RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13263
(577 letters)
>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic
hypermutat protein-DNA complex, DNA mispair, cancer;
HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B*
2o8e_B* 2o8f_B*
Length = 1022
Score = 161 bits (409), Expect = 4e-42
Identities = 51/119 (42%), Positives = 66/119 (55%), Gaps = 5/119 (4%)
Query: 135 KLTAPSTPSTPSFPVSDTSETTPSTSGAQDWSHNHYQFLHPDHILDADRRSPKHPDYNPK 194
++ S S +S W H ++L + D RR P HPD++
Sbjct: 2 GSAPQNSESQAH-----VSGGGDDSSRPTVWYHETLEWLKEEKRRDEHRRRPDHPDFDAS 56
Query: 195 TLYVPPEFLKKQTPCMGQWWTIKSQNFDCVLFFKVGKFYELFHMDAVIGADELACSYMK 253
TLYVP +FL TP M +WW IKSQNFD V+ +KVGKFYEL+HMDA+IG EL +MK
Sbjct: 57 TLYVPEDFLNSCTPGMRKWWQIKSQNFDLVICYKVGKFYELYHMDALIGVSELGLVFMK 115
Score = 128 bits (323), Expect = 4e-31
Identities = 51/145 (35%), Positives = 76/145 (52%), Gaps = 5/145 (3%)
Query: 390 RGTGTNDGCVIARVTLEKFLQ-IGCLTVFATHYHSVARRLREEPNVAFEYMSYIEDKRN- 447
RGT T DG IA +++ + I C T+F+THYHS+ + V +M+ + +
Sbjct: 879 RGTATFDGTAIANAVVKELAETIKCRTLFSTHYHSLVEDYSQNVAVRLGHMACMVENECE 938
Query: 448 -DGIDTIVFLYKLVPGICPKSFGFNVAELAGIPEDVVKFGTTVAFQMEARHNLRQLFIHK 506
+TI FLYK + G CPKS+GFN A LA +PE+V++ G A + E + +LF +
Sbjct: 939 DPSQETITFLYKFIKGACPKSYGFNAARLANLPEEVIQKGHRKAREFEKMNQSLRLF--R 996
Query: 507 FASLVKSGEKVDVEELQKALESVKS 531
L VD E + K L +K
Sbjct: 997 EVCLASERSTVDAEAVHKLLTLIKE 1021
Score = 95.5 bits (238), Expect = 1e-20
Identities = 41/144 (28%), Positives = 70/144 (48%), Gaps = 9/144 (6%)
Query: 249 CSYMKESGCTGESTLLTQLCNYESQTPSGCFPDMSELLKYFENAFDHKEASSAGNIIPKA 308
M+E +S +L Q+ + +++ P G FPD++ L ++ AFDH++A G I PKA
Sbjct: 534 IGIMEEVADGFKSKILKQVISLQTKNPEGRFPDLTVELNRWDTAFDHEKARKTGLITPKA 593
Query: 309 GVDKEYDEVMDEIKSIEKEIQTYLRTQCAHFGCT---VIYSEAQKKQKKYVLEVP-SKYA 364
G D +YD+ + +I+ E+ + YL Q GC + +Y LE+P +
Sbjct: 594 GFDSDYDQALADIRENEQSLLEYLEKQRNRIGCRTIVYWGI----GRNRYQLEIPENFTT 649
Query: 365 SKAKSNHQRVATKKKNVENYVTPE 388
++ +T KK + Y T
Sbjct: 650 RNLPEEYELKST-KKGCKRYWTKT 672
>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch
recognition, mismatched unpaired DNA binding protein-DNA
complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B*
3thy_B* 3thz_B*
Length = 918
Score = 111 bits (281), Expect = 6e-26
Identities = 48/158 (30%), Positives = 79/158 (50%), Gaps = 14/158 (8%)
Query: 390 RGTGTNDGCVIARVTLEKFLQ-IGCLTVFATHYHSVARRLREEP----NVAFEYMSYIED 444
RGT T+DG IA TLE F++ + LT+F THY V + N ++ ++
Sbjct: 763 RGTSTHDGIAIAYATLEYFIRDVKSLTLFVTHYPPVCELEKNYSHQVGNYHMGFLVSEDE 822
Query: 445 KRNDGI------DTIVFLYKLVPGICPKSFGFNVAELAGIPEDVVKFGTTVAFQMEARHN 498
+ D D + FLY++ GI +S+G NVA+LA +P +++K + ++E N
Sbjct: 823 SKLDPGAAEQVPDFVTFLYQITRGIAARSYGLNVAKLADVPGEILKKAAHKSKELEGLIN 882
Query: 499 LRQLFIHKFASLVKSGEKVDVEELQKALESVKSFESQT 536
++ + FA K + ++LQK E E+QT
Sbjct: 883 TKRKRLKYFA---KLWTMHNAQDLQKWTEEFNMEETQT 917
Score = 69.6 bits (171), Expect = 2e-12
Identities = 17/44 (38%), Positives = 21/44 (47%)
Query: 204 KKQTPCMGQWWTIKSQNFDCVLFFKVGKFYELFHMDAVIGADEL 247
TP Q+ +K Q+ D VL + G Y F DA I A EL
