RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2380
(733 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-128
Identities = 137/281 (48%), Positives = 190/281 (67%), Gaps = 6/281 (2%)
Query: 229 LNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGNKIT 288
L+EA+N LNI R +GIYID TFG+GGHS IL +LG++GRL+AID+D +++++ I
Sbjct: 46 LDEAVNGLNI---RPDGIYIDGTFGRGGHSRLILSQLGEEGRLLAIDRDPQAIAVAKTID 102
Query: 289 DSRFSIIHNCFTELDIILKKYN-IKKIDGILFDLGISSNQINNELRGFSFLLDGPLDMRM 347
D RFSIIH F+ L + + + I KIDGIL DLG+SS Q+++ RGFSF+ DGPLDMRM
Sbjct: 103 DPRFSIIHGPFSALGEYVAERDLIGKIDGILLDLGVSSPQLDDAERGFSFMRDGPLDMRM 162
Query: 348 DITRGISASKWLANATEFNIKKVIQDYGEERFAKKIAKEIVHYRSITPITRTKQLVEIIL 407
D TRG SA++WL A E +I V++ YGEERFAK+IA+ IV P+TRTK+L E++
Sbjct: 163 DPTRGQSAAEWLQTAEEADIAWVLKTYGEERFAKRIARAIVERNREQPMTRTKELAEVVA 222
Query: 408 KSIRGNKRYKNPATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFHSLEDRI 467
+ ++K+PATRTFQA+RI++N EL+ + ALK L GR+ +ISFHSLEDRI
Sbjct: 223 AATPVKDKFKHPATRTFQAVRIWVNSELEEIEQALKSSLNVLAPGGRLSIISFHSLEDRI 282
Query: 468 VKNFINFNTKIPHIDRRLPIYNYLFEPKMKFLARCKPKKKL 508
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-116
Identities = 95/244 (38%), Positives = 145/244 (59%), Gaps = 8/244 (3%)
Query: 229 LNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGNKIT 288
EA++ L + R G+Y+DAT G GH+ ILER GR+I +D+D E+V+ +
Sbjct: 11 YQEALDLLAV---RPGGVYVDATLGGAGHARGILER---GGRVIGLDQDPEAVARAKGLH 64
Query: 289 DSRFSIIHNCFTELDIILKKYNIKKIDGILFDLGISSNQINNELRGFSFLLDGPLDMRMD 348
+++ F L L ++++DGIL DLG+SS +++ RGFS+ +GPLDMRM
Sbjct: 65 LPGLTVVQGNFRHLKRHLAALGVERVDGILADLGVSSFHLDDPSRGFSYQKEGPLDMRMG 124
Query: 349 ITRGISASKWLANATEFNIKKVIQDYGEERFAKKIAKEIVHYRSITPITRTKQLVEIILK 408
G +A + + + +++++ GEE A +IA+ IV R PI T QL EI+ K
Sbjct: 125 -LEGPTAKEVVNRLPLEALARLLRELGEEPQAYRIARAIVAAREKAPIETTTQLAEIVRK 183
Query: 409 SIRGNKRYKNPATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFHSLEDRIV 468
++ + +PA +TFQA+RIY+N EL L L+ + L GR+VVI+FHSLEDR+V
Sbjct: 184 AVGFRRA-GHPARKTFQALRIYVNDELNALKEFLEQAAEVLAPGGRLVVIAFHSLEDRVV 242
Query: 469 KNFI 472
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 = 335 bits (863), Expect = e-110
Identities = 108/266 (40%), Positives = 156/266 (58%), Gaps = 15/266 (5%)
Query: 229 LNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGNKI- 287
+ E I +L I +D T G+GGHS ILE R+I ID D+E + + +
Sbjct: 15 VREVIEFLKP---EDEKIILDCTVGEGGHSRAILEHCPG-CRIIGIDVDSEVLRIAEEKL 70
Query: 288 --TDSRFSIIHNCFTELDIILKKYNIKKIDGILFDLGISSNQINNELRGFSFLLDGPLDM 345
R S+ + E D +LK I+K+DGIL DLG+S+ Q+ E RGF+F + PLDM
Sbjct: 71 KEFSDRVSLFKVSYREADFLLKTLGIEKVDGILMDLGVSTYQLKGENRGFTFEREEPLDM 130
Query: 346 RMDITRGISASKWLANATEFNIKKVIQDYGEE-RFAKKIAKEIVHYRSITPITRTKQLVE 404
RMD+ ++A K L E + ++I +YGEE RFA++IA++IV R P+ T LV+
Sbjct: 131 RMDLESEVTAQKVLNELPEEELARIIFEYGEEKRFARRIARKIVENR---PLNTTLDLVK 187
Query: 405 IILKSIRGNKRY---KNPATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFH 461
+ +++ + ++ AT+TFQAIRIY+N+EL+NL LK LN GRIVVISFH
Sbjct: 188 AVREALPSYEIRRRKRHFATKTFQAIRIYVNRELENLKEFLKKAEDLLNPGGRIVVISFH 247
Query: 462 SLEDRIVKNFINFNTKIPHIDRRLPI 487
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 = 244 bits (626), Expect = 3e-76
Identities = 97/220 (44%), Positives = 135/220 (61%), Gaps = 11/220 (5%)
Query: 506 KKLNIKKYEDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWKGE 565
+KLN DY PNGLQVEG+ + IVTGVTAS L+ AV + ADA++VHHGYFWKGE
Sbjct: 12 EKLNSAAISDYAPNGLQVEGKETVQKIVTGVTASQALLDEAVRLGADAVIVHHGYFWKGE 71
