RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7164
(2307 letters)
>1pvg_A DNA topoisomerase II; GHKL ATPase domain; HET: DNA ANP; 1.80A
{Saccharomyces cerevisiae} SCOP: d.14.1.3 d.122.1.2 PDB:
1qzr_A*
Length = 418
Score = 533 bits (1375), Expect = e-172
Identities = 199/446 (44%), Positives = 261/446 (58%), Gaps = 75/446 (16%)
Query: 24 KTPANKMSVEKIYQKKSQLEHILLRPDTYIGSVEPITETMWLMNRETNHMERREITYVPG 83
+S YQK SQLEHIL RPDTYIGSVE + W+ + ET+ M + +T VPG
Sbjct: 5 TMSTEPVSASDKYQKISQLEHILKRPDTYIGSVETQEQLQWIYDEETDCMIEKNVTIVPG 64
Query: 84 LYKIFDEILVNACDNKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKMFVPTM 143
L+KIFDEILVNA DNK RDP M I + ++ E +TI V N+GKGIP+ H E +++P M
Sbjct: 65 LFKIFDEILVNAADNKVRDPSMKRIDVNIHAEEHTIEVKNDGKGIPIEIHNKENIYIPEM 124
Query: 144 IFGHLLTSSNYNDEEDKVTGVVPTMIFGHLLTSSNYNDEEDKVTGGRNGYGAKLCNIFSS 203
IFGHLLTSSNY+D+E KVTG GRNGYGAKLCNIFS+
Sbjct: 125 IFGHLLTSSNYDDDEKKVTG-------------------------GRNGYGAKLCNIFST 159
Query: 204 KFVVETSCSEYKKSFKQVWKDNMSKVTSPEIKSGSKD-DFTKITFTPDLTKFKMTSLDKD 262
+F++ET+ + + Q W++NMS P+I S K +TK+TF PDLT+F M LD D
Sbjct: 160 EFILETADLNVGQKYVQKWENNMSICHPPKITSYKKGPSYTKVTFKPDLTRFGMKELDND 219
Query: 263 MVDLITRRAYDAAASTKDVKVFLNGEKLPVKNFQDYVKLYT------------DRQDEDG 310
++ ++ RR YD S +D+ V+LNG+ L ++NF++YV+LY +
Sbjct: 220 ILGVMRRRVYDINGSVRDINVYLNGKSLKIRNFKNYVELYLKSLEKKRQLDNGEDGAAKS 279
Query: 311 DPVKIIYENVNPRWEVAIAPSDRGFQQVSFVNSIATTKGGRHVDAVVDAIVKQIIEVVKK 370
D I+YE +N RWEVA A SD FQQ+SFVNSIATT GG HV+ + D IVK+I E++KK
Sbjct: 280 DIPTILYERINNRWEVAFAVSDISFQQISFVNSIATTMGGTHVNYITDQIVKKISEILKK 339
Query: 371 KNKDLGCTIIMLFGNKFNNVKNNKLQMAKTLIDIGVRLGGMALKPFQVKNHIWIFINCLI 430
K K ++K FQ+KN+++IFINCLI
Sbjct: 340 KKK-------------------------------------KSVKSFQIKNNMFIFINCLI 362
Query: 431 VNPTFDSQTKENMTLQKGSFGSTCVP 456
NP F SQTKE +T + FGS C
Sbjct: 363 ENPAFTSQTKEQLTTRVKDFGSRCEI 388
>1zxm_A TOPO IIA ATPase, DNA topoisomerase II, alpha isozyme; GHKL
nucleotide-binding fold; HET: DNA ANP; 1.87A {Homo
sapiens} PDB: 1zxn_A*
Length = 400
Score = 528 bits (1362), Expect = e-171
Identities = 254/427 (59%), Positives = 303/427 (70%), Gaps = 62/427 (14%)
Query: 31 SVEKIYQKKSQLEHILLRPDTYIGSVEPITETMWLMNRETNHMERREITYVPGLYKIFDE 90
SVE+IYQKK+QLEHILLRPDTYIGSVE +T+ MW+ + E + RE+T+VPGLYKIFDE
Sbjct: 1 SVERIYQKKTQLEHILLRPDTYIGSVELVTQQMWVYD-EDVGINYREVTFVPGLYKIFDE 59
Query: 91 ILVNACDNKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKMFVPTMIFGHLLT 150
ILVNA DNKQRDPKM+CI++T++ E N IS+WNNGKGIPVVEHK EKM+VP +IFG LLT
Sbjct: 60 ILVNAADNKQRDPKMSCIRVTIDPENNLISIWNNGKGIPVVEHKVEKMYVPALIFGQLLT 119
Query: 151 SSNYNDEEDKVTGVVPTMIFGHLLTSSNYNDEEDKVTGGRNGYGAKLCNIFSSKFVVETS 210
SSNY+D+E KVTG GRNGYGAKLCNIFS+KF VET+
Sbjct: 120 SSNYDDDEKKVTG-------------------------GRNGYGAKLCNIFSTKFTVETA 154
Query: 211 CSEYKKSFKQVWKDNMSKVTSPEIKSGSKDDFTKITFTPDLTKFKMTSLDKDMVDLITRR 270
EYKK FKQ W DNM + E+K + +D+T ITF PDL+KFKM SLDKD+V L+ RR
Sbjct: 155 SREYKKMFKQTWMDNMGRAGEMELKPFNGEDYTCITFQPDLSKFKMQSLDKDIVALMVRR 214
Query: 271 AYDAAASTKDVKVFLNGEKLPVKNFQDYVKLYT-DRQDEDGDPVKIIYENVNPRWEVAIA 329
AYD A STKDVKVFLNG KLPVK F+ YV +Y D+ DE G+ +K+I+E VN RWEV +
Sbjct: 215 AYDIAGSTKDVKVFLNGNKLPVKGFRSYVDMYLKDKLDETGNSLKVIHEQVNHRWEVCLT 274
Query: 330 PSDRGFQQVSFVNSIATTKGGRHVDAVVDAIVKQIIEVVKKKNKDLGCTIIMLFGNKFNN 389
S++GFQQ+SFVNSIAT+KGGRHVD V D IV ++++VVKKKNK
Sbjct: 275 MSEKGFQQISFVNSIATSKGGRHVDYVADQIVTKLVDVVKKKNK---------------- 318
Query: 390 VKNNKLQMAKTLIDIGVRLGGMALKPFQVKNHIWIFINCLIVNPTFDSQTKENMTLQKGS 449
GG+A+K QVKNH+WIF+N LI NPTFDSQTKENMTLQ S
Sbjct: 319 -------------------GGVAVKAHQVKNHMWIFVNALIENPTFDSQTKENMTLQPKS 359
Query: 450 FGSTCVP 456
FGSTC
Sbjct: 360 FGSTCQL 366
>3gqc_A DNA repair protein REV1; protein-DNA complex, DNA damage, DNA repair,
DNA synthesis, binding, magnesium, metal-binding; HET:
DNA DOC DCP; 2.50A {Homo sapiens}
Length = 504
Score = 295 bits (758), Expect = 1e-87
Identities = 128/314 (40%), Positives = 182/314 (57%), Gaps = 43/314 (13%)
Query: 1898 IVSAVSCDEMYVDCSQLLQELSLTPLQFASYLRETIAKETGCTCSTGFGSNKLQARLATK 1957
+ AVSCDE VD +++L E LTP +FA+ +R I +T C S G GSN L AR+AT+
Sbjct: 234 NIEAVSCDEALVDITEILAETKLTPDEFANAVRMEIKDQTKCAASVGIGSNILLARMATR 293
Query: 1958 KAKPNGQFHLTPQIISDFMLNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQNE 2017
KAKP+GQ+HL P+ + DF+ +++LPGVGHS+ KL SLG +TCGDLQ +++ +LQ E
Sbjct: 294 KAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLASLGIKTCGDLQYMTMAKLQKE 353
Query: 2018 VGNKNGLTLYKHCRGEDDKELTFEHQRKSVSAEVNYGIRFQNNQEMETFLKQLAGEVEKR 2077
G K G LY+ CRG DD+ + E +RKSVSAE+NYGIRF +E E FL L+ E+++R
Sbjct: 354 FGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPKEAEAFLLSLSEEIQRR 413
Query: 2078 LEEVKMKGKCITLKLMVRSAEAPREASKFLGHGVCDYITKSSSLPIYERPLIITYFLLLV 2137
LE MKGK +TLK+M V
Sbjct: 414 LEATGMKGKRLTLKIM-------------------------------------------V 430
Query: 2138 RSAEAPREASKFLGHGVCDYITKSSSLPMYISQASQILKEVLFIVNKLKVDPVELRGIGI 2197
R AP E +KF GHG+CD I ++ +L A I K +L + + +K++ ++RG+GI
Sbjct: 431 RKPGAPVETAKFGGHGICDNIARTVTLDQATDNAKIIGKAMLNMFHTMKLNISDMRGVGI 490
Query: 2198 QVSKLEHQSKTLAT 2211
V++L + +T
Sbjct: 491 HVNQLVPTNLNPST 504
Score = 197 bits (503), Expect = 4e-54
Identities = 87/276 (31%), Positives = 130/276 (47%), Gaps = 51/276 (18%)
Query: 1526 SAPKPQASSTKNASNEDFLGEFYNKSRLHHLSTMGSMFKQYVNELREKHDGVFRGIEAIR 1585
+ K S S+ +F+ FY+ SRLHH+S ++VN L+ + +G+F G E ++
Sbjct: 2 TFSKAAPSVPSKPSDCNFISNFYSHSRLHHISMWKCELTEFVNTLQRQSNGIFPGREKLK 61
Query: 1586 KWKTSLGITEDEDLEETFSDNPSPSEPEPVIMHIDMDCFFVSVGIRHHPELQDEPVAVAH 1645
K KT D + + + IMH+DMDCFFVSVGIR+ P+L+ +PVAV
Sbjct: 62 KMKTGRSALVVTDTGD--MSVLNSPRHQSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTS 119
Query: 1646 GKGNS-SKVREGVDRQAEFDIYRQRTMNRMGLNT-------------------------- 1678
+G + +R G + Q E+ Y+ + + +
Sbjct: 120 NRGTGRAPLRPGANPQLEWQYYQNKILKGKAADIPDSSLWENPDSAQANGIDSVLSRAEI 179
Query: 1679 -------REYGLGNGMFVGHALKKCPNLKIVPYDFEGYKEVSYCLYNLIASLTLNIEAVS 1731
R+ G+ NGMF GHA + CPNL+ VPYDF YKEV+ LY +AS T NIEAVS
Sbjct: 180 ASCSYEARQLGIKNGMFFGHAKQLCPNLQAVPYDFHAYKEVAQTLYETLASYTHNIEAVS 239
Query: 1732 LYTNESFLN-------------ALPEDIRQEVLDDL 1754
+E+ ++ +R E+ D
Sbjct: 240 C--DEALVDITEILAETKLTPDEFANAVRMEIKDQT 273
Score = 65.6 bits (160), Expect = 1e-10
Identities = 18/88 (20%), Positives = 30/88 (34%), Gaps = 1/88 (1%)
Query: 1180 SAPKPQASSTKNASNEDFLGEFYNKSRLHHLSTMGSMFKQYVNQLISLQQDKQLPAIQVI 1239
+ K S S+ +F+ FY+ SRLHH+S ++VN L Q + P + +
Sbjct: 2 TFSKAAPSVPSKPSDCNFISNFYSHSRLHHISMWKCELTEFVNTLQR-QSNGIFPGREKL 60
Query: 1240 SIRSPRARPPRRSSTMGSMFKQYVNELR 1267
+ T
Sbjct: 61 KKMKTGRSALVVTDTGDMSVLNSPRHQS 88
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently
linked comple supercoiling; HET: DNA PTR TSP; 2.48A
