RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 000431
(1515 letters)
>1pu6_A 3-methyladenine DNA glycosylase; helix-hairpin-helix, base excision
repair, hydrolase; HET: KCX; 1.64A {Helicobacter pylori}
SCOP: a.96.1.5 PDB: 1pu7_A* 1pu8_A*
Length = 218
Score = 99.4 bits (248), Expect = 2e-23
Identities = 30/189 (15%), Positives = 69/189 (36%), Gaps = 16/189 (8%)
Query: 970 SDNTVQQDWDLLRRIYSTGEERSHDKMDSVDWEAVRCADESEIADAIKERGQQNIIAGRI 1029
V + + L+ + + D ++ + + + S++A+ ++ G N A R+
Sbjct: 44 KFEAVLKSLENLKNAFILEND------DEINLKKIAYIEFSKLAECVRPSGFYNQKAKRL 97
Query: 1030 KEFLNRLVELHGSIDLEWLRNVPPDKVKEYLLDIEGLGLKSVECVRLLSLQHIAFPVDVN 1089
+ +++ S N + +E+LLD +G+G +S + + + VD
Sbjct: 98 IDLSGNILKDFQS-----FENFKQEVTREWLLDQKGIGKESADAILCYACAKEVMVVDKY 152
Query: 1090 VGRIAVRLGWVPLQPLPGDLHIHLLKEYPVMDKIQMYLWPRLCYLDQKTLY-ELHYQMIT 1148
+LG +L K + + L + LY H +++
Sbjct: 153 SYLFLKKLGIEI--EDYDELQHFFEKGVQ--ENLNSALALYENTISLAQLYARFHGKIVE 208
Query: 1149 FGKIFCKKR 1157
F K + +
Sbjct: 209 FSKQKLELK 217
Score = 30.1 bits (68), Expect = 4.0
Identities = 8/38 (21%), Positives = 16/38 (42%)
Query: 629 VVGVYLTQNVSDNLSSSAYMSLAARFPLKSTNDHTPSD 666
++G LTQN + +L F L++ ++
Sbjct: 34 LLGAVLTQNTKFEAVLKSLENLKNAFILENDDEINLKK 71
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster,
iron-sulfur cluster, hydrolase/DNA complex; HET: PED;
1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1
PDB: 1orp_A* 1p59_A*
Length = 226
Score = 64.5 bits (158), Expect = 2e-11
Identities = 39/172 (22%), Positives = 69/172 (40%), Gaps = 26/172 (15%)
Query: 1002 EAVRCADESEIADAIKERGQQNIIAGRIKEFLNRLVELHGSIDLEWLRNVPPDKVKEYLL 1061
E+ I+ G A I++ L++ + VP D+ + L+
Sbjct: 66 HDYIAVPLEELEQDIRSIGLYRNKARNIQKLCAMLIDKYNG-------EVPRDR--DELM 116
Query: 1062 DIEGLGLKSVECVRLLSLQHIAFPVDVNVGRIAVRLGWVPLQPLPGDLHIHLLKEYPVMD 1121
+ G+G K+ V ++ A VD +V R++ RLG+ ++ L+K P
Sbjct: 117 KLPGVGRKTANVVVSVAFGVPAIAVDTHVERVSKRLGFCRWDDSVLEVEKTLMKIIP--- 173
Query: 1122 KIQMYLWPRLCYLDQKTLYELHYQMITFGKIFCKKRSPNCGACPLRGECKHF 1173
++ H++MI FG+ CK +SP C +CPL C+
Sbjct: 174 --------------KEEWSITHHRMIFFGRYHCKAQSPQCPSCPLLHLCREG 211
>3fhg_A Mjogg, N-glycosylase/DNA lyase, DNA-(apurinic; helix-hairpin-helix,
8-oxoguanine, 8-OXOG, DNA damage, DNA repair,
glycosidase, hydrolase; 1.90A {Sulfolobus solfataricus}
Length = 207
Score = 62.7 bits (152), Expect = 6e-11
Identities = 21/134 (15%), Positives = 48/134 (35%), Gaps = 7/134 (5%)
Query: 1001 WEAVRCADESEIADAIKERGQQ--NIIAGRIKEFLNRLVELHGSIDLEWLRNVPPDKVKE 1058
+ + A+E EI + +K + N+ A I ++ +++ L + +E
Sbjct: 59 GQKIYYANEEEIRNILKSCKYRFYNLKAKYIIMAREKVYGRLKE-EIKPLADEDQQLARE 117
Query: 1059 YLLDIEGLGLKSVECVRLLSLQHIAFPVDVNVGRIAVRLGWVPLQPLPGDLHIHLLKEYP 1118
LL+I+G+G++ +D ++ R+G + + Y
Sbjct: 118 RLLNIKGIGMQEASHFLRNVGYFDLAIIDRHIIDFMRRIGAIGETNVK----QLSKSLYI 173
Query: 1119 VMDKIQMYLWPRLC 1132
+ I + L
Sbjct: 174 SFENILKSIASNLN 187
>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 = 66.2 bits (161), Expect = 8e-11
Identities = 101/607 (16%), Positives = 178/607 (29%), Gaps = 204/607 (33%)
Query: 535 SSEHGALVPH-------QIKEKRKKLKPEVVLDPGTLRMWNLIMNIDDGTTKDQTSNEDM 587
S EH LVP Q++E+ K+ PE +G D
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEP----------------TEGFAADDEPTTPA 58
Query: 588 EKWWQKEREVFEGRIQSFTARMHLILGDRRFKPWKGSVVDSVVGVYLTQNVSDNLSSSAY 647
E G+ + + +P K D V+ + LT+ + L +
Sbjct: 59 ELV---------GKFLGYVSS--------LVEPSKVGQFDQVLNLCLTEFENCYLEGNDI 101
Query: 648 MSLAARFPLKSTNDHTPSDENLRT-----TASLEPIGSNSTS--NGAVYDSE-------- 692
+LAA+ ++ + E ++ + P S S AV +
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG 161
Query: 693 --GNM--YFVTEPEPDRCCELKDRDDAFDSRIQ------RKALQENGDIKVMTDAVPSQA 742
GN YF + EL+D + + + L E + + V +Q
Sbjct: 162 GQGNTDDYF------E---ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG 212
Query: 743 FDTSSVQS-LDRTQLFPTGNSKADVASSTKTSNAESF----ITQFSH---TGNLKKNSVN 794
+ + L+ P K + S S + Q +H T L +