Query: 566 NSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSKNNIGW 625
+ I G+K+ RL+ L+ N INLY +HLPLD HP+LGNNAQLA +L + +
Sbjct: 72 SPVIRGMKRNRLKTLLANDINLYGWHLPLDAHPELGNNAQLAALLGITVMGEI--EPLVP 129
Query: 626 IGKIINLKRYNFKKIITIKDLFHHITRKIGKKPI-VIGDLNKKIYEIGWCTGAAQNLLTD 684
G+ + +L I ++G+KP+ + + + WCTG Q+ +
Sbjct: 130 WGE--------LTMPVPGLELASWIEARLGRKPLWCGDTGPEVVQRVAWCTGGGQSFIDS 181
Query: 685 AINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERY 724
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 = 232 bits (594), Expect = 1e-71
Identities = 64/220 (29%), Positives = 102/220 (46%), Gaps = 16/220 (7%)
Query: 506 KKLNIKKY-EDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWKG 564
L I+ + +D NGLQVEG+ + + V A + + A++ D ++VHHG FW
Sbjct: 12 AYLRIQDFPQDPSLNGLQVEGKRTVRKVGAAVDAGEAIFRKALEEEVDFLIVHHGLFWGK 71
Query: 565 ENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSKNNIG 624
IVG K+RLE L INLYA HLPLD H ++GNN LA+ L + +G
Sbjct: 72 PFP-IVGHHKRRLETLFQGGINLYAAHLPLDAHEEVGNNFVLARELGLVDLTPWD---VG 127
Query: 625 WIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPIVIGDLNKKIYEIGWCTGAAQNLLTD 684
G+ F + + + + + G +P+V + + +G+ LL
Sbjct: 128 VKGR--------FPQPTPLLQVADRLGQLTGMQPLVHQGGLDHVETVILVSGSGTGLLPK 179
Query: 685 AINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERY 724
+++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 (315), Expect = 3e-32
Identities = 49/228 (21%), Positives = 90/228 (39%), Gaps = 17/228 (7%)
Query: 510 IKKYEDYCPNGLQVEG----------RSNINVIVTGVTASLDLIKTAVDMNADAILVHHG 559
I+ YE +CP +EG I ++ + + + A++ D I+V H
Sbjct: 9 IQAYEAFCPQEFSMEGDSRGLQIGTLDKGIQRVMVALDIREETVAEAIEKGVDLIIVKHA 68
Query: 560 YFWKGENS-NIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRF 618
++ + + LI + I +Y H +D+ G N ++L T
Sbjct: 69 PIFRPIKDLLASRPQNQIYIDLIKHDIAVYVSHTNIDIVEN-GLNDWFCQMLGIEETTYL 127
Query: 619 SKNNIGW-IGKIINLKRYNFKKIIT-IKDLFHHITRKIGKKPIVIGDLNKKIYEIGWCTG 676
+ IG+I N++ F ++ +K +F + ++ DL K I + C G
Sbjct: 128 QETGPERGIGRIGNIQPQTFWELAQQVKQVFDLDSLRMVHY--QEDDLQKPISRVAICGG 185
Query: 677 AAQNLLTDAINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERY 724
+ 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 = 65.3 bits (158), Expect = 6e-11
Identities = 79/576 (13%), Positives = 173/576 (30%), Gaps = 193/576 (33%)
Query: 247 YIDATFGQGGHSCK-ILERLGKKGRLIAIDKDTESVSLGNKITDSRFSIIHNCFTELDII 305
++D G+ + K IL A + + + D SI+ E+D I
Sbjct: 6 HMDFETGEHQYQYKDILSVF-----EDAFVDNFDC----KDVQDMPKSILSK--EEIDHI 54
Query: 306 LKKYNIKKIDGILFDLGISSNQ------INNELR-GFSFLL------------------- 339
+ + LF +S + + LR + FL+
Sbjct: 55 IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE 114
Query: 340 -------DGPLDMRMDITR--------------------------GISASKWLANATEFN 366
D + + +++R G + W+A
Sbjct: 115 QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT-WVALD---- 169
Query: 367 IKKVIQDYG-EERFAKKIAKEIVHYRSITPITRTKQLVEIILK---SIRGN-----KRYK 417
V Y + + KI + ++ + ++E++ K I N
Sbjct: 170 ---VCLSYKVQCKMDFKI-----FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221
Query: 418 NPATRTFQAI----RIYINQELKNLSIAL------KIGFKKLNIKGRIVVISFHSLEDRI 467
N R R+ ++ +N + L K + N+ +I++ + +
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA-WNAFNLSCKILLTT----RFKQ 276
Query: 468 VKNFINFN--TKIPHIDRRLPIYNYLFEPK--MKFLARCKPKKKLNIKKYEDYCPNGLQV 523
V +F++ T I + P L + L+ + P L
Sbjct: 277 VTDFLSAATTTHISLDHHSMT-----LTPDEVKSLLLKY-----LDCR------PQDLPR 320
Query: 524 EGRSNINVIVTGVTASL---------------DLIKTAVDMNADAI--LVHHGYFWK--- 563