{Saccharomyces cerevisiae} PDB: 3l4k_A* 1bjt_A 1bgw_A
2rgr_A*
Length = 757
Score = 303 bits (776), Expect = 2e-87
Identities = 113/181 (62%), Positives = 140/181 (77%), Gaps = 7/181 (3%)
Query: 455 VPKLEDANDAGTKNSIDCTLILTEGDSAKSLAVSGLGVVGRDKYGVFPLRGKLLNVREAT 514
PKLEDAN AGTK CTL+LTEGDSA SLAV+GL VVGRD YG +PLRGK+LNVREA+
Sbjct: 6 YPKLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRDYYGCYPLRGKMLNVREAS 65
Query: 515 HKQILENAEINNLVKILGLQYSKKYTTVEDMKTLRYGRLMIMTDQDQDGSHIKGLIINFI 574
QIL+NAEI + KI+GLQ+ KKY ED K+LRYG LMIMTDQD DGSHIKGLIINF+
Sbjct: 66 ADQILKNAEIQAIKKIMGLQHRKKY---EDTKSLRYGHLMIMTDQDHDGSHIKGLIINFL 122
Query: 575 HHNWPTLLRLP-FLEEFITPIIKATKAR---EELSFYSLPEFEEWKEETTNWHTYKIKYY 630
++P LL + FL EFITPIIK + + ++FY++P++E+W+EE ++ T+K KYY
Sbjct: 123 ESSFPGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFTWKQKYY 182
Query: 631 K 631
K
Sbjct: 183 K 183
Score = 167 bits (424), Expect = 2e-42
Identities = 53/116 (45%), Positives = 74/116 (63%)
Query: 659 RIEPEWYIPIIPMVLVNGAEGIGTGWMTKIPNHNPREIVDNIKRMIRGEDPLPMKPWYKN 718
+EPEWY+PI+PM+LVNGAEGIGTGW T IP NP EI+ NI+ ++ E+ M PW++
Sbjct: 392 TVEPEWYLPILPMILVNGAEGIGTGWSTYIPPFNPLEIIKNIRHLMNDEELEQMHPWFRG 451
Query: 719 FKGEIDYCGDSRFVVNGEIAILDDDKLEITELQVGKWTTDYKDTLDTLLHGAEKDE 774
+ G I+ R+ + G I + D+ LEITEL WT+ K+ L L G +K +
Sbjct: 452 WTGTIEEIEPLRYRMYGRIEQIGDNVLEITELPARTWTSTIKEYLLLGLSGNDKIK 507
Score = 85.4 bits (211), Expect = 1e-16
Identities = 36/123 (29%), Positives = 55/123 (44%), Gaps = 10/123 (8%)
Query: 782 KSHPRPIAPKSYKIDDDSEEEEIEEVFHDNELAKPQKTGPQLERQERQAAEGEDDEAGSQ 841
++ P K K S +EI E +D + + + E ++ +
Sbjct: 633 ENLGFPRFNKEGKPYYGSPNDEIAEQINDVKG----------ATSDEEDEESSHEDTENV 682
Query: 842 TQEEEDPDKDYDYLLGMTFWSLTMERKNELLKKRDDKMTELNILKKKAPTDLWSDDLDAL 901
E+ Y+YLLGM WSLT ER +LLK++ +K TEL L K + D+W+ DL A
Sbjct: 683 INGPEELYGTYEYLLGMRIWSLTKERYQKLLKQKQEKETELENLLKLSAKDIWNTDLKAF 742
Query: 902 REK 904
Sbjct: 743 EVG 745
>3qx3_A DNA topoisomerase 2-beta; toprim domain, winged-helix domain,
coiled-coil domain, DNA and cleavage, nucleus; HET: DNA
EVP; 2.16A {Homo sapiens}
Length = 803
Score = 286 bits (733), Expect = 2e-81
Identities = 134/177 (75%), Positives = 161/177 (90%)
Query: 455 VPKLEDANDAGTKNSIDCTLILTEGDSAKSLAVSGLGVVGRDKYGVFPLRGKLLNVREAT 514
+PKL+DANDAG K+S++CTLILTEGDSAKSLAVSGLGV+GRD+YGVFPLRGK+LNVREA+
Sbjct: 36 IPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGVIGRDRYGVFPLRGKILNVREAS 95
Query: 515 HKQILENAEINNLVKILGLQYSKKYTTVEDMKTLRYGRLMIMTDQDQDGSHIKGLIINFI 574
HKQI+ENAEINN++KI+GLQY K Y E +KTLRYG++MIMTDQDQDGSHIKGL+INFI
Sbjct: 96 HKQIMENAEINNIIKIVGLQYKKSYDDAESLKTLRYGKIMIMTDQDQDGSHIKGLLINFI 155
Query: 575 HHNWPTLLRLPFLEEFITPIIKATKAREELSFYSLPEFEEWKEETTNWHTYKIKYYK 631
HHNWP+LL+ FLEEFITPI+KA+K ++ELSFYS+PEF+EWK+ N +KIKYYK
Sbjct: 156 HHNWPSLLKHGFLEEFITPIVKASKNKQELSFYSIPEFDEWKKHIENQKAWKIKYYK 212
Score = 131 bits (330), Expect = 7e-31
Identities = 63/116 (54%), Positives = 83/116 (71%)
Query: 659 RIEPEWYIPIIPMVLVNGAEGIGTGWMTKIPNHNPREIVDNIKRMIRGEDPLPMKPWYKN 718
R+EPEWYIPIIPMVL+NGAEGIGTGW K+PN++ REIV+N++RM+ G DP PM P YKN
Sbjct: 433 RVEPEWYIPIIPMVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDPHPMLPNYKN 492
Query: 719 FKGEIDYCGDSRFVVNGEIAILDDDKLEITELQVGKWTTDYKDTLDTLLHGAEKDE 774
FKG I G +++ V+GEI ++D + +EITEL V WT YK+ + +
Sbjct: 493 FKGTIQELGQNQYAVSGEIFVVDRNTVEITELPVRTWTQVYKEQVLEPMLNGTDKT 548
Score = 89.4 bits (221), Expect = 8e-18
Identities = 35/111 (31%), Positives = 63/111 (56%)
Query: 794 KIDDDSEEEEIEEVFHDNELAKPQKTGPQLERQERQAAEGEDDEAGSQTQEEEDPDKDYD 853
I++ S+++ I+ + + P K + + + + E ++ S + D++
Sbjct: 662 TIENRSKKDLIQMLVQRGYESDPVKAWKEAQEKAAEEDETQNQHDDSSSDSGTPSGPDFN 721
Query: 854 YLLGMTFWSLTMERKNELLKKRDDKMTELNILKKKAPTDLWSDDLDALREK 904
Y+L M+ WSLT E+ EL+K+RD K E+N LK+K+P+DLW +DL A E+
Sbjct: 722 YILNMSLWSLTKEKVEELIKQRDAKGREVNDLKRKSPSDLWKEDLAAFVEE 772
>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop,
transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces
cerevisiae} PDB: 3bjy_A* 3osp_A*
Length = 434
Score = 274 bits (702), Expect = 4e-81
Identities = 90/320 (28%), Positives = 144/320 (45%), Gaps = 57/320 (17%)
Query: 1898 IVSAVSCDEMYVD--CSQLLQELSLTPLQFASYLRETIAKET-GCTCSTGFGSNKLQARL 1954
++ +S DE + + + +R+ I + T GCT S G + + ARL
Sbjct: 156 LILPISIDEAVCVRIIPDNIHNTNTLNARLCEEIRQEIFQGTNGCTVSIGCSDSLVLARL 215
Query: 1955 ATKKAKPNGQFHLTP-QIISDFMLNIPLSDLPGVGHSLLFKLNSL--GAQTCGDLQN-IS 2010
A K AKPNG + +F + L DLPGVGHS L +L S + DL+ +
Sbjct: 216 ALKMAKPNGYNITFKSNLSEEFWSSFKLDDLPGVGHSTLSRLESTFDSPHSLNDLRKRYT 275
Query: 2011 LKRLQNEVGNKNGLTLYKHCRGEDDKELTFEH-------QRKSVSAEVNYGIRFQNNQEM 2063
L L+ VG+K G+ ++ +G+DD+E QRKS+S ++N+GIRF+N ++
Sbjct: 276 LDALKASVGSKLGMKIHLALQGQDDEESLKILYDPKEVLQRKSLSIDINWGIRFKNITQV 335
Query: 2064 ETFLKQLAGEVEKRLEEVKMKGKCITLKLMVRSAEAPREASKFLGHGVCDYITKSSSLPI 2123
+ F+++ + ++L E+ ITLKLM R +AP E K++G G CD ++SS L I
Sbjct: 336 DLFIERGCQYLLEKLNEINKTTSQITLKLMRRCKDAPIEPPKYMGMGRCDSFSRSSRLGI 395
Query: 2124 YERPLIITYFLLLVRSAEAPREASKFLGHGVCDYITKSSSLPMYISQASQILKEVLFIVN 2183
++ I E+ +
Sbjct: 396 -------------------------------------------PTNEFGIIATEMKSLYR 412
Query: 2184 KLKVDPVELRGIGIQVSKLE 2203
L P+ELRG+ +Q +KL
Sbjct: 413 TLGCPPMELRGLALQFNKLV 432
Score = 155 bits (393), Expect = 3e-40
Identities = 56/246 (22%), Positives = 81/246 (32%), Gaps = 81/246 (32%)
Query: 1537 NASNEDFLGEFYNKSRLHHLSTMGSMFKQYVNELREKHDGVFRGIEAIRKWKTSLGITED 1596
+ DFL ++ SRLHHLS + K
Sbjct: 5 ACDDPDFLTSYFAHSRLHHLSAWKANLKDKFLNENIH----------------------- 41
Query: 1597 EDLEETFSDNPSPSEPEPVIMHIDMDCFFVSVGIRHHP------ELQDEPVAVAHGKGNS 1650
+ +I HID DCFF +V + + +P+ V HG NS
Sbjct: 42 -------KYTKITDKDTYIIFHIDFDCFFATVAYLCRSSSFSACDFKRDPIVVCHGTKNS 94
Query: 1651 SKVREGVDRQAEFDI----YRQRTMNRMGLNTREYGLGNGMFVGHALKKCPN---LKIVP 1703
DI Y R YG+ NGM+V A K PN L +P
Sbjct: 95 -------------DIASCNYV----------ARSYGIKNGMWVSQAEKMLPNGIKLISLP 131
Query: 1704 YDFEGYKEVSYCLYNLIASLTLN--IEAVSL-------------YTNESFLNALPEDIRQ 1748
Y FE ++ S Y+ + L + I +S+ + + L E+IRQ
Sbjct: 132 YTFEQFQLKSEAFYSTLKRLNIFNLILPISIDEAVCVRIIPDNIHNTNTLNARLCEEIRQ 191
Query: 1749 EVLDDL 1754
E+
Sbjct: 192 EIFQGT 197
Score = 53.1 bits (128), Expect = 7e-07
Identities = 12/44 (27%), Positives = 17/44 (38%)
Query: 1191 NASNEDFLGEFYNKSRLHHLSTMGSMFKQYVNQLISLQQDKQLP 1234
+ DFL ++ SRLHHLS + K + K
Sbjct: 5 ACDDPDFLTSYFAHSRLHHLSAWKANLKDKFLNENIHKYTKITD 48
>3osn_A DNA polymerase IOTA; hoogsteen base PAIR, protein-DNA complex,
Y-family DNA polym translesion synthesis, nucleoside
triphosphate; HET: DNA DOC 6OG TTP; 1.90A {Homo sapiens}
PDB: 2dpj_A* 2fll_A* 2fln_A* 2flp_A* 3epg_A* 3epi_A*
2dpi_A* 3g6v_A* 3g6y_A* 3g6x_A* 3gv7_B* 3gv8_B* 3ngd_A*
3gv5_B* 3q8p_B* 3q8q_B* 3q8r_B* 3q8s_B* 3h4d_A* 3h4b_A*
...
