RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4735
(1232 letters)
>1g55_A DNA cytosine methyltransferase DNMT2; human DNA methyltransferase
homologue; HET: DNA SAH; 1.80A {Homo sapiens} SCOP:
c.66.1.26
Length = 343
Score = 83.3 bits (206), Expect = 4e-17
Identities = 56/171 (32%), Positives = 82/171 (47%), Gaps = 11/171 (6%)
Query: 297 SMLTRAGFRFQEFLLSPTQFGVPNSRTRYYLIAKRSPAAHSSEASFCFETSSELMTELPK 356
+ GF++QEFLLSPT G+PNSR RY+LIAK F+ +++ E PK
Sbjct: 134 QTIENCGFQYQEFLLSPTSLGIPNSRLRYFLIAKL------QSEPLPFQAPGQVLMEFPK 187
Query: 357 LKSKTCNPLLSRMTLHSILDSTDPSDDLYRRYLVSDKDLLRRFHVFDIVNGKASSTNCFT 416
++ N S +++ + D + D+ +YL+ K LLR + DIV + CFT
Sbjct: 188 IEIHRKNQQDSDLSVKMLKDFLEDDTDVN-QYLLPPKSLLRYALLLDIVQPTCRRSVCFT 246
Query: 417 KAYTHYAEGTGSVLSNLGDMTHIEDIIEKCKHLKQQTDISSTHETKAKKMR 467
K Y Y EGTGSVL D+ + K L + + K+R
Sbjct: 247 KGYGSYIEGTGSVLQTAEDV----QVENIYKSLTNLSQEEQITKLLILKLR 293
Score = 72.9 bits (179), Expect = 1e-13
Identities = 37/94 (39%), Positives = 50/94 (53%), Gaps = 1/94 (1%)
Query: 793 GTNENAGNSVTTTRTNQNEENGVNTLLANQNEATLLQELKRLNLRYFSPDEIRKLMCFPD 852
G+ SV T + EN +L E + +L L LRYF+P EI L+ FP
Sbjct: 250 GSYIEGTGSVLQTAEDVQVENIYKSLTNLSQE-EQITKLLILKLRYFTPKEIANLLGFPP 308
Query: 853 DCRFPPDCSDKSRYKLLGNSINVHVVAYCICLML 886
+ FP + K RY+LLGNS+NVHVVA I ++
Sbjct: 309 EFGFPEKITVKQRYRLLGNSLNVHVVAKLIKILY 342
Score = 72.5 bits (178), Expect = 2e-13
Identities = 45/169 (26%), Positives = 73/169 (43%), Gaps = 6/169 (3%)
Query: 482 KKTHDEMVKDAQNRADLEKKILD-ERVKDAQNRVDLEKNPEETVNDASNSNVITTNITEI 540
+ E K +R + + L + +KD LE + + +++ +
Sbjct: 179 GQVLMEFPKIEIHRKNQQDSDLSVKMLKDF-----LEDDTDVNQYLLPPKSLLRYALLLD 233
Query: 541 NQNETKSKHIARTNESEAKREEIAPNATGAYQNQENSVNTLLANQNEATLLQELKRLNLR 600
T + + T + E A Q ++ L N ++ + +L L LR
Sbjct: 234 IVQPTCRRSVCFTKGYGSYIEGTGSVLQTAEDVQVENIYKSLTNLSQEEQITKLLILKLR 293
Query: 601 YFSPDEIRKLMCFPDECQFPPDCSDKARYKLLGNSINVHVVAYCICLML 649
YF+P EI L+ FP E FP + K RY+LLGNS+NVHVVA I ++
Sbjct: 294 YFTPKEIANLLGFPPEFGFPEKITVKQRYRLLGNSLNVHVVAKLIKILY 342
Score = 72.5 bits (178), Expect = 2e-13
Identities = 38/94 (40%), Positives = 53/94 (56%), Gaps = 1/94 (1%)
Query: 1132 GTNENAGNSVTTTRTNQNEESSVNTLETNQNEATLLQELKRLNLRYFSPDEIRKLMCFPD 1191
G+ SV T + E+ +L TN ++ + +L L LRYF+P EI L+ FP
Sbjct: 250 GSYIEGTGSVLQTAEDVQVENIYKSL-TNLSQEEQITKLLILKLRYFTPKEIANLLGFPP 308
Query: 1192 ECRFPPDCSDKSRYKLLGNSINVHVVAYCICLML 1225
E FP + K RY+LLGNS+NVHVVA I ++
Sbjct: 309 EFGFPEKITVKQRYRLLGNSLNVHVVAKLIKILY 342
>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 = 84.5 bits (208), Expect = 2e-16
Identities = 116/749 (15%), Positives = 209/749 (27%), Gaps = 253/749 (33%)
Query: 448 HLKQQTDISSTHETKAKKMRLNEEAQTQLSGEGEKKTHDEMVKDAQN--RADLEKKILDE 505
H + + + E+A D KD Q+ ++ L K+ +D
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFEDAF--------VDNFD--CKDVQDMPKSILSKEEIDH 53
Query: 506 --RVKDAQNRVD-----LEKNPEETVN------DASNSNVITTNI-TEINQ--------N 543
KDA + L EE V N + + I TE Q
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113
Query: 544 ETKSKHIARTNESEAK----REEIAPNATGAYQNQENSVN-----------TLLANQNEA 588
E + + + N+ AK R + A + N T +A
Sbjct: 114 EQRDR-LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD--- 169
Query: 589 TLLQELKR----------LNL-RYFSPDEIRKLM---CFPDECQFPPDCSDKARYKLLGN 634
+ K LNL SP+ + +++ + + + + KL +
Sbjct: 170 -VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228
Query: 635 SINVHVV------AYCICLMLCEPAPMIDNSSTDETKAKKIKLDVEDTETQFGDEGEREI 688
SI + Y CL+ +
Sbjct: 229 SIQAELRRLLKSKPYENCLL---------------------------------------V 249
Query: 689 LDEMVKDAQ--NRVDLEKKTL----DEKVNDTLNQDDLVEKELLNGKVNDTLNKANSKDI 742
L V++A+ N +L K L ++V D L+ + + TL K +
Sbjct: 250 LLN-VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA--TTTHISLDHHSMTLTPDEVKSL 306
Query: 743 TTDVTGTNQNEAKSKQVTDIARTNESEAKREDISP---NVMGAYQKDGSVTALGTNENAG 799
D+ R E +P +++ +DG L T +N
Sbjct: 307 LLKYLDCR--------PQDLPR----EVL--TTNPRRLSIIAESIRDG----LATWDN-- 346
Query: 800 NSVTTTRTNQNEENGVNTLLANQNEATLLQELKRLNLRYFSPDEIRK----LMCFPDDCR 855
+ ++ L + +L P E RK L FP
Sbjct: 347 -----WKHVNCDK---------------LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH 386
Query: 856 FPPDCSDKSRYKLL----GNSINVHVVAYCICLMLCEPAPMMTELPKLKANTCNPLLSRM 911
P LL + I + ++ +L K P S +
Sbjct: 387 IPT--------ILLSLIWFDVIKS------------DVMVVVNKLHKYSLVEKQPKESTI 426
Query: 912 TLHGI-LDSTHPSGDLYR--RYLVSDKDLLRRFHVFDIVNRKASSTNCFTKAYTHYAEGT 968
++ I L+ + Y R +V ++ + F D++ F Y+H
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI--PPYLDQYF---YSH----- 476
Query: 969 GSVLSNLGDMTQIEEIIEKCKHLKQQIDNSSTDETKAKKIKLDVEDTETQFGDEGEREIL 1028
+G HLK I++ + + LD F
Sbjct: 477 ------IGH------------HLK-NIEHPERMTL-FRMVFLDFR-----F--------- 502
Query: 1029 DEMVKDAQNRVNLEKKTLDEK--VNDTLNQDDLVEKELLNEKVNDTLNKANSKDITTNVT 1086
+ ++ + + + +TL Q + + + ND + I +