E + ++ + S+ D + T ++ + + + + F +
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
Query: 564 -GENSNI----VGI----KKKRLEQLIINKI----------NLYAYHLP---LDMHPKLG 601
+++I + + K +++NK+ +P L++ KL
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE 440
Query: 602 NNAQL-AKILN-FSCTRRFSKNNIGWIGKIINLKRYNFKKIITIKDLFHHI-----TRKI 654
N L I++ ++ + F +++ L +Y + I HH+ ++
Sbjct: 441 NEYALHRSIVDHYNIPKTFDSDDLI----PPYLDQYFYSHIG------HHLKNIEHPERM 490
Query: 655 GKKPIVIGDLN---KKIYEIG--W-CTGAAQNLLTD 684
+V D +KI W +G+ N L
Sbjct: 491 TLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQ 526
Score = 61.0 bits (147), Expect = 1e-09
Identities = 93/593 (15%), Positives = 173/593 (29%), Gaps = 160/593 (26%)
Query: 26 FPHIKLNPSHGFKNIAVRR---ILKKMGPSVFSVFAAQISLMLNTN-------IASQMRE 75
HI ++ R L + F ++ L N I ++ R+
Sbjct: 51 IDHIIMSKD---AVSGTLRLFWTLLSKQEEMVQKFVEEV---LRINYKFLMSPIKTEQRQ 104
Query: 76 GSLSCLSYA---DRLMEFPTTLLGVTFNTI-LLPNLSKARIENNTEEYSAILDWIP---I 128
S+ Y DRL +N + + +R++ + A+L+ P +
Sbjct: 105 PSMMTRMYIEQRDRL-----------YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153
Query: 129 FAHSGLALSIGLG-ACLHASFLYWYLRHKRIYIPCAGWGVFFIRL----VIALLLLVIVA 183
G+ G G + ++ + +F++ L +L ++
Sbjct: 154 LID-GVL---GSGKTWVALDVC----LSYKV-QCKMDFKIFWLNLKNCNSPETVLEMLQK 204
Query: 184 LWGNSYFNWLGMQAH---PIFRIVALLLIL--LFCGITYFLALRIMGFLFLNEAINWLNI 238
L NW H RI ++ L L Y L L L N+
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL-----LVLL------NV 253
Query: 239 ENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKD-TESVSLGNKITDSRFSIIHN 297
+N + +A F SCKIL L K T+ +S + S+ H+
Sbjct: 254 QNAKA----WNA-FN---LSCKIL--------LTTRFKQVTDFLSAATT---THISLDHH 294
Query: 298 C--FTE---LDIILKKYNIKKID-------GILFDLGI------------------SSNQ 327
T ++LK + + D L I + ++
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK 354
Query: 328 INNELRGFSFLLDGPLDMR------------MDITRGISASKWLANATEFNIKKVIQDYG 375
+ + +L+ P + R I + + W + + ++ V+
Sbjct: 355 LTTIIESSLNVLE-PAEYRKMFDRLSVFPPSAHIPTILLSLIW-FDVIKSDVMVVVNKLH 412
Query: 376 EERFAKKIAKEIVHY------RSITPITRTKQLVEIILKSIRGNKRYKN---PATRTFQA 426
+ +K KE + L I+ K + + Q
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472
Query: 427 IRIYINQELKNLSIALKIG-FKKLNIKGRIVVISFHSLEDRIVKNFINFNTKIP------ 479
+I LKN+ ++ F+ + + F LE +I + +N
Sbjct: 473 FYSHIGHHLKNIEHPERMTLFRMV-------FLDFRFLEQKIRHDSTAWNASGSILNTLQ 525
Query: 480 -------HIDRRLPIYNYLFEPKMKFLARCKPKKKLNIKKYEDYCPNGLQVEG 525
+I P Y L + FL + + L KY D L E
Sbjct: 526 QLKFYKPYICDNDPKYERLVNAILDFLPKIEE--NLICSKYTDLLRIALMAED 576
Score = 51.4 bits (122), Expect = 9e-07
Identities = 65/399 (16%), Positives = 128/399 (32%), Gaps = 137/399 (34%)
Query: 361 NATEFNIKKVIQDYGEERFAKKI-AKEIVHY-RSITPITRTKQLVEIILKSIRGNKRYKN 418
++ K ++ + E+ F K++ +SI +K+ ++ I+ S K+
Sbjct: 12 GEHQYQYKDILSVF-EDAFVDNFDCKDVQDMPKSIL----SKEEIDHIIMS-------KD 59
Query: 419 PATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFHSLEDRIVKNF------I 472
+ T R+ F L K +V F +E+ + N+ I
Sbjct: 60 AVSGTL---RL----------------FWTLLSKQEEMVQKF--VEEVLRINYKFLMSPI 98
Query: 473 NFNTKIP------HIDRRLPIYN--YLFEPKMKFLARCKPKKKLNIKKYEDYCPNGLQVE 524
+ P +I++R +YN +F K ++R +P KL L E
Sbjct: 99 KTEQRQPSMMTRMYIEQRDRLYNDNQVF-AKY-NVSRLQPYLKLR---------QALL-E 146
Query: 525 GRSNINVIVTGVTASLDLIKT--AVDMNADAILVHH---GYFWKGENSNIVGIKKKRLEQ 579
R NV++ GV S KT A+D+ + FW + +K +
Sbjct: 147 LRPAKNVLIDGVLGSG---KTWVALDVCLSYKVQCKMDFKIFW-------LNLKNCNSPE 196
Query: 580 LIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSKNNI-GWIGKIINLKRYNFK 638