Sbjct: 213 LN---ILEWLENPSNTP---DKDYLLSI-----PISCPLIGVIQLAHYVVTAKLLGFTPG 261
Query: 795 QLFP-----TVNSKADVA------SPSQNHITQSSVTQ----FWPTGNSTADVASPSKTC 839
+L T +S+ V + S S F+ G A P+ T
Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFF-IG-VRCYEAYPN-TS 318
Query: 840 IKESSIAASTEI------PQLENTALLQDKVDGILFCDECLDGYTKPTRIDNGNQASTSG 893
+ S + S E P L + L Q++V ++ N
Sbjct: 319 LPPSILEDSLENNEGVPSPMLSISNLTQEQVQ---------------DYVNKTNS----- 358
Query: 894 RNDLKSDFRSISSSDFNDP--FEISVLPSNRESFRTGMPQAHDATTTS---KKSPRGKGK 948
L + + + S N V+ +G PQ+ + K+P G +
Sbjct: 359 --HLPAG-KQVEISLVNGAKNL---VV--------SGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 949 SKEYKSDMKNDRTKK----TTP-----KKNSDNTVQQD-------W---DLLRRIYST-- 987
S+ S+ K + + +P + + + +D + D+ +Y T
Sbjct: 405 SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD 464
Query: 988 GEE-RSHDKM-----------DSVDWEAVRCADESEIAD--------------AIKE-RG 1020
G + R V WE + I D K+ G
Sbjct: 465 GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTG 524
Query: 1021 QQNIIAG 1027
+ I+AG
Sbjct: 525 VRVIVAG 531
Score = 62.0 bits (150), Expect = 1e-09
Identities = 67/350 (19%), Positives = 111/350 (31%), Gaps = 105/350 (30%)
Query: 297 FP------LASYLTGVPRKKRKHPLELENF--GL--MDQAI---------DSQKNLQEPG 337
P LA Y+ + P EL ++ G Q + DS ++
Sbjct: 238 CPLIGVIQLAHYVV-TAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSV 296
Query: 338 ---------LGL--QEGFQEPRIGESPHFQEQKIDSLAPFPGQSS------ELSIGAVEP 380
+G+ E + P P E DSL G S L+ V+
Sbjct: 297 RKAITVLFFIGVRCYEAY--PNTSLPPSILE---DSLENNEGVPSPMLSISNLTQEQVQD 351
Query: 381 FLDQSNSSLEFFPRQAQA----INSQAEFLKEQVMYRLDQLRKQINGPSSQLQEQNRVIQ 436
+++++NS L P Q +N V ++GP L N +
Sbjct: 352 YVNKTNSHL---PAGKQVEISLVNGAKNL----V----------VSGPPQSLYGLNLTL- 393
Query: 437 RKSWNPKGLWFTAKSRGSQKIIQVERNGLPTQKMPPRYSRGLQVDMEQQLMQSTTADIIR 496
RK+ P GL ++ S++ ++ LP P +S L+ + I +
Sbjct: 394 RKAKAPSGL-DQSRIPFSERKLKFSNRFLPV--ASPFHS---------HLLVPASDLINK 441
Query: 497 KFKDLTIRDGGSQL--PLQCNKADGPSNVHNAVVPYQVGPSSEHGALVPHQIK------E 548
+ + P+ DG S++ +V S +V I E
Sbjct: 442 DLVKNNVSFNAKDIQIPVYDTF-DG-SDL-------RVLSGSISERIVD-CIIRLPVKWE 491
Query: 549 KRKKLKPEVVLD--PGTL-RMWNLIMNIDDGT--------TKDQTSNEDM 587
+ K +LD PG + L DGT T D ++D
Sbjct: 492 TTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDY 541
Score = 48.5 bits (115), Expect = 2e-05
Identities = 108/704 (15%), Positives = 185/704 (26%), Gaps = 290/704 (41%)
Query: 874 LDGY-TKPTRIDNGNQASTSGRNDLKSDFRSISSSDFNDPFEISVLPSNRESFRTGMPQ- 931
+D Y T+P + +G+ L+ + ++ F F S L +E F +P+
Sbjct: 1 MDAYSTRPLTLSHGS---------LEHVL-LVPTASF---FIASQL---QEQFNKILPEP 44
Query: 932 ----AHDATTTSK-----------KSPRGKGKSKEYKSDMK-------------ND-RTK 962
A D T+ S K ++ + ND
Sbjct: 45 TEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHAL 104
Query: 963 KTTPKKNSDNTVQQDWDLLRRIYSTGEERSHDKMDSVDWEAVRCADESEIADAIKERGQQ 1022
+ +D T+ + +L++ Y T + D S + A+ E G
Sbjct: 105 AAKLLQENDTTLVKTKELIK-NYITARIMAKRPFDK--------KSNSALFRAVGE-GNA 154
Query: 1023 NIIA-----GRIKEFLNRLVELHGSIDLEWLRNVPPDKVKEYLLDIEGLGLKSVECVRLL 1077
++A G ++ L +L+ V + L+ L E +R
Sbjct: 155 QLVAIFGGQGNTDDYFEELRDLY---------QTYHVLVGD-LIKFSAETLS--ELIRTT 202
Query: 1078 SLQHIAFPVDVNVGRIAVRLGWV--PLQPLPGDLHIHLLKEYPVMDKIQMYLWPRLCYLD 1135
F +N+ L W+ P P + L P+ P +
Sbjct: 203 LDAEKVFTQGLNI------LEWLENP-SNTPDKDY---LLSIPIS-------CPLIG--- 242
Query: 1136 QKTLYEL-HYQMITFGKIFCKKRSPNCGACPLRGE-CKHFASAVASARFALPGPSEKGIV 1193
+ +L HY + K G P GE + A + +G+V
Sbjct: 243 ---VIQLAHYV------VTAK----LLGFTP--GELRSYLKGATGHS---------QGLV 278
Query: 1194 TSEFGNGIGQSPPLVVNPIPVIRIEADPVSESGYQINNCEPIIEEPRSPGPQCSESPESE 1253
T A ++E+ S ES
Sbjct: 279 T------------------------AVAIAETD----------------------SWESF 292
Query: 1254 IDDDD------FSIGDIEEIPTLRLQEREFKENFPNFMEMNKVMLQDS--------SALV 1299
F IG +R E +PN + +L+DS S ++
Sbjct: 293 FVSVRKAITVLFFIG-------VRCYEA-----YPN-TSLPPSILEDSLENNEGVPSPML 339