Sbjct: 503 ------LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD---NDPKYERLVNAILDFLP 553
Query: 1087 GTNQNEAKSKH--VTEIARTNEREAKRED 1113
+N SK+ + IA E EA E+
Sbjct: 554 KIEENLICSKYTDLLRIALMAEDEAIFEE 582
Score = 78.0 bits (191), Expect = 2e-14
Identities = 82/483 (16%), Positives = 153/483 (31%), Gaps = 152/483 (31%)
Query: 765 TNESEAKREDISPNVMGAYQKDGSVTALGTNENAGNSVTTTR------TNQNEENGV--- 815
T E + + +DI A+ + + ++ S+ + +++ +G
Sbjct: 11 TGEHQYQYKDILSVFEDAFVDNFDCKDV---QDMPKSILSKEEIDHIIMSKDAVSGTLRL 67
Query: 816 -NTLLANQNEAT--LLQELKRLNLRY-FSPDEIRKLMCFPDDCRFPPDCSDKSRYKL--L 869
TLL+ Q E ++E+ R+N Y F I+ + R P + + L
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRIN--YKFLMSPIKT------EQRQPSMMTRMYIEQRDRL 119
Query: 870 GNSINV----HVVAYCICLMLCEPAPMM---TELPKLKANTCNPLLSRMTLHGILDSTHP 922
N V +V P + L +L+ + + G+L S
Sbjct: 120 YNDNQVFAKYNV---------SRLQPYLKLRQALLELRPA------KNVLIDGVLGS--- 161
Query: 923 SGDLYRRYLV----SDKDLLRR--FHVFDIVNRKASSTNCFTKAYTHYAEGTGSVLSNLG 976
G + ++ + + F +F + NL
Sbjct: 162 -G---KTWVALDVCLSYKVQCKMDFKIFWL---------------------------NLK 190
Query: 977 DMTQIEEIIEKCKHLKQQIDNSSTDETK-AKKIKLDVEDTETQ----FGDEGERE---IL 1028
+ E ++E + L QID + T + + IKL + + + + +L
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250
Query: 1029 DEMVKDAQ--NRVNLEKKTL----DEKVNDTLNQDDLVEKELLNEKVNDTLNKANSKDIT 1082
V++A+ N NL K L ++V D L+ + + + TL K +
Sbjct: 251 LN-VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA--TTTHISLDHHSMTLTPDEVKSLL 307
Query: 1083 TNVTGTNQNEAKSKHVTEIARTNEREAKREDISP---NVTGANQRDGSVNALGTNEN--- 1136
+ RE +P ++ + RDG L T +N
Sbjct: 308 LKYLDCRPQDLP------------REVL--TTNPRRLSIIAESIRDG----LATWDNWKH 349
Query: 1137 -AGNSVTTTRTNQNEESSVNTLETNQNEATLLQELKRLNLRYFSPDEIRKLMCFPDECRF 1195
+ +TT ESS+N LE E + + F +L FP
Sbjct: 350 VNCDKLTTII-----ESSLNVLEPA--------EYR----KMF-----DRLSVFPPSAHI 387
Query: 1196 PPD 1198
P
Sbjct: 388 PTI 390
Score = 57.6 bits (138), Expect = 2e-08
Identities = 73/557 (13%), Positives = 156/557 (28%), Gaps = 162/557 (29%)
Query: 41 HEYAHYHLDLTATAEKFRLSGLPYTWL---TESPEMPH-PDWLKLFLNKDQSLQEMYKLN 96
H + H+H+D +++ + + ++ + D K L+K++ + +
Sbjct: 1 HHH-HHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEE-IDHIIMSK 58
Query: 97 DDS-----LLPFLCQVGISQLSSLDLTESPEMPHPDWLKLFL---NKDQSLQ-EMYKLNG 147
D L L + E + +L + + S+ MY
Sbjct: 59 DAVSGTLRLFWTLLSKQEEMVQ--KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR 116
Query: 148 DSLLPFLCQSGQNLHHHFRVPGKKTF--------NLIPGLDKSFYGSIRFGQVLLWGQTD 199
D L Q + V + + L P + G + G+ +
Sbjct: 117 DRL----YNDNQVFAKYN-VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC 171
Query: 200 RPTDRRHRSDYNSPSLIPFFITIFLSRASQSE-----WNLLCERLSTSECLVVVNA--VR 252
+ + D+ I F++ L + E L ++ + ++ ++
Sbjct: 172 LSYKVQCKMDFK----I-FWLN--LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 253 VLIQLVESRTHAPCTVEPYVNCLHQTMICFINVLKN-QLPYV-------CTTSMLTRAGF 304
+ I +++ +PY NCL + VL N Q C + TR
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCL-------L-VLLNVQNAKAWNAFNLSCKILLTTRF-- 274
Query: 305 RFQEFLLSPTQFGVPNSRTRYYLIAKRSPAAHS-SEASF--CFETSSELMTELPKLKSKT 361
T F + T L ++ + + +LP+ + T
Sbjct: 275 ------KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ---DLPR-EVLT 324
Query: 362 CNPLLSRM---------------------TLHSILDST----DPSDDLYRRYLVSDKDLL 396
NP + L +I++S+ +P + + +
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP-AEYRKMF-------- 375
Query: 397 RRFHVF----DIVNGKASSTNCFTKAYTHYAEGTGSVLSNL-GDMTH--IEDIIEKCKHL 449
R VF I +LS + D+ + ++ K
Sbjct: 376 DRLSVFPPSAHI---------------------PTILLSLIWFDVIKSDVMVVVNKL--- 411
Query: 450 KQQTDISSTHETKAKKMRLNEEAQTQLSGEGEKKTHD---EMVKDAQNRADLEKKILDE- 505
K + ++ + E E+ +N L + I+D
Sbjct: 412 -------------HKYSLVEKQPK-----ESTISIPSIYLELKVKLENEYALHRSIVDHY 453
Query: 506 RVKDAQNRVDLEKNPEE 522
+ + DL +
Sbjct: 454 NIPKTFDSDDLIPPYLD 470
Score = 56.0 bits (134), Expect = 7e-08
Identities = 85/575 (14%), Positives = 169/575 (29%), Gaps = 178/575 (30%)
Query: 209 DYNSPSLIPFFITIFLSRASQSEWNLLCER--------LSTSEC--LV----VVNAVRVL 254
Y ++ F F+ N C+ LS E ++ V+ L
Sbjct: 15 QYQYKDILSVFEDAFVD-------NFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL 67
Query: 255 IQLVESRTHAPCTVEPYVNCLHQTMICFINVLKNQLPYVCTTSMLTRAGFRFQEFLLSP- 313
+ S+ V+ +V + + N Y +FL+SP
Sbjct: 68 FWTLLSKQEE--MVQKFVEEVLR---------IN---Y---------------KFLMSPI 98
Query: 314 -TQFGVPNSRTRYYLIAKRSPAAHSSEASFC------FETSSELMTELPKLKSKTCNPLL 366
T+ P+ TR Y I +R ++ F + +L L +L+
Sbjct: 99 KTEQRQPSMMTRMY-IEQRDRL-YNDNQVFAKYNVSRLQPYLKLRQALLELRPA------ 150
Query: 367 SRMTLH-------SILDSTDPSDDLYRRYLVSDKDLLRR--FHVFDIVNGKASSTNCFTK 417
+ + + + + + + F +F + + NC +
Sbjct: 151 KNVLIDGVLGSGKTWVALD----------VCLSYKVQCKMDFKIFWL-----NLKNCNS- 194
Query: 418 AYTHYAEGTGSVLSNLGDMTHIEDIIEKCKHLKQQTDISS-----THETKAKKMRLNEEA 472
+VL L + + D + ++D SS H +A+ RL +