++ + Y + + + + S + ++I + +++ K Y
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRS----------DHSSNIKLRIHSIQAELRRLLKSKPYE-- 244
Query: 639 KIITIKDLFHHITRKIGKKPIVIGDL-NKKIYE---IGWCTGAAQNLLTDAINEGVTAYI 694
L +V+ ++ N K + + C + LLT
Sbjct: 245 -----NCL------------LVLLNVQNAKAWNAFNLS-C----KILLT----------- 271
Query: 695 SGEISESTVYISRESGVAYFAAGHHATERYDKSPNRELT 733
+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 = 6e-11
Identities = 30/224 (13%), Positives = 63/224 (28%), Gaps = 11/224 (4%)
Query: 506 KKLNIKKYEDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWKGE 565
K + +K + + + F++ E
Sbjct: 118 KVMGLKNISIINNQ----QDVYYKVQTYIPKDNVGPFKDKLSENGLAQEGNYEYCFFESE 173
Query: 566 NSNIV----GIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSKN 621
+ I ++ +D + + QL K + T F
Sbjct: 174 GRGQFKPVGEANPTIGQIDKIEDVDEVKIEFMIDAY-QKSRAEQLIKQYHPYETPVFDFI 232
Query: 622 NIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPI-VIGDLNKKIYEIGWCTGAAQN 680
I +T++D I K+ + +G+ N+KI I G+
Sbjct: 233 EIKQTSLYGLGVMAEVDNQMTLEDFAADIKSKLNIPSVRFVGESNQKIKRIAIIGGSGIG 292
Query: 681 LLTDAINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERY 724
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: 514 EDYCPNGLQVEGRSNINVIVTGVTASLDL----IKTAVDMNADAILVHHGYFWKGENSNI 569
E + GL + + +V VTGV +LD + A++ + I+ HH +KG S
Sbjct: 24 ESWDNVGLLIG---DEDVEVTGVLTALDCTLEVVNEAIEKGYNTIISHHPLIFKGVTSLK 80
Query: 570 VGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSKNNIGW 625
+ +LI + INL A H LD++P G N LAK++ + +
Sbjct: 81 ANGYGLIIRKLIQHDINLIAMHTNLDVNPY-GVNMMLAKVMGLKNISIINNQQDVY 135
>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: 561 FWKGENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSK 620
F E +N + +LE++ +I K A + + + +K
Sbjct: 204 FVPQEGTNPYIGETGQLERVEEVRIETIIPASLQRKVIKAMVTAHPYEEVAYDVYPLDNK 263
Query: 621 NNIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPI-VIGDLNKKIYEIGWCTGAAQ 679
+GKI L+ +T+ H+ + + K V+G L+ K+ ++ G
Sbjct: 264 GETLGLGKIGYLQEE-----MTLGQFAEHVKQSLDVKGARVVGKLDDKVRKVAVLGGDGN 318
Query: 680 NLLTDAINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERY 724
+ A +G Y++G++ + + G+ GH+ E+
Sbjct: 319 KYINQAKFKGADVYVTGDMYYHVAHDAMMLGLNIVDPGHN-VEKV 362
Score = 56.3 bits (135), Expect = 2e-08
Identities = 40/231 (17%), Positives = 71/231 (30%), Gaps = 33/231 (14%)
Query: 510 IKKYEDYCP---------NGLQVEGRSNINVIVTGVTASLDL----IKTAVDMNADAILV 556
I +E P GLQ+ + V +LD+ + A+ + A+ I+
Sbjct: 35 ISLFESMYPKHLAMEGDKIGLQIGALNKPV---RHVLIALDVTEEVVDEAIQLGANVIIA 91
Query: 557 HHGYFWKGENS-NIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCT 615
HH + + + K +E+ I N I +YA H +D+ G N LA+ L T
Sbjct: 92 HHPLIFNPLKAIHTDKAYGKIIEKCIKNDIAIYAAHTNVDVAKG-GVNDLLAEALGLQNT 150
Query: 616 RRFSKNNIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPIVIGDLNKKIYEIGWCT 675
+ + K++ + + I CT
Sbjct: 151 EVLAPTYAEEMKKVVVFVPVTHAEEVRKALGDAGAGH---------------IGNYSHCT 195
Query: 676 GAAQNLLTDAINEGVTAYISGEISESTVYISRESGVAYFAAGHHATERYDK 726
+++ T EG YI V R + + +
Sbjct: 196 FSSEGTGTFVPQEGTNPYIGETGQLERVEEVRIETIIPASLQRKVIKAMVT 246
>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 = 57.0 bits (137), Expect = 2e-08
Identities = 87/532 (16%), Positives = 161/532 (30%), Gaps = 208/532 (39%)
Query: 219 LALRIMGFL--------------FLNEAINWLNIENERINGIYIDATFGQGG--HS--CK 260
L + +G++ LN + + + +G H+ K
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLT------------EFENCYLEGNDIHALAAK 107
Query: 261 ILE----RLGKKGRLI------------AIDKDTESVSLGNKITDSRFSI---------I 295