Sbjct: 11 SIYTPLELQYIEMKQQHKDAVLCVECGYKYRFFGEDAEIAAREL 54
Score = 44.5 bits (106), Expect = 9e-05
Identities = 22/152 (14%), Positives = 52/152 (34%), Gaps = 38/152 (25%)
Query: 252 MKESGCTGESTLLTQLCNYESQTPSGCFPDMSELLKYFENAFDHKEASSA--GNIIPKAG 309
+ +S LL + P++ ++++ + + A + K
Sbjct: 440 IPAVNSHIQSDLLRTVIL--------EIPELLSPVEHYLKILNEQAAKVGDKTELF-KDL 490
Query: 310 VDKEYDEV-MDEIKSIEKEIQTYLRTQCAHFGCTVIYSEAQK--KQKK----------YV 356
D + DEI+ + EI+ +L+ E +K K ++
Sbjct: 491 SDFPLIKKRKDEIQGVIDEIRMHLQ-------------EIRKILKNPSAQYVTVSGQEFM 537
Query: 357 LEVPSKYASKAKSNHQRVATKKKNVENYVTPE 388
+E+ + S ++ +V + K V + +P
Sbjct: 538 IEIKNSAVSCIPTDWVKVGSTK-AVSRFHSPF 568
>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch
recognition, mismatched unpaired DNA binding protein-DNA
complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A*
2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*
Length = 934
Score = 102 bits (255), Expect = 1e-22
Identities = 38/147 (25%), Positives = 74/147 (50%), Gaps = 14/147 (9%)
Query: 390 RGTGTNDGCVIARVTLEKFL--QIGCLTVFATHYH---SVARRLREEPNVAFEYMSYIED 444
RGT T DG +A E ++ +IG +FATH+H ++A ++ P V +++ +
Sbjct: 752 RGTSTYDGFGLAWAISE-YIATKIGAFCMFATHFHELTALANQI---PTVNNLHVTALTT 807
Query: 445 KRNDGIDTIVFLYKLVPGICPKSFGFNVAELAGIPEDVVKFGTTVAFQMEARHNLRQLFI 504
+ +T+ LY++ G+C +SFG +VAELA P+ V++ A ++E + +
Sbjct: 808 E-----ETLTMLYQVKKGVCDQSFGIHVAELANFPKHVIECAKQKALELEEFQYIGESQG 862
Query: 505 HKFASLVKSGEKVDVEELQKALESVKS 531
+ ++ E+ +K ++ S
Sbjct: 863 YDIMEPAAKKCYLEREQGEKIIQEFLS 889
Score = 55.4 bits (134), Expect = 3e-08
Identities = 13/63 (20%), Positives = 22/63 (34%), Gaps = 2/63 (3%)
Query: 203 LKKQTPCMGQWWTIKSQNFDCVLFFKVGKFYELFHMDAVIGADEL--ACSYMKESGCTGE 260
+ + + + + V F G FY DA++ A E+ +K G G
Sbjct: 13 SAAEVGFVRFFQGMPEKPTTTVRLFDRGDFYTAHGEDALLAAREVFKTQGVIKYMGPAGA 72
Query: 261 STL 263
L
Sbjct: 73 KNL 75
Score = 36.9 bits (86), Expect = 0.021
Identities = 20/145 (13%), Positives = 43/145 (29%), Gaps = 30/145 (20%)
Query: 260 ESTLLTQLCNYESQTPSGCFPDMSELLKYFENAFDHKEASSAGNIIPKAGVDKEYDEVMD 319
E L + D S+ + E D + + ++ K +D +
Sbjct: 425 EGKHQKLLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVENHEFLV-KPS----FDPNLS 479
Query: 320 EIKSIEKEIQTYLRTQCAHFGCTVIYSEAQK----KQKK----------YVLEVPSKYAS 365
E++ I +++ +++ S A+ K+ Y V K
Sbjct: 480 ELREIMNDLEKKMQSTLI--------SAARDLGLDPGKQIKLDSSAQFGYYFRVTCKEEK 531
Query: 366 --KAKSNHQRVATKKKNVENYVTPE 388
+ N V +KN + +
Sbjct: 532 VLRNNKNFSTVDI-QKNGVKFTNSK 555
>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein,
mostly mixed alpha-beta structures, one domain is
entirely helical; HET: DNA; 2.20A {Thermus aquaticus}
SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A*
1fw6_A* 1ewr_A*
Length = 765
Score = 89.1 bits (222), Expect = 1e-18
Identities = 34/113 (30%), Positives = 55/113 (48%), Gaps = 16/113 (14%)
Query: 390 RGTGTNDGCVIARVTLEKFLQIGCLTVFATHYHSVARRLREEPNVAFEYMSYIEDKRNDG 449
RGT + DG IA E + T+FATHY + L P + +++ E+
Sbjct: 666 RGTSSLDGVAIATAVAEALHERRAYTLFATHYFELTA-L-GLPRLKNLHVAAREEA---- 719