Sbjct: 195 --------PETVLEMLQKLLYQID-----PNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 473 QTQ-----LSGEGEKKTHDEMVKDAQN-RA-DLEKKIL----DERVKDAQNRVDLEKNPE 521
+ L V++A+ A +L KIL ++V D +
Sbjct: 242 PYENCLLVL---------LN-VQNAKAWNAFNLSCKILLTTRFKQVTDF---LSAATTTH 288
Query: 522 ETVNDASNSNVITTNITEINQNETK---SKHIARTNESEAKRE--EIAPNAT---GA-YQ 572
+++ S + +T +E K K + RE P +
Sbjct: 289 ISLDHHSMT------LTP---DEVKSLLLK-YLDCRPQDLPREVLTTNPRRLSIIAESIR 338
Query: 573 NQENSVNTLLANQNEATLLQELKRLNLRYFSPDEIRKLMCFPDECQFPPDCSDKARYKLL 632
+ + + + L + +L P E RK F FPP
Sbjct: 339 DGLATWDNWKHVNCDK--LTTIIESSLNVLEPAEYRK--MFDRLSVFPPS---------- 384
Query: 633 GNSINVHVVAYCICLMLCEPAPMIDNSSTDETKAKK-IKLDVEDTETQFGDEGEREILDE 691
H+ + L+ + ++ ++ +++ I E
Sbjct: 385 -----AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS-----IYLE 434
Query: 692 MVKDAQNRVDLEKKTLDE-KVNDTLNQDDLVEKEL 725
+ +N L + +D + T + DDL+ L
Sbjct: 435 LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL 469
Score = 42.9 bits (100), Expect = 7e-04
Identities = 68/482 (14%), Positives = 132/482 (27%), Gaps = 163/482 (33%)
Query: 9 KTCPKLTVLF---IELRHSLG---LDMRRKDKPVYLI-PHEYAHYHLDLTATAEKFRLSG 61
KT L V ++ + L+++ + P ++ + Y +D T+ S
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222
Query: 62 LPYTWLTESPEMPHPDWLKLFLNKDQSLQEMYKLNDDSLL------------PFL--CQV 107
+ S + L+ L + Y+ + LL F C++
Sbjct: 223 IKLR--IHSIQ----AELRRLL-----KSKPYE---NCLLVLLNVQNAKAWNAFNLSCKI 268
Query: 108 -------GISQLSSLDLTESPEMPHPDW-------LKLFLN----KDQSL-QEMYKLNGD 148
++ S T + H L L + Q L +E+ N
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN-- 326
Query: 149 SLLPFLCQS-GQNLHHH------FRVPGKKTFNLIPGLDKSFYGSIRFGQVLLWGQTDRP 201
P +++ ++ I ++ S VL P
Sbjct: 327 ---PRRLSIIAESIRDGLATWDNWKHVNCDKLTTI--IESSL-------NVL------EP 368
Query: 202 TDRRHRSDYNS----P--SLIPFFITIFLSRASQSEWNLL---CERLSTSEC----LVVV 248
+ R ++ P + IP TI LS W + + ++ LV
Sbjct: 369 AEYRKM--FDRLSVFPPSAHIP---TILLSLI----WFDVIKSDVMVVVNKLHKYSLVEK 419
Query: 249 NAVRVLIQL--VESRTHAPCTVEPYVNCLHQTMICFINVLKNQLPYVCTTSMLTRAGFRF 306
I + + E LH++++ N+ K
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYA---LHRSIVDHYNIPKT----------------FD 460
Query: 307 QEFLLSPTQFGVPNSRTRY---YLIAKRSPAAHSSEASFCFETSSELMTELPK------- 356
+ L+ P Y ++ H E MT
Sbjct: 461 SDDLIPPYLDQ-------YFYSHI------GHHLKNIE-----HPERMTLFRMVFLDFRF 502
Query: 357 LKSKTCNPLLSRMTLHSILDS-TD---------PSDDLYRRYLVSDKDLLRRFHVFDIVN 406
L+ K + + SIL++ +D Y R + + D L + +++
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPK-IEENLIC 561
Query: 407 GK 408
K
Sbjct: 562 SK 563
Score = 41.0 bits (95), Expect = 0.003
Identities = 36/187 (19%), Positives = 67/187 (35%), Gaps = 62/187 (33%)
Query: 3 LINRVDKTCPKLTVLFIELRHSLGLDMRRK---------------------DKPVYLIPH 41
L+ + PK + + I S+ L+++ K D + P+
Sbjct: 416 LVEK-Q---PKESTISI---PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468
Query: 42 E----YAH--YHLDLTATAEK---FRLSGLPYTWLTESPEMPHPDWLKL--FLNKDQSLQ 90
Y+H +HL E+ FR+ L + +L + W LN Q L
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL- 527
Query: 91 EMYK----LND-------DSLLPFLCQVGISQLSSLDLTESPEMPHPDWLKLFLNKDQS- 138
+ YK ND +++L FL ++ + + S + D L++ L +
Sbjct: 528 KFYKPYICDNDPKYERLVNAILDFLPKIEENLICS---------KYTDLLRIALMAEDEA 578
Query: 139 -LQEMYK 144
+E +K
Sbjct: 579 IFEEAHK 585
>3qv2_A 5-cytosine DNA methyltransferase; DNMT2, ehmeth; HET: SAH; 2.15A
{Entamoeba histolytica}
Length = 327
Score = 68.3 bits (167), Expect = 3e-12
Identities = 35/152 (23%), Positives = 60/152 (39%), Gaps = 28/152 (18%)
Query: 297 SMLTRAGFRFQEFLLSPTQFGVPNSRTRYYLIAKRSPAAHSSEASFCFETSSELMTELPK 356
++L + + ++ + SP G+PNSRTRYY++A+ +P + E +
Sbjct: 145 NILIKNQYYIKDIICSPIDIGIPNSRTRYYVMARLTP------FKNEIQLHQEKES---- 194
Query: 357 LKSKTCNPLLSRMTLHSILDSTDPSDDLYRRYLVSDKDLLRRFHVFDIVNGKASSTNCFT 416
+ + LD+ +L++ +FDIV T CFT
Sbjct: 195 -------------MISNYLDNNVNESYSI-----PSDLILKKGMLFDIVGKDDKRTCCFT 236
Query: 417 KAYTHYAEGTGSVLSNLGDMTHIEDIIEKCKH 448
K+YT EGTGS+ + E +
Sbjct: 237 KSYTKIVEGTGSIYCPIEPHFIPVKKAEDLLN 268
Score = 65.6 bits (160), Expect = 2e-11
Identities = 30/164 (18%), Positives = 63/164 (38%), Gaps = 16/164 (9%)
Query: 493 QNRADLEKKILDERV------KDAQNRVDLEKNPEETVNDASNSNVITTNITEINQNETK 546
+R R +N + L + E +++ ++NV + + K
Sbjct: 168 NSR---------TRYYVMARLTPFKNEIQLHQEKESMISNYLDNNVNESYSIPSDLILKK 218
Query: 547 SKHIARTNESEAKREEIAPNATGAYQNQENSVNTLLANQNEATLLQELKRLNLRYFSPDE 606
+ + + + T + + + + ++L NLRYF+P+E
Sbjct: 219 GMLFDIVGKDDKRTCCFTKSYTKIVEGTGSIYCPIEPHFIPVKKAEDLLNKNLRYFTPNE 278
Query: 607 IRKLMCFPDECQFPPDC-SDKARYKLLGNSINVHVVAYCICLML 649
I+K+ F D +DK +Y+ LGNS++ V+A + +
Sbjct: 279 IKKIHGFSSNFTTQIDGLTDKQQYQCLGNSVSCFVIAQLMEYLF 322
Score = 60.6 bits (147), Expect = 1e-09
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 1/83 (1%)
Query: 1144 TRTNQNEESSVNTLETNQNEATLLQELKRLNLRYFSPDEIRKLMCFPDECRFPPDC-SDK 1202
T+ + S +E + ++L NLRYF+P+EI+K+ F D +DK
