH 624
+ +++ + ++ AT+TFQAIRIY+N+EL+NL LK LN GRIVVISFH
Sbjct: 188 AVREALPSYEIRRRKRHFATKTFQAIRIYVNRELENLKEFLKKAEDLLNPGGRIVVISFH 247
Query: 625 SLEDRIVKNFINFNTKIPHIDRRLPI 650
SLEDRIVK + K+ + + P+
Sbjct: 248 SLEDRIVKETFRNSKKLRILTEK-PV 272
>1nmo_A Hypothetical protein YBGI; toroidal structure, structure 2 project,
S2F, structural genomics, unknown function; 2.20A
{Escherichia coli} SCOP: c.135.1.1 PDB: 1nmp_A
Length = 247
Score = 245 bits (628), Expect = 2e-75
Identities = 97/220 (44%), Positives = 135/220 (61%), Gaps = 11/220 (5%)
Query: 669 KKLNIKKYEDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWKGE 728
+KLN DY PNGLQVEG+ + IVTGVTAS L+ AV + ADA++VHHGYFWKGE
Sbjct: 12 EKLNSAAISDYAPNGLQVEGKETVQKIVTGVTASQALLDEAVRLGADAVIVHHGYFWKGE 71
Query: 729 NSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSKNNIGW 788
+ I G+K+ RL+ L+ N INLY +HLPLD HP+LGNNAQLA +L + +
Sbjct: 72 SPVIRGMKRNRLKTLLANDINLYGWHLPLDAHPELGNNAQLAALLGITVMGEI--EPLVP 129
Query: 789 IGKIINLKRYNFKKIITIKDLFHHITRKIGKKPI-VIGDLNKKIYEIGWCTGAAQNLLTD 847
G+ + +L I ++G+KP+ + + + WCTG Q+ +
Sbjct: 130 WGE--------LTMPVPGLELASWIEARLGRKPLWCGDTGPEVVQRVAWCTGGGQSFIDS 181
Query: 848 AINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERY 887
A GV A+I+GE+SE T++ +RE G+ ++AAGHHATER
Sbjct: 182 AARFGVDAFITGEVSEQTIHSAREQGLHFYAAGHHATERG 221
>2yyb_A Hypothetical protein TTHA1606; structural genomics, unknown
function; 2.60A {Thermus thermophilus}
Length = 242
Score = 233 bits (596), Expect = 7e-71
Identities = 64/220 (29%), Positives = 102/220 (46%), Gaps = 16/220 (7%)
Query: 669 KKLNIKKY-EDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWKG 727
L I+ + +D NGLQVEG+ + + V A + + A++ D ++VHHG FW
Sbjct: 12 AYLRIQDFPQDPSLNGLQVEGKRTVRKVGAAVDAGEAIFRKALEEEVDFLIVHHGLFWGK 71
Query: 728 ENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSKNNIG 787
IVG K+RLE L INLYA HLPLD H ++GNN LA+ L + +G
Sbjct: 72 PFP-IVGHHKRRLETLFQGGINLYAAHLPLDAHEEVGNNFVLARELGLVDLTPWD---VG 127
Query: 788 WIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPIVIGDLNKKIYEIGWCTGAAQNLLTD 847
G+ F + + + + + G +P+V + + +G+ LL
Sbjct: 128 VKGR--------FPQPTPLLQVADRLGQLTGMQPLVHQGGLDHVETVILVSGSGTGLLPK 179
Query: 848 AINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERY 887
+++GE S + + E G+ AGH+ TE +
Sbjct: 180 V---DADLFVTGEPKHSVFHETFERGLNVIYAGHYDTETF 216
>2fyw_A Conserved hypothetical protein; structural genomics, PSI, midwest
CENT structural genomics, MCSG, protein structure
initiative; 2.40A {Streptococcus pneumoniae} SCOP:
c.135.1.1
Length = 267
Score = 125 bits (316), Expect = 3e-32
Identities = 49/228 (21%), Positives = 90/228 (39%), Gaps = 17/228 (7%)
Query: 673 IKKYEDYCPNGLQVEG----------RSNINVIVTGVTASLDLIKTAVDMNADAILVHHG 722
I+ YE +CP +EG I ++ + + + A++ D I+V H
Sbjct: 9 IQAYEAFCPQEFSMEGDSRGLQIGTLDKGIQRVMVALDIREETVAEAIEKGVDLIIVKHA 68
Query: 723 YFWKGENS-NIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRF 781
++ + + LI + I +Y H +D+ G N ++L T
Sbjct: 69 PIFRPIKDLLASRPQNQIYIDLIKHDIAVYVSHTNIDIVEN-GLNDWFCQMLGIEETTYL 127
Query: 782 SKNNIGW-IGKIINLKRYNFKKIIT-IKDLFHHITRKIGKKPIVIGDLNKKIYEIGWCTG 839
+ IG+I N++ F ++ +K +F + ++ DL K I + C G
Sbjct: 128 QETGPERGIGRIGNIQPQTFWELAQQVKQVFDLDSLRMVHY--QEDDLQKPISRVAICGG 185
Query: 840 AAQNLLTDAINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERY 887
+ Q+ DA+ +G YI+G+I T G+ GH+ E
Sbjct: 186 SGQSFYKDALAKGADVYITGDIYYHTAQDMLSDGLLALDPGHY-IEVI 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 = 66.0 bits (160), Expect = 5e-11
Identities = 79/576 (13%), Positives = 173/576 (30%), Gaps = 193/576 (33%)
Query: 410 YIDATFGQGGHSCK-ILERLGKKGRLIAIDKDTESVSLGNKITDSRFSIIHNCFTELDII 468
++D G+ + K IL A + + + D SI+ E+D I
Sbjct: 6 HMDFETGEHQYQYKDILSVF-----EDAFVDNFDC----KDVQDMPKSILSK--EEIDHI 54
Query: 469 LKKYNIKKIDGILFDLGISSNQ------INNELR-GFSFLL------------------- 502