+L+ L K LI DK + S +L + + +
Sbjct: 108 LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNS-ALFRAVGEGNAQLVAIFGGQGNT 166
Query: 296 HNCFTELDIILKKYNIKKIDGILFDLGISSNQINNELRGFSFLLDGPLDMRMDITRGISA 355
+ F EL + + Y+ ++ DL S + +EL + LD T+G++
Sbjct: 167 DDYFEELRDLYQTYH-----VLVGDLIKFSAETLSEL------IRTTLDAEKVFTQGLNI 215
Query: 356 SKWLANATE-------------FNIKKVIQDYGEERFAKKIAKEIVHYR------SITP- 395
+WL N + + VIQ + HY TP
Sbjct: 216 LEWLENPSNTPDKDYLLSIPISCPLIGVIQ--------------LAHYVVTAKLLGFTPG 261
Query: 396 ---------ITRTKQLV---------------EIILKSI--------RGNKRYKNPATR- 422
++ LV + K+I R + Y N +
Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPP 321
Query: 423 -----------------------TFQAIRIYI---NQEL---KNLSIALKIGFKKLNIKG 453
T + ++ Y+ N L K + I+L G K L + G
Sbjct: 322 SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG 381
Query: 454 RIVVISFHSLED--RIVKNFINFN-TKIPHIDRRLPIYN-YL--FEPKMKF----LARCK 503
S + L R K + ++IP +R+L N +L P F L
Sbjct: 382 P--PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP---FHSHLLVPAS 436
Query: 504 PKKKLNIKKYE-DYCPNGLQV------EGRSNINVIVTGVTASL-DLI-------KTAVD 548
++ K + +Q+ +G S++ V+ ++ + D I +T
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPVYDTFDG-SDLRVLSGSISERIVDCIIRLPVKWETTTQ 495
Query: 549 MNADAILVHHGYFWKGENSNIVGIKKKRLE----QLII------NKINLYAY 590
A IL F G S + + + + ++I+ N + Y +
Sbjct: 496 FKATHILD----FGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGF 543
Score = 56.2 bits (135), Expect = 4e-08
Identities = 65/424 (15%), Positives = 125/424 (29%), Gaps = 137/424 (32%)
Query: 40 IAVRRILKKMGPS------------VFSVFAAQISLMLNTNIASQMREGSLSCLSYADRL 87
I +R K S + ++F Q G+ Y + L
Sbjct: 131 IMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ---------------GNTD--DYFEEL 173
Query: 88 MEF---PTTLLGVTFNTI--LLPNLSKARIENNTEEYSAILD---WI---------PIFA 130
+ L+G L L + ++ + ++ L+ W+
Sbjct: 174 RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAE-KVFTQGLNILEWLENPSNTPDKDYLL 232
Query: 131 HSGLALS---IGLGACLHASFLYWYLRHKRIYIPCAGWGVFFIRL------VIALLLLVI 181
+S IG+ H Y + P G L L+ V
Sbjct: 233 SI--PISCPLIGVIQLAH----YVVTAKLLGFTP----GELRSYLKGATGHSQGLVTAVA 282
Query: 182 VAL---WGNSYFN----------WLGMQAHPIFRIVALLLILLF------CGI-TYFLAL 221
+A W S+F ++G++ + + +L +L G+ + L++
Sbjct: 283 IAETDSW-ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI 341
Query: 222 RIMGFLFLNEAINWLNI---ENERI-----NGIYIDATFGQGGHSCKILERLGKKGRLIA 273
+ + + +N N +++ NG G + L L R
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNG---AKNLVVSGPP-QSLYGLNLTLRKAK 397
Query: 274 IDKDTESVSLGNKITDS-RFSIIHNCFTELDI-------ILKKYNIKKI------DGILF 319
+ ++I S R N F L + +L + I + + F
Sbjct: 398 APSGLDQ----SRIPFSERKLKFSNRF--LPVASPFHSHLLVPAS-DLINKDLVKNNVSF 450
Query: 320 ---DLGI----SSNQINNELRGFSFLLDGPL-DMRMDITRGISASKWLANATEFNIKKVI 371
D+ I + + + LR S + + D I R KW T+F ++
Sbjct: 451 NAKDIQIPVYDTFDGSD--LRVLSGSISERIVDC---IIR--LPVKW-ETTTQFKATHIL 502
Query: 372 QDYG 375
D+G
Sbjct: 503 -DFG 505
Score = 53.5 bits (128), Expect = 2e-07
Identities = 56/354 (15%), Positives = 104/354 (29%), Gaps = 129/354 (36%)
Query: 22 KIGM-------FPHIK---------LNPSHGFKNIAVRRILKKMGPSVFSVFAAQISLML 65
+ GM + ++GF ++ I+ ++ F + +
Sbjct: 1628 EQGMGMDLYKTSKAAQDVWNRADNHFKDTYGF---SILDIVINNPVNLTIHFGGEKGKRI 1684
Query: 66 NTNIASQMREGSLSCLSYADRLME----------F--PTTLLGVTFNT---ILLPNLSKA 110
N ++ + E + +++ + F LL T T + L + KA
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTL--MEKA 1742
Query: 111 RIENNTEEYSAILDWIPIFA-HSGLALSIGLG---ACLHASFLYWYLRHKRIYIPCAGWG 166