Sbjct: 240 TKIVEGTGSIYCPIEPHFIPVKKAEDLLNKNLRYFTPNEIKKIHGFSSNFTTQIDGLTDK 299
Query: 1203 SRYKLLGNSINVHVVAYCICLML 1225
+Y+ LGNS++ V+A + +
Sbjct: 300 QQYQCLGNSVSCFVIAQLMEYLF 322
Score = 59.4 bits (144), Expect = 2e-09
Identities = 20/53 (37%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 835 NLRYFSPDEIRKLMCFPDDCRFPPDC-SDKSRYKLLGNSINVHVVAYCICLML 886
NLRYF+P+EI+K+ F + D +DK +Y+ LGNS++ V+A + +
Sbjct: 270 NLRYFTPNEIKKIHGFSSNFTTQIDGLTDKQQYQCLGNSVSCFVIAQLMEYLF 322
Score = 33.2 bits (76), Expect = 0.43
Identities = 21/85 (24%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 906 PLLSRMTLHGILDSTHPSGDLYRRYLVSDKDLLRRFHVFDIVNRKASSTNCFTKAYTHYA 965
+ LD+ ++ Y + +L++ +FDIV + T CFTK+YT
Sbjct: 189 HQEKESMISNYLDN-----NVNESYSIPSDLILKKGMLFDIVGKDDKRTCCFTKSYTKIV 243
Query: 966 EGTGSVLSNLGDMTQIEEIIEKCKH 990
EGTGS+ + + E +
Sbjct: 244 EGTGSIYCPIEPHFIPVKKAEDLLN 268
>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 = 67.0 bits (163), Expect = 4e-11
Identities = 64/389 (16%), Positives = 113/389 (29%), Gaps = 129/389 (33%)
Query: 139 LQEMYKLNGDSLLPFLCQSGQNLHHHFRVPGKKTFNLIPGLDKSFYGSIRFGQVLLWGQT 198
L+++Y+ + + S + L R GL+ +L W +
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN-----------ILEWLEN 221
Query: 199 DRPTDRRHRSDY--NSP-SLIPFFITIFLSRASQSEWNLLCERL------------STSE 243
DY + P S P I + + + + + + L +
Sbjct: 222 ---PSNTPDKDYLLSIPISC-PL---IGVIQLAH--YVVTAKLLGFTPGELRSYLKGATG 272
Query: 244 C---LVV-----------------VNAVRVLIQL-VESRTHAP-CTVEPYVNCLHQT--- 278
LV A+ VL + V P ++ P + L +
Sbjct: 273 HSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSI--LEDSLEN 330
Query: 279 -------MICFINVLKNQL-PYVCTTSMLTRAGFRFQEFLL-SPTQF---GVPNSRTRYY 326
M+ N+ + Q+ YV T+ AG + + L+ G P S
Sbjct: 331 NEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS----- 385
Query: 327 LIA--------KRSPAAHSSEASFCFETSSELMTELPKLKSK----TCNPLLSRMTLHSI 374
L K S F SE K ++ P HS
Sbjct: 386 LYGLNLTLRKAKAPSGLDQSRIPF-----SE---RKLKFSNRFLPVAS-PF------HSH 430
Query: 375 L--DSTDP-SDDLYRRYLVSD-KDLLRRFHVFDIVNGKASSTNCFTKAYTHYAEGTGSVL 430
L ++D + DL + + + KD+ + V+D +G +GS+
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDI--QIPVYDTFDGS------------DLRVLSGSIS 476
Query: 431 SNLGDMTHIEDIIEKCKHLKQQTDISSTH 459
+ D II + T +TH
Sbjct: 477 ERIVDC-----IIRLPVKWETTTQFKATH 500
Score = 59.7 bits (144), Expect = 6e-09
Identities = 95/633 (15%), Positives = 180/633 (28%), Gaps = 210/633 (33%)
Query: 145 LNGDSLLPFLCQSGQNLHHHFRVPGKKTFNLIPG--LDKSFYGSIRFGQVLLWGQTDRPT 202
++ S P G +L H VP T + L + F + PT
Sbjct: 1 MDAYSTRPLTLSHG-SLEHVLLVP---TASFFIASQLQEQFNKIL-----------PEPT 45
Query: 203 DRRHRSDYNS--PSLIPFFITIFLSRASQSEWNLLCERLSTSECLVVVNAVRVLIQLVES 260
+ D + L+ F+ ++ +S E + + + L + + E+
Sbjct: 46 EGFAADDEPTTPAELVGKFLG-YV--SSLVEPS---KVGQFDQVL------NLCLTEFEN 93
Query: 261 R------THAPCTVEPYVNCLHQTMICFINVLKNQLPYVCTTSMLTRAGFRFQEFLLSP- 313
HA + T++ ++KN Y+ M R + L
Sbjct: 94 CYLEGNDIHA--LAAKLLQENDTTLVKTKELIKN---YITARIMAKRPFDKKSNSALFRA 148
Query: 314 ---------TQF---GVPNS-----RTRY--YLIAKRSPAAHSSEASFCFETSSELMTEL 354
F G + R Y Y + S+E ++EL
Sbjct: 149 VGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY----------HVLVGDLIKFSAETLSEL 198
Query: 355 PKLKSKTCNPLLSR-MTLHSILDSTD--PSDDLYRRYL----VSDKDL-------LRRFH 400
+ + ++ + + L++ P D YL +S L +
Sbjct: 199 IRTTLD-AEKVFTQGLNILEWLENPSNTPDKD----YLLSIPIS---CPLIGVIQLAHYV 250
Query: 401 VFDIVNGKASSTNCFTKAYTHYAEGTGSVLSNL-GDMTHIEDI-----IEKCKHLKQQTD 454
V +T G + S L G H + + I +
Sbjct: 251 VT-----------AKLLGFTP-----GELRSYLKGATGHSQGLVTAVAIAETD------S 288
Query: 455 ISSTHETKAKKMRLNEEAQTQLSGEGEKKTHDEMVKDAQNRADLEKKILDERVKDAQNRV 514
S + K + + L G + ++ A L IL++ +++
Sbjct: 289 WESFFVSVRKAITV-------LFFIG-VRCYE-----AYPNTSLPPSILEDSLENN---- 331
Query: 515 DLEKNPEET----VNDASNSNVITTNITEINQNETKSKHIARTNES--EAKREEIAPNAT 568
E P + +++ + V ++ +TN K+ EI+
Sbjct: 332 --EGVP--SPMLSISNLTQEQVQ--------------DYVNKTNSHLPAGKQVEIS---- 369
Query: 569 GAYQNQENSVNTLLANQNEATLL----QELKRLNLRYFSPDEIRKLMCFPDECQF-PPDC 623
L N + ++ Q L LNL +RK Q P
Sbjct: 370 -------------LVNGAKNLVVSGPPQSLYGLNLT------LRKAKAPSGLDQSRIPFS 410
Query: 624 SDKARYKLLGNSINV--HVVAYCICLMLCEPAPMI--DNSSTDET-KAKKIKLDVEDTET 678
K ++ + H +L + +I D + + AK I++ V DT
Sbjct: 411 ERKLKFSNRFLPVASPFH------SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD 464
Query: 679 -----QFGDEGEREILDEMVKDAQNRVDLEKKT 706
I+D +++ V E T
Sbjct: 465 GSDLRVLSGSISERIVDCIIRL---PVKWETTT 494
Score = 52.7 bits (126), Expect = 8e-07
Identities = 90/590 (15%), Positives = 165/590 (27%), Gaps = 233/590 (39%)
Query: 560 REE---IAPNATG--AYQNQENSVNTLLA----------NQNEATLLQELKRLNLRYFSP 604
+E+ I P T A ++ + L+ ++ ++ L L F
Sbjct: 34 QEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF-- 91
Query: 605 DEIRKLMCFPDECQFPPDCSDKARYKLLGNSINVHVVA---------------------Y 643
E + L GN ++H +A