+ + LF +S + + LR + FL+
Sbjct: 55 IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE 114
Query: 503 -------DGPLDMRMDITR--------------------------GISASKWLANATEFN 529
D + + +++R G + W+A
Sbjct: 115 QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT-WVALD---- 169
Query: 530 IKKVIQDYG-EERFAKKIAKEIVHYRSITPITRTKQLVEIILK---SIRGN-----KRYK 580
V Y + + KI + ++ + ++E++ K I N
Sbjct: 170 ---VCLSYKVQCKMDFKI-----FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221
Query: 581 NPATRTFQAI----RIYINQELKNLSIAL------KIGFKKLNIKGRIVVISFHSLEDRI 630
N R R+ ++ +N + L K + N+ +I++ + +
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA-WNAFNLSCKILLTT----RFKQ 276
Query: 631 VKNFINFN--TKIPHIDRRLPIYNYLFEPK--MKFLARCKPKKKLNIKKYEDYCPNGLQV 686
V +F++ T I + P L + L+ + P L
Sbjct: 277 VTDFLSAATTTHISLDHHSMT-----LTPDEVKSLLLKY-----LDCR------PQDLPR 320
Query: 687 EGRSNINVIVTGVTASL---------------DLIKTAVDMNADAI--LVHHGYFWK--- 726
E + ++ + S+ D + T ++ + + + + F +
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
Query: 727 -GENSNI----VGI----KKKRLEQLIINKI----------NLYAYHLP---LDMHPKLG 764
+++I + + K +++NK+ +P L++ KL
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE 440
Query: 765 NNAQL-AKILN-FSCTRRFSKNNIGWIGKIINLKRYNFKKIITIKDLFHHI-----TRKI 817
N L I++ ++ + F +++ L +Y + I HH+ ++
Sbjct: 441 NEYALHRSIVDHYNIPKTFDSDDLI----PPYLDQYFYSHIG------HHLKNIEHPERM 490
Query: 818 GKKPIVIGDLN---KKIYEIG--W-CTGAAQNLLTD 847
+V D +KI W +G+ N L
Sbjct: 491 TLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQ 526
Score = 62.9 bits (152), Expect = 4e-10
Identities = 98/624 (15%), Positives = 185/624 (29%), Gaps = 163/624 (26%)
Query: 159 IPAFTP-ILLNISCGALQIIIQIPSLIKIGMFPHIKLNPSHGFKNIAVRR---ILKKMGP 214
+ F + N C +Q + + S++ HI ++ R L
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPK--SILSKEEIDHIIMSKD---AVSGTLRLFWTLLSKQE 76
Query: 215 SVFSVFAAQISLMLNTN-------IASQMREGSLSCLSYA---DRLMEFPTTLLGVTFNT 264
+ F ++ L N I ++ R+ S+ Y DRL +N
Sbjct: 77 EMVQKFVEEV---LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL-----------YND 122
Query: 265 I-LLPNLSKARIENNTEEYSAILDWIP---IFAHSGLALSIGLG-ACLHASFLYWYLRHK 319
+ + +R++ + A+L+ P + G+ G G +
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID-GVL---GSGKTWVALDVC----LSY 174
Query: 320 RIYIPCAGWGVFFIRL----VIALLLLVIVALWGNSYFNWLGMQAH---PIFRIVALLLI 372
++ + +F++ L +L ++ L NW H RI ++
Sbjct: 175 KV-QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233
Query: 373 L--LFCGITYFLALRIMGFLFLNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGK 430
L L Y L L L N++N + +A F SCKIL
Sbjct: 234 LRRLLKSKPYENCL-----LVLL------NVQNAKA----WNA-FN---LSCKIL----- 269
Query: 431 KGRLIAIDKD-TESVSLGNKITDSRFSIIHNC--FTE---LDIILKKYNIKKID------ 478
L K T+ +S + S+ H+ T ++LK + + D
Sbjct: 270 ---LTTRFKQVTDFLSAATT---THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 479 -GILFDLGI------------------SSNQINNELRGFSFLLDGPLDMR---------- 509
L I + +++ + +L+ P + R
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE-PAEYRKMFDRLSVFP 382
Query: 510 --MDITRGISASKWLANATEFNIKKVIQDYGEERFAKKIAKEIVHY------RSITPITR 561
I + + W + + ++ V+ + +K KE +
Sbjct: 383 PSAHIPTILLSLIW-FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN 441
Query: 562 TKQLVEIILKSIRGNKRYKN---PATRTFQAIRIYINQELKNLSIALKIG-FKKLNIKGR 617
L I+ K + + Q +I LKN+ ++ F+ +
Sbjct: 442 EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV----- 496
Query: 618 IVVISFHSLEDRIVKNFINFNTKIP-------------HIDRRLPIYNYLFEPKMKFLAR 664
+ F LE +I + +N +I P Y L + FL +
Sbjct: 497 --FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPK 554
Query: 665 CKPKKKLNIKKYEDYCPNGLQVEG 688
+ L KY D L E
Sbjct: 555 IEE--NLICSKYTDLLRIALMAED 576
Score = 52.2 bits (124), Expect = 9e-07
Identities = 65/399 (16%), Positives = 128/399 (32%), Gaps = 137/399 (34%)
Query: 524 NATEFNIKKVIQDYGEERFAKKI-AKEIVHY-RSITPITRTKQLVEIILKSIRGNKRYKN 581