Query: 1300 ALT-AEAASVPTRKLKRCAHLRTEHHVYV-L---PDAH------ELLRG----------- 1337
+++ V K +HL V + L + L G
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP 399
Query: 1338 ---------FDRRDPD-----DP------SPYL--------LAIWSPGES--PNSVGSPQ 1367
F R P S L + S + P
Sbjct: 400 SGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPV 459
Query: 1368 YRCNSKDSKLCNSEICYSCNSVCERNAGIVRGTILIPCRTANRGRFPLNGTYFQVN-EVF 1426
Y ++ D S++ S+ ER ++ C R P V E
Sbjct: 460 Y--DTFD----GSDLRVLSGSISER---------IVDCII----RLP-------VKWETT 493
Query: 1427 ADHETSHHPINVPRHTIANLRREIVCFGSSATTLFNALDMRQIQ 1470
+ +H I+ FG + L R
Sbjct: 494 TQFKATH----------------ILDFGPGGASGLGVLTHRNKD 521
Score = 45.4 bits (107), Expect = 2e-04
Identities = 16/94 (17%), Positives = 40/94 (42%), Gaps = 24/94 (25%)
Query: 991 RSHDKMDSVDWEAVR--CADES--EIADAIKER-------------GQQNIIAGRIKEFL 1033
RS+ M +++ V + E+ + + + +R QQ + AG ++ L
Sbjct: 1804 RSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRA-L 1862
Query: 1034 NRLVEL-----HGSIDLEWLR-NVPPDKVKEYLL 1061
+ + + ID+ L+ ++ ++V+ +L
Sbjct: 1863 DTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHLF 1896
Score = 43.1 bits (101), Expect = 9e-04
Identities = 97/595 (16%), Positives = 161/595 (27%), Gaps = 234/595 (39%)
Query: 193 RCNLTVLTAI-PLCSQLPKLPSKQAFPGEKATPICSQPPKLPRKQAAAIEKNEAEVIYEP 251
L V TA + SQL ++ F P P + AA + EP
Sbjct: 17 EHVLLVPTASFFIASQL-----QEQF-------NKILPE--PTEGFAADD--------EP 54
Query: 252 EASKDML------LTDNLEKNVAGRTIE--PSVVVDLE---LQGNKSEGSPFKYED---F 297
+++ ++ +E + G+ + + + E L+GN D
Sbjct: 55 TTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGN----------DIHAL 104
Query: 298 PLASYLTGVPRKKRKHPLELENFGLMDQAIDSQKNLQEPGLGLQEGFQEPRIGESPHFQ- 356
A L K ++N+ I ++ + P + S F+
Sbjct: 105 -AAKLLQENDTTLVKTKELIKNY------ITARIMAKRP---------FDKKSNSALFRA 148
Query: 357 --EQKIDSLAPFPGQSS------ELSI------GAVEPFLDQSNSSLEFFPRQAQAINSQ 402
E +A F GQ + EL V + S +L R
Sbjct: 149 VGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT----LD 204
Query: 403 AEFLKEQVMYRLDQLRKQINGPSSQ------------------LQEQNRVIQRKS--WNP 442
AE + Q + + + + PS+ +Q + V+ K + P
Sbjct: 205 AEKVFTQGL----NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTP 260
Query: 443 KGL--WFTAKSRGSQKII------------QVERN-----------GLPTQKMPPRYSRG 477
L + + SQ ++ + G+ + P S
Sbjct: 261 GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS-- 318
Query: 478 LQVDMEQQLMQSTTADIIRKFKD-----LTIRDGGSQLPLQ-----CNKADGPSNVH--- 524
L S D + + L+I +Q +Q N P+
Sbjct: 319 --------LPPSILEDSLENNEGVPSPMLSIS-NLTQEQVQDYVNKTNS-HLPAGKQVEI 368
Query: 525 -------NAVV--PYQVGPSSEHGALVPHQIKEKRKKLKPEVVLDPGTLRMWNLIMNIDD 575
N VV P P S +G L RK P
Sbjct: 369 SLVNGAKNLVVSGP----PQSLYG-LNLT----LRKAKAP-------------------- 399
Query: 576 GTTKDQTSNEDMEKWWQKEREVFEGRIQSFTAR----------------MHLILGDRRFK 619
+ DQ+ R F R F+ R LI D
Sbjct: 400 -SGLDQS------------RIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKN 446
Query: 620 --PWKGSVVDSVVGVYLTQNVSD--NLSSSAYMSLA---ARFPL--KSTNDHTPS 665
+ D + VY T + SD LS S + R P+ ++T +
Sbjct: 447 NVSFNAK--DIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKAT 499
Score = 41.2 bits (96), Expect = 0.003
Identities = 42/232 (18%), Positives = 71/232 (30%), Gaps = 71/232 (30%)
Query: 1197 FGNGIGQSPPLVV--NPIPVIRIEADPVSESGYQIN-NCEPIIEEPRSPGPQCSESPESE 1253
F + G S +V NP+ + E G +I N +I E G +E E
Sbjct: 1653 FKDTYGFSILDIVINNPV---NLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKE 1709
Query: 1254 IDDDDFSI---GDIEEI-------PTLRLQE----REFKENFPNFMEMNKVMLQDS---- 1295
I++ S + + P L L E + K + + S
Sbjct: 1710 INEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKG--LIPADATFAGHSLGEY 1767
Query: 1296 SALVALTAEAASVPTRKLKRCAHLRTEHHVYVLP--DAHELL--RG-----FDRRDPDDP 1346
+AL +L A+ V+ E++ RG RD
Sbjct: 1768 AALASL-AD----------------------VMSIESLVEVVFYRGMTMQVAVPRDELGR 1804
Query: 1347 SPY-LLAIWSPGESPNSVGSPQYRCNSKDSKLCNSEICYSCNSVCERNAGIV 1397
S Y ++AI +P V + + + + + + E IV