E+ + ++ FA HS LG A L + A
Sbjct: 1743 AFEDLKSK--GLIPADATFAGHS-------LGEYAA-LAS---------------LAD-- 1775
Query: 167 VFF----IRLV----IALLLLVIVALWGNSYFNWLGMQAHPIFRIVALLLILLFCGITYF 218
V + +V + + + V G S + GM A R+ A +
Sbjct: 1776 VMSIESLVEVVFYRGMTMQVAVPRDELGRSNY---GMIAINPGRVAASFSQEALQYVVER 1832
Query: 219 LALRIMGFLFLNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDT 278
+ R + E +N N+EN+ Y+ A G L A+D
Sbjct: 1833 VGKRTGWLV---EIVN-YNVENQ----QYVAA------------------GDLRALDT-- 1864
Query: 279 ESVSLGNKITDSRFSIIHNCFTELDIILKKYNIKKIDGILFDLGISSNQINNEL 332
+ N +L ++KID I +S ++ L
Sbjct: 1865 ----VTN-------------------VLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 46.2 bits (109), Expect = 5e-05
Identities = 49/252 (19%), Positives = 87/252 (34%), Gaps = 84/252 (33%)
Query: 292 FSIIHNCFTELDIILKKYNIKKIDGILFDLGISSNQINNELRGFSF--LLDGPLDMR--- 346
FSI LDI++ N + I F G +I F ++DG L
Sbjct: 1659 FSI-------LDIVIN--NPVNLT-IHFG-GEKGKRIRENYSAMIFETIVDGKLKTEKIF 1707
Query: 347 MDITRGISASKW-----LANATEF--------------NIKK--VIQDY--------GE- 376
+I ++ + L +AT+F ++K +I GE
Sbjct: 1708 KEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEY 1767
Query: 377 -------ERFAKKIAKEIVHYRSITPITRTKQLVEIILKSIRGNKRYK----NP----AT 421
+ + + E+V YR +T + V + G Y NP A+
Sbjct: 1768 AALASLADVMSIESLVEVVFYRGMT----MQVAVP---RDELGRSNYGMIAINPGRVAAS 1820
Query: 422 RTFQAIRIYINQELKN----LSIALKIGFKKLNIKGRIVVIS--FHSLEDRIVKNFINFN 475
+ +A++ + + K + I N++ + V + +L+ V N +NF
Sbjct: 1821 FSQEALQYVVERVGKRTGWLVEIV------NYNVENQQYVAAGDLRALD--TVTNVLNFI 1872
Query: 476 TKIPHID-RRLP 486
K+ ID L
Sbjct: 1873 -KLQKIDIIELQ 1883
Score = 41.6 bits (97), Expect = 0.001
Identities = 55/338 (16%), Positives = 99/338 (29%), Gaps = 137/338 (40%)
Query: 2 AFAVVLGGALQIIIQIPSLIKIGM-----FPHIKLNPS-------HGFKN----IAVR-- 43
+F V + A+ + L IG+ +P+ L PS + +++
Sbjct: 291 SFFVSVRKAITV------LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNL 344
Query: 44 ------RILKKMGPSVFSVFAAQISLMLNT----NIASQMREGSLSCLSYADRLMEFPTT 93
+ K + + +ISL +N ++ G P +
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISL-VNGAKNLVVS-----G-------------PPQS 385
Query: 94 LLGVTFNTILL-----PNLSKARIENNTEEYSAILDWIPIFA--HSGL---ALSIGLGAC 143
L G N L L ++RI + + ++P+ + HS L A +
Sbjct: 386 LYG--LNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDL 443
Query: 144 LHASFLYWYLRHKRIYIPCAGWGVFFIRLVIALLLLVIVALWGNSYFNWLGMQAHP---I 200
+ + + K I IP V+ F+ ++
Sbjct: 444 VKNNVSF---NAKDIQIP-----VYDT-------------------FDGSDLRVLSGSIS 476
Query: 201 FRIVALLLILLFCGITYFLALRIMGFLFLNEAINWLNIENERINGIYIDATFGQGGHSCK 260
RIV ++ + W + I +D FG GG S
Sbjct: 477 ERIVDCII---------------------RLPVKWETTTQFKATHI-LD--FGPGGAS-- 510
Query: 261 ILERLG------KKG---RLI---AIDKDTESVSLGNK 286
LG K G R+I +D + + G K
Sbjct: 511 ---GLGVLTHRNKDGTGVRVIVAGTLDINPDD-DYGFK 544
Score = 30.4 bits (68), Expect = 2.7
Identities = 14/68 (20%), Positives = 23/68 (33%), Gaps = 11/68 (16%)
Query: 676 GAAQNLLTDAINEGVTAYISG-EI--------SESTVYISRESGV--AYFAAGHHATERY 724
G +L + E Y+ G +I E+ + + + Y A A +
Sbjct: 78 GQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPF 137
Query: 725 DKSPNREL 732
DK N L
Sbjct: 138 DKKSNSAL 145
Score = 29.6 bits (66), Expect = 5.1
Identities = 9/33 (27%), Positives = 14/33 (42%), Gaps = 3/33 (9%)
Query: 5 VVLGG---ALQIIIQIPSLIKIGMFPHIKLNPS 34
V G AL + + + IK+ I+L S
Sbjct: 1853 YVAAGDLRALDTVTNVLNFIKLQKIDIIELQKS 1885
>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 = 46.3 bits (109), Expect = 2e-05
Identities = 31/246 (12%), Positives = 65/246 (26%), Gaps = 52/246 (21%)