Query: 450 IDTIVFLYKLVPGICPKSFGFNVAELAGIPEDVVKFGTTVAFQMEARHNLRQL 502
+VF ++++PG KS+G VA +AG+P++VV AR L+ +
Sbjct: 720 -GGLVFYHQVLPGPASKSYGVEVAAMAGLPKEVVA---------RARALLQAM 762
Score = 62.9 bits (154), Expect = 2e-10
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 204 KKQTPCMGQWWTIKSQNFDCVLFFKVGKFYELFHMDAVIGADEL 247
P + Q+ ++ Q D +L F+VG FYE F DA A L
Sbjct: 11 GPLPPLLQQYVELRDQYPDYLLLFQVGDFYECFGEDAERLARAL 54
Score = 31.3 bits (72), Expect = 0.91
Identities = 21/101 (20%), Positives = 38/101 (37%), Gaps = 31/101 (30%)
Query: 302 GNIIPKAGVDKEYDEVMDEIKSIEKEIQTYLRTQCAHFGCTVIYSEAQKKQK------K- 354
G +I + G YD +D +++ +E Y E +++++ K
Sbjct: 397 GGLI-REG----YDPDLDALRAAHREGVAYFLEL-----------EERERERTGIPTLKV 440
Query: 355 -------YVLEVPSKYASKAKSNHQRVATKKKNVENYVTPE 388
Y LEV Y + ++ V T K + + Y PE
Sbjct: 441 GYNAVFGYYLEVTRPYYERVPKEYRPVQTLK-DRQRYTLPE 480
>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA
binding, DNA repair, mismatch recognition; HET: DNA ADP;
2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12
c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A*
1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*
Length = 800
Score = 87.5 bits (218), Expect = 3e-18
Identities = 41/118 (34%), Positives = 59/118 (50%), Gaps = 23/118 (19%)
Query: 390 RGTGTNDGCVIARVTLEKFL--QIGCLTVFATHYH---SVARRLREEPNVAFEYMSYIED 444
RGT T DG +A E L +I LT+FATHY + ++ NV ++ +E
Sbjct: 697 RGTSTYDGLSLAWACAE-NLANKIKALTLFATHYFELTQLPEKMEGVANV---HLDALEH 752
Query: 445 KRNDGIDTIVFLYKLVPGICPKSFGFNVAELAGIPEDVVKFGTTVAFQMEARHNLRQL 502
DTI F++ + G KS+G VA LAG+P++V+K AR LR+L
Sbjct: 753 G-----DTIAFMHSVQDGAASKSYGLAVAALAGVPKEVIK---------RARQKLREL 796
Score = 64.4 bits (158), Expect = 6e-11
Identities = 16/45 (35%), Positives = 27/45 (60%)
Query: 203 LKKQTPCMGQWWTIKSQNFDCVLFFKVGKFYELFHMDAVIGADEL 247
TP M Q+ +K+Q+ + +LF+++G FY LF+ DA + L
Sbjct: 7 FDAHTPMMQQYLRLKAQHPEILLFYRMGDFYTLFYDDAKRASQLL 51
>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 = 58.1 bits (140), Expect = 7e-09
Identities = 50/323 (15%), Positives = 88/323 (27%), Gaps = 115/323 (35%)
Query: 272 SQTPSGCFPDMS-ELLKYFENA---FDHKEASSAGNIIPKAGVDKEYDEVMDEIKSIEKE 327
SQ G M +L K + A ++ A D + + SI
Sbjct: 1626 SQEQ-G----MGMDLYKTSKAAQDVWN--RA------------DNHFKDTYGF--SILDI 1664
Query: 328 IQTYLRTQCAHFGCTVIYSEAQKKQKKYVLEVPSKYASKAKSNHQRVATKKKNVE-NYVT 386
+ HFG +K ++ + + ++ T+K E N +
Sbjct: 1665 VINNPVNLTIHFG-------GEKGKRIRENYSAMIFETIVDG---KLKTEKIFKEINEHS 1714
Query: 387 PECRGTGTNDGCVIARVTLEKFLQIGCLTVFATHYHSVA--RRLREE----PNVAF---- 436
+ +F Q + A L+ + + F
Sbjct: 1715 TSYTFRSEKGLL-----SATQFTQPALTLM------EKAAFEDLKSKGLIPADATFAGHS 1763
Query: 437 --EY---------MSYIED------KRNDGIDTIVFLYKLVPGICPKSFGF-NVAELAGI 478
EY MS IE R G+ + VP G N +A
Sbjct: 1764 LGEYAALASLADVMS-IESLVEVVFYR--GM----TMQVAVPR---DELGRSNYGMIAIN 1813
Query: 479 PEDVVKFGTTVAFQ-------------ME-ARHNLR--QLFIHKFASLVKSGEKVDVEEL 522
P V + A Q +E +N+ Q +G+ ++ +
Sbjct: 1814 PGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVA--------AGDLRALDTV 1865
Query: 523 QKALESVKSFESQTKK-DLEDLP 544