Sbjct: 1805 SNYGMIAI-----NPGRVAA---SFSQEALQYVVERVGKRTGWLVE----IV 1844
>3i0w_A 8-oxoguanine-DNA-glycosylase; OGG, cacogg, DNA, 8-OXOG, 8OXOG,
glycosylase, cytosine, hydrolase,lyase/DNA complex; HET:
8OG; 1.73A {Clostridium acetobutylicum} PDB: 3i0x_A*
3f10_A* 3f0z_A
Length = 290
Score = 61.1 bits (148), Expect = 6e-10
Identities = 25/135 (18%), Positives = 56/135 (41%), Gaps = 9/135 (6%)
Query: 969 NSDNTVQQDWDLLRRIY-STGEERSHDKMDSVDWEAVRCADESEIADAIKERGQQNIIAG 1027
N +++ + + E + + + E + + A
Sbjct: 128 NRIPMIKKCINNISEKAGKKLEYKGKIYYAFPTVDKLHEFTEKDFEEC-----TAGFRAK 182
Query: 1028 RIKEFLNRLVELHGSIDLEWLRNVPPDKVKEYLLDIEGLGLKSVECVRLLSLQHI-AFPV 1086
+K+ ++R+ G ++LE+++++ ++ E L G+G + +C+ L S+Q AFPV
Sbjct: 183 YLKDTVDRIYN--GELNLEYIKSLNDNECHEELKKFMGVGPQVADCIMLFSMQKYSAFPV 240
Query: 1087 DVNVGRIAVRLGWVP 1101
D V + + L P
Sbjct: 241 DTWVKKAMMSLYVAP 255
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia
coli} SCOP: a.96.1.1
Length = 211
Score = 59.8 bits (146), Expect = 6e-10
Identities = 33/171 (19%), Positives = 55/171 (32%), Gaps = 35/171 (20%)
Query: 1007 ADESEIADAIKERGQQNIIAGRIKEFLNRLVELHGSIDLEWLRNVPPDKVKEYLLDIEGL 1066
+ IK G N A I + L+E H VP D+ L + G+
Sbjct: 67 LGVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNG-------EVPEDR--AALEALPGV 117
Query: 1067 GLKSVECVRLLSLQHIAFPVDVNVGRIAVRLGWV----PLQPLPGDLHIHLLKEYPVMDK 1122
G K+ V + VD ++ R+ R + Q E ++
Sbjct: 118 GRKTANVVLNTAFGWPTIAVDTHIFRVCNRTQFAPGKNVEQ-----------VEEKLLKV 166
Query: 1123 IQMYLWPRLCYLDQKTLYELHYQMITFGKIFCKKRSPNCGACPLRGECKHF 1173
+ H+ +I G+ C R P CG+C + C++
Sbjct: 167 VPAEFKVD-----------CHHWLILHGRYTCIARKPRCGSCIIEDLCEYK 206
>2xhi_A N-glycosylase/DNA lyase; lyase-DNA complex, lyase/DNA complex,
separation-OF-function helix-hairpin-helix, DNA repair;
HET: 8OG; 1.55A {Homo sapiens} PDB: 1ko9_A 1lwy_A*
1hu0_A* 1lwv_A* 1lww_A* 2noe_A* 2noh_A* 2nol_A* 1n3c_A*
1fn7_A* 2noz_A* 1yqk_A 1yqr_A* 1yql_A* 1yqm_A* 2noi_A
1ebm_A* 1m3q_A* 1m3h_A* 1n39_A* ...
Length = 360
Score = 60.5 bits (146), Expect = 2e-09
Identities = 28/174 (16%), Positives = 58/174 (33%), Gaps = 18/174 (10%)
Query: 969 NSDNTVQQDWDLLRRIYSTGEERSHDKM--DSVDWEAVRCADESEIADAIKERGQQNIIA 1026
N+ + + L + + + D +A+ + + + A
Sbjct: 165 NNIARITGMVERLCQAFGPRLIQLDDVTYHGFPSLQALAGPEVEAHLRKLGLGYR----A 220
Query: 1027 GRIKEFLNRLVELHGSI-DLEWLRNVPPDKVKEYLLDIEGLGLKSVECVRLLSLQHI-AF 1084
+ ++E G + L+ LR ++ + L + G+G + + L++L A
Sbjct: 221 RYVSASARAILEEQGGLAWLQQLRESSYEEAHKALCILPGVGTCVADKICLMALDKPQAV 280
Query: 1085 PVDVNVGRIAVRL-GWVPLQPLPGDLHIHLLKEYPVMDKI---------QMYLW 1128
PV+V++ IA R W P KE + Q L+
Sbjct: 281 PVNVHMWHIAQRDYSWHPTTSQAKGPSPQTNKELGNFFRSLWGPYAGWAQAVLF 334
>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 = 61.0 bits (147), Expect = 3e-09
Identities = 81/527 (15%), Positives = 161/527 (30%), Gaps = 126/527 (23%)
Query: 479 QVDMEQQLMQSTTADIIRKFKDLTIRDGGSQLPLQCNK-ADGPSNV-HNAVVPYQVGPSS 536
+D E Q DI+ F+D + + C D P ++ +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDN------FDCKDVQDMPKSILSKEEI-------- 51
Query: 537 EHGALVPHQIKEKRK-----KLKPEVVLD---PGTLRM-WNLIMNIDDGTTKDQTSNEDM 587
+H + + + K E ++ LR+ + +M+ + + M
Sbjct: 52 DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM 111
Query: 588 EKWWQKEREVFEGRIQSFT----ARMHLILGDRR----FKPWKGSVVDSVVGV---YLTQ 636
+ ++R+ Q F +R+ L R+ +P K ++D V+G ++
Sbjct: 112 ---YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVAL 168
Query: 637 NVSDNLSSSAYMSLAARFP-----LKSTNDHTPSD-----ENL--RTTASLEPIGSNSTS 684
+V + + + L N ++P + L + + +S++
Sbjct: 169 DVCLSY------KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222
Query: 685 NGAVYDS---EGNMYFVTEPEPDRCCELKDRDD--------AFDSRIQRKALQENGDIKV 733
S E ++P C L + AF+ + K L +V
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYE-NC--LLVLLNVQNAKAWNAFN--LSCKILLTTRFKQV 277
Query: 734 MTDAVPSQAFDTSSVQSLDRT-------QLFP--TGNSKADVASSTKTSN-------AES 777
TD + + S+ T L D+ T+N AES