++ K ++ + E+ F K++ +SI +K+ ++ I+ S K+
Sbjct: 12 GEHQYQYKDILSVF-EDAFVDNFDCKDVQDMPKSIL----SKEEIDHIIMS-------KD 59
Query: 582 PATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFHSLEDRIVKNF------I 635
+ T R+ F L K +V F +E+ + N+ I
Sbjct: 60 AVSGTL---RL----------------FWTLLSKQEEMVQKF--VEEVLRINYKFLMSPI 98
Query: 636 NFNTKIP------HIDRRLPIYN--YLFEPKMKFLARCKPKKKLNIKKYEDYCPNGLQVE 687
+ P +I++R +YN +F K ++R +P KL L E
Sbjct: 99 KTEQRQPSMMTRMYIEQRDRLYNDNQVF-AKY-NVSRLQPYLKLR---------QALL-E 146
Query: 688 GRSNINVIVTGVTASLDLIKT--AVDMNADAILVHH---GYFWKGENSNIVGIKKKRLEQ 742
R NV++ GV S KT A+D+ + FW + +K +
Sbjct: 147 LRPAKNVLIDGVLGSG---KTWVALDVCLSYKVQCKMDFKIFW-------LNLKNCNSPE 196
Query: 743 LIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSKNNI-GWIGKIINLKRYNFK 801
++ + Y + + + + S + ++I + +++ K Y
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRS----------DHSSNIKLRIHSIQAELRRLLKSKPYE-- 244
Query: 802 KIITIKDLFHHITRKIGKKPIVIGDL-NKKIYE---IGWCTGAAQNLLTDAINEGVTAYI 857
L +V+ ++ N K + + C + LLT
Sbjct: 245 -----NCL------------LVLLNVQNAKAWNAFNLS-C----KILLT----------- 271
Query: 858 SGEISESTVYISRESGVAYFAAGHHATERYDKSPNRELT 896
+R V F + T + LT
Sbjct: 272 -----------TRFKQVTDFLSAATTTHISLDHHSMTLT 299
>2nyd_A UPF0135 protein SA1388; hypothetical protein SA1388,
selenomethionine SAD, unknown F; 2.00A {Staphylococcus
aureus subsp} PDB: 3lnl_A*
Length = 370
Score = 63.8 bits (155), Expect = 7e-11
Identities = 30/224 (13%), Positives = 63/224 (28%), Gaps = 11/224 (4%)
Query: 669 KKLNIKKYEDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWKGE 728
K + +K + + + F++ E
Sbjct: 118 KVMGLKNISIINNQ----QDVYYKVQTYIPKDNVGPFKDKLSENGLAQEGNYEYCFFESE 173
Query: 729 NSNIV----GIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSKN 784
+ I ++ +D + + QL K + T F
Sbjct: 174 GRGQFKPVGEANPTIGQIDKIEDVDEVKIEFMIDAY-QKSRAEQLIKQYHPYETPVFDFI 232
Query: 785 NIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPI-VIGDLNKKIYEIGWCTGAAQN 843
I +T++D I K+ + +G+ N+KI I G+
Sbjct: 233 EIKQTSLYGLGVMAEVDNQMTLEDFAADIKSKLNIPSVRFVGESNQKIKRIAIIGGSGIG 292
Query: 844 LLTDAINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERY 887
A+ +G +++G+I ++ GV H+ +E
Sbjct: 293 YEYQAVQQGADVFVTGDIKHHDALDAKIHGVNLIDINHY-SEYV 335
Score = 58.8 bits (142), Expect = 3e-09
Identities = 32/116 (27%), Positives = 52/116 (44%), Gaps = 8/116 (6%)
Query: 677 EDYCPNGLQVEGRSNINVIVTGVTASLDL----IKTAVDMNADAILVHHGYFWKGENSNI 732
E + GL + + +V VTGV +LD + A++ + I+ HH +KG S
Sbjct: 24 ESWDNVGLLIG---DEDVEVTGVLTALDCTLEVVNEAIEKGYNTIISHHPLIFKGVTSLK 80
Query: 733 VGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSKNNIGW 788
+ +LI + INL A H LD++P G N LAK++ + +
Sbjct: 81 ANGYGLIIRKLIQHDINLIAMHTNLDVNPY-GVNMMLAKVMGLKNISIINNQQDVY 135
>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 = 61.6 bits (149), Expect = 1e-09
Identities = 79/504 (15%), Positives = 146/504 (28%), Gaps = 190/504 (37%)
Query: 2 SLHKTFITISSITLFSRITGLFREILFARVFGASIYTDAFNI------AFRIPNLLRRLF 55
L++T+ + L E++ + ++T NI P+ +
Sbjct: 175 DLYQTYHVLVG-DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD--KDYL 231
Query: 56 AEGAFSQAFVPI-----LTEYKN--KRGNIATKKLIDHVATVLIWFMFFICVFGIIMAPI 108
S P+ L Y K +L ++ G++ A
Sbjct: 232 LSIPIS---CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATG------HSQGLVTAVA 282
Query: 109 IVYLVATG-----FIDNYKIFNITVSLTRIMFPYVGF---MAF--ITLASSIL--NIWSQ 156
I A F + ++F ++G A+ +L SIL ++ +
Sbjct: 283 I----AETDSWESFFVS------VRKAITVLF-FIGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 157 FKIPAFTPILL--NISCGALQIIIQIPSLIKIGMFPHIKLNPSHGFKNIAVRRILKKMGP 214
+P +P+L N++ +Q + K N SH +++
Sbjct: 332 EGVP--SPMLSISNLTQEQVQDYVN-------------KTN-SHLPAG---KQV------ 366
Query: 215 SVFSVFAAQISLMLNT----NIASQMREGSLSCLSYADRLMEFPTTLLGVTFNTILL--- 267
+ISL +N ++ G P +L G N L
Sbjct: 367 --------EISL-VNGAKNLVVS-----G-------------PPQSLYG--LNLTLRKAK 397