L +K +K D+ +L
Sbjct: 1866 TNVLNFIK-----LQKIDIIELQ 1883
Score = 46.6 bits (110), Expect = 2e-05
Identities = 61/408 (14%), Positives = 104/408 (25%), Gaps = 144/408 (35%)
Query: 215 TIKSQNFDCV------LFFKVGKFYELFHMDAVIGADELACSYMKESGCTGESTLLTQLC 268
T+ + + V FF + E F+ + A E E L+ +
Sbjct: 10 TLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD--EPTTPAE--LVGKFL 65
Query: 269 NY-ESQTPSGCFPDMSELLK----YFENAF----D-HKEASSAGNIIPKAGVDKEYDEVM 318
Y S ++L FEN + D H A+ + +E D +
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAK---------LLQENDTTL 116
Query: 319 DEIKSIEKEIQTYLRTQCAHFGCTVIYSEAQKKQKKYVLEVPSKYASKAKSNHQRVATKK 378
+ K + I+ Y + ++ + + S + ++
Sbjct: 117 VKTKEL---IKNY-------------ITARIMAKRPFDKKSNSALFRAVGEGNAQLVA-- 158
Query: 379 KNVENYVTPECRGTGTNDGCVIARVTLEKF--LQIGCLTVFATHYHSVARRLREEPNVAF 436
G G D F L+ ++ T YH + L +
Sbjct: 159 ---------IFGGQGNTDDY---------FEELR----DLYQT-YHVLVGDLIKFSAETL 195
Query: 437 EYMSYIEDKRN----DGIDTIVFL----------YKL------VPGIC----------PK 466
+ G++ + +L Y L P I K
Sbjct: 196 SELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY-LLSIPISCPLIGVIQLAHYVVTAK 254
Query: 467 SFGFNVAELA-------GIPEDVVKFGTTVA---------FQMEARHNLRQLFIHKFASL 510
GF EL G + +V T VA F + R + LF
Sbjct: 255 LLGFTPGELRSYLKGATGHSQGLV---TAVAIAETDSWESFFVSVRKAITVLFFIGVRC- 310
Query: 511 VKSGEKVDVEELQKALESVKSFESQTKKDLEDLPGGVAGAGTEWWPSP 558
+A S +D + G PSP
Sbjct: 311 ------------YEAY-PNTSLPPSILEDSLE-----NNEGV---PSP 337
Score = 43.9 bits (103), Expect = 2e-04
Identities = 54/335 (16%), Positives = 95/335 (28%), Gaps = 109/335 (32%)
Query: 264 LTQLCNYE-SQTPSGCFPDMSELLKYFENAFDHKEASSAGNIIPKAGVDKEYDEVMDEIK 322
+ QL +Y + G P EL Y + A H + I + + + + K
Sbjct: 243 VIQLAHYVVTAKLLGFTP--GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVR--K 298
Query: 323 SIEKEIQTY--LRTQCAHFGCTVIYSEAQKKQKKYVLEVPS-----------------KY 363
+I + + +R A + T + + + VPS
Sbjct: 299 AI--TVLFFIGVRCYEA-YPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK 355
Query: 364 ASKAKSNHQRVATKKKN-VENYV---TPE--------CRGTGTNDGCVIARVTLEK---- 407
+ ++V N +N V P+ R G +R+ +
Sbjct: 356 TNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLK 415
Query: 408 ----FLQIGCLTVFATHYHSVARRLREEPNVAFEYMSYIEDKRNDGIDTIVFLYKLVPGI 463
FL + +HS + D + +
Sbjct: 416 FSNRFLPVAS------PFHS-------------HLLVPASD-------------LINKDL 443
Query: 464 CPKSFGFNVAELAGIPEDVVKFGTTVAFQMEARHNLRQLFIHKFASLVKSGEKVDVEELQ 523
+ FN ++ IP V + T +LR L SG E +
Sbjct: 444 VKNNVSFNAKDIQ-IP--V--YDTFDG------SDLRVL----------SGS--ISERIV 480
Query: 524 KAL--ESVKSFESQTKKDLE---DL-PGGVAGAGT 552
+ VK +E+ T+ D PGG +G G
Sbjct: 481 DCIIRLPVK-WETTTQFKATHILDFGPGGASGLGV 514
>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 = 56.4 bits (135), Expect = 2e-08
Identities = 61/426 (14%), Positives = 118/426 (27%), Gaps = 132/426 (30%)
Query: 150 SDTSETTP-STSGAQDWSHNHYQFLHPDH-----ILDADRRSPKHP---DYNPKTL---- 196
SD S Q + +L + ++ K + + K L
Sbjct: 217 SDHSSNIKLRIHSIQAELRRL--LKSKPYENCLLVLL-NVQNAKAWNAFNLSCKILLTTR 273
Query: 197 ------YVPPEFLKKQTPCMGQWWTIKSQNFDCVLFFKV--GKFYEL---------FHMD 239