Sbjct: 278 -TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAES 336
Query: 778 FITQFSHTGNLKKNSVNQLFPTVNSKADVASPSQN--------------HITQSSVTQFW 823
+ N K + ++L + S +V P++ HI ++ W
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW 396
Query: 824 PTGNSTADVASPSKTCIKESSIA-----ASTEIP--QLENTALLQDKVD---GILFCDEC 873
+DV K S + ++ IP LE L+++ I+
Sbjct: 397 -FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455
Query: 874 LDGYTK----PTRIDN------GNQASTSGRNDLKSDFRSISSSDFN 910
+ P +D G+ + + FR + DF
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV-FLDFR 501
Score = 56.4 bits (135), Expect = 7e-08
Identities = 80/535 (14%), Positives = 155/535 (28%), Gaps = 142/535 (26%)
Query: 688 VYDSEGNMYFVTEPEPDRCCELKDRDDA----FDSRIQRKALQENGDIKVMTDAV-PSQA 742
V D ++ +++ E D KD F + + K QE K + + + +
Sbjct: 38 VQDMPKSI--LSKEEIDHIIMSKDAVSGTLRLFWT-LLSK--QEEMVQKFVEEVLRINYK 92
Query: 743 FDTSSVQSLDRTQLFPTGNSKADVASSTKTSNAESFITQFSHTGNLKKNSVNQLFPTVNS 802
F S +++ R P+ + +I Q N NQ+F
Sbjct: 93 FLMSPIKTEQRQ---PSMMT-------------RMYIEQRDRLYN-----DNQVFA---- 127
Query: 803 KADVASPSQNHITQSSVTQFWPTGNSTAD-VASPSKTCIKESSIAASTEIPQLENTALLQ 861
K +V+ + ++ + P N D V KT + A + +
Sbjct: 128 KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV-----ALDV----CLSYKVQC 178
Query: 862 DKVDGILFCDECLDGYTKPTRIDNGNQASTSGRNDLKSDFRSISSSDFNDPFEISV-LPS 920
I + ++ N S ++ ++ + S +
Sbjct: 179 KMDFKIFW-------------LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL 225
Query: 921 NRESFRTGMPQAHDATTTSKKSPRGKGKSKEYKS------DMKNDRTKK----------T 964
S + R KSK Y++ +++N + T
Sbjct: 226 RIHSI--------------QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT 271
Query: 965 TPKKNSDNTVQQDWDLLRRIYSTGEERS----HDKMDSV--DWEAVRCADESEIADAIKE 1018
T V + + + S D++ S+ + R D
Sbjct: 272 T----RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP 327
Query: 1019 RGQQNIIAGRIKEFLNR--------LVELHGSIDLEWLRNVPPDKVKEYLLDIEGLGLKS 1070
R + +IIA I++ L +L I+ L + P + ++
Sbjct: 328 R-RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS-LNVLEPAEYRKMFDR-------- 377
Query: 1071 VECVRLLSLQHIAFPVDVNVGRIAVRLGWVPLQP-LPGDL--HIH---LLKEYPVMDKIQ 1124
LS+ FP ++ I + L W + + +H L+++ P I
Sbjct: 378 ------LSV----FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS 427
Query: 1125 MYLWPRLCYLDQKT----LYELHYQMITFGKIFCKKRSPNCGACPLRG-ECKHFA 1174
+ YL+ K Y LH ++ I S + L H
Sbjct: 428 IP----SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG 478
Score = 54.5 bits (130), Expect = 3e-07
Identities = 82/656 (12%), Positives = 171/656 (26%), Gaps = 198/656 (30%)
Query: 59 MDESVSKRRKCGRGNRQSNSDAIILLPPPPIKT--CRQALNFDLENQSRDDKAIIIAIP- 115
MD + + D + + + C+ + S+++ II
Sbjct: 7 MDFETGEHQYQ-------YKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD 59
Query: 116 -ECGVQALDECAFTKATEHGVQVVDECVDAREQRENN------KTRSNRRSRRRRR---- 164
G L F ++V + V+ + KT + S R
Sbjct: 60 AVSGTLRL----FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115
Query: 165 LNILFMRNLPVGQGQYPRRK--RRLRRATRR--------------CNLTVLTAIPLCSQL 208
+ L+ N + R + +LR+A T + A+ +C
Sbjct: 116 RDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV-ALDVCLSY 174
Query: 209 PKLPSKQAFPGEKATPICSQPPKLPRKQAAAIEKNEAEVIY--------EPEASKDML-- 258
+ + I+ PE +ML
Sbjct: 175 KV---QCKMDFK---------------------------IFWLNLKNCNSPETVLEMLQK 204
Query: 259 LTDNLEKNVAGRTIEPSVVVDLELQGNKSEGSP-FKYEDFPLASYLT--GVPRKKRKHPL 315
L ++ N R + S + L + ++E K + + L V ++
Sbjct: 205 LLYQIDPNWTSR-SDHSSNIKLRIHSIQAELRRLLKSKPYE-NCLLVLLNV-----QNAK 257
Query: 316 ELENF-------------GLMDQAIDSQKNLQEPGLGLQEGFQEPRIGESPHFQEQKIDS 362
F + D + +
Sbjct: 258 AWNAFNLSCKILLTTRFKQVTD-FLSAATTTHISLDHHSMTLTPD--------------- 301
Query: 363 LAPFPGQSSELSIGAVEPFLDQSNSSLEFFPRQAQAINSQ-----AEFLKEQV------- 410
+ L + +LD L PR+ N + AE +++ +
Sbjct: 302 ------EVKSL----LLKYLDCRPQDL---PREVLTTNPRRLSIIAESIRDGLATWDNWK 348
Query: 411 MYRLDQLRKQINGPSSQLQEQNRVIQRKSWN-----PKGLWFTAKSRGSQKIIQVERNGL 465