Query: 268 --PNLSKARIENNTEEYSAILDWIPIFA--HSGL---ALSIGLGACLHASFLYWYLRHKR 320
L ++RI + + ++P+ + HS L A + + + + K
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSF---NAKD 454
Query: 321 IYIPCAGWGVFFIRLVIALLLLVIVALWGNSYFNWLGMQAHP---IFRIVALLLILLFCG 377
I IP V+ F+ ++ RIV ++
Sbjct: 455 IQIP-----VYDT-------------------FDGSDLRVLSGSISERIVDCII------ 484
Query: 378 ITYFLALRIMGFLFLNEAINWLNIENERINGIYIDATFGQGGHSCKILERLG------KK 431
+ W + I +D FG GG S LG K
Sbjct: 485 ---------------RLPVKWETTTQFKATHI-LD--FGPGGAS-----GLGVLTHRNKD 521
Query: 432 G---RLI---AIDKDTESVSLGNK 449
G R+I +D + + G K
Sbjct: 522 GTGVRVIVAGTLDINPDD-DYGFK 544
Score = 57.8 bits (139), Expect = 2e-08
Identities = 74/505 (14%), Positives = 145/505 (28%), Gaps = 169/505 (33%)
Query: 140 FMAFITLASSILNIWSQFKIPAFTPILLNISCGALQIIIQ---IPSLIKIGMFPHIKLNP 196
F+ ++ +S + K+ F +L ++ I +L KL
Sbjct: 64 FLGYV--SSLV----EPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAA-------KLLQ 110
Query: 197 SHGFKNIAVRRILK--------------KMGPS------------VFSVFAAQISLMLNT 230
+ + + ++K K S + ++F Q
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ------- 163
Query: 231 NIASQMREGSLSCLSYADRLMEF---PTTLLGVTFNTI--LLPNLSKARIENNTEEYSAI 285
G+ Y + L + L+G L L + ++ + ++
Sbjct: 164 --------GNTD--DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAE-KVFTQG 212
Query: 286 LD---WI---------PIFAHSGLALS---IGLGACLHASFLYWYLRHKRIYIPCAGWGV 330
L+ W+ +S IG+ H Y + P G
Sbjct: 213 LNILEWLENPSNTPDKDYLLSI--PISCPLIGVIQLAH----YVVTAKLLGFTP----GE 262
Query: 331 FFIRL------VIALLLLVIVAL---WGNSYFN----------WLGMQAHPIFRIVALLL 371
L L+ V +A W S+F ++G++ + + +L
Sbjct: 263 LRSYLKGATGHSQGLVTAVAIAETDSW-ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPP 321
Query: 372 ILLF------CGI-TYFLALRIMGFLFLNEAINWLNI---ENERI-----NGIYIDATFG 416
+L G+ + L++ + + + +N N +++ NG
Sbjct: 322 SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNG---AKNLV 378
Query: 417 QGGHSCKILERLGKKGRLIAIDKDTESVSLGNKITDS-RFSIIHNCFTELDI-------I 468
G + L L R + ++I S R N F L + +
Sbjct: 379 VSGPP-QSLYGLNLTLRKAKAPSGLDQ----SRIPFSERKLKFSNRF--LPVASPFHSHL 431
Query: 469 LKKYNIKKIDGILFDLGISSNQINNE--------------LRGFSFLLDGPL-DMRMDIT 513
L + D I DL ++ N + LR S + + D I
Sbjct: 432 LVPAS----DLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDC---II 484
Query: 514 RGISASKWLANATEFNIKKVIQDYG 538
R KW T+F ++ D+G
Sbjct: 485 R--LPVKW-ETTTQFKATHIL-DFG 505
Score = 56.6 bits (136), Expect = 4e-08
Identities = 87/532 (16%), Positives = 161/532 (30%), Gaps = 208/532 (39%)
Query: 382 LALRIMGFL--------------FLNEAINWLNIENERINGIYIDATFGQGG--HS--CK 423
L + +G++ LN + + + +G H+ K
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLT------------EFENCYLEGNDIHALAAK 107
Query: 424 ILE----RLGKKGRLI------------AIDKDTESVSLGNKITDSRFSI---------I 458
+L+ L K LI DK + S +L + + +
Sbjct: 108 LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNS-ALFRAVGEGNAQLVAIFGGQGNT 166
Query: 459 HNCFTELDIILKKYNIKKIDGILFDLGISSNQINNELRGFSFLLDGPLDMRMDITRGISA 518
+ F EL + + Y+ ++ DL S + +EL + LD T+G++
Sbjct: 167 DDYFEELRDLYQTYH-----VLVGDLIKFSAETLSEL------IRTTLDAEKVFTQGLNI 215
Query: 519 SKWLANATE-------------FNIKKVIQDYGEERFAKKIAKEIVHYR------SITP- 558
+WL N + + VIQ + HY TP
Sbjct: 216 LEWLENPSNTPDKDYLLSIPISCPLIGVIQ--------------LAHYVVTAKLLGFTPG 261
Query: 559 ---------ITRTKQLV---------------EIILKSI--------RGNKRYKNPATR- 585
++ LV + K+I R + Y N +
Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPP 321
Query: 586 -----------------------TFQAIRIYI---NQEL---KNLSIALKIGFKKLNIKG 616
T + ++ Y+ N L K + I+L G K L + G
Sbjct: 322 SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG 381
Query: 617 RIVVISFHSLED--RIVKNFINFN-TKIPHIDRRLPIYN-YL--FEPKMKF----LARCK 666
S + L R K + ++IP +R+L N +L P F L
Sbjct: 382 P--PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP---FHSHLLVPAS 436