++ + + L K + +L +
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKS--LLLKYLDCRPQDLPREVLTTNPRRL- 330
Query: 240 AVIGA---DELACS-YMKESGCTGESTLLTQLCNYESQTPSGCFPDMSELLKYFENAFDH 295
++I D LA K C +T++ + P+ E K F+
Sbjct: 331 SIIAESIRDGLATWDNWKHVNCDKLTTII-ESS-LNVLEPA-------EYRKMFDRLS-- 379
Query: 296 KEASSAGNIIPK-----AGV------DKEYDEVMDEIKSIEKEIQTYLRTQCAHFGCTVI 344
+ P + D +VM + + K
Sbjct: 380 --------VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK------------------ 413
Query: 345 YSEAQKKQKKYVLEVPSKYASKAKSNHQRVATKKKNVENYVTPECRGTGTNDGCVIARVT 404
YS +K+ K+ + +PS Y A + V++Y P+ +D + +
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTF---DSDDLIPPYLD 470
Query: 405 LEKFLQIGCLTVFATHYHSVARRLREE----PNVAFEYMSYIEDK-RNDGI--------- 450
+ IG +H E V ++ ++E K R+D
Sbjct: 471 QYFYSHIG--------HHLKNIEHPERMTLFRMVFLDF-RFLEQKIRHDSTAWNASGSIL 521
Query: 451 DTIVFL--YKLVPGICPKSFGFNVAELAGIPEDVVKFGTTVAFQMEARHNLRQLFIHKFA 508
+T+ L YK P IC N + + ++ F ++E L K+
Sbjct: 522 NTLQQLKFYK--PYICD-----NDPKYERLVNAILDF----LPKIEE-----NLICSKYT 565
Query: 509 SLVKSG 514
L++
Sbjct: 566 DLLRIA 571
Score = 53.3 bits (127), Expect = 2e-07
Identities = 54/437 (12%), Positives = 106/437 (24%), Gaps = 167/437 (38%)
Query: 170 YQFLHPDHILDADRRSPKHPDYNPKTLYV---------PPEFLKKQTPCMGQWWTIKSQN 220
Y+FL + + + P +Y+ F K + + ++
Sbjct: 91 YKFL-----MSPIKTEQRQPS-MMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ-- 142
Query: 221 FDCVLFFKVGKFYELFHMDAVI--GADELACSYMKESGCTGESTLLTQLCN---YESQTP 275
EL V+ G + G G++ + +C + +
Sbjct: 143 ----------ALLELRPAKNVLIDG--------VL--GS-GKTWVALDVCLSYKVQCKMD 181
Query: 276 SGCF---------PDMSELLKYFENAFDHKEASSAGNIIPKAGVDKEYDEVMDEIKSIE- 325
F P+ +L+ + +D + D +I+
Sbjct: 182 FKIFWLNLKNCNSPE--TVLEMLQKLLYQ--------------IDPNWTSRSDHSSNIKL 225
Query: 326 --KEIQTYLRTQCAHFGCTVIYSEAQKKQKKY-----VLEVPSKYASKAKSNHQRVATKK 378
IQ LR K K Y VL
Sbjct: 226 RIHSIQAELRR---LL-----------KSKPYENCLLVLL-------------------- 251
Query: 379 KNVENYVTPECRGTGTNDGCVIARVTLEKFLQIGCLTVFATHYHSVARRLREEPNVAFEY 438
NV+N + F + C + T + V L A
Sbjct: 252 -NVQN---AK---------------AWNAF-NLSCKILLTTRFKQVTDFL-----SAATT 286
Query: 439 MSYIEDKRNDGIDTIVFLYKLVPGICPKSFGFNVAELAGIPEDVVK--------FGTTVA 490
D + V + K +L P +V+ ++
Sbjct: 287 THISLDHHSMT-----LTPDEVKSLLLKYLDCRPQDL---PREVLTTNPRRLSIIAESIR 338
Query: 491 FQMEAR-HNLRQLFIHKFASLVKSG-EKVDVEELQKALESVKSFESQTK---KDLEDLPG 545
A N + + K ++++S ++ E +K + + F L +
Sbjct: 339 -DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI-- 395
Query: 546 GVAGAGTEWWPSPSNDP 562
W+ +D
Sbjct: 396 --------WFDVIKSDV 404
Score = 34.4 bits (78), Expect = 0.11
Identities = 18/117 (15%), Positives = 36/117 (30%), Gaps = 26/117 (22%)
Query: 442 IEDKRNDGIDTIVFLYKLVPGICPKSFGFNVAELAGIPEDVVKFGTTVAFQMEARHNLRQ 501
+ K+ + + K V + ++ F ++ + Q + +N Q
Sbjct: 71 LLSKQEEMV------QKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 502 LFIHKFASLVKSGEKVDVEELQKALESVKSFESQTKKDLEDLPG----GVAGAGTEW 554
+F V + +L++AL L GV G+G W
Sbjct: 125 VFAKYN---VSRLQPY--LKLRQALLE-----------LRPAKNVLIDGVLGSGKTW 165