Sbjct: 92 -----------ENCY-----------LEGN--DIHALAAKLLQENDTTLVKTKELIKNYI 127
Query: 644 CICLMLCEPAPMIDNSS-TDETKAKKIKLDVEDTETQFGDEGEREI-LDEM--------- 692
+M P NS+ +L FG +G + +E+
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVGEGNAQL-----VAIFGGQGNTDDYFEELRDLYQTYHV 182
Query: 693 -VKDAQNRVDLEKKTLDEKVNDTLNQDDLVEKELLNGKVNDTLNKANSK-D--------- 741
V D + +TL E + TL+ + + + L + + L ++ D
Sbjct: 183 LVGDL---IKFSAETLSELIRTTLDAEKVFTQGL---NILEWLENPSNTPDKDYLLSIPI 236
Query: 742 ----ITTDVTGTNQNEAKSKQVTDIARTNESEAKREDISPNVMGAYQK------DGSVTA 791
I V Q+ T AK +P + +Y K G VTA
Sbjct: 237 SCPLIG--VI----------QLAHYVVT----AKLLGFTPGELRSYLKGATGHSQGLVTA 280
Query: 792 LGTNENAGNSVTTTRTNQN-EENGVNTLLANQNEATLLQELKRLNLRYFSPDEI--RKLM 848
+ ++ T + ++ + + T+L F I R
Sbjct: 281 V--------AIAETDSWESFFVSVRKAI-------TVL----------FF---IGVRCYE 312
Query: 849 CFPDDCRFPPDCSDKSRYKLLGNSINVHVVAYCICLMLCEPAPM-------MTELPKL-- 899
+P+ PP + S L N+ V P+PM ++
Sbjct: 313 AYPN-TSLPPSILEDS----LENNEGV-------------PSPMLSISNLTQEQVQDYVN 354
Query: 900 KANTCNPLLSRMTL-------HGILDSTHPSGDLYRRYLVSDKDLLRRFHVFDIVN---- 948
K N+ P ++ + + ++ S P LY L LR+ ++
Sbjct: 355 KTNSHLPAGKQVEISLVNGAKNLVV-SGPPQ-SLYG--LNL---TLRKAKAPSGLDQSRI 407
Query: 949 ----RKASSTNCF---TKAY-THYAEGTGSVLSNLGDMTQIEEIIEKCKHLKQQIDNSST 1000
RK +N F + +H ++ D+ +
Sbjct: 408 PFSERKLKFSNRFLPVASPFHSHLLVPASDLI--NKDLVKNNVSF--------------- 450
Query: 1001 DETKAKKIKLDVEDTET-----QFGDEGEREILDEMVKDAQNRVNLEKKT 1045
AK I++ V DT I+D +++ V E T
Sbjct: 451 ---NAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL---PVKWETTT 494
Score = 37.7 bits (87), Expect = 0.029
Identities = 48/325 (14%), Positives = 89/325 (27%), Gaps = 125/325 (38%)
Query: 925 DLYRRYLVSDKDLLRR----------FHVFDIVNRKASSTNCFTKAYTHYAEGTGS--VL 972
DLY+ + +D+ R F + DIV N T + G +
Sbjct: 1634 DLYKTSKAA-QDVWNRADNHFKDTYGFSILDIVI-----NN--PVNLTIHFGGEKGKRIR 1685
Query: 973 SNLGDMTQIEEIIEKCKHLKQQIDNSSTDETKAKKIKLDVEDTETQFGDEGEREILD--- 1029
N M + + K +KI ++ + T + E+ +L
Sbjct: 1686 ENYSAMI---------------FETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQ 1730
Query: 1030 ---------EMVKDAQNRVNLEKKTLD------------E-----------KVNDTLNQD 1057
E A L+ K L E + +
Sbjct: 1731 FTQPALTLMEK---AAFED-LKSKGLIPADATFAGHSLGEYAALASLADVMSIESLV--- 1783
Query: 1058 DLVEK--ELLNEKV-NDTLNKANSKDITTNVTGTNQNEAKSKHVTEIARTNEREAKREDI 1114
++V + V D L ++N I N +A + +EA +
Sbjct: 1784 EVVFYRGMTMQVAVPRDELGRSNYGMIAIN-------------PGRVAASFSQEALQY-- 1828
Query: 1115 SPNVTGANQRDGSV--NALGTNENAGNSVTTTRTNQ----NEESSVNTLETNQNEATLLQ 1168
V +R G + N N N Q + +++T+ +L
Sbjct: 1829 --VVERVGKRTGWLVEIV---NYNVENQ-------QYVAAGDLRALDTV------TNVLN 1870
Query: 1169 ELKRLNLRY------FSPDEIRKLM 1187
+K + S +E+ +
Sbjct: 1871 FIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 34.3 bits (78), Expect = 0.35
Identities = 37/208 (17%), Positives = 64/208 (30%), Gaps = 67/208 (32%)
Query: 299 LTRAGFRFQEFLLSPTQFGVP----NSRTRYYLIAKR----SPAA---HS--------SE 339
T FR ++ LLS TQF P + + + + + A HS S
Sbjct: 1714 STSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASL 1773
Query: 340 A-SFCFETSSEL--------MTELPKLKSKT-------CNPLLSRMTLHSILDSTDPSDD 383
A E+ E+ +P+ + NP R+ + S +
Sbjct: 1774 ADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINP--GRV---AASFSQEALQY 1828
Query: 384 LYRRYLVSDKDLLRRFHVFDIVNGKASSTNCFTKAYTHYAEGTGSVLSNLGDMTHIEDII 443
+ R L+ +IVN N E V + GD+ ++ +
Sbjct: 1829 VVERVGKRTGWLV------EIVN-----YNV---------ENQQYVAA--GDLRALDTVT 1866
Query: 444 EKCKHLK-QQTDIS----STHETKAKKM 466
+K Q+ DI S + +
Sbjct: 1867 NVLNFIKLQKIDIIELQKSLSLEEVEGH 1894
>2qrv_A DNA (cytosine-5)-methyltransferase 3A; DNA methyltransferase 3A
(DNMT3A) and ITS regulatory factor; HET: DNA SAH; 2.89A
{Homo sapiens}
Length = 295
Score = 48.8 bits (116), Expect = 5e-06
Identities = 11/46 (23%), Positives = 20/46 (43%)
Query: 835 NLRYFSPDEIRKLMCFPDDCRFPPDCSDKSRYKLLGNSINVHVVAY 880
E+ ++ FP + S +R +LLG S +V V+ +
Sbjct: 238 KEDILWCTEMERVFGFPVHYTDVSNMSRLARQRLLGRSWSVPVIRH 283
Score = 48.0 bits (114), Expect = 8e-06
Identities = 12/46 (26%), Positives = 20/46 (43%)
Query: 598 NLRYFSPDEIRKLMCFPDECQFPPDCSDKARYKLLGNSINVHVVAY 643
E+ ++ FP + S AR +LLG S +V V+ +
Sbjct: 238 KEDILWCTEMERVFGFPVHYTDVSNMSRLARQRLLGRSWSVPVIRH 283
Score = 47.7 bits (113), Expect = 1e-05
Identities = 11/46 (23%), Positives = 20/46 (43%)
Query: 1174 NLRYFSPDEIRKLMCFPDECRFPPDCSDKSRYKLLGNSINVHVVAY 1219
E+ ++ FP + S +R +LLG S +V V+ +
Sbjct: 238 KEDILWCTEMERVFGFPVHYTDVSNMSRLARQRLLGRSWSVPVIRH 283
>2c7p_A Modification methylase HHAI; DNA methyltransferase,
methyltransferase, base flipping, restriction system,
transferase; HET: 5CM A1P SAH EPE CIT; 1.7A {Haemophilus
haemolyticus} SCOP: c.66.1.26 PDB: 10mh_A* 1m0e_A*
1mht_A* 1hmy_A* 1skm_A* 2c7o_A* 2c7q_A* 2hmy_B* 2hr1_A*
3eeo_A* 3mht_A* 4mht_A* 5mht_A* 6mht_A* 7mht_A* 8mht_A*
9mht_A* 2zcj_A* 2z6u_A* 2z6q_A* ...