Query: 667 PKKKLNIKKYE-DYCPNGLQV------EGRSNINVIVTGVTASL-DLI-------KTAVD 711
++ K + +Q+ +G S++ V+ ++ + D I +T
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPVYDTFDG-SDLRVLSGSISERIVDCIIRLPVKWETTTQ 495
Query: 712 MNADAILVHHGYFWKGENSNIVGIKKKRLE----QLII------NKINLYAY 753
A IL F G S + + + + ++I+ N + Y +
Sbjct: 496 FKATHILD----FGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGF 543
Score = 53.1 bits (127), Expect = 4e-07
Identities = 56/354 (15%), Positives = 104/354 (29%), Gaps = 129/354 (36%)
Query: 185 KIGM-------FPHIK---------LNPSHGFKNIAVRRILKKMGPSVFSVFAAQISLML 228
+ GM + ++GF ++ I+ ++ F + +
Sbjct: 1628 EQGMGMDLYKTSKAAQDVWNRADNHFKDTYGF---SILDIVINNPVNLTIHFGGEKGKRI 1684
Query: 229 NTNIASQMREGSLSCLSYADRLME----------F--PTTLLGVTFNT---ILLPNLSKA 273
N ++ + E + +++ + F LL T T + L + KA
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTL--MEKA 1742
Query: 274 RIENNTEEYSAILDWIPIFA-HSGLALSIGLG---ACLHASFLYWYLRHKRIYIPCAGWG 329
E+ + ++ FA HS LG A L + A
Sbjct: 1743 AFEDLKSK--GLIPADATFAGHS-------LGEYAA-LAS---------------LAD-- 1775
Query: 330 VFF----IRLV----IALLLLVIVALWGNSYFNWLGMQAHPIFRIVALLLILLFCGITYF 381
V + +V + + + V G S + GM A R+ A +
Sbjct: 1776 VMSIESLVEVVFYRGMTMQVAVPRDELGRSNY---GMIAINPGRVAASFSQEALQYVVER 1832
Query: 382 LALRIMGFLFLNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDT 441
+ R + E +N N+EN+ Y+ A G L A+D
Sbjct: 1833 VGKRTGWLV---EIVN-YNVENQ----QYVAA------------------GDLRALDT-- 1864
Query: 442 ESVSLGNKITDSRFSIIHNCFTELDIILKKYNIKKIDGILFDLGISSNQINNEL 495
+ N +L ++KID I +S ++ L
Sbjct: 1865 ----VTN-------------------VLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 45.8 bits (108), Expect = 8e-05
Identities = 49/252 (19%), Positives = 87/252 (34%), Gaps = 84/252 (33%)
Query: 455 FSIIHNCFTELDIILKKYNIKKIDGILFDLGISSNQINNELRGFSF--LLDGPLDMR--- 509
FSI LDI++ N + I F G +I F ++DG L
Sbjct: 1659 FSI-------LDIVIN--NPVNLT-IHFG-GEKGKRIRENYSAMIFETIVDGKLKTEKIF 1707
Query: 510 MDITRGISASKW-----LANATEF--------------NIKK--VIQDY--------GE- 539
+I ++ + L +AT+F ++K +I GE
Sbjct: 1708 KEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEY 1767
Query: 540 -------ERFAKKIAKEIVHYRSITPITRTKQLVEIILKSIRGNKRYK----NP----AT 584
+ + + E+V YR +T + V + G Y NP A+
Sbjct: 1768 AALASLADVMSIESLVEVVFYRGMT----MQVAVP---RDELGRSNYGMIAINPGRVAAS 1820
Query: 585 RTFQAIRIYINQELKN----LSIALKIGFKKLNIKGRIVVIS--FHSLEDRIVKNFINFN 638
+ +A++ + + K + I N++ + V + +L+ V N +NF
Sbjct: 1821 FSQEALQYVVERVGKRTGWLVEIV------NYNVENQQYVAAGDLRALD--TVTNVLNFI 1872
Query: 639 TKIPHID-RRLP 649
K+ ID L
Sbjct: 1873 -KLQKIDIIELQ 1883
Score = 33.5 bits (76), Expect = 0.38
Identities = 40/194 (20%), Positives = 62/194 (31%), Gaps = 60/194 (30%)
Query: 3 LHKT-F----ITISSITLFSRI--TGLF-REILFARVFGASI--YT------DAFNIAFR 46
L T F +T+ F + GL + FA G S+ Y D +I
Sbjct: 1726 LSATQFTQPALTLMEKAAFEDLKSKGLIPADATFA---GHSLGEYAALASLADVMSIE-- 1780
Query: 47 IPNLLRRLFAEGAFSQAFVPILTEYKNKRGNIATKKLIDHVATVLIWFMFFICVFGIIMA 106
+L+ +F G Q VP + R N + + + F
Sbjct: 1781 --SLVEVVFYRGMTMQVAVP---RDELGRSNYG-------MIAINPGRV--AASFSQEAL 1826
Query: 107 PIIVYLVA--TGF---IDNYKIFNITVSLTRIMFP---YV--GFMAFITLASSILNIWSQ 156
+V V TG+ I NY N+ YV G + + +++LN
Sbjct: 1827 QYVVERVGKRTGWLVEIVNY---NV---------ENQQYVAAGDLRALDTVTNVLN---F 1871
Query: 157 FKIPAFTPILLNIS 170
K+ I L S
Sbjct: 1872 IKLQKIDIIELQKS 1885
Score = 30.4 bits (68), Expect = 3.6
Identities = 14/68 (20%), Positives = 23/68 (33%), Gaps = 11/68 (16%)
Query: 839 GAAQNLLTDAINEGVTAYISG-EI--------SESTVYISRESGV--AYFAAGHHATERY 887
G +L + E Y+ G +I E+ + + + Y A A +
Sbjct: 78 GQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPF 137
Query: 888 DKSPNREL 895
DK N L
Sbjct: 138 DKKSNSAL 145
>2gx8_A NIF3-related protein; structural genomics, unknown function,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: EPE; 2.20A {Bacillus
cereus} SCOP: c.135.1.1
Length = 397