Length = 420
Score = 196 bits (501), Expect = 1e-54
Identities = 66/332 (19%), Positives = 124/332 (37%), Gaps = 47/332 (14%)
Query: 1875 EAYQEMLSCVQSAMKHKPSSESKIVSAVSC--DEMYVDCSQLLQELSLTPLQFASYLRET 1932
E + ++ V+ ++ S E V+ + ++ +L L Q A+ +RE
Sbjct: 127 ENFVDLTEMVEKRLQQLQSDELSAVTVSGHVYNNQSINLLDVLHIRLLVGSQIAAEMREA 186
Query: 1933 IAKETGCTCSTGFGSNKLQARLATKKAKPNGQFHLTPQIISDFMLNIP-LSDLPGVGHSL 1991
+ + G T G SNKL A+L + KPN Q L P+ + ++ + ++PG+G+
Sbjct: 187 MYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNHIKEIPGIGYKT 246
Query: 1992 LFKLNSLGAQTCGDLQNISLKRLQNEVGNKNGLTLYKHCRGEDDKELTFEHQRKSVSAEV 2051
L +LG + DLQ S K L+ E+G + K GED+ + +S S E
Sbjct: 247 AKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEED 306
Query: 2052 NYGIRFQNNQEMETFLKQLAGEVEKRLEEVKMKGKCITLKLMVRSAEAPREASKFLGHGV 2111
++ + + E + +++L + R+ + K + L + S+
Sbjct: 307 SFK-KCSSEVEAKNKIEELLASLLNRVCQDGRKPHTVRLIIRRYSS-------------- 351
Query: 2112 CDYITKSSSLPIYERPLIITYFLLLVRSAEAPREASKFLGHGVCDYITKSSSLPMYISQA 2171
+ S R P + LG G D +T + M + +
Sbjct: 352 -EKHYGRES-----------------RQCPIPSHVIQKLGTGNYDVMTPMVDILMKLFRN 393
Query: 2172 SQILKEVLFIVNKLKVDPVELRGIGIQVSKLE 2203
+K P L + + L+
Sbjct: 394 MVNVKM-----------PFHLTLLSVCFCNLK 414
Score = 104 bits (261), Expect = 3e-23
Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 33/132 (25%)
Query: 1607 PSPSEPEPVIMHIDMDCFFVSVGIRHHPELQDEPVAVAHGKGNSSKVREGVDRQAEFDIY 1666
P+P+ VI+H+D+DCF+ V + +PEL+D+P+ V K
Sbjct: 21 PTPNASSRVIVHVDLDCFYAQVEMISNPELKDKPLGVQ-QKY------------------ 61
Query: 1667 RQRTMNRMGLNT-----REYGLGNGMFVGHALKKCPNLKIVP-YDFEGYKEVSYCLYNLI 1720
+ T R+ G+ M V A +KCP L +V D Y+E+SY + L+
Sbjct: 62 --------LVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELL 113
Query: 1721 ASLTLNIEAVSL 1732
+ +E +
Sbjct: 114 EEFSPVVERLGF 125
>4ecq_A DNA polymerase ETA; transferase-DNA complex; HET: DNA DTP; 1.50A
{Homo sapiens} PDB: 3mr2_A* 3mr4_A* 3mr5_A* 3si8_A*
4dl2_A* 4dl3_A* 4dl4_A* 4dl5_A* 4dl6_A* 4dl7_A* 3mr3_A*
4ecr_A* 4ecs_A* 4ect_A* 4ecu_A* 4ecv_A* 4ecw_A* 4ecx_A*
4ecy_A* 4ecz_A* ...
Length = 435
Score = 168 bits (427), Expect = 9e-45
Identities = 55/308 (17%), Positives = 104/308 (33%), Gaps = 58/308 (18%)
Query: 1903 SCDEMYVDCSQLLQELSLTPLQFASYLRETIAKETGCTCSTGFGSNKLQARLATKKAKPN 1962
D + +D +R I +ETG CS G NK+ A+LA KPN
Sbjct: 177 WLDSLQIDNLTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPN 236
Query: 1963 GQFHLTPQIISDFMLNIPLSDLPGVGHSL-LFKLNSLGAQTCGDLQNISLKRLQNEVGNK 2021
Q ++ + +P+ + +G L + LG + G+L + +LQ+ G K
Sbjct: 237 RQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEK 296
Query: 2022 NGLTLYKHCRGEDDKELTFEHQRKSVSAEVNYGIR--FQNNQEMETFLKQLAGEVEKRLE 2079
NG LY CRG + + K++ N+ + ++++ +L QLA E+E+RL
Sbjct: 297 NGSWLYAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLT 356
Query: 2080 EV----KMKGKCITLKLMVRSAEAPREASKFLGHGVCDYITKSSSLPIYERPLIITYFLL 2135
+ + + + + G + + +L Y+ +
Sbjct: 357 KDRNDNDRVATQLVVSI------------RVQGDKRLSSLRRCCALTRYDAHKMSH---- 400
Query: 2136 LVRSAEAPREASKFLGHGVCDYITKSSSLPMYISQASQILKEVLFIVNKLKVDPVELRGI 2195
A ++K + + P L +
Sbjct: 401 ----------------------------------DAFTVIKNCNTSGIQTEWSP-PLTML 425
Query: 2196 GIQVSKLE 2203
+ +K
Sbjct: 426 FLCATKFS 433
Score = 98.9 bits (246), Expect = 2e-21
Identities = 41/227 (18%), Positives = 84/227 (37%), Gaps = 30/227 (13%)
Query: 1607 PSPSEPEPVIMHIDMDCFFVSVGIRHHPELQDEPVAVAHGKGNSSKVREGVDRQAEFDIY 1666
+ + V+ +DMDCFFV V R +P L+++P AV K V +A
Sbjct: 3 HMATGQDRVVALVDMDCFFVQVEQRQNPHLRNKPCAVVQYKSWKGGGIIAVSYEA----- 57
Query: 1667 RQRTMNRMGLNTREYGLGNGMFVGHALKKCPNLKIVPY-------DFEGYKEVSYCLYNL 1719
R +G+ M+ A K CP+L + + Y+E S + +
Sbjct: 58 ------------RAFGVTRSMWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEI 105
Query: 1720 IASLTLNIEAVSLYTNESFLN---ALPEDIRQEVLDDLSRQQSVLSREQNTTEPLAQDII 1776
++ + IE S+ E++++ A+ E +++ +S + + +
Sbjct: 106 MSRFAV-IERASID--EAYVDLTSAVQERLQKLQGQPISADLLPSTYIEGLPQGPTTAEE 162
Query: 1777 CADSHTLVRTPSPSPILDMSTSILDTTTSHILSSNVSLQEMRTMLRE 1823
+ + + + L + + V ++EMR +
Sbjct: 163 TVQKEGMRKQGLFQWLDSLQIDNLTSPDLQLTVGAVIVEEMRAAIER 209
>3bq0_A POL IV, DBH, DNA polymerase IV; Y-family, lesion bypass; HET: DNA;
2.60A {Sulfolobus acidocaldarius} SCOP: d.240.1.1 e.8.1.7
PDB: 3bq1_A* 3bq2_A* 1k1q_A 1k1s_A
Length = 354
Score = 164 bits (418), Expect = 3e-44
Identities = 41/191 (21%), Positives = 84/191 (43%), Gaps = 4/191 (2%)
Query: 1902 VSCDEMYVDCSQLLQELSLTPLQFASYLRETIAKETGCTCSTGFGSNKLQARLATKKAKP 1961
S DE Y+D + ++ ++ A +++ I ++ T + G NK+ A++ K+KP
Sbjct: 102 ASIDEAYLDVTNKVEGNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKP 161
Query: 1962 NGQFHLTPQIISDFMLNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQNEVGNK 2021
NG + P + DF+ + + ++PG+G L +LN LG Q D+ + + L+ G
Sbjct: 162 NGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQKLRDILSKNYNELEKITGKA 221
Query: 2022 NGLTLYKHCRGEDDKELTFEHQRKSVSAEVNYGIRFQNNQEMETFLKQLAGEVEKRLEEV 2081
L L K + + + + + + N ++++ L L + + +V
Sbjct: 222 KALYLLKLAQNKYSEPVE-NKSKIPHGRYLTLP---YNTRDVKVILPYLKKAINEAYNKV 277
Query: 2082 KMKGKCITLKL 2092
IT+
Sbjct: 278 NGIPMRITVIA 288
Score = 95.7 bits (239), Expect = 7e-21
Identities = 33/158 (20%), Positives = 61/158 (38%), Gaps = 40/158 (25%)
Query: 1615 VIMHIDMDCFFVSVGIRHHPELQDEPVAVAHGKGNSSKVREGVDRQAEFDIYRQRTMNRM 1674
+++ +D D FF V +P+ + +P+ V G + G
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTK--TSGA----------------- 42
Query: 1675 GLNT-----REYGLGNGMFVGHALKKCPNLKIVPYDFEGYKEVSYCLYNLIASLTLNIEA 1729
+ T R+ G+ GM + A++ P+ VP Y+ S + NL+ IE
Sbjct: 43 -VATANYEARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEV 101
Query: 1730 VSLYTNESFLN-------------ALPEDIRQEVLDDL 1754
S+ +E++L+ L I+QE+L+
Sbjct: 102 ASI--DEAYLDVTNKVEGNFENGIELARKIKQEILEKE 137
>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family,
transferase-D complex; HET: DNA MSE ADI; 1.70A
{Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB:
1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A*
1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A*
2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ...