Query: 514 EDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWK---------- 563
+ + VE ++ ++ G+ + A + D ++ HH
Sbjct: 24 TLPADSAVYVEST-DLKRVMMGIDIGPAELLLARQLGCDGVIAHHPAGGSATLNFPEVLT 82
Query: 564 ---------GENSNIV-GIKKKRLEQLIIN----------------KINLYAYHLPLDMH 597
G + + L + ++ ++ HLPLD
Sbjct: 83 RHVELMVEHGVPATAARDAIQGLLTRSLLRAQSANHDHTPSVARLLEMPFLNIHLPLDEV 142
Query: 598 PKLGNNAQLAKILNFSCTRRFSKNNIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKK 657
+ + + + + I+ + I +G
Sbjct: 143 GRRIMVKTIQE-------AVEPLGDEARVQDAIDA----LMTLPEFAGAATRIMVPVGAV 191
Query: 658 PIVIGDLNKKIYEIGWCTGAAQNLLTDAINEGVTAYISGEIS-ESTVYISRESGVAYFAA 716
+G K G T + + GV + I+ E + RE G
Sbjct: 192 DQPLG---KIAVVHGAGTNGGYAVARAYFDHGVRTVLYIHIAPEEAERLRREGGGNLIVT 248
Query: 717 GHHATE 722
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: 244 NGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGNK----ITDSRFSIIHNCF 299
I +DAT G G+ L G ++ A D +++ ++ + +I +
Sbjct: 23 ESIVVDATMG-NGNDTAFL--AGLSKKVYAFDVQEQALGKTSQRLSDLGIENTELILDGH 79
Query: 300 TELDIILKKYNIKKIDGILFDLGI 323
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 = 43.0 bits (100), Expect = 6e-05
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 13/42 (30%)
Query: 565 ENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQL 606
E + K+L+ + LYA D P L A +
Sbjct: 18 EKQAL-----KKLQ----ASLKLYA---D-DSAPALAIKATM 46
Score = 29.5 bits (65), Expect = 1.9
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 6/28 (21%)
Query: 433 QELKNLSIALKIGFK-----KLNIKGRI 455
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 = 41.1 bits (96), Expect = 4e-04
Identities = 17/85 (20%), Positives = 37/85 (43%), Gaps = 9/85 (10%)
Query: 242 RINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVS-----LGNKITDSRFSIIH 296
+ +DAT G G + + +G+ GR+ D ++++ L + R ++I
Sbjct: 21 KEGDTVVDATCGNGNDTAFLASLVGENGRVFGFDIQDKAIANTTKKLTDLNLIDRVTLIK 80
Query: 297 NCFTELDIILKKYNIKKIDGILFDL 321
+ +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 = 34.8 bits (79), Expect = 0.047
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 2/41 (4%)
Query: 229 LNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKG 269
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 = 34.5 bits (79), Expect = 0.12
Identities = 10/76 (13%), Positives = 21/76 (27%), Gaps = 2/76 (2%)
Query: 253 GQGGHSCKILERLGKKGRLIAIDKDTESVS-LGNKITDSRFSIIHNCFTELDIILKKYNI 311
G G S + + + ++K + L K S I+ + +
Sbjct: 68 GVGIQSAIFYNKYCPR-QYSLLEKRSSLYKFLNAKFEGSPLQILKRDPYDWSTYSNLIDE 126
Query: 312 KKIDGILFDLGISSNQ 327
++I N
Sbjct: 127 ERIFVPEVQSSDHIND 142
>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 = 0.21
Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 326 NQINNELRGFSFLLDGPLDMRMDITRG--ISASKWLANATEFNIKKVIQDYGEERFAKKI 383
NQ+NN L F ++ G ++ R IT+ +SA + +A + E +++I + + + +
Sbjct: 322 NQVNNLL-AFPGIMKGAVEKRSKITKNMLLSAVEAIARSCEPEPERIIPEAFDMKVHLNV 380
Query: 384 AK 385
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 = 30.2 bits (68), Expect = 0.76
Identities = 9/46 (19%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 172 LVIALLLLVIVALW----GNSYFNWLGMQAHPIFRIVALLLILLFC 213
+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 = 31.3 bits (71), Expect = 1.2
Identities = 22/123 (17%), Positives = 47/123 (38%), Gaps = 11/123 (8%)
Query: 202 RIVALLLILLFCGITYFLAL--RIMGFLFLNEAINWLNIENERINGIYIDATFGQGGHSC 259
+ LI+L GI F R++ FL E + + + + + + + +
Sbjct: 73 MYFTVTLIVL--GIGTFAVAVERLLEFLINREQMKLMGLIDVAKSRHVVICGWSESTLE- 129