Score = 60.1 bits (145), Expect = 1e-09
Identities = 29/165 (17%), Positives = 62/165 (37%), Gaps = 7/165 (4%)
Query: 724 FWKGENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSK 783
F E +N + +LE++ +I K A + + + +K
Sbjct: 204 FVPQEGTNPYIGETGQLERVEEVRIETIIPASLQRKVIKAMVTAHPYEEVAYDVYPLDNK 263
Query: 784 NNIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPI-VIGDLNKKIYEIGWCTGAAQ 842
+GKI L+ +T+ H+ + + K V+G L+ K+ ++ G
Sbjct: 264 GETLGLGKIGYLQEE-----MTLGQFAEHVKQSLDVKGARVVGKLDDKVRKVAVLGGDGN 318
Query: 843 NLLTDAINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERY 887
+ A +G Y++G++ + + G+ GH+ E+
Sbjct: 319 KYINQAKFKGADVYVTGDMYYHVAHDAMMLGLNIVDPGHN-VEKV 362
Score = 56.6 bits (136), Expect = 2e-08
Identities = 40/231 (17%), Positives = 71/231 (30%), Gaps = 33/231 (14%)
Query: 673 IKKYEDYCP---------NGLQVEGRSNINVIVTGVTASLDL----IKTAVDMNADAILV 719
I +E P GLQ+ + V +LD+ + A+ + A+ I+
Sbjct: 35 ISLFESMYPKHLAMEGDKIGLQIGALNKPV---RHVLIALDVTEEVVDEAIQLGANVIIA 91
Query: 720 HHGYFWKGENS-NIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCT 778
HH + + + K +E+ I N I +YA H +D+ G N LA+ L T
Sbjct: 92 HHPLIFNPLKAIHTDKAYGKIIEKCIKNDIAIYAAHTNVDVAKG-GVNDLLAEALGLQNT 150
Query: 779 RRFSKNNIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPIVIGDLNKKIYEIGWCT 838
+ + K++ + + I CT
Sbjct: 151 EVLAPTYAEEMKKVVVFVPVTHAEEVRKALGDAGAGH---------------IGNYSHCT 195
Query: 839 GAAQNLLTDAINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERYDK 889
+++ T EG YI V R + + +
Sbjct: 196 FSSEGTGTFVPQEGTNPYIGETGQLERVEEVRIETIIPASLQRKVIKAMVT 246
>3rxy_A NIF3 protein; structural genomics, PSI-biology, midwest center for
structu genomics, MCSG, NIF3 superfamily, unknown
function; 2.00A {Sphaerobacter thermophilus}
Length = 278
Score = 47.1 bits (111), Expect = 1e-05
Identities = 31/246 (12%), Positives = 65/246 (26%), Gaps = 52/246 (21%)
Query: 677 EDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWK---------- 726
+ + VE ++ ++ G+ + A + D ++ HH
Sbjct: 24 TLPADSAVYVEST-DLKRVMMGIDIGPAELLLARQLGCDGVIAHHPAGGSATLNFPEVLT 82
Query: 727 ---------GENSNIV-GIKKKRLEQLIIN----------------KINLYAYHLPLDMH 760
G + + L + ++ ++ HLPLD
Sbjct: 83 RHVELMVEHGVPATAARDAIQGLLTRSLLRAQSANHDHTPSVARLLEMPFLNIHLPLDEV 142
Query: 761 PKLGNNAQLAKILNFSCTRRFSKNNIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKK 820
+ + + + + I+ + I +G
Sbjct: 143 GRRIMVKTIQE-------AVEPLGDEARVQDAIDA----LMTLPEFAGAATRIMVPVGAV 191
Query: 821 PIVIGDLNKKIYEIGWCTGAAQNLLTDAINEGVTAYISGEIS-ESTVYISRESGVAYFAA 879
+G K G T + + GV + I+ E + RE G
Sbjct: 192 DQPLG---KIAVVHGAGTNGGYAVARAYFDHGVRTVLYIHIAPEEAERLRREGGGNLIVT 248
Query: 880 GHHATE 885
GH A++
Sbjct: 249 GHIASD 254
>3mti_A RRNA methylase; SAM-dependent, PSI, MCSG, structural genomics,
midwest cente structural genomics, protein structure
initiative; 1.95A {Streptococcus thermophilus} PDB:
3lby_A*
Length = 185
Score = 44.5 bits (105), Expect = 3e-05
Identities = 17/84 (20%), Positives = 34/84 (40%), Gaps = 11/84 (13%)
Query: 407 NGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGNK----ITDSRFSIIHNCF 462
I +DAT G G+ L G ++ A D +++ ++ + +I +
Sbjct: 23 ESIVVDATMG-NGNDTAFL--AGLSKKVYAFDVQEQALGKTSQRLSDLGIENTELILDGH 79
Query: 463 TELDIILKKYNIKKIDGILFDLGI 486
LD ++ + I +F+LG
Sbjct: 80 ENLDHYVR----EPIRAAIFNLGY 99
>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 = 43.4 bits (101), Expect = 6e-05
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 13/42 (30%)
Query: 728 ENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQL 769
E + K+L+ + LYA D P L A +
Sbjct: 18 EKQAL-----KKLQ----ASLKLYA---D-DSAPALAIKATM 46
Score = 29.9 bits (66), Expect = 2.1
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 6/28 (21%)
Query: 596 QELKNLSIALKIGFK-----KLNIKGRI 618
Q LK L +LK+ + L IK +
Sbjct: 20 QALKKLQASLKL-YADDSAPALAIKATM 46
>3eey_A Putative rRNA methylase; rRNA methylation, S-adenosyl-methionine,