Length = 327
Score = 44.7 bits (106), Expect = 1e-04
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 837 RYFSPDEIRKLMCFPDDCRFPPDCSDKSRYKLLGNSINVHVVAYCICLML 886
R P E ++M +PD + S YK GNS+ ++V+ Y +
Sbjct: 272 RKLHPRECARVMGYPDSYKVH--PSTSQAYKQFGNSVVINVLQYIAYNIG 319
Score = 43.6 bits (103), Expect = 3e-04
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 1176 RYFSPDEIRKLMCFPDECRFPPDCSDKSRYKLLGNSINVHVVAYCICLML 1225
R P E ++M +PD + S YK GNS+ ++V+ Y +
Sbjct: 272 RKLHPRECARVMGYPDSYKVH--PSTSQAYKQFGNSVVINVLQYIAYNIG 319
Score = 42.8 bits (101), Expect = 5e-04
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 600 RYFSPDEIRKLMCFPDECQFPPDCSDKARYKLLGNSINVHVVAYCICLML 649
R P E ++M +PD + S YK GNS+ ++V+ Y +
Sbjct: 272 RKLHPRECARVMGYPDSYKVH--PSTSQAYKQFGNSVVINVLQYIAYNIG 319
Score = 29.3 bits (66), Expect = 9.0
Identities = 9/35 (25%), Positives = 17/35 (48%)
Query: 297 SMLTRAGFRFQEFLLSPTQFGVPNSRTRYYLIAKR 331
+ + + F +L+ +G+P R R Y+I R
Sbjct: 138 NTMNELDYSFHAKVLNALDYGIPQKRERIYMICFR 172
>3me5_A Cytosine-specific methyltransferase; structural genomics, protein
structure initiative, NEW YORK structural genomix
research consortium; 1.75A {Shigella flexneri 2A} PDB:
3lx6_A
Length = 482
Score = 40.0 bits (93), Expect = 0.005
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 835 NLRYFSPDEIRKLMCF--PDDCRFPPDCSDKSRYKLLGNSINVHVVAY 880
R +P E +LM F P + +F SD Y+ GNS+ V V A
Sbjct: 400 RPRRLTPRECARLMGFEAPGEAKFRIPVSDTQAYRQFGNSVVVPVFAA 447
Score = 39.7 bits (92), Expect = 0.006
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 1174 NLRYFSPDEIRKLMCF--PDECRFPPDCSDKSRYKLLGNSINVHVVAY 1219
R +P E +LM F P E +F SD Y+ GNS+ V V A
Sbjct: 400 RPRRLTPRECARLMGFEAPGEAKFRIPVSDTQAYRQFGNSVVVPVFAA 447
Score = 38.9 bits (90), Expect = 0.010
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 598 NLRYFSPDEIRKLMCF--PDECQFPPDCSDKARYKLLGNSINVHVVAY 643
R +P E +LM F P E +F SD Y+ GNS+ V V A
Sbjct: 400 RPRRLTPRECARLMGFEAPGEAKFRIPVSDTQAYRQFGNSVVVPVFAA 447
>1dct_A Protein (modification methylase HAEIII); enzyme, cytosine
methylase, transferase/DNA complex; HET: DNA C49 5CM;
2.80A {Haemophilus influenzae biotypeaegyptius} SCOP:
c.66.1.26
Length = 324
Score = 38.9 bits (91), Expect = 0.008
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 835 NLRYFSPDEIRKLMCFPDDCRFPPDCSDKSRYKLLGNSINVHVVAYCI 882
R + E ++ FPDD F + S YK++GN++ V +AY I
Sbjct: 271 LYRRLTVRECARVQGFPDDFIFHYE-SLNDGYKMIGNAVPV-NLAYEI 316
Score = 38.5 bits (90), Expect = 0.012
Identities = 28/132 (21%), Positives = 48/132 (36%), Gaps = 3/132 (2%)
Query: 515 DLEKNPEETVNDA-SNSNVITTNITEINQNETKSKHIARTNESEAKREEIAPNATGAYQN 573
DL+ NP ++ +N N E + ++R + A+G
Sbjct: 187 DLKDNPIPALDKNKTNGNKCIYPNHEYFIGSYSTIFMSRNRVRQWNEPAFTVQASGRQCQ 246
Query: 574 QENSVNTLLANQNEATLLQELKRLNLRYFSPDEIRKLMCFPDECQFPPDCSDKARYKLLG 633
+L E K R + E ++ FPD+ F + S YK++G
Sbjct: 247 LHPQAPVMLKVSKNLNKFVEGKEHLYRRLTVRECARVQGFPDDFIFHYE-SLNDGYKMIG 305
Query: 634 NSINVHVVAYCI 645
N++ V +AY I
Sbjct: 306 NAVPV-NLAYEI 316
Score = 37.4 bits (87), Expect = 0.022
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 1174 NLRYFSPDEIRKLMCFPDECRFPPDCSDKSRYKLLGNSINVHVVAYCI 1221
R + E ++ FPD+ F + S YK++GN++ V +AY I
Sbjct: 271 LYRRLTVRECARVQGFPDDFIFHYE-SLNDGYKMIGNAVPV-NLAYEI 316
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.8 bits (87), Expect = 0.009
Identities = 13/68 (19%), Positives = 28/68 (41%), Gaps = 8/68 (11%)
Query: 444 EKCKHLKQQTDISSTHETKAKKMRLNEEAQTQLSGEGEKKTHDEMVKD-AQNRADLEKKI 502
E+ K L++ +K + E+A+ L E ++ +++ K+ NR +K
Sbjct: 93 EQRKRLQELDA-----ASKVMEQEWREKAKKDLE-EWNQRQSEQVEKNKINNRIA-DKAF 145
Query: 503 LDERVKDA 510
+ D
Sbjct: 146 YQQPDADI 153
Score = 37.8 bits (87), Expect = 0.009
Identities = 15/95 (15%), Positives = 33/95 (34%), Gaps = 29/95 (30%)
Query: 475 QLSGEGEKKTHDEMVK-DAQNRADLEKKILDERVKDAQNRVDLEKNPEETVNDASNSNVI 533
+L+ E E + K + R L++ DA ++V ++ E+ D
Sbjct: 79 RLTQEPES-----IRKWREEQRKRLQEL-------DAASKVMEQEWREKAKKD------- 119
Query: 534 TTNITE--INQNETKSKHIARTNESE----AKREE 562
+ E Q+E K+ ++ + +
Sbjct: 120 ---LEEWNQRQSEQVEKNKINNRIADKAFYQQPDA 151
Score = 35.9 bits (82), Expect = 0.040
Identities = 15/84 (17%), Positives = 29/84 (34%), Gaps = 17/84 (20%)
Query: 452 QTDISSTHETKAKKMRLNEEAQTQLS--GEGEKKTHDEMVKDAQNRAD---------LEK 500
Q D + +K R EE + +L K E + A+ + +EK
Sbjct: 76 QADRLTQEPESIRKWR--EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEK 133
Query: 501 KILDERVKDAQNRVDLEKNPEETV 524
++ R+ D + P+ +
Sbjct: 134 NKINNRIADKA----FYQQPDADI 153
Score = 31.7 bits (71), Expect = 0.93
Identities = 15/102 (14%), Positives = 35/102 (34%), Gaps = 21/102 (20%)
Query: 972 LSNLGDMTQIEEIIEKCKHLKQQIDNSSTDETKAKKIKLDVEDTETQFGDEGEREILDEM 1031
++ +TQ E I K + E + K+++ E D + + E
Sbjct: 74 IAQADRLTQEPESIRKWR------------EEQRKRLQ------EL---DAASKVMEQEW 112
Query: 1032 VKDAQNRVNLEKKTLDEKVNDTLNQDDLVEKELLNEKVNDTL 1073
+ A+ + + E+V + + +K + D +
Sbjct: 113 REKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDADII 154