Query: 260 KILERLGKKGRLIAIDKDTESVSLGNKITDSRFSIIHNCFTELDIILKKYNIKKIDGILF 319
L L + + + +D K+ S + +H T + L+K N++ ++
Sbjct: 130 -CLREL-RGSEVFVLAEDENVR---KKVLRSGANFVHGDPTRVS-DLEKANVRGARAVIV 183
Query: 320 DLG 322
DL
Sbjct: 184 DLE 186
>3ayf_A Nitric oxide reductase; oxidoreductase; HET: HEM BOG EPE LOP; 2.50A
{Geobacillus stearothermophilus} PDB: 3ayg_A*
Length = 800
Score = 30.0 bits (67), Expect = 3.4
Identities = 15/112 (13%), Positives = 35/112 (31%), Gaps = 4/112 (3%)
Query: 126 IPIFAHSGLALSIGLGACLHASFLYWYLRHKRIYIPCAGWGVFFIRLVIALLLLVIVALW 185
+ + ++ + + H Y + + AL ++ + L
Sbjct: 533 VTKKSTV---RALYFQFTILLGSGVIGIGHHYYYNGSPEVWIALGAVFSALEVIPLTLLI 589
Query: 186 GNSYFNWLGMQAHPI-FRIVALLLILLFCGITYFLALRIMGFLFLNEAINWL 236
+Y + M+ F A L+ I + + GFL A+++
Sbjct: 590 LEAYEQYKMMRDGGANFPYKATFWFLISTAIWNLVGAGVFGFLINLPAVSYF 641
>2yxl_A PH0851 protein, 450AA long hypothetical FMU protein; FMU-homolog,
methyltransferase, structural genomics, NPPSFA; HET:
SFG; 2.55A {Pyrococcus horikoshii}
Length = 450
Score = 29.2 bits (66), Expect = 5.4
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 239 ENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKD 277
E + +D GG + + E + KG++ A D D
Sbjct: 259 PGETV----VDLAAAPGGKTTHLAELMKNKGKIYAFDVD 293
>3rfu_A Copper efflux ATPase; alpha helical, CPC, CXXC, ATP-binding,
hydrolase, ION transp magnesium, Cu+, membrane,
metal-binding; 3.20A {Legionella pneumophila subsp}
Length = 736
Score = 28.7 bits (65), Expect = 8.0
Identities = 11/51 (21%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 171 RLVIALLL---LVIVALWGNSYFNWLGMQAHPIFRIVALLLILLFCGITYF 218
R IAL+L +VI+ + G+ +++ +++ ++L+ G +F
Sbjct: 84 RFWIALMLTIPVVILEMGGHGLKHFISGNGSSWIQLLLATPVVLWGGWPFF 134
>3gbc_A Pyrazinamidase/nicotinamidas PNCA; nicotinamidase - pyrazinamidase,
resistance to pyrazinamide, hydrolase; 2.20A
{Mycobacterium tuberculosis} PDB: 3pl1_A
Length = 186
Score = 28.0 bits (63), Expect = 8.4
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 289 DSRFSIIHNCFTELDIILKKYNIKKID--GILFD 320
S F + T L L++ + ++D GI D
Sbjct: 103 YSGFEGVDENGTPLLNWLRQRGVDEVDVVGIATD 136
>2a65_A Leutaa, Na(+):neurotransmitter symporter (SNF family); membrane
protein, transport protein; HET: BOG; 1.65A {Aquifex
aeolicus} SCOP: f.54.1.1 PDB: 2q6h_A* 2q72_A* 2qb4_A*
2qei_A* 3f3a_A* 3f3c_A* 3f3d_A* 3f3e_A* 3f48_A* 3f4i_A*
3f4j_A* 3usg_A* 3usi_A 3usj_A 3usk_A 3usl_A* 3usm_A*
3uso_A 3usp_A* 3qs5_A* ...
Length = 519
Score = 28.5 bits (64), Expect = 9.4
Identities = 18/111 (16%), Positives = 35/111 (31%), Gaps = 13/111 (11%)
Query: 122 ILDWIPIFAHSGLALSIGLGACLHASFLYWYLRHKRIY--------IPCAGWGVFFIRLV 173
LD + +A + + GL + +W + + I + +R +
Sbjct: 399 SLDEMDFWAGTIGVVFFGLTELI---IFFWIFGADKAWEEINRGGIIKVPRIYYYVMRYI 455
Query: 174 IALLLLVIVALWGNSYF--NWLGMQAHPIFRIVALLLILLFCGITYFLALR 222
L V++ +W Y ++ + LF FLA R
Sbjct: 456 TPAFLAVLLVVWAREYIPKIMEETHWTVWITRFYIIGLFLFLTFLVFLAER 506
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
0.325 0.141 0.422
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: 11,672,651
Number of extensions: 753152
Number of successful extensions: 2139
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2092
Number of HSP's successfully gapped: 60
Length of query: 733
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 632
Effective length of database: 3,881,772
Effective search space: 2453279904
Effective search space used: 2453279904
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 61 (27.9 bits)