Length = 352
Score = 161 bits (410), Expect = 3e-43
Identities = 45/191 (23%), Positives = 84/191 (43%), Gaps = 4/191 (2%)
Query: 1902 VSCDEMYVDCSQLLQELSLTPLQFASYLRETIAKETGCTCSTGFGSNKLQARLATKKAKP 1961
S DE Y+D S +++ ++ I ++ T + G NK+ A++A AKP
Sbjct: 102 ASIDEAYLDISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKP 160
Query: 1962 NGQFHLTPQIISDFMLNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQNEVGNK 2021
NG + + + + + ++D+PG+G+ KL LG D +I +L+ +G
Sbjct: 161 NGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEA 220
Query: 2022 NGLTLYKHCRGEDDKELTFEHQRKSVSAEVNYGIRFQNNQEMETFLKQLAGEVEKRLEEV 2081
L R E ++ + RKS+ V +N +E++ +L + E +L+
Sbjct: 221 KAKYLISLARDEYNEPIR-TRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLD-- 277
Query: 2082 KMKGKCITLKL 2092
K K I +
Sbjct: 278 KRIPKAIHVVA 288
Score = 95.3 bits (238), Expect = 9e-21
Identities = 34/157 (21%), Positives = 64/157 (40%), Gaps = 39/157 (24%)
Query: 1615 VIMHIDMDCFFVSVGIRHHPELQDEPVAVAHGKGNSSKVREGVDRQAEFDIYRQRTMNRM 1674
+++ +D D F+ V +P L+ +PV V G G
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFE--DSGA----------------- 42
Query: 1675 GLNT-----REYGLGNGMFVGHALKKCPNLKIVPYDFEGYKEVSYCLYNLIASLTLNIEA 1729
+ T R++G+ G+ + A K PN +P E Y++VS + NL+ + IE
Sbjct: 43 -VATANYEARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEI 101
Query: 1730 VSLYTNESFLN------------ALPEDIRQEVLDDL 1754
S+ +E++L+ L +I+ ++L+
Sbjct: 102 ASI--DEAYLDISDKVRDYREAYNLGLEIKNKILEKE 136
Score = 32.2 bits (74), Expect = 1.9
Identities = 13/57 (22%), Positives = 26/57 (45%)
Query: 2158 ITKSSSLPMYISQASQILKEVLFIVNKLKVDPVELRGIGIQVSKLEHQSKTLATIDT 2214
+++ + P IS+ + + V + L+ D ++R IG++ SK DT
Sbjct: 296 VSRGRTFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFIEAIGLDKFFDT 352
>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family
DNA polymerase, translesion DNA synthesis, lesion bypass;
2.40A {Homo sapiens} SCOP: d.240.1.1 e.8.1.7 PDB: 2oh2_A*
2w7o_A* 2w7p_A* 3hed_A* 3in5_A*
Length = 459
Score = 143 bits (361), Expect = 5e-36
Identities = 67/367 (18%), Positives = 135/367 (36%), Gaps = 77/367 (20%)
Query: 1862 RRHVGKKESTVWAEAYQEMLSCVQSAMKHKPSSESKIVSAVSCDEMYVD----------- 1910
R++ + + + + + + +K S + +S + +E D
Sbjct: 144 RQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESPSDVQPPGDPFQVN 203
Query: 1911 --------CSQLLQELSLTPLQFASYLRETIAKETGCTCSTGFGSNKLQARLATKKAKPN 1962
Q + + +R I ++T T S G N + A++ + K KPN
Sbjct: 204 FEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPN 263
Query: 1963 GQFHLTP--QIISDFMLNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQNEVGN 2020
GQ+ + P Q + DF+ ++P+ + G+G L +LG TC +L L
Sbjct: 264 GQYQILPNRQAVMDFIKDLPIRKVSGIGKVTEKMLKALGIITCTELYQ-QRALLSLLFSE 322
Query: 2021 KNGLTLYKHCRGEDDKELTFEHQRKSVSAEVNYGIRFQNNQEMETFLKQLAGEVEKRLEE 2080
+ G LT + +RKS+S E + +E + ++L E+ + L++
Sbjct: 323 TSWHYFLHISLGLGSTHLTRDGERKSMSVERTFS-EINKAEEQYSLCQELCSELAQDLQK 381
Query: 2081 VKMKGKCITLKLMVRSAEAPREASKFLGHGVCDYITKSSSLPIYERPLIITYFLLLVRSA 2140
++KG+ +T+KL K + V T++S++ V +A
Sbjct: 382 ERLKGRTVTIKL------------KNVNFEV---KTRASTVSSV------------VSTA 414
Query: 2141 EAPREASKFLGHGVCDYITKSSSLPMYISQASQILKEVLFIVNKLKVDPVELRGIGIQVS 2200
E A ++LK + + P+ LR +G+++S
Sbjct: 415 EEIFAI------------------------AKELLKTEI---DADFPHPLRLRLMGVRIS 447
Query: 2201 KLEHQSK 2207
++
Sbjct: 448 SFPNEED 454
Score = 83.8 bits (207), Expect = 2e-16
Identities = 53/226 (23%), Positives = 96/226 (42%), Gaps = 41/226 (18%)
Query: 1615 VIMHIDMDCFFVSVGIRHHPELQDEPVAVAHGKGNSSKVREGVDRQAEFDIYRQRTMNRM 1674
I+HIDMD F+ +V +R +PEL+D+P+AV + + +
Sbjct: 35 TIVHIDMDAFYAAVEMRDNPELKDKPIAVGSM---------SMLSTSNYHA--------- 76
Query: 1675 GLNTREYGLGNGMFVGHALKKCPNLKIVPYDFEGYKEVSYCLYNLIASLTLNIEAVSLYT 1734
R +G+ M A + CP L IVP +F+ Y+ VS + ++A N A+SL
Sbjct: 77 ----RRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVKEILADYDPNFMAMSL-- 130
Query: 1735 NESFLN---------ALPEDIRQEVL--------DDLSRQQSVLSREQNTTEPLAQDIIC 1777
+E++LN PED R+ + D+ ++ + LS + + PL +
Sbjct: 131 DEAYLNITKHLEERQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESP 190
Query: 1778 ADSHTLVRTPSPSPILDMSTSILDTTTSHILSSNVSLQEMRTMLRE 1823
+D + + IL + S+ ++E+R + +
Sbjct: 191 SDVQPPGDPFQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQ 236
>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding
nucleotide binding M binding, nucleus; HET: DNA TTD DTP;
3.34A {Homo sapiens}
Length = 517
Score = 139 bits (352), Expect = 2e-34
Identities = 66/367 (17%), Positives = 134/367 (36%), Gaps = 77/367 (20%)
Query: 1862 RRHVGKKESTVWAEAYQEMLSCVQSAMKHKPSSESKIVSAVSCDEMYVDCSQLLQE---- 1917
R++ + + + + + + +K S + +S + +E D
Sbjct: 200 RQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESPSDVQPPGDPFQVN 259
Query: 1918 ---------------LSLTPLQFASYLRETIAKETGCTCSTGFGSNKLQARLATKKAKPN 1962
+ + +R I ++T T S G N + A++ + K KPN
Sbjct: 260 FEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPN 319
Query: 1963 GQFHLTP--QIISDFMLNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQNEVGN 2020
GQ+ + P Q + DF+ ++P+ + G+G L +LG TC +L L
Sbjct: 320 GQYQILPNRQAVMDFIKDLPIRKVSGIGKVTEKMLKALGIITCTELYQ-QRALLSLLFSE 378
Query: 2021 KNGLTLYKHCRGEDDKELTFEHQRKSVSAEVNYGIRFQNNQEMETFLKQLAGEVEKRLEE 2080
+ G LT + +RKS+S E + +E + ++L E+ + L++
Sbjct: 379 TSWHYFLHISLGLGSTHLTRDGERKSMSVERTFS-EINKAEEQYSLCQELCSELAQDLQK 437
Query: 2081 VKMKGKCITLKLMVRSAEAPREASKFLGHGVCDYITKSSSLPIYERPLIITYFLLLVRSA 2140
++KG+ +T+KL K + V T++S++ V +A
Sbjct: 438 ERLKGRTVTIKL------------KNVNFEV---KTRASTVSSV------------VSTA 470
Query: 2141 EAPREASKFLGHGVCDYITKSSSLPMYISQASQILKEVLFIVNKLKVDPVELRGIGIQVS 2200
E A ++LK + + P+ LR +G+++S
Sbjct: 471 EEIFAI------------------------AKELLKTEI---DADFPHPLRLRLMGVRIS 503
Query: 2201 KLEHQSK 2207
++
Sbjct: 504 SFPNEED 510
Score = 87.8 bits (217), Expect = 1e-17
Identities = 68/288 (23%), Positives = 118/288 (40%), Gaps = 50/288 (17%)
Query: 1558 TMGSMFKQYVNELREKHDGVFRGIEAIRKWKTSLGITEDEDLEETFSDN-----PSPSEP 1612
T GS F Y NEL+ K V + IE + + K + ++ + D
Sbjct: 33 TKGSRF--YGNELK-KEKQVNQRIENMMQQKAQI-TSQQLRKAQLQVDRFAMELEQSRNL 88
Query: 1613 EPVIMHIDMDCFFVSVGIRHHPELQDEPVAVAHGKGNSSKVREGVDRQAEFDIYRQRTMN 1672
I+HIDMD F+ +V +R +PEL+D+P+AV + + A
Sbjct: 89 SNTIVHIDMDAFYAAVEMRDNPELKDKPIAVG-SMS----MLSTSNYHA----------- 132
Query: 1673 RMGLNTREYGLGNGMFVGHALKKCPNLKIVPYDFEGYKEVSYCLYNLIASLTLNIEAVSL 1732
R +G+ M A + CP L IVP +F+ Y+ VS + ++A N A+SL
Sbjct: 133 ------RRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVKEILADYDPNFMAMSL 186
Query: 1733 YTNESFLN---------ALPEDIRQEVL--------DDLSRQQSVLSREQNTTEPLAQDI 1775
+E++LN PED R+ + D+ ++ + LS + + PL +
Sbjct: 187 --DEAYLNITKHLEERQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEE 244
Query: 1776 ICADSHTLVRTPSPSPILDMSTSILDTTTSHILSSNVSLQEMRTMLRE 1823
+D + + IL + S+ ++E+R + +
Sbjct: 245 SPSDVQPPGDPFQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQ 292