Score = 34.4 bits (78), Expect = 0.12
Identities = 47/343 (13%), Positives = 84/343 (24%), Gaps = 138/343 (40%)
Query: 310 VDKEYDEVMDEIKSIEKEIQTYLRTQCAHFGCTVIYSEAQKKQKKYVLEVPSKYASKAKS 369
+D E E + K I + + +F C K V ++P SK +
Sbjct: 7 MDFETGEHQYQYKDI---LSVFEDAFVDNFDC------------KDVQDMPKSILSKEEI 51
Query: 370 NHQRVATKKKNVEN--YVTPEC-RGTGTNDGCVIARVTLEKFLQIGCLTVFATHYHSVAR 426
+H K+ + ++KF++ V +Y +
Sbjct: 52 DH---IIMSKDAVSGTLRLFWTLLSKQEE--------MVQKFVE----EVLRINYKFLMS 96
Query: 427 RLREEPNV-AFEYMSYIEDKRNDGIDTIVF-----------------LYKLVPGI----- 463
++ E + YIE + D VF L +L P
Sbjct: 97 PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID 156
Query: 464 ----CPKS---------------FGFNVAEL----AGIPEDVVKFGTTVAFQM------- 493
K+ F + L PE V++ + +Q+
Sbjct: 157 GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSR 216
Query: 494 ------------EARHNLRQLFIHK--------------------FA----SLVKSGEK- 516
+ LR+L K F L+ + K
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ 276
Query: 517 ------------VDVEELQKAL---ESVKSFESQTKKDLEDLP 544
+ ++ L E +DLP
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
>3gdb_A Endo-D, putative uncharacterized protein SPR0440;
alpha-beta-barrels, cell WALL, peptidoglycan-anchor,
secreted, hydrolase; HET: PGE; 1.87A {Streptococcus
pneumoniae} PDB: 2xqx_A
Length = 937
Score = 38.8 bits (89), Expect = 0.005
Identities = 21/201 (10%), Positives = 50/201 (24%), Gaps = 27/201 (13%)
Query: 5 SKESPEKKGDSESSTPASSKGKKTSKSPAKSEDDSPVTKRPRRKSAKRVKSAIQSDSEPD 64
+ E +E +K +K SE SP + SA + + +
Sbjct: 42 EHSTNEADKQNEGEHARENKLEKAEGVATASETASPASNEAATTETAEAASAAKPEEKAS 101
Query: 65 DMLQDNGSEDEYVPPKAEVESESEHSSGEEELEESVEDPTPSSSEAEVTPMKNGNKRGLS 124
+++ + S + E E++ E ++ +E + + E P
Sbjct: 102 EVVAETPSAEAKPKSDKETEAKPEATNQGDESKPAAEANKTEKEVQPDVPKNTEKTLKPK 161
Query: 125 SKSGQPTKKPKLTAPSTPSTPSFPVS---------------------------DTSETTP 157
++ P + +T+
Sbjct: 162 EIKFNSWEELLKWEPGAREDDAINRGSVVLASRRTGHLVNEKASKEAKVQALSNTNSKAK 221
Query: 158 STSGAQDWSHNHYQFLHPDHI 178
+ Y F + ++
Sbjct: 222 DHASVGGEEFKAYAFDYWQYL 242
Score = 31.9 bits (71), Expect = 0.74
Identities = 17/158 (10%), Positives = 44/158 (27%)
Query: 45 PRRKSAKRVKSAIQSDSEPDDMLQDNGSEDEYVPPKAEVESESEHSSGEEELEESVEDPT 104
+++ + +SE D +E E+ ++E ++ E S E T
Sbjct: 25 AVPENSGANTELVSGESEHSTNEADKQNEGEHARENKLEKAEGVATASETASPASNEAAT 84
Query: 105 PSSSEAEVTPMKNGNKRGLSSKSGQPTKKPKLTAPSTPSTPSFPVSDTSETTPSTSGAQD 164
++EA + +++ KPK + + D S+ + +
Sbjct: 85 TETAEAASAAKPEEKASEVVAETPSAEAKPKSDKETEAKPEATNQGDESKPAAEANKTEK 144
Query: 165 WSHNHYQFLHPDHILDADRRSPKHPDYNPKTLYVPPEF 202
+ + + + +
Sbjct: 145 EVQPDVPKNTEKTLKPKEIKFNSWEELLKWEPGAREDD 182
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 35.2 bits (80), Expect = 0.063
Identities = 18/177 (10%), Positives = 41/177 (23%), Gaps = 13/177 (7%)
Query: 3 LDSKESPEKKGDSESSTPASSKGKKTSKSPAKSEDDSPVTKRPRRKSAKRVKSAIQSDSE 62
+ + K + A ++ V +A+ A ++ E
Sbjct: 772 IRGSDQAIPKFQMNCYAKEDAFSYPRMYEEASGKEVEKVATAVLSTTARAKARAKKTKKE 831
Query: 63 PDDMLQDNGSEDEYVPPKAEVESESEHSSGEEELEESVEDPTPSSSE----AEVTPMKNG 118