D+L I S L RK ++ P ++ + +
Sbjct: 349 HVNCDKLTTII---ESSLNVLEPAEYRKMFDRLSVFPPSAHIPT------ILLSLIWFDV 399
Query: 466 PTQKMPPRYSRGLQVDMEQQLMQSTTADIIRKFKDLTIRDGGSQLPLQCNKADGPSNVHN 525
+ + +L + + + ++ K+ TI L L+ K + +H
Sbjct: 400 IKSDVM---------VVVNKLHKYSLVE--KQPKESTISIPSIYLELKV-KLENEYALHR 447
Query: 526 AVV-PYQVGPSSEHGALVP-------------HQIK---EKRKKLKPEVVLD----PGTL 564
++V Y + + + L+P H +R L V LD +
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507
Query: 565 RMWNLIMNIDDGTTKDQTSNEDMEKWWQKEREVFEGRIQS---FTARM--HLILGD 615
R + N + + + +E + + F ++ +LI
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSK 563
>3n0u_A Probable N-glycosylase/DNA lyase; structural genomics, ISFI, DNA
repair, 8-oxoguanine, base EX repair, PSI-2, protein
structure initiative; 1.50A {Thermotoga maritima}
Length = 219
Score = 47.4 bits (112), Expect = 1e-05
Identities = 19/100 (19%), Positives = 37/100 (37%), Gaps = 7/100 (7%)
Query: 1007 ADESEIADAIKERGQQ--NIIAGRIKEFLNRLVELHGSIDLEWLRNVPPDKVKEYLLDIE 1064
E+A+ ++E G + A I E L +L + + P + + + +
Sbjct: 82 LPLEELAEKLREVGHRYPQKRAEFIVENRKLLGKLKNLVKGD-----PFQSREFLVRNAK 136
Query: 1065 GLGLKSVECVRLLSLQHIAFPVDVNVGRIAVRLGWVPLQP 1104
G+G K + +D +V R+ R G + P
Sbjct: 137 GIGWKEASHFLRNTGVEDLAILDKHVLRLMKRHGLIQEIP 176
>2jhn_A ALKA, 3-methyladenine DNA-glycosylase; DNA repair, N1-methyladenine,
N3-methylcytosine, hyperthermophiles, hydrolase; HET: MBO
MES; 1.8A {Archaeoglobus fulgidus} PDB: 2jhj_A
Length = 295
Score = 45.2 bits (107), Expect = 9e-05
Identities = 23/100 (23%), Positives = 39/100 (39%), Gaps = 12/100 (12%)
Query: 1036 LVELHGSIDLEWLRNVPPDKVKEYLLDIEGLGLKSVECVRLLSLQHIAFPV-DVNVGRIA 1094
+VE+ +LE L+ ++ EYL +G+G + E V ++L FP D+ V R
Sbjct: 188 IVEIAKEENLEELKEWGEEEAYEYLTSFKGIGRWTAELVLSIALGKNVFPADDLGVRRAV 247
Query: 1095 VRLGWVPLQPLPGDLHIHLLKE------YPVMDKIQMYLW 1128
RL + + + I YL+
Sbjct: 248 SRLYFNGEIQSAEKVREIARERFGRFARD-----ILFYLF 282
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A
{Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A
1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A* 1wef_A*
1kg7_A 1kqj_A
Length = 225
Score = 39.1 bits (92), Expect = 0.006
Identities = 12/42 (28%), Positives = 17/42 (40%), Gaps = 3/42 (7%)
Query: 1149 FGKIFCKKRSPNCGACPLRGECKHFASAVASARFALPGPSEK 1190
G + C + P C CPL+ C A+ + PG K
Sbjct: 187 LGAMICTRSKPKCSLCPLQNGCIAAANNSWA---LYPGKKPK 225
>3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices,
helix-hairpin-helix motif, iron-sulfur cluste hydrolase;
2.30A {Homo sapiens}
Length = 287
Score = 38.4 bits (90), Expect = 0.012
Identities = 8/45 (17%), Positives = 12/45 (26%), Gaps = 3/45 (6%)
Query: 1146 MITFGKIFCKKRSPNCGACPLRGECKHFASAVASARFALPGPSEK 1190
+ G C + P C CP+ C+ L
Sbjct: 204 AMELGATVCTPQRPLCSQCPVESLCRARQRVEQE---QLLASGSL 245
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA
glycosylase, transition state analog, DNA repair; HET:
NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A*
1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A*
Length = 369
Score = 38.5 bits (90), Expect = 0.015
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 1146 MITFGKIFCKKRSPNCGACPLRGECKHFASAVASARFALPGPSEK 1190
+I G + C R P+C CP++ C+ FA VA LP +K
Sbjct: 193 LIELGALVCTPRRPSCLLCPVQAYCQAFAEGVAE---ELPVKMKK 234
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase,
DNA mismatch, methylation; 2.00A {Methanothermobacter
thermautotrophicusorganism_taxid} SCOP: a.96.1.2
Length = 221
Score = 37.2 bits (87), Expect = 0.023
Identities = 8/29 (27%), Positives = 13/29 (44%)
Query: 1146 MITFGKIFCKKRSPNCGACPLRGECKHFA 1174
++ F I C R P C C + C ++
Sbjct: 189 LMDFSAIICAPRKPKCEKCGMSKLCSYYE 217
>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, struc
genomics, PSI-2, protein structure initiative, joint
center structural genomics; 2.55A {Bacillus halodurans}
Length = 233
Score = 35.8 bits (83), Expect = 0.062