>2ebw_A DNA repair protein REV1; A/B/A 3 layers, parallel beta-sheet, DNA
replication, translession synthesis, TLS, DNA polymerase
zeta, PCNA; HET: DNA; NMR {Homo sapiens}
Length = 97
Score = 111 bits (280), Expect = 4e-29
Identities = 62/106 (58%), Positives = 76/106 (71%), Gaps = 13/106 (12%)
Query: 1337 ANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYES-SRTT 1395
+S + IF GVAI+VNGYT PSAEEL+ LMMLHGG YH Y S S+TT
Sbjct: 4 GSSGTSSTIFSGVAIYVNGYTD-----------PSAEELRKLMMLHGGQYHVYYSRSKTT 52
Query: 1396 HIIASNLPHTKIKKLKPGDKIIKPEWIVDSISAGKLLDHKKYLLYT 1441
HIIA+NLP+ KIK+LK G+K+I+PEWIV+SI AG+LL + Y LYT
Sbjct: 53 HIIATNLPNAKIKELK-GEKVIRPEWIVESIKAGRLLSYIPYQLYT 97
>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix,
fidelity, processivity, transferase; 2.30A {Sulfolobus
solfataricus} SCOP: e.8.1.7
Length = 221
Score = 113 bits (286), Expect = 4e-28
Identities = 31/120 (25%), Positives = 62/120 (51%)
Query: 1896 SKIVSAVSCDEMYVDCSQLLQELSLTPLQFASYLRETIAKETGCTCSTGFGSNKLQARLA 1955
+ + S DE Y+D + ++ ++ A +++ I ++ T + G NK+ A++
Sbjct: 101 ADKIEVASIDEAYLDVTNKVEGNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKII 160
Query: 1956 TKKAKPNGQFHLTPQIISDFMLNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQ 2015
K+KPNG + P + DF+ + + ++PG+G L +LN LG Q D+ + + L+
Sbjct: 161 ADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQKLRDILSKNYNELE 220
Score = 97.2 bits (243), Expect = 2e-22
Identities = 33/158 (20%), Positives = 61/158 (38%), Gaps = 40/158 (25%)
Query: 1615 VIMHIDMDCFFVSVGIRHHPELQDEPVAVAHGKGNSSKVREGVDRQAEFDIYRQRTMNRM 1674
+++ +D D FF V +P+ + +P+ V G + G
Sbjct: 7 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTK--TSGA----------------- 47
Query: 1675 GLNT-----REYGLGNGMFVGHALKKCPNLKIVPYDFEGYKEVSYCLYNLIASLTLNIEA 1729
+ T R+ G+ GM + A++ P+ VP Y+ S + NL+ IE
Sbjct: 48 -VATANYEARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEV 106
Query: 1730 VSLYTNESFLN-------------ALPEDIRQEVLDDL 1754
S+ +E++L+ L I+QE+L+
Sbjct: 107 ASI--DEAYLDVTNKVEGNFENGIELARKIKQEILEKE 142
>3mfi_A DNA polymerase ETA; DNA damage, DNA repair, DNA replication, DNA
synthesis, NUCL binding, magnesium; HET: DNA DOC TTD DTP;
1.76A {Saccharomyces cerevisiae} PDB: 3mfh_A* 3oha_A*
3ohb_A* 2r8j_A* 2r8k_A* 2wtf_A* 2xgp_A* 2xgq_A* 1jih_A*
Length = 520
Score = 111 bits (278), Expect = 3e-25
Identities = 46/425 (10%), Positives = 115/425 (27%), Gaps = 89/425 (20%)
Query: 1815 QEMRTMLREWMCESQPEPSDIEMFSEYLSNLVEERHLNPIVILLRFLRRHVGKKESTVWA 1874
++ + + + D E+F + + L L+
Sbjct: 143 RKALAIFKWACDLVERASID-EVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAF 201
Query: 1875 EAYQEMLSCVQSAMKHKPSSESKIVSAVSCDEMYVDCSQLLQELSLTPLQFASYLRETIA 1934
++ + K S + + + L+ Q +R++I
Sbjct: 202 IGGNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVILA-LGSQVCKGIRDSIK 260
Query: 1935 KETGCTCSTGFGSNKLQARLATKKAKPNGQFHLTPQIISDFM--LNIPLSDLPGVGHSL- 1991
G T S G S K +LA+ KP+ Q + + DF+ ++ +G L
Sbjct: 261 DILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVLG 320
Query: 1992 --------------LFKLNSLGAQTCGDLQNISLKRLQNEVGNKN------------GLT 2025
+ + G L+ +++ +++
Sbjct: 321 KELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADLAEK 380
Query: 2026 LYKHCRGEDDKELTFEHQRKSVSAEVNY-GIRFQNNQEMETFLKQLAGEVEKRLEEV--- 2081
L+K RG L+ KS+ + N G + + ++L+ E+ R++++
Sbjct: 381 LFKLSRGRYGLPLSSRPVVKSMMSNKNLRGKSCNSIVDCISWLEVFCAELTSRIQDLEQE 440
Query: 2082 ---KMKGKCITLKLMVRSAEAPREASKFLGHGVCDYITKSSSLPIYERPLIITYFLLLVR 2138
+ + +++ L K + + KS + L
Sbjct: 441 YNKIVIPRTVSISL------------KTKSY---EVYRKSGPVAYKGINFQSHELL---- 481
Query: 2139 SAEAPREASKFLGHGVCDYITKSSSLPMYISQASQILKEVLFIVNKLKVDPVELRGIGIQ 2198
+ + ++ P+ + +
Sbjct: 482 ------------------------------KVGIKFVTDLDIKGKNKSYYPL--TKLSMT 509
Query: 2199 VSKLE 2203
++ +
Sbjct: 510 ITNFD 514
>1wf6_A Similar to S.pombe -RAD4+/CUT5+product (A40727); BRCT, topoisomerase
II binding protein, checkpoint; NMR {Homo sapiens} SCOP:
c.15.1.5
Length = 132
Score = 97.3 bits (242), Expect = 1e-23
Identities = 19/123 (15%), Positives = 46/123 (37%), Gaps = 16/123 (13%)
Query: 1322 MEAKKRKLEEQFE--LEANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALM 1379
+ +K E E + + + G I++ G++ ++L+ L+
Sbjct: 15 LNSKLEPTLENLENLDVSAFQAPEDLLDGCRIYLCGFSG-----------RKLDKLRRLI 63
Query: 1380 MLHGGIYHHYESSRTTHIIASNLPHTK---IKKLKPGDKIIKPEWIVDSISAGKLLDHKK 1436
GG+ + + TH+I + K ++ +W+++ S G +L +
Sbjct: 64 NSGGGVRFNQLNEDVTHVIVGDYDDELKQFWNKSAHRPHVVGAKWLLECFSKGYMLSEEP 123
Query: 1437 YLL 1439
Y+
Sbjct: 124 YIH 126
>3nuh_B DNA gyrase subunit B; topoisomerase, supercoiling, specialization,
isomera; HET: DNA; 3.10A {Escherichia coli}
Length = 420
Score = 97.7 bits (243), Expect = 4e-21
Identities = 52/181 (28%), Positives = 88/181 (48%), Gaps = 18/181 (9%)
Query: 443 MTLQKGSFGSTCVP-KLEDANDAGTKNSIDCTLILTEGDSAKSLAVSGLGVVGRDKY--G 499
MT +KG+ +P KL D + ++ L L EGDSA A G R++
Sbjct: 7 MTRRKGALDLAGLPGKLADCQE---RDPALSELYLVEGDSAGGSAKQG-----RNRKNQA 58
Query: 500 VFPLRGKLLNVREATHKQILENAEINNLVKILGLQYSKKYTTVEDMKTLRYGRLMIMTDQ 559
+ PL+GK+LNV +A ++L + E+ L+ LG + + LRY ++IMTD
Sbjct: 59 ILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDE---YNPDKLRYHSIIIMTDA 115
Query: 560 DQDGSHIKGLIINFIHHNWPTLLRLPFLEEFI--TPIIKATKAREELSFYSLPEFEEWKE 617
D DGSHI+ L++ F + P ++ + +I P+ K K ++E ++++
Sbjct: 116 DVDGSHIRTLLLTFFYRQMPEIVERGHV--YIAQPPLYKVKKGKQEQYIKDDEAMDQYQI 173
Query: 618 E 618
Sbjct: 174 S 174
>3k9f_C DNA topoisomerase 4 subunit B; quinolone, topoisomerase,
protein-DNA cleavage complex; HET: DNA LFX; 2.90A
{Streptococcus pneumoniae} PDB: 3fof_C* 3foe_C* 3ksa_C*
3ksb_C* 3ltn_C* 3rad_C* 3rae_C* 3raf_C*
Length = 268
Score = 94.5 bits (236), Expect = 4e-21
Identities = 43/135 (31%), Positives = 64/135 (47%), Gaps = 15/135 (11%)
Query: 443 MTLQKGSFGSTCVP-KLEDANDAGTKNSIDCTLILTEGDSAKSLAVSGLGVVGRDKY--G 499
K + KL A +KN L L EGDSA A G RD+
Sbjct: 21 DKHMKNKKDKGLLSGKLTPAQ---SKNPAKNELYLVEGDSAGGSAKQG-----RDRKFQA 72
Query: 500 VFPLRGKLLNVREATHKQILENAEINNLVKILGLQYSKKYTTVEDMKTLRYGRLMIMTDQ 559
+ PLRGK++N +A IL+N EIN ++ +G + ++ Y +++IMTD
Sbjct: 73 ILPLRGKVINTAKAKMADILKNEEINTMIYTIGAGVGADF----SIEDANYDKIIIMTDA 128
Query: 560 DQDGSHIKGLIINFI 574
D DG+HI+ L++ F
Sbjct: 129 DTDGAHIQTLLLTFF 143
>2d8m_A DNA-repair protein XRCC1; parallel beta-sheet, DNA ligase III,
poly(ADP-ribose) polymerase-1, DNA polymerase beta,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 129
Score = 88.4 bits (219), Expect = 2e-20
Identities = 26/125 (20%), Positives = 48/125 (38%), Gaps = 12/125 (9%)
Query: 1324 AKKRKLEEQFELEANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHG 1383
E A + G I QGV + ++G+ P EL+ + G
Sbjct: 1 GSSGSSGEPRRPRAGPEELGKILQGVVVVLSGFQN-----------PFRSELRDKALELG 49
Query: 1384 GIYHHYESSRTTHIIASNLPHTKIKK-LKPGDKIIKPEWIVDSISAGKLLDHKKYLLYTG 1442
Y + +TH+I + K + L G +I++ EW++D + L ++YL+
Sbjct: 50 AKYRPDWTRDSTHLICAFANTPKYSQVLGLGGRIVRKEWVLDCHRMRRRLPSQRYLMAGP 109