structural genomics structure initiative, PSI; HET: SAM;
2.20A {Clostridium thermocellum atcc 27405}
Length = 197
Score = 41.4 bits (97), Expect = 4e-04
Identities = 17/85 (20%), Positives = 37/85 (43%), Gaps = 9/85 (10%)
Query: 405 RINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVS-----LGNKITDSRFSIIH 459
+ +DAT G G + + +G+ GR+ D ++++ L + R ++I
Sbjct: 21 KEGDTVVDATCGNGNDTAFLASLVGENGRVFGFDIQDKAIANTTKKLTDLNLIDRVTLIK 80
Query: 460 NCFTELDIILKKYNIKKIDGILFDL 484
+ +D KY + ++F+L
Sbjct: 81 DGHQNMD----KYIDCPVKAVMFNL 101
>4f0w_A Effector TSE1, putative uncharacterized protein; NLPC/P60 domain,
hydrolase; 1.24A {Pseudomonas aeruginosa} PDB: 4f0v_A
4f4m_A 4fge_A 4fgd_A 4fgi_A 4eob_A
Length = 188
Score = 35.6 bits (81), Expect = 0.041
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 2/41 (4%)
Query: 392 LNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKG 432
L++ I +N + Y+ T + S + + G
Sbjct: 38 LDQCI--VNACKNSWDKSYLAGTPNKDNASGFVQSVAAELG 76
>1i4w_A Mitochondrial replication protein MTF1; mitochondrial transcription
factor, transcription initiation; 2.60A {Saccharomyces
cerevisiae} SCOP: c.66.1.24
Length = 353
Score = 34.1 bits (78), Expect = 0.16
Identities = 10/76 (13%), Positives = 21/76 (27%), Gaps = 2/76 (2%)
Query: 416 GQGGHSCKILERLGKKGRLIAIDKDTESVS-LGNKITDSRFSIIHNCFTELDIILKKYNI 474
G G S + + + ++K + L K S I+ + +
Sbjct: 68 GVGIQSAIFYNKYCPR-QYSLLEKRSSLYKFLNAKFEGSPLQILKRDPYDWSTYSNLIDE 126
Query: 475 KKIDGILFDLGISSNQ 490
++I N
Sbjct: 127 ERIFVPEVQSSDHIND 142
>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT,
glutamate-GABA antiporter, transport protein; 3.10A
{Escherichia coli} PDB: 4dji_A
Length = 511
Score = 33.7 bits (77), Expect = 0.27
Identities = 28/208 (13%), Positives = 66/208 (31%), Gaps = 14/208 (6%)
Query: 34 ASIYTDAFNIAFRIPNLLRRLFAEGAFSQAFVPILTEYKNKRGNIATKKLIDHVATV-LI 92
A + + P L + + + L G T ++ ++
Sbjct: 107 LYFVLGALSYILKWPALNEDPITKTIAALIILWALA-LTQFGGTKYTARIAKVGFFAGIL 165
Query: 93 WFMFFICVFGIIM----APIIVYLVATGFIDNYKIFNITVSLTRIMFPYVGFMAFITLAS 148
F + I AP+ + + + F ++ V + Y+G A T +
Sbjct: 166 LPAFILIALAAIYLHSGAPVAIEMDSKTFFPDFSKVGTLVVFVAFILSYMGVEASATHVN 225
Query: 149 SILNIWSQFKIPAFTPILLNISCGALQIIIQIPSLIKIGMFPHIKLNPSHGFKNIAVRRI 208
+ N + P+ + + A + + L + P ++N S G +
Sbjct: 226 EMSNPGRDY------PLAMLLLMVAAICLSSVGGLSIAMVIPGNEINLSAGV-MQTFTVL 278
Query: 209 LKKMGPSVFSVFAAQISLMLNTNIASQM 236
+ + P + IS +L + +++
Sbjct: 279 MSHVAPEI-EWTVRVISALLLLGVLAEI 305
>1vl6_A Malate oxidoreductase; TM0542, NAD-dependent malic enzyme,
structural genomics, JCS protein structure initiative,
PSI; 2.61A {Thermotoga maritima} SCOP: c.2.1.7 c.58.1.3
PDB: 2hae_A*
Length = 388
Score = 33.6 bits (78), Expect = 0.28
Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 489 NQINNELRGFSFLLDGPLDMRMDITRG--ISASKWLANATEFNIKKVIQDYGEERFAKKI 546
NQ+NN L F ++ G ++ R IT+ +SA + +A + E +++I + + + +
Sbjct: 322 NQVNNLL-AFPGIMKGAVEKRSKITKNMLLSAVEAIARSCEPEPERIIPEAFDMKVHLNV 380
Query: 547 AK 548
Sbjct: 381 YT 382
>2wdq_D Succinate dehydrogenase hydrophobic membrane ANCH subunit;
succinate dehydrogenase activity, cell inner membrane,
trica acid cycle; HET: FAD HEM CBE; 2.40A {Escherichia
coli} PDB: 1nen_D* 2acz_D* 1nek_D* 2wdr_D* 2wdv_D*
2wp9_D* 2wu2_D* 2ws3_D* 2wu5_D*
Length = 115
Score = 29.0 bits (65), Expect = 2.3
Identities = 9/46 (19%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 335 LVIALLLLVIVALW----GNSYFNWLGMQAHPIFRIVALLLILLFC 376
+V+ L ++ +V + +Y W+G A ++ LL +
Sbjct: 24 IVLTLYIIYMVGFFATSGELTYEVWIGFFASAFTKVFTLLALFSIL 69
>1lnq_A MTHK channels, potassium channel related protein; rossman fold,
helix bundle, membrane protein; 3.30A
{Methanothermobacter thermautotrophicusorganism_taxid}
SCOP: c.2.1.9 d.286.1.1 f.14.1.1 PDB: 3rbz_A
Length = 336
Score = 30.5 bits (69), Expect = 2.7