Identities = 18/78 (23%), Positives = 28/78 (35%), Gaps = 5/78 (6%)
Query: 1041 GSIDLEWLRNVPPDKVKEYLLDIEGLGLKSVECVRLLSLQHI-AFPVDVNVGRIAVRLGW 1099
G +D L V E L I+G+G + E + SL + VG + ++ G
Sbjct: 121 GRLDFTELEGAEATTVIEKLTAIKGIGQWTAEMFMMFSLGRLDVLS----VGDVGLQRGA 176
Query: 1100 VPLQPLPGDLHIHLLKEY 1117
L LL +
Sbjct: 177 KWLYGNGEGDGKKLLIYH 194
>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 = 34.2 bits (77), Expect = 0.13
Identities = 7/31 (22%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 235 KQAAAIEKNEAEV-IYEPEASKDMLLTDNLE 264
KQA ++K +A + +Y +++ + + +E
Sbjct: 19 KQA--LKKLQASLKLYADDSAPALAIKATME 47
Score = 31.8 bits (71), Expect = 0.83
Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 19/49 (38%)
Query: 356 QEQKIDSLAPFPGQSSELSIGAVEPFLDQSNSSLEFFPRQAQAINSQAE 404
++Q + L Q+S L + A D + P A AI + E
Sbjct: 18 EKQALKKL-----QAS-LKLYA--D--DSA-------P--ALAIKATME 47
>2yg9_A DNA-3-methyladenine glycosidase II, putative; hydrolase, DNA repair;
1.95A {Deinococcus radiodurans} PDB: 2yg8_A
Length = 225
Score = 33.8 bits (78), Expect = 0.29
Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 1041 GSIDLEWLRNVPPDKVKEYLLDIEGLGLKSVECVRLLSLQHI-AFPVD 1087
G ID L P + V L+ + G+G + E L +L F
Sbjct: 129 GQIDFAHLSGQPDELVIAELVQLPGIGRWTAEMFLLFALARPDVFSSG 176
>3fhf_A Mjogg, N-glycosylase/DNA lyase, DNA-(apurinic; helix-hairpin-helix,
8-oxoguanine, 8-OXOG, DNA damage, DNA repair,
glycosidase; 2.00A {Methanocaldococcus jannaschii} PDB:
3knt_A*
Length = 214
Score = 33.1 bits (75), Expect = 0.52
Identities = 15/101 (14%), Positives = 29/101 (28%), Gaps = 8/101 (7%)
Query: 1007 ADESEIADAIKERGQQ--NIIAGRIKEFLNRLVELHGSIDLEWLRNVPPDKVKEYLLD-I 1063
E+ + +K G + A I E +E+L+ I
Sbjct: 76 LPREELEEKLKNLGHRFYRKRAEYIVLARRFKNIKDIVESFE-----NEKVAREFLVRNI 130
Query: 1064 EGLGLKSVECVRLLSLQHIAFPVDVNVGRIAVRLGWVPLQP 1104
+G+G K +D ++ R ++ P
Sbjct: 131 KGIGYKEASHFLRNVGYDDVAIIDRHILRELYENNYIDEIP 171
>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure
initiative, NE structural genomix research consortium,
nysgxrc; 2.35A {Pichia guilliermondii}
Length = 132
Score = 31.6 bits (71), Expect = 0.79
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 716 FDSRIQ-RKALQENGDI--KVMTDAVPSQAFDTSSVQSLDRTQLFPTGNSKADVASSTKT 772
+D+ AL ENG + V+ +P + +V+ L + +L S D+ S T
Sbjct: 69 YDNPASAVDALLENGAVFNGVLLGVIP---YTKDAVERLQKRKLT----SSEDIGSGITT 121
Query: 773 SNAES 777
+ AE
Sbjct: 122 AAAEG 126
>2crg_A Metastasis associated protein MTA3; transcription factor, helix
turn helix, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: a.4.1.3
Length = 70
Score = 28.7 bits (64), Expect = 2.1
Identities = 9/46 (19%), Positives = 19/46 (41%)
Query: 581 QTSNEDMEKWWQKEREVFEGRIQSFTARMHLILGDRRFKPWKGSVV 626
+ + ME+W E +FE ++ + + I D S++
Sbjct: 2 SSGSSGMEEWSASEACLFEEALEKYGKDFNDIRQDFLPWKSLTSII 47
>1jgt_A Beta-lactam synthetase; asparagine synthetase, clavulanic AC AMPCPP,
CEA, carboxyethylarginine, hydrolase; HET: APC CMA; 1.95A
{Streptomyces clavuligerus} SCOP: c.26.2.1 d.153.1.1 PDB:
1m1z_A 1mb9_A* 1mbz_A* 1mc1_A*
Length = 513
Score = 31.6 bits (72), Expect = 2.3
Identities = 18/84 (21%), Positives = 24/84 (28%), Gaps = 27/84 (32%)
Query: 1294 DSSALVALTAEAAS-VPT--------------RKLKRCAHLRTEHHVYVLPDA------H 1332
DSS + A AA + T R + HLRT H +P
Sbjct: 253 DSSGVAACAHRAAGELDTVSMGTDTSNEFREARAV--VDHLRTRHREITIPTTELLAQLP 310
Query: 1333 ELLRGFDRRDPD-DPSP---YLLA 1352
+ + DPD L
Sbjct: 311 YAVWASESVDPDIIEYLLPLTALY 334
>2v5o_A Cation-independent mannose-6-phosphate receptor; membrane, lysosome,
transport, beta barrel, phosphorylation, fibronec II;
HET: NAG; 2.91A {Homo sapiens} PDB: 2v5p_A* 2v5n_A*
Length = 627
Score = 31.1 bits (69), Expect = 3.0
Identities = 29/187 (15%), Positives = 52/187 (27%), Gaps = 5/187 (2%)
Query: 1227 YQINNCEPIIEEPRSPGPQCSESPESEIDDDDFSIGDIEEIPTLRLQEREFKENFPNFME 1286
+ IN C+P+ P P + + ID IG + P L E NF +
Sbjct: 183 FYINICQPLNPMHAVPCPAGAAVCKVPIDGPPIDIGRVAGPPILNPIANEIYLNFESSTP 242