++ E E + E + + E + E + + + P ++
Sbjct: 832 KGPNEEEKKKEHEEKEKERETNKKGIKETKENDEEFYKNKYSSKPYKVDNMTRILPQQSR 891
Query: 119 NKRGLSSKSGQPTKKPKL---------TAPSTPSTPSFPVSDTSETTPSTSGAQDWS 166
+ P +K K P P V +
Sbjct: 892 YISFIKDDRFVPVRKFKGNNGVVVLRDREPKEPVALIETVRQMKDVNAPLPTPFKVD 948
>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 = 31.8 bits (71), Expect = 0.31
Identities = 10/30 (33%), Positives = 12/30 (40%), Gaps = 6/30 (20%)
Query: 129 QPTKKP----KLTAPSTPSTPSFPVSDTSE 154
Q KK KL A S P+ + T E
Sbjct: 20 QALKKLQASLKLYADD--SAPALAIKATME 47
Score = 28.4 bits (62), Expect = 4.7
Identities = 4/20 (20%), Positives = 14/20 (70%), Gaps = 3/20 (15%)
Query: 47 RKSAKRVKSAIQ---SDSEP 63
+++ K+++++++ DS P
Sbjct: 19 KQALKKLQASLKLYADDSAP 38
>1y8q_B Anthracycline-, ubiquitin-like 2 activating enzyme E1B; SUMO,
heterodimer, UBL, ligase; HET: ATP; 2.25A {Homo sapiens}
PDB: 1y8r_B* 3kyc_B* 3kyd_B* 2px9_A
Length = 640
Score = 32.0 bits (72), Expect = 0.54
Identities = 15/90 (16%), Positives = 29/90 (32%), Gaps = 7/90 (7%)
Query: 54 KSAIQSDSEPDDMLQDNGSEDEYVPPKAEVESESEHSSGEEELEESVEDPTPSSSEAEVT 113
+ +E NGS+D P + + + + + + E+S + S E
Sbjct: 552 EKVGPKQAEDAAKSITNGSDDGAQPSTSTAQEQDDVLIVDSDEEDSSNNADVSEEER--- 608
Query: 114 PMKNGNKRGLSSKSGQPTKKPKLTAPSTPS 143
KR L K K+ ++
Sbjct: 609 ----SRKRKLDEKENLSAKRSRIEQKEELD 634
>1gjy_A Sorcin, CP-22, V19; calcium binding, calcium-binding,
phosphorylation; 2.2A {Chinese hamster} SCOP: a.39.1.8
Length = 167
Score = 29.3 bits (66), Expect = 2.0
Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 4/43 (9%)
Query: 499 LRQLFIHKFASLVKSGEKVDVEELQKALESVKSFESQTKKDLE 541
L F A + G+ +D +ELQ+ L +LE
Sbjct: 4 LYGYF-ASVAG--QDGQ-IDADELQRCLTQSGIAGGYKPFNLE 42
>2qeb_A D7R4 protein; all-helical, odorant-binding protein, ligand binding
protein; 2.00A {Anopheles gambiae} PDB: 2pql_A 2qeh_A*
2qeo_A* 2qev_A
Length = 145
Score = 28.5 bits (63), Expect = 3.4
Identities = 9/39 (23%), Positives = 16/39 (41%)
Query: 283 SELLKYFENAFDHKEASSAGNIIPKAGVDKEYDEVMDEI 321
S + F+ FD E AG + E+ ++M +
Sbjct: 101 STTGRTFKKVFDLMELKKAGKVPQHQRYTAEFVQIMKDY 139
>3vbh_A EV71, genome polyprotein, capsid protein VP1; hand-foot-and-mouth
disease, enterovirus uncoating, P factor,
adaptor-sensor; HET: SPH; 2.30A {Human enterovirus 71}
PDB: 3vbf_A* 3vbo_A 3vbs_A* 4aed_A* 3vbr_A 3vbu_A
Length = 297
Score = 29.4 bits (65), Expect = 3.5
Identities = 12/65 (18%), Positives = 20/65 (30%), Gaps = 3/65 (4%)
Query: 94 EELEESVEDPTPSSSEA---EVTPMKNGNKRGLSSKSGQPTKKPKLTAPSTPSTPSFPVS 150
+ + + +E S P G +SS K P L A ++ +
Sbjct: 2 DRVADVIESSIGDSVSRALTHALPAPTGQNTQVSSHRLDTGKVPALQAAEIGASSNASDE 61
Query: 151 DTSET 155
ET
Sbjct: 62 SMIET 66
>3oc3_A Helicase MOT1, MOT1; regulation of transcription, hydrolase-transc
complex; HET: MES; 3.10A {Encephalitozoon cuniculi}
Length = 800
Score = 29.1 bits (64), Expect = 4.8
Identities = 14/102 (13%), Positives = 28/102 (27%)
Query: 3 LDSKESPEKKGDSESSTPASSKGKKTSKSPAKSEDDSPVTKRPRRKSAKRVKSAIQSDSE 62
L S K S S + + +P + +R K K +
Sbjct: 86 LRSLMFQFKLVTDFKIEYKESSSIYLSSTGEQFNVQAPSIQEQKRMVRKIAKLEHVEANF 145