Query: 1443 TDAKP 1447
+
Sbjct: 110 GSSSE 114
>3m4i_A DNA gyrase subunit B; GYRB, toprim, type II topoisomerase,
tuberculosi quinolone binding site, DNA binding site,
ATP-binding; HET: DNA; 1.95A {Mycobacterium
tuberculosis} PDB: 3ig0_A* 2zjt_A*
Length = 242
Score = 87.6 bits (218), Expect = 5e-19
Identities = 37/113 (32%), Positives = 58/113 (51%), Gaps = 11/113 (9%)
Query: 463 DAGTKNSIDCTLILTEGDSAKSLAVSGLGVVGRDKY--GVFPLRGKLLNVREATHKQILE 520
D + L + EGDSA A SG RD + PLRGK++NV +A ++L+
Sbjct: 11 DDDKTDPRKSELYVVEGDSAGGSAKSG-----RDSMFQAILPLRGKIINVEKARIDRVLK 65
Query: 521 NAEINNLVKILGLQYSKKYTTVEDMKTLRYGRLMIMTDQDQDGSHIKGLIINF 573
N E+ ++ LG ++ D+ LRY ++++M D D DG HI L++
Sbjct: 66 NTEVQAIITALGTGIHDEF----DIGKLRYHKIVLMADADVDGQHISTLLLTL 114
>4fjo_A DNA repair protein REV1; translesion synthesis, transferase -DNA
binding protein COMP transferase-DNA binding protein
complex; HET: DNA; 2.72A {Mus musculus} PDB: 2lsg_A*
2lsk_A* 2lsy_A*
Length = 97
Score = 82.0 bits (202), Expect = 1e-18
Identities = 24/92 (26%), Positives = 51/92 (55%), Gaps = 1/92 (1%)
Query: 1808 LSSNVSLQEMRTMLREWMC-ESQPEPSDIEMFSEYLSNLVEERHLNPIVILLRFLRRHVG 1866
L+ V +++T+L+EW+ S P DI Y ++L+EE+ L + +++++++R +
Sbjct: 5 LAGAVEFSDVKTLLKEWITTISDPMEEDILQVVRYCTDLIEEKDLEKLDLVIKYMKRLMQ 64
Query: 1867 KKESTVWAEAYQEMLSCVQSAMKHKPSSESKI 1898
+ +VW A+ +L VQ ++ S K+
Sbjct: 65 QSVESVWNMAFDFILDNVQVVLQQTYGSTLKV 96
>3pc6_A DNA repair protein XRCC1; BRCT domain, protein:protein interactions,
DNA L III-alpha BRCT2 domain, DNA binding protein; HET:
DNA; 1.90A {Mus musculus} PDB: 3pc8_A* 3qvg_B* 1cdz_A
Length = 104
Score = 80.4 bits (198), Expect = 5e-18
Identities = 18/98 (18%), Positives = 30/98 (30%), Gaps = 13/98 (13%)
Query: 1345 IFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIASNLPH 1404
F+G F+ G L + G Y + R +I +
Sbjct: 7 FFEGKHFFLYGEFPG----------DERRRLIRYVTAFNGELEDYMNERVQFVITAQEWD 56
Query: 1405 TKIKKLK---PGDKIIKPEWIVDSISAGKLLDHKKYLL 1439
++ P ++P WI KLL H+ Y +
Sbjct: 57 PNFEEALMENPSLAFVRPRWIYSCNEKQKLLPHQLYGV 94
>3vu7_H DNA repair protein REV1; DNA replication, translesion DNA synthesis,
damage tolerance, DNA repair, replication; HET: DNA;
2.80A {Homo sapiens} PDB: 2lsj_A*
Length = 124
Score = 80.5 bits (198), Expect = 1e-17
Identities = 25/92 (27%), Positives = 52/92 (56%), Gaps = 1/92 (1%)
Query: 1808 LSSNVSLQEMRTMLREWMC-ESQPEPSDIEMFSEYLSNLVEERHLNPIVILLRFLRRHVG 1866
L+ V +++T+LREW+ S P DI +Y ++L+EE+ L + +++++++R +
Sbjct: 32 LAGAVEFNDVKTLLREWITTISDPMEEDILQVVKYCTDLIEEKDLEKLDLVIKYMKRLMQ 91
Query: 1867 KKESTVWAEAYQEMLSCVQSAMKHKPSSESKI 1898
+ +VW A+ +L VQ ++ S K+
Sbjct: 92 QSVESVWNMAFDFILDNVQVVLQQTYGSTLKV 123
>3ii6_X DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alternative splicing,
coiled coil, DNA damage, DNA recombination, isopeptide
bond, nucleus; HET: DNA; 2.40A {Homo sapiens} PDB:
2e2w_A*
Length = 263
Score = 82.3 bits (202), Expect = 6e-17
Identities = 19/152 (12%), Positives = 49/152 (32%), Gaps = 15/152 (9%)
Query: 1345 IFQGVAIFV-NGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIASNLP 1403
IF+ V V +G +L+ + GG T +IA +
Sbjct: 10 IFEDVEFCVMSGTDS-----------QPKPDLENRIAEFGGYIVQNPGPDTYCVIAGS-E 57
Query: 1404 HTKIKKLKPGDK--IIKPEWIVDSISAGKLLDHKKYLLYTGTDAKPLTKLLQKSYFENTE 1461
+ ++K + +K ++KP W+++ + + + + + + ++
Sbjct: 58 NIRVKNIILSNKHDVVKPAWLLECFKTKSFVPWQPRFMIHMCPSTKEHFAREYDCYGDSY 117
Query: 1462 APCCSKSLVETSSHTSTVSDSVDNTEESKSEA 1493
+ ++ S+ E + A
Sbjct: 118 FIDTDLNQLKEVFSGIKNSNEQTPEEMASLIA 149
Score = 56.1 bits (134), Expect = 4e-08
Identities = 23/154 (14%), Positives = 49/154 (31%), Gaps = 8/154 (5%)
Query: 1293 EDLEETFSDNPSPSEPKTTAPKKKKKGGYMEAKKRKLEEQFELEANSDS-RGGIFQGVAI 1351
+ +++ + ++ K K + L E + D +F+ +
Sbjct: 111 DCYGDSYFIDTDLNQLKEVFSGIKNSNEQTPEEMASLIADLEYRYSWDCSPLSMFRRHTV 170
Query: 1352 FVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIASNLPHTK----- 1406
+++ Y L + HG + +H+I
Sbjct: 171 YLDSYAVIND-LSTKNEGTRLAIKALELRFHGAKVVSCLAEGVSHVIIGEDHSRVADFKA 229
Query: 1407 -IKKLKPGDKIIKPEWIVDSISAGKLLDHKKYLL 1439
+ K KI+K W+ DSI +L + +YL+
Sbjct: 230 FRRTFKRKFKILKESWVTDSIDKCELQEENQYLI 263
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter
baumannii} PDB: 2xkk_A*
Length = 767
Score = 82.8 bits (205), Expect = 7e-16
Identities = 39/169 (23%), Positives = 74/169 (43%), Gaps = 8/169 (4%)
Query: 463 DAGTKNSIDCTLILTEGDSAKSLAVSGLGVVGRDKYGVFPLRGKLLNVREATHKQILENA 522
D + + L + EGDSA A ++ + P+RGK+LN E + ++L +
Sbjct: 35 DCVGQTREESELFIVEGDSAGGSAKQARD---KNFQAIMPIRGKILNTWEVSSDEVLASQ 91
Query: 523 EINNLVKILGLQYSKKYTTVEDMKTLRYGRLMIMTDQDQDGSHIKGLIINFIHHNWPTLL 582
E++++ +G+ +D+ LRYG++ I+ D D DG HI L+ ++P L+
Sbjct: 92 EVHDIAIAIGVDPGS-----DDLSELRYGKICILADADSDGLHIATLLCALFVKHFPALV 146
Query: 583 RLPFLEEFITPIIKATKAREELSFYSLPEFEEWKEETTNWHTYKIKYYK 631
L + P+ + ++ E E + +I +K
Sbjct: 147 EEGHLYVAMPPLFRIDIGKDVHYALDDEELETILKNVKGNKNPQITRFK 195
Score = 45.8 bits (109), Expect = 2e-04
Identities = 17/37 (45%), Positives = 22/37 (59%)
Query: 669 IPMVLVNGAEGIGTGWMTKIPNHNPREIVDNIKRMIR 705
+P +L+NG GI G T IP HN RE+V +IR
Sbjct: 429 VPNILLNGTTGIAVGMATDIPPHNLREVVKGTIALIR 465
>2cou_A ECT2 protein; BRCT domain, RHO GTPase, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Mus musculus}
Length = 109
Score = 72.3 bits (177), Expect = 4e-15
Identities = 17/96 (17%), Positives = 28/96 (29%), Gaps = 12/96 (12%)
Query: 1345 IFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIASNLPH 1404
FQ + G++ ++ + + GG Y R TH+I
Sbjct: 12 PFQDCILSFLGFSD-----------EEKHSMEEMTEMQGGSYLPVGDERCTHLIVEENTV 60
Query: 1405 TKIKK-LKPGDKIIKPEWIVDSISAGKLLDHKKYLL 1439
+ ++K EW SI YL
Sbjct: 61 KDLPFEPSKKLFVVKQEWFWGSIQMDARAGETMYLY 96
>3l46_A Protein ECT2; alternative splicing, guanine-nucleotide releasing
factor, phosphoprotein, polymorphism, proto-oncogene,
structural genomics; 1.48A {Homo sapiens}
Length = 112
Score = 71.8 bits (176), Expect = 6e-15
Identities = 16/97 (16%), Positives = 28/97 (28%), Gaps = 12/97 (12%)
Query: 1344 GIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIASNLP 1403
FQ + G++ ++ + + GG Y R TH++
Sbjct: 20 PPFQDCILSFLGFSD-----------EEKTNMEEMTEMQGGKYLPLGDERCTHLVVEENI 68
Query: 1404 HTKIKK-LKPGDKIIKPEWIVDSISAGKLLDHKKYLL 1439
+ ++K EW SI YL
Sbjct: 69 VKDLPFEPSKKLYVVKQEWFWGSIQMDARAGETMYLY 105
>1z56_C DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA ligase,
coiled-coil; HET: DNA; 3.92A {Saccharomyces cerevisiae}
Length = 264
Score = 76.1 bits (186), Expect = 8e-15
Identities = 19/107 (17%), Positives = 40/107 (37%), Gaps = 11/107 (10%)
Query: 1345 IFQGVAIFV-NGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRT-----THII 1398
IF G+ +V + Y I + EL+ ++ HGG + + +I
Sbjct: 5 IFAGLLFYVLSDYVTE-----DTGIRITRAELEKTIVEHGGKLIYNVILKRHSIGDVRLI 59
Query: 1399 ASNLPHTKIKKLKPGDKIIKPEWIVDSISAGKLLDHKKYLLYTGTDA 1445
+ + G I+ P W++D I+ +L+ + + +
Sbjct: 60 SCKTTTECKALIDRGYDILHPNWVLDCIAYKRLILIEPNYCFNVSQK 106