Identities = 22/123 (17%), Positives = 47/123 (38%), Gaps = 11/123 (8%)
Query: 365 RIVALLLILLFCGITYFLAL--RIMGFLFLNEAINWLNIENERINGIYIDATFGQGGHSC 422
+ LI+L GI F R++ FL E + + + + + + + +
Sbjct: 73 MYFTVTLIVL--GIGTFAVAVERLLEFLINREQMKLMGLIDVAKSRHVVICGWSESTLE- 129
Query: 423 KILERLGKKGRLIAIDKDTESVSLGNKITDSRFSIIHNCFTELDIILKKYNIKKIDGILF 482
L L + + + +D K+ S + +H T + L+K N++ ++
Sbjct: 130 -CLREL-RGSEVFVLAEDENVR---KKVLRSGANFVHGDPTRVS-DLEKANVRGARAVIV 183
Query: 483 DLG 485
DL
Sbjct: 184 DLE 186
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 28.9 bits (64), Expect = 5.5
Identities = 5/19 (26%), Positives = 7/19 (36%), Gaps = 3/19 (15%)
Query: 31 VFGASIYTDAFNIAFRIPN 49
V + NIA +P
Sbjct: 165 VIAYEPFE---NIAIELPP 180
>2yxl_A PH0851 protein, 450AA long hypothetical FMU protein; FMU-homolog,
methyltransferase, structural genomics, NPPSFA; HET:
SFG; 2.55A {Pyrococcus horikoshii}
Length = 450
Score = 29.6 bits (67), Expect = 6.0
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 402 ENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKD 440
E + +D GG + + E + KG++ A D D
Sbjct: 259 PGETV----VDLAAAPGGKTTHLAELMKNKGKIYAFDVD 293
>2ww9_A SEC sixty-one protein homolog; ribonucleoprotein, transmembrane,
phospho signal sequence, membrane, ribosome, transport;
8.60A {Saccharomyces cerevisiae} PDB: 2wwa_A
Length = 490
Score = 29.3 bits (65), Expect = 7.0
Identities = 23/212 (10%), Positives = 63/212 (29%), Gaps = 7/212 (3%)
Query: 34 ASIYTDAFNIAFRIPNLLRRLFAEGAFSQAFVPILTEYKNKRGNIATKKLIDHVATVLIW 93
++ D F ++ + A+GA + +++K G I + D++ +
Sbjct: 191 TNLVADTFGVSQIKVGEDDQTEAQGALINLIQGLRSKHKTFIGGIISAFNRDYLPNLTTT 250
Query: 94 FMFFICVFGIIMA------PIIVYLVATGFIDNYKIFNITVSLTRIMFPYVGFMAFITLA 147
+ + I A G + Y I + ++F Y A
Sbjct: 251 IIVLAIAIIVCYLQSVRVELPIRSTRARGTNNVYPIKLLYTGCLSVLFSYTILFYIHIFA 310
Query: 148 SSILNIWSQFKIPAFTPILLNISCGALQIIIQIPSLIKIGMFPH-IKLNPSHGFKNIAVR 206
++ + ++ + ++ A ++ + + P +
Sbjct: 311 FVLIQLVAKNEPTHIICKIMGHYENANNLLAVPTFPLSLLAPPTSFFKGVTQQPLTFITY 370
Query: 207 RILKKMGPSVFSVFAAQISLMLNTNIASQMRE 238
+ F+ IS ++A + ++
Sbjct: 371 SAFILVTGIWFADKWQAISGSSARDVALEFKD 402
>3ayf_A Nitric oxide reductase; oxidoreductase; HET: HEM BOG EPE LOP; 2.50A
{Geobacillus stearothermophilus} PDB: 3ayg_A*
Length = 800
Score = 29.2 bits (65), Expect = 7.5
Identities = 15/102 (14%), Positives = 33/102 (32%), Gaps = 1/102 (0%)
Query: 299 LSIGLGACLHASFLYWYLRHKRIYIPCAGWGVFFIRLVIALLLLVIVALWGNSYFNWLGM 358
++ + + H Y + + AL ++ + L +Y + M
Sbjct: 540 RALYFQFTILLGSGVIGIGHHYYYNGSPEVWIALGAVFSALEVIPLTLLILEAYEQYKMM 599
Query: 359 QAHPI-FRIVALLLILLFCGITYFLALRIMGFLFLNEAINWL 399
+ F A L+ I + + GFL A+++
Sbjct: 600 RDGGANFPYKATFWFLISTAIWNLVGAGVFGFLINLPAVSYF 641
>2qyf_B MAD2L1-binding protein; MAD2 family, spindle assembly checkpoint,
cell cycle, cell division, mitosis, nucleus,
phosphorylation; 2.30A {Homo sapiens}
Length = 240
Score = 28.6 bits (63), Expect = 7.6
Identities = 15/89 (16%), Positives = 27/89 (30%), Gaps = 23/89 (25%)
Query: 2 SLHKTFITISSITLFSRITGLFREILFARV---FGASIYT--DAFNIAFR---------- 46
+ + S + S + F L RV G + + + + +
Sbjct: 89 KCQQALAELES--VLSHLEDFFARTLVPRVLILLGGNALSPKEFYELDLSLLAPYSVDQS 146
Query: 47 ------IPNLLRRLFAEGAFSQAFVPILT 69
+ L R +F AFS+ P L
Sbjct: 147 LSTAACLRRLFRAIFMADAFSELQAPPLM 175
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
0.327 0.142 0.426
Gapped
Lambda K H
0.267 0.0483 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 14,213,189
Number of extensions: 918402
Number of successful extensions: 2480
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2429
Number of HSP's successfully gapped: 68
Length of query: 896
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 794
Effective length of database: 3,853,851
Effective search space: 3059957694
Effective search space used: 3059957694
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 62 (28.3 bits)