Query: 63 PDDMLQDNGSEDEYVPPKAEVESESEHSSGEEELEESVEDPT 104
D+ GS + K + E++ +++
Sbjct: 146 LSDIDFKAGSGEAIKRHKVDERPIENVLDFFEQISDNLLSYE 187
>1k94_A Grancalcin; penta-EF-hand protein, calcium binding protein, metal
binding protein; 1.70A {Homo sapiens} SCOP: a.39.1.8
PDB: 1k95_A 1f4q_A 1f4o_A
Length = 165
Score = 28.1 bits (63), Expect = 4.8
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 498 NLRQLFIHKFASLVKSGEKVDVEELQKALESVKSFESQTKKDLE 541
++ F A + GE VD EELQ+ L + + LE
Sbjct: 1 SVYTYF-SAVAG--QDGE-VDAEELQRCLTQSGINGTYSPFSLE 40
>2i7a_A Calpain 13; calcium-dependent cytoplasmic cysteine proteinases,
like, EF-hand, structural genomics, structural genomics
CON SGC, hydrolase; 1.80A {Homo sapiens}
Length = 174
Score = 28.4 bits (63), Expect = 5.1
Identities = 6/37 (16%), Positives = 12/37 (32%), Gaps = 4/37 (10%)
Query: 493 MEARHNLRQLFIHKFASLVKSGEKVDVEELQKALESV 529
M + H+ + + +D +LQ L
Sbjct: 1 MGSSHHHHHHS-SGLVP--RGSD-IDATQLQGLLNQE 33
>3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 352
Score = 28.7 bits (64), Expect = 5.3
Identities = 14/112 (12%), Positives = 27/112 (24%), Gaps = 4/112 (3%)
Query: 15 SESSTPASSKGKKTSKSPAKSEDDSPVTKRPRR----KSAKRVKSAIQSDSEPDDMLQDN 70
S S ASS + ++ + +R + +
Sbjct: 8 SLSLCYASSSFQYQQDPSFQTHFKPLLLNSSLCRLTLNQRERSCLKWVDFTSQKQSPKSV 67
Query: 71 GSEDEYVPPKAEVESESEHSSGEEELEESVEDPTPSSSEAEVTPMKNGNKRG 122
++ E GE ++ PT P+K+ R
Sbjct: 68 SFRVLAAVAAEAEVADMEEEEGESGGVATLPSPTKPKKGKAALPLKSDRTRS 119
>3ln6_A Glutathione biosynthesis bifunctional protein GSH; gamma-glutamyl
cysteine ligase domain, ATP-grAsp domain, HYB enzyme;
2.95A {Streptococcus agalactiae serogroup V}
Length = 750
Score = 29.1 bits (65), Expect = 5.6
Identities = 9/44 (20%), Positives = 14/44 (31%), Gaps = 1/44 (2%)
Query: 41 VTKRPRRKSAKR-VKSAIQSDSEPDDMLQDNGSEDEYVPPKAEV 83
+ P R R I+ ML+ G +PP+
Sbjct: 608 KNQNPLRGYDHRSPLEVIELGEVEQLMLEQQGYTVNSIPPEGTK 651
>2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T*
1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 3pio_S*
3pip_S* 1nkw_T 1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z
1pnu_T 1pny_T 1vor_W ...
Length = 237
Score = 27.8 bits (62), Expect = 8.6
Identities = 7/59 (11%), Positives = 17/59 (28%), Gaps = 1/59 (1%)
Query: 77 VPPKAEVESESEHSSGEEELEESVEDPTPSSSEAEVTPMKNGNKRGLSSKSGQPTKKPK 135
+PP+ E + V S AE + + + +++ +
Sbjct: 172 LPPRLTAEELEAEVQAAQV-AGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTD 229
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.311 0.128 0.375
Gapped
Lambda K H
0.267 0.0487 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,550,770
Number of extensions: 504798
Number of successful extensions: 1101
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1083
Number of HSP's successfully gapped: 50
Length of query: 577
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 478
Effective length of database: 3,937,614
Effective search space: 1882179492
Effective search space used: 1882179492
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 60 (27.5 bits)