Score = 36.8 bits (84), Expect = 0.060
Identities = 19/127 (14%), Positives = 37/127 (29%), Gaps = 27/127 (21%)
Query: 1329 LEEQFELEANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHH 1388
+ E +F + + I + ++ + L GG
Sbjct: 144 MGELEIDSEVRRFPLFLFSNRIAY----------VPRRKISTEDDIIEMKIKLFGGKITD 193
Query: 1389 YESSRTTHIIASNLP----------HTKIKKLKPGD-------KIIKPEWIVDSISAGKL 1431
+S II P H KIK+ +++ PEW+ SI+
Sbjct: 194 QQSLCNLIIIPYTDPILRKDCMNEVHEKIKEQIKASDTIPKIARVVAPEWVDHSINENCQ 253
Query: 1432 LDHKKYL 1438
+ + +
Sbjct: 254 VPEEDFP 260
>2jw5_A DNA polymerase lambda; BRCT domain, family X polymerase,
nonhomologous END joining (NHEJ), DNA damage, DNA repair,
DNA replication, DNA synthesis; HET: DNA; NMR {Homo
sapiens}
Length = 106
Score = 71.2 bits (174), Expect = 1e-14
Identities = 18/107 (16%), Positives = 38/107 (35%), Gaps = 20/107 (18%)
Query: 1343 GGIFQGVAIFV--NGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIAS 1400
+ V G + AE + ++ HGG + THI+
Sbjct: 9 EEWLSSLRAHVVRTGIGR-----------ARAELFEKQIVQHGGQLCPAQGPGVTHIVVD 57
Query: 1401 N-------LPHTKIKKLKPGDKIIKPEWIVDSISAGKLLDHKKYLLY 1440
L ++ +L PG +++K W+ + +L+D + ++
Sbjct: 58 EGMDYERALRLLRLPQLPPGAQLVKSAWLSLCLQERRLVDVAGFSIF 104
>3l3e_A DNA topoisomerase 2-binding protein 1; BRCT domain, DNA repair, cell
cycle checkpoints, acetylation, cytoplasm, cytoskeleton,
DNA damage; HET: DNA; 1.26A {Homo sapiens} PDB: 3pd7_A*
3jve_A*
Length = 107
Score = 69.1 bits (169), Expect = 6e-14
Identities = 19/110 (17%), Positives = 31/110 (28%), Gaps = 15/110 (13%)
Query: 1332 QFELEANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYES 1391
E ++ + V + V+ EL + G Y
Sbjct: 2 HMEAQSEKEEAPKPLHKVVVCVSKKLS-----------KKQSELNGIAASLGADYRRSFD 50
Query: 1392 SRTTHIIASNLPHTKIKKLK----PGDKIIKPEWIVDSISAGKLLDHKKY 1437
TH I P+ ++ K G I+ W++D K L Y
Sbjct: 51 ETVTHFIYQGRPNDTNREYKSVKERGVHIVSEHWLLDCAQECKHLPESLY 100
>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 = 77.4 bits (190), Expect = 6e-14
Identities = 90/543 (16%), Positives = 150/543 (27%), Gaps = 201/543 (37%)
Query: 1722 SLTL---NIEAV-----SLYTN-----ESFLNALPEDIRQEVLDD-LSRQQSVLSR---- 1763
LTL ++E V + + E F LPE DD + ++ +
Sbjct: 8 PLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 1764 --------EQNTTEPLAQDIICA---------DSHTLV---------------------- 1784
+ + + + D H L
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYI 127
Query: 1785 --RTPSPSPILDMSTSIL----DTTTSHIL-------SSNVSLQEMRTMLREWMCESQPE 1831
R + P S S L + ++ +++ +E LR+
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE----LRDLYQTYHVL 183
Query: 1832 PSD-IEMFSEYLSNLVEERHLNPIVI-----LLRFLRRHVGKKESTVWAEAYQEMLSCVQ 1885
D I+ +E LS L+ V +L +L S + Y +LS
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE-----NPSNTPDKDY--LLSI-- 234
Query: 1886 SAMKHKPSSESKIVSAVSCDEMYVDCSQLLQELSLTPLQFASYLRETIAKETGC------ 1939
P S ++ + V + L TP + SYL+ TG
Sbjct: 235 ------PIS-CPLIGVIQLAHYVVTA----KLLGFTPGELRSYLKGA----TGHSQGLVT 279
Query: 1940 -----TCSTG--FGSNKLQAR-------LATKKAKPNGQFHLTPQIISDF---------- 1975
+ F + +A + +A P L P I+ D
Sbjct: 280 AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYP--NTSLPPSILEDSLENNEGVPSP 337
Query: 1976 MLNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQN-----ISLKRLQNEVGNKN----G--L 2024
ML+I S+L ++ +T L ISL N G KN G
Sbjct: 338 MLSI--SNLT------QEQVQDYVNKTNSHLPAGKQVEISLV---N--GAKNLVVSGPPQ 384
Query: 2025 TLY---KHCR------GEDDKELTFEHQRKSVSAEVNYGIRFQNNQEMETFL-------- 2067
+LY R G D + F +RK ++F N FL
Sbjct: 385 SLYGLNLTLRKAKAPSGLDQSRIPFS-ERK---------LKFSNR-----FLPVASPFHS 429
Query: 2068 KQLAGEVEKRLEEVKMKGKCIT---LKLMV---RSAEAPREASKFLGHGVCDYITKSSSL 2121
L + +++ +++ V R S + + D I L
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCII---RL 486
Query: 2122 PIY 2124
P+
Sbjct: 487 PVK 489
Score = 64.7 bits (157), Expect = 4e-10
Identities = 86/479 (17%), Positives = 139/479 (29%), Gaps = 168/479 (35%)
Query: 1915 LQELSLTPLQFASY--LRETIAKETGCTCSTGFGSNKLQARLATKKAKPNGQFHLTPQII 1972
+ S PL S+ L + T ++ F +++LQ + +P T
Sbjct: 1 MDAYSTRPLTL-SHGSLEHVLLVPT----ASFFIASQLQEQFNKILPEP------TEGFA 49
Query: 1973 SDFMLNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQNEVGNKNGLTLYKHCRG 2032
+D + P + VG L + + + G + L E
Sbjct: 50 AD---DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQV-LNLCLTE--------------- 90
Query: 2033 EDDKELTFEHQRKSVSAEVNYGIRFQNNQEMETFLKQLAGEVEKRLEEVKMKGKC-ITLK 2091
FE+ + ++ +L E + L + K K IT +
Sbjct: 91 -------FENC-------------YLEGNDIHALAAKLLQENDTTLVKTKELIKNYITAR 130
Query: 2092 LMVRSAEAPREASKFL---------------GHG-VCDYITKSSSLPIYE------RPLI 2129
+M + + S G G DY + L Y+ LI
Sbjct: 131 IMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDL--YQTYHVLVGDLI 188
Query: 2130 ITYFLLLVRSAEAPREASKFLGHGV--------------CDYITKSS-SLPM-YISQASQ 2173
L +A K G+ DY+ S P+ + Q +
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAH 248
Query: 2174 ILKEVLFIV--NKLKVDPVELRGI---------GIQVSKLEHQSKTLATIDTFFTNKGK- 2221
++V L P ELR G+ + ++ + ++FF + K
Sbjct: 249 ------YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETD---SWESFFVSVRKA 299
Query: 2222 --------------------PP----DQLNN----PRP-----GPSNSTITP--GPSNST 2246
PP D L N P P + + +NS
Sbjct: 300 ITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH 359
Query: 2247 LPPGPS------NSTLPPGPSNSTLLPGPSFGLSLPLGLSNLMVHKAVRFKFTSRIKQS 2299
LP G N G N ++ GP SL GL NL + KA K S + QS
Sbjct: 360 LPAGKQVEISLVN-----GAKN-LVVSGPP--QSL-YGL-NLTLRKA---KAPSGLDQS 405
Score = 59.3 bits (143), Expect = 2e-08
Identities = 99/590 (16%), Positives = 154/590 (26%), Gaps = 245/590 (41%)
Query: 1259 FKQYVNELREKHD-GVFRGIEAIRKWKTSLGITEDEDLEETF-SDN-------PSPSEPK 1309
F YV+ L E G F + L + E + N E
Sbjct: 64 FLGYVSSLVEPSKVGQFDQV-----LNLCL-----TEFENCYLEGNDIHALAAKLLQEND 113
Query: 1310 TTAPKKKK--KGGYMEAK---KRKLEEQFE---LEANSDSRGGIFQGVAIFVNG--YTKH 1359
TT K K+ K Y+ A+ KR +++ A + + AIF G T
Sbjct: 114 TTLVKTKELIKN-YITARIMAKRPFDKKSNSALFRAVGEGNAQLV---AIF-GGQGNT-- 166
Query: 1360 CMMLDAYYIVPSAEELKALMMLHGGIYHHYES--SRTTHIIASNL-----PHTKIKKLKP 1412
D Y+ EEL+ L Y Y A L +K+
Sbjct: 167 ----DDYF-----EELRDL-------YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 1413 -GDKIIKPEWIVDSISAGKLLDHKKYLLYTGTDAKPLTKLLQKSYFENTEAPC------- 1464
G I+ EW+ + + K YLL + PL ++Q +++ T
Sbjct: 211 QGLNIL--EWLENPSNTPD----KDYLLSIPI-SCPLIGVIQLAHYVVT---AKLLGFTP 260
Query: 1465 ------------CSKSLV---------------------------------ETSSHTS-- 1477
S+ LV E +TS
Sbjct: 261 GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 1478 --TVSDSVDNTEESKS-----------------EAVNSEESKSEAA-----N-------- 1505
+ DS++N E S NS + N
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS 380
Query: 1506 -PIESKQTVKTKESKLETVNISAPKPQASSTKNASNEDFLGEFYNKSRLH---------- 1554
P +S L +N++ K +A S + S F K +
Sbjct: 381 GPPQS----------LYGLNLTLRKAKAPSGLDQSRIPFSER---KLKFSNRFLPVASPF 427