Score = 30.5 bits (68), Expect = 2.6
Identities = 7/53 (13%), Positives = 19/53 (35%)
Query: 682 DEGEREILDEMVKDAQNRVDLEKKTLDEKVNDTLNQDDLVEKELLNGKVNDTL 734
D + + E + A+ ++ + E+V + + +K D +
Sbjct: 102 DAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDADII 154
Score = 29.7 bits (66), Expect = 3.8
Identities = 10/57 (17%), Positives = 16/57 (28%), Gaps = 7/57 (12%)
Query: 544 ETKSKHIA-RTNESEAKREEIAPNATGA----YQNQENSVNTLLANQ--NEATLLQE 593
E + K + S+ +E A Q Q V N + Q+
Sbjct: 92 EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQ 148
Score = 29.0 bits (64), Expect = 8.4
Identities = 7/55 (12%), Positives = 21/55 (38%), Gaps = 3/55 (5%)
Query: 662 DETKAKKIKLDVEDTETQFGDEGEREILDEMVKD-AQNRVDLEKKTLDEKVNDTL 715
D + + + + +E + +++ K+ NR+ +K + D +
Sbjct: 102 DAASKVM-EQEWREKAKKDLEEWNQRQSEQVEKNKINNRIA-DKAFYQQPDADII 154
>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 = 35.7 bits (81), Expect = 0.034
Identities = 6/16 (37%), Positives = 11/16 (68%), Gaps = 2/16 (12%)
Query: 592 QELKRL--NLRYFSPD 605
Q LK+L +L+ ++ D
Sbjct: 20 QALKKLQASLKLYADD 35
Score = 35.7 bits (81), Expect = 0.034
Identities = 6/16 (37%), Positives = 11/16 (68%), Gaps = 2/16 (12%)
Query: 829 QELKRL--NLRYFSPD 842
Q LK+L +L+ ++ D
Sbjct: 20 QALKKLQASLKLYADD 35
Score = 35.7 bits (81), Expect = 0.034
Identities = 6/16 (37%), Positives = 11/16 (68%), Gaps = 2/16 (12%)
Query: 1168 QELKRL--NLRYFSPD 1181
Q LK+L +L+ ++ D
Sbjct: 20 QALKKLQASLKLYADD 35
>4dvy_P Cytotoxicity-associated immunodominant antigen; oncoprotein; 3.30A
{Helicobacter pylori}
Length = 877
Score = 36.0 bits (82), Expect = 0.089
Identities = 35/224 (15%), Positives = 79/224 (35%), Gaps = 12/224 (5%)
Query: 381 SDDLYRRYLVSDKDLLRRFHVFDIVNGKASSTNCFTKAYTHYAEGTGSVLSNLGDMTHIE 440
++ L + +L S+K+L + F+ +A ST Y + + +L H+E
Sbjct: 575 ANKLIKDFLSSNKELAGKALNFNKAVAEAKST----GNYDEVKKAQKDLEKSLRKREHLE 630
Query: 441 DIIEKCKHLKQQTD--ISSTHETKAKKMRLNEEAQTQLSGEGEKKTHDEMVKDAQNRADL 498
+EK K + + + ++K + + + + + + +K +
Sbjct: 631 KEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELSD 690
Query: 499 EKKILDERVKDAQNRVDLEKNPEETVNDASNSNV------ITTNITEINQNETKSKHIAR 552
+ + + + +KD D KN + + + + A
Sbjct: 691 KLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNAA 750
Query: 553 TNESEAKREEIAPNATGAYQNQENSVNTLLANQNEATLLQELKR 596
NE + + + T A + ENSV ++ NQ + L +
Sbjct: 751 LNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQ 794
>3g7u_A Cytosine-specific methyltransferase; DNA-binding, NAD-binding,
structural GENO protein structure initiative, PSI; 1.75A
{Escherichia coli O157}
Length = 376
Score = 32.0 bits (73), Expect = 1.1
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 837 RYFSPDEIRKLMCFPDDCRFPPDCSDKSRYKLLGNSINVHVVAYCI 882
R +P E +L FPD RF + ++ +GNS++ VA I
Sbjct: 317 RVITPREAARLQGFPDWFRFHV--TKWHSFRQIGNSVSPI-VAEYI 359
Score = 29.7 bits (67), Expect = 6.3
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 1176 RYFSPDEIRKLMCFPDECRFPPDCSDKSRYKLLGNSINVHVVAYCI 1221
R +P E +L FPD RF + ++ +GNS++ VA I
Sbjct: 317 RVITPREAARLQGFPDWFRFHV--TKWHSFRQIGNSVSPI-VAEYI 359
>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics,
structural genomics consortium, SGC, unknown function;
1.70A {Plasmodium falciparum}
Length = 187
Score = 30.8 bits (70), Expect = 1.8
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 901 ANTCNPLLSRMTLHGILDSTHPSGDLYRRYLVSDKDLLRRF 941
N P+L+R L I +T YR+++ DK L RRF
Sbjct: 141 GNILKPMLARGELRCIGATTV---SEYRQFIEKDKALERRF 178
Score = 30.0 bits (68), Expect = 3.3
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 364 PLLSRMTLHSILDSTDPSDDLYRRYLVSDKDLLRRF 399
P+L+R L I +T YR+++ DK L RRF
Sbjct: 146 PMLARGELRCIGATTV---SEYRQFIEKDKALERRF 178
>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA
methyltransferase fold, maintenance methyla transferase;
HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A*
3pt6_A* 3pt9_A* 4da4_A*
Length = 1002
Score = 31.8 bits (71), Expect = 1.9
Identities = 12/52 (23%), Positives = 22/52 (42%), Gaps = 3/52 (5%)
Query: 837 RYFSPDEIRKLMCFPDDCRFPPDCSDKSRYKLLGNSINVHVVAYCICLMLCE 888
R S E + FPD R + +++ +GN++ +A I L +
Sbjct: 948 RVVSVRECARSQGFPDTYRLF--GNILDKHRQVGNAVPPP-LAKAIGLEIKL 996
Score = 31.8 bits (71), Expect = 2.0
Identities = 12/52 (23%), Positives = 22/52 (42%), Gaps = 3/52 (5%)
Query: 1176 RYFSPDEIRKLMCFPDECRFPPDCSDKSRYKLLGNSINVHVVAYCICLMLCE 1227
R S E + FPD R + +++ +GN++ +A I L +
Sbjct: 948 RVVSVRECARSQGFPDTYRLF--GNILDKHRQVGNAVPPP-LAKAIGLEIKL 996
>1qsd_A Protein (beta-tubulin binding post-chaperonin cofactor);
four-helix-bundle, chaperone; 2.20A {Saccharomyces
cerevisiae} SCOP: a.7.5.1
Length = 106
Score = 29.4 bits (66), Expect = 2.6
Identities = 13/97 (13%), Positives = 37/97 (38%), Gaps = 19/97 (19%)
Query: 982 EEIIEKCKHLKQQIDNSSTDETKAKKIKLDVEDTETQFGDEGEREILDE---MVKDAQNR 1038
+E+ ++ H+ + ++ S D KK + E+LD+ ++ +
Sbjct: 25 QELKDQEAHVAKLKEDKSVDPYDLKK----------------QEEVLDDTKRLLPTLYEK 68