Query: 1287 MNKVMLQDSSALVALT----AEAASVPTRKLKRCAHLRTEHHVYVLPDAHELLRGFDRRD 1342
+ ++L+A + + C + V PD + G D
Sbjct: 243 CLADKHFNYTSLIAFHCKRGVSMGTPKLLRTSECDFVFEWETPVVCPDEVR-MDGCTLTD 301
Query: 1343 PDDPSPYLLAIWSPGESPNSVGSPQYRCNSKDSKLCNSEICYSCNSVCERNAGIVRGTIL 1402
+ L+ S + S Y + + VC +
Sbjct: 302 EQLLYSFNLSSLSTSTFKVTRDSRTYSVGVCTFAVGPEQGGCKDGGVCLLSGTKGASFGR 361
Query: 1403 IPCRTAN 1409
+ +
Sbjct: 362 LQSMKLD 368
>3s6i_A DNA-3-methyladenine glycosylase 1; DNA glycosylase, DNA repair,
helix-hairpin-helix (HHH), ABAS tetrahydrofuran (THF);
HET: 3DR; 2.28A {Schizosaccharomyces pombe}
Length = 228
Score = 30.1 bits (68), Expect = 4.4
Identities = 21/106 (19%), Positives = 39/106 (36%), Gaps = 29/106 (27%)
Query: 1039 LHGSIDL-EWLRNVPPDKVKEYLLDIEGLGLKSVECVRLLSLQHI-AFPVDVNVGRIAVR 1096
+ G I E + +++ E L I+G+G +VE + + SL P +++R
Sbjct: 119 ISGLIPTKEEAERLSNEELIERLTQIKGIGRWTVEMLLIFSLNRDDVMP----ADDLSIR 174
Query: 1097 LGWVPLQPLPGDLHIHLLKEYPVMDKIQ--------------MYLW 1128
G+ ++H L + P + YLW
Sbjct: 175 NGY---------RYLHRLPKIPTKMYVLKHSEICAPFRTAAAWYLW 211
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 29.6 bits (66), Expect = 5.4
Identities = 8/58 (13%), Positives = 20/58 (34%), Gaps = 20/58 (34%)
Query: 855 ENTALLQDKVDGILFCDECLDGYTKPTR-IDNGNQASTSGRNDLKSDFRSISSSDFND 911
+++ +G + C C G + +D S++R+ F++
Sbjct: 30 YPPKIVERFSEGDVVCALC--GLVLSDKLVDTR------------SEWRT-----FSN 68
>1o7j_A L-asparaginase; atomic resolution, hydrolase; 1.0A {Erwinia
chrysanthemi} SCOP: c.88.1.1 PDB: 1hfj_A 1hfk_A* 1hg0_A
1hg1_A 1hfw_A* 1jsr_A* 1jsl_A 2gvn_A 1zcf_A 2hln_A*
2jk0_A
Length = 327
Score = 29.9 bits (68), Expect = 5.9
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 6/49 (12%)
Query: 500 DLTIRDG------GSQLPLQCNKADGPSNVHNAVVPYQVGPSSEHGALV 542
LT++ + P ADGP N+ AV S G +V
Sbjct: 106 HLTVKSDKPVVFVAAMRPATAISADGPMNLLEAVRVAGDKQSRGRGVMV 154
>2gnx_A Hypothetical protein; structural genomics, protein structure
initiative, PSI, center for eukaryotic structural
genomics, CESG, unknown function; 2.45A {Mus musculus}
SCOP: a.246.3.1 d.109.3.1
Length = 344
Score = 29.8 bits (66), Expect = 6.7
Identities = 27/135 (20%), Positives = 44/135 (32%), Gaps = 24/135 (17%)
Query: 580 DQTSNEDMEKWWQKEREVFEGRIQSFTARM-----HLILGDRRFKPWKGSVVDSVVGVYL 634
QT+ +M+ K G+I SF + LI +R + ++G G +
Sbjct: 178 RQTTASEMKALTAKANPDLFGKISSFIRKYDAANVSLIFDNRGSESFQGH------GYHH 231
Query: 635 TQNVSDNLSSSAYMSLAARFPLKSTNDHTPS-----DENLRTTASLEPIGSNSTSNGAVY 689
+ + P H P+ + SLE + Y
Sbjct: 232 PHSYREAPKGVDQYPAVVSLPSDRPVMHWPNVIMIMTDRASDLNSLEKVVH-------FY 284
Query: 690 DSEGN-MYFVTEPEP 703
D + YF+T PEP
Sbjct: 285 DDKVQSTYFLTRPEP 299
>3ix6_A TS, tsase, thymidylate synthase; niaid, ssgcid, seattle structural
center for infectious DISE brucellosis, orchitis,
epididymitis, mastitis; 2.20A {Brucella melitensis}
Length = 360
Score = 29.7 bits (67), Expect = 8.0
Identities = 15/92 (16%), Positives = 32/92 (34%), Gaps = 2/92 (2%)
Query: 901 FRSISSSDFNDPFEISVLPSNRESFRTGMPQAHDATTTSKKSPRGKGKSKEYKSDMKNDR 960
SS F + + L E+F + D+ R + DM+++
Sbjct: 26 VSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDND 85
Query: 961 TKKTTPKKNSDNTVQQDWDLLRRIYSTGEERS 992
+ ++ ++ DLL+ + G +R
Sbjct: 86 IIEAHREQIGG--MRTYLDLLQHVLDHGVDRD 115
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 0.132 0.391
Gapped
Lambda K H
0.267 0.0536 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 22,403,623
Number of extensions: 1350169
Number of successful extensions: 2852
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2824
Number of HSP's successfully gapped: 49
Length of query: 1515
Length of database: 6,701,793
Length adjustment: 106
Effective length of query: 1409
Effective length of database: 3,742,167
Effective search space: 5272713303
Effective search space used: 5272713303
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: 64 (28.9 bits)