Query: 1555 HLSTMGSMFKQYVNELREKHDGVFRGIEAIRKWKTS-LGI----TED-EDLEETFSDNPS 1608
H + +L + + + + I T D DL S + S
Sbjct: 428 HSHLLVPASDLINKDLVKN------NVS----FNAKDIQIPVYDTFDGSDLRV-LSGSIS 476
Query: 1609 PSEPEPVIMHIDMDCFFVSVGIRHHP---ELQDEPVAVAH----GKGNSSKVREGVDRQA 1661
+D I P E + A H G G +S + R
Sbjct: 477 ER-------IVDC--------IIRLPVKWETTTQFKA-THILDFGPGGASGLGVLTHRNK 520
Query: 1662 EFDIYRQRTMNRMGLNTREYGLGNGMFVGHALKKCPNLKIVPYDFEGYKE 1711
+ G G + V L P+ G+K+
Sbjct: 521 D-------------------GTGVRVIVAGTLDINPDDDY------GFKQ 545
Score = 56.2 bits (135), Expect = 1e-07
Identities = 95/610 (15%), Positives = 167/610 (27%), Gaps = 217/610 (35%)
Query: 1285 TSLGITEDEDLEETFSDN-PSPS-------EPKTTAPKKKKKGGYMEAKKRKLEEQFELE 1336
T+ + L+E F+ P P+ EP T A EL
Sbjct: 24 TASFFIASQ-LQEQFNKILPEPTEGFAADDEPTTPA---------------------EL- 60
Query: 1337 ANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESS--RT 1394
V F+ GY +++ + + L + +E+
Sbjct: 61 ------------VGKFL-GYVSS--LVEPSKVGQFDQVLNLCL-------TEFENCYLEG 98
Query: 1395 T--HIIASNLPHTKIKKLKPGDKIIK-----------PEWIVDSISAGKLLDH---KKYL 1438
H +A+ L L ++IK P D S L
Sbjct: 99 NDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRP---FDKKSNSALFRAVGEGNAQ 155
Query: 1439 LYT-----GTDAKPLTKL--LQKSYFENTEAPCCSKSLVETSSHT-STVSDSVDNTEESK 1490
L G +L L ++Y L++ S+ T S + + + E+
Sbjct: 156 LVAIFGGQGNTDDYFEELRDLYQTY------HVLVGDLIKFSAETLSELIRTTLDAEKVF 209
Query: 1491 SEAVNSEE--SKSEAANPIESKQTVKTKESKLETVNISAPKPQASSTKNASNEDFLGEFY 1548
++ +N E P + L ++ IS P L +
Sbjct: 210 TQGLNILEWLENPSNT-P---------DKDYLLSIPISCPLIGVIQ---------LAHYV 250
Query: 1549 NKSRLHHLSTMGSMFKQYVNELREKHDGVFRGIEAIRKWKTSLGITEDEDLEETFSDNPS 1608
++L + ELR G + + T++ I E D E+F +
Sbjct: 251 VTAKLLGFTP---------GELRSYLKGATGHSQGL---VTAVAIAE-TDSWESFFVSVR 297
Query: 1609 PSEPEPVIMHIDMDCFFVSVGIRHH---PELQDEPVAVA----HGKGNSS---KVREGVD 1658
+ + FF +G+R + P P + + +G S + +
Sbjct: 298 ------KAITV---LFF--IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS-NLT 345
Query: 1659 R-QAEFDIYRQRTMNRMGLNTR--EYGLGNG--MFV--GHALKKCPNLKIVPYDFEGYKE 1711
+ Q + + N + E L NG V G P
Sbjct: 346 QEQVQDYV---NKTNSHLPAGKQVEISLVNGAKNLVVSGP-----------PQS------ 385
Query: 1712 VSYCLYNLIASLTLNIEAVS-------------LYTNESFLN-ALP------EDIRQEVL 1751
LY L +L +A S L + FL A P +
Sbjct: 386 ----LYGLNLTL-RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLIN 440
Query: 1752 DDLSRQQSVLSREQ------NTTEPLAQDIICADSHTLVRTPSPSPILDMSTS------- 1798
DL + + + +T + D + S ++ I+D
Sbjct: 441 KDLVKNNVSFNAKDIQIPVYDTFD--GSD-LRVLSGSISER-----IVDCIIRLPVKWET 492
Query: 1799 ILDTTTSHIL 1808
+HIL
Sbjct: 493 TTQFKATHIL 502
Score = 50.8 bits (121), Expect = 6e-06
Identities = 53/328 (16%), Positives = 101/328 (30%), Gaps = 123/328 (37%)
Query: 1560 GSMFKQYVN---ELREKHDGVFRGI--EAIRKWKTSLGITEDEDLEETFSDNPSPSEPEP 1614
GS Q +L + + + A +K + G + + + +NP
Sbjct: 1625 GS---QEQGMGMDLYKTSK-AAQDVWNRADNHFKDTYGFS----ILDIVINNP----VNL 1672
Query: 1615 VIMHIDMDCFFVSVG--IRH-HPELQDEPVAVAHGKGNSSKVREGVDRQAEFDIYR---- 1667
I F G IR + + E + GK + K+ + ++ + +R
Sbjct: 1673 TIH------FGGEKGKRIRENYSAMIFE--TIVDGKLKTEKIFKEINEHSTSYTFRSEKG 1724
Query: 1668 --QRTMNRMGLNT---------------REYGL--GNGMFVGH------ALKKCPN---- 1698
T T + GL + F GH AL +
Sbjct: 1725 LLSATQF-----TQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSI 1779
Query: 1699 ---LKIV-----------PYDFEGYKEVSYCLYNLIASLTLNIEAVSLYTNESFLNALPE 1744
+++V P D G Y +IA +N V+ + +
Sbjct: 1780 ESLVEVVFYRGMTMQVAVPRDELGRSN-----YGMIA---INPGRVAA--------SFSQ 1823
Query: 1745 DIRQEVLDDLSRQQ-SVLSREQ----NTTEPLAQDIICA-DSHTLVRTPSPSPILDMSTS 1798
+ Q V++ + ++ ++ + N Q + A D L D T+
Sbjct: 1824 EALQYVVERVGKRTGWLV---EIVNYNV--ENQQ-YVAAGDLRAL----------DTVTN 1867
Query: 1799 ILDTTTSH-I----LSSNVSLQEMRTML 1821
+L+ I L ++SL+E+ L
Sbjct: 1868 VLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 48.1 bits (114), Expect = 4e-05
Identities = 55/283 (19%), Positives = 91/283 (32%), Gaps = 89/283 (31%)
Query: 181 DEEDKVTGGRNGYGAKLCNIFSSKFVVETSCSEYKKSFK----QVWKDN---MSKVTSPE 233
+ D ++ YG FS +V + F + ++N M T +
Sbjct: 1647 NRADNHF--KDTYG------FSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVD 1698
Query: 234 IKSGSKDDF-------TKITFTPD-----LTKFKMT---------SLDKDMVD--LITRR 270
K ++ F T TF + T+F T + +D+ LI
Sbjct: 1699 GKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF--TQPALTLMEKAAFEDLKSKGLIPAD 1756
Query: 271 A---------YDAAASTKDVKVFLNGEKLPVKNFQDYVKLYTDR---------QDEDG-D 311
A Y A AS DV + + V++ R +DE G
Sbjct: 1757 ATFAGHSLGEYAALASLADV--------MS---IESLVEVVFYRGMTMQVAVPRDELGRS 1805
Query: 312 PVKIIYENVNPRWEVAIAPSDRGFQQVSFVNSIATTKGGRHVDAVVDAIV------KQII 365
+I +NP VA + S Q V V + G +V+ IV +Q
Sbjct: 1806 NYGMI--AINP-GRVAASFSQEALQYV--VERVGKRTGW-----LVE-IVNYNVENQQY- 1853
Query: 366 EVVKKKNKDLGCTIIMLFGNKFNNVKNNKLQMAKTLIDIGVRL 408
V + L +L K + +LQ + +L ++ L
Sbjct: 1854 -VAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 42.0 bits (98), Expect = 0.003
Identities = 75/522 (14%), Positives = 142/522 (27%), Gaps = 177/522 (33%)
Query: 408 LGGMALKPFQVKNHIWIFINCLIVNPT----FDSQTKENMTLQKGSFGSTCVPKLEDAND 463
+ + +P + + + +++ PT SQ +E F L + +
Sbjct: 1 MDAYSTRPLTLSHGS---LEHVLLVPTASFFIASQLQE-------QFNKI----LPEPTE 46
Query: 464 AGTKNSIDCTLILTEGDSAKSLAVSGLGVVGR--DKYGVFPLRGKLLNVREATHKQILEN 521
+ E + L LG V + V L LE
Sbjct: 47 GFAADD--------EPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG 98
Query: 522 AEINNLVKILGLQYSKKYTTVEDMKTLR-YGRLMIMTDQD-------------QDGSHIK 567
+I+ L L T V+ + ++ Y IM + +G+
Sbjct: 99 NDIHALA--AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGN--A 154
Query: 568 GLIINF-----IHHNWPTLLRL-----PFLEEFITPIIK-----ATKAREELSFYSLP-E 611
L+ F + L L + + I + + ++
Sbjct: 155 QLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN 214
Query: 612 FEEW--KEETTNWHTY--------------KIKYYKV--------------------VYV 635
EW T Y ++ +Y V +
Sbjct: 215 ILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS 274
Query: 636 TGVLL------------FKMNLHKVTSDSISMFIG----RIEPEWYIPIIPMVL---VNG 676
G++ F +++ K + + FIG P +P P +L +
Sbjct: 275 QGLVTAVAIAETDSWESFFVSVRKAIT--VLFFIGVRCYEAYPNTSLP--PSILEDSLEN 330
Query: 677 AEGIGTGWMTKIPNHNPREIVDNIKRMIRGEDPLPMKPWYKNFKGEID-YCGDSRFVVNG 735
EG+ + M I N ++ D + + LP + EI G VV+G
Sbjct: 331 NEGVPS-PMLSISNLTQEQVQDYVNKT---NSHLP-----AGKQVEISLVNGAKNLVVSG 381
Query: 736 EIAILDDDKLEITELQVGKWTTDYKDTLDTLLH------GAEKDEVHPGPGRKSHPR--- 786
L G L+ L G ++ + P RK +
Sbjct: 382 PPQSL-----------YG---------LNLTLRKAKAPSGLDQSRI-PFSERK--LKFSN 418
Query: 787 ---PI-AP--KSY------KIDDDSEEEEIEEVFHDNELAKP 816
P+ +P I+ D + + F+ ++ P
Sbjct: 419 RFLPVASPFHSHLLVPASDLINKDLVKNNVS--FNAKDIQIP 458
Score = 40.8 bits (95), Expect = 0.008
Identities = 40/274 (14%), Positives = 81/274 (29%), Gaps = 80/274 (29%)
Query: 1999 GAQTCG---DLQNIS------LKRLQNEVGNKNGLTLYKHCRGEDDKELT--FEHQRKSV 2047
G+Q G DL S R N + G ++ + LT F ++
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVI-NNPVNLTIHFGGEKGKR 1683