Query: 1039 VNLEKKTLDEKVNDTLNQDDLVEKELLNEKVNDTLNK 1075
+ K+ L++ + +D+ + + L+
Sbjct: 69 IREFKEDLEQFLKTYQGTEDVSDARSAITSAQELLDS 105
>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli}
SCOP: c.37.1.20
Length = 195
Score = 30.4 bits (69), Expect = 2.9
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 901 ANTCNPLLSRMTLHGILDSTHPSGDLYRRYLVSDKDLLRRF 941
N P L+R LH + +T D YR+Y+ D L RRF
Sbjct: 140 GNMLKPALARGELHCVGATTL---DEYRQYIEKDAALERRF 177
Score = 29.2 bits (66), Expect = 5.3
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 364 PLLSRMTLHSILDSTDPSDDLYRRYLVSDKDLLRRF 399
P L+R LH + +T D YR+Y+ D L RRF
Sbjct: 145 PALARGELHCVGATTL---DEYRQYIEKDAALERRF 177
>1ex0_A Coagulation factor XIII A chain; transglutaminase, blood
coagulation, mutant, W279F, oxyanion, transferase; 2.00A
{Homo sapiens} SCOP: b.1.18.9 b.1.5.1 b.1.5.1 d.3.1.4
PDB: 1evu_A 1fie_A 1f13_A 1ggt_A 1ggu_A 1ggy_A 1qrk_A
Length = 731
Score = 30.4 bits (68), Expect = 5.2
Identities = 10/65 (15%), Positives = 17/65 (26%), Gaps = 5/65 (7%)
Query: 206 HRSDYNSPSLI-----PFFITIFLSRASQSEWNLLCERLSTSECLVVVNAVRVLIQLVES 260
H Y + LI F++ I SR +L + + +V
Sbjct: 65 HTDKYENNKLIVRRGQSFYVQIDFSRPYDPRRDLFRVEYVIGRYPQENKGTYIPVPIVSE 124
Query: 261 RTHAP 265
Sbjct: 125 LQSGK 129
>3gxs_A Phenylacetate-coenzyme A ligase; APC62324.1, structural genomics,
PSI-2, protein structure initiative; 1.43A {Bacteroides
vulgatus atcc 8482} PDB: 3lax_A
Length = 109
Score = 28.4 bits (64), Expect = 5.5
Identities = 11/57 (19%), Positives = 22/57 (38%)
Query: 979 TQIEEIIEKCKHLKQQIDNSSTDETKAKKIKLDVEDTETQFGDEGEREILDEMVKDA 1035
QIE I+ + K L + ++ ++VE ++ D G + L +
Sbjct: 17 IQIETILLQFKELGSDYLITLETAESNDEMTVEVELSQLFTDDYGRLQALTREITRQ 73
>3haj_A Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR, alternative
splicing, coiled coil, cytoplasmic vesicle, endocytosis,
phosphoprotein, polymorphism; 2.78A {Homo sapiens}
Length = 486
Score = 29.7 bits (65), Expect = 6.8
Identities = 14/111 (12%), Positives = 38/111 (34%), Gaps = 1/111 (0%)
Query: 448 HLKQQTDISSTHETKAKKMRLNEEAQTQLSGEGEKKTHDEMVKDAQN-RADLEKKILDER 506
HL+ + + + K K + + + G E K ++ + AQ A K++ +
Sbjct: 97 HLEVKASLMNDDFEKIKNWQKEAFHKQMMGGFKETKEAEDGFRKAQKPWAKKLKEVEAAK 156
Query: 507 VKDAQNRVDLEKNPEETVNDASNSNVITTNITEINQNETKSKHIARTNESE 557
+ + N ++ ++ + ++ K K + +
Sbjct: 157 KAHHAACKEEKLAISREANSKADPSLNPEQLKKLQDKIEKCKQDVLKTKEK 207
>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A
resolution, N-formylmethionine, alpha subunit; HET: FME;
2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1
c.10.2.2 PDB: 1ltx_A*
Length = 567
Score = 29.3 bits (65), Expect = 8.5
Identities = 28/261 (10%), Positives = 71/261 (27%), Gaps = 9/261 (3%)
Query: 917 LDSTHPSGDLYRRYLVSDKDLLRRFHVFDIVNRKASSTNCFTKAYTHYAEGTGSVLSNLG 976
D S Y R+L+ + + +A + CF++ T + +L
Sbjct: 221 TDPNDQSAWFYHRWLLGRAEPHDVLCCVHVSREEACLSVCFSRPLTVGSRMGTLLLMVDE 280
Query: 977 DMTQIEEIIEKCKHLKQQIDNSSTDETKAKKIKLDVEDTETQFGDEGEREILDEMVKDAQ 1036
+E ++ + G + ++E + +
Sbjct: 281 APLSVEWRTPDGRNRPSHVWLCDLPAASLNDQLPQHTFRVIWTGSDSQKECVLLKDRPEC 340
Query: 1037 NRVNLEKKTLDEKVNDTLNQDDLVEKELLNEKVNDTLNKANSKDITTNVTGTNQNEAKSK 1096
+ + ++ + +++ EL + K L N + T + +
Sbjct: 341 WCRDSATDEQLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLY 400
Query: 1097 HVTEIARTNEREAKREDISPNVTGANQRDGSVNALGTNENAGNSVTTTRTNQNEESSVNT 1156
+ + +A D + R + + V + + +
Sbjct: 401 EKETLQYFSTLKAV--DPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCH 458
Query: 1157 LETNQNEATLLQELKRLNLRY 1177
LE L + L+L +
Sbjct: 459 LEQ-------LLLVTHLDLSH 472
>2yk0_A Erythrocyte membrane protein 1; adhesin, pfemp1; 2.80A {Plasmodium
falciparum}
Length = 790
Score = 29.5 bits (66), Expect = 9.8
Identities = 22/162 (13%), Positives = 49/162 (30%), Gaps = 14/162 (8%)
Query: 957 FTKAYTHYAEGTGSVLSNL--GDMTQIEEIIEKCKHLKQQIDN--SSTDETKAKKIKLDV 1012
F K + + + + + + I+ LK + + + D+ +
Sbjct: 636 FNKQFHGEGYDIAFKVKSYFEDNEADVRKSIDNFHVLKNKEEYEICNVDDNCRSQNNKKK 695
Query: 1013 EDTETQFGDEGEREILDEMVKDAQNRVNLEKKTLDEKVNDTLNQDDLVEKELLNEKVNDT 1072
+D T L E+ + N K T ++ D L + + E+ ++
Sbjct: 696 KDIVTIL--------LKELKDKIVSCKNQHKATKGKECCDKLPKIADGDTSDDEEQEDEA 747
Query: 1073 LNKANSK-DITTNVTG-TNQNEAKSKHVTEIARTNEREAKRE 1112
K T N +Q+ V ++A +
Sbjct: 748 PAPPKPKPPSTPNPCVRKDQSGTHIVSVEDVAEWMQGVTHDR 789
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
0.315 0.131 0.376
Gapped
Lambda K H
0.267 0.0476 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 17,686,689
Number of extensions: 1048496
Number of successful extensions: 2567
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2528
Number of HSP's successfully gapped: 90
Length of query: 1232
Length of database: 6,701,793
Length adjustment: 105
Effective length of query: 1127
Effective length of database: 3,770,088
Effective search space: 4248889176
Effective search space used: 4248889176
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 (21.6 bits)
S2: 63 (28.7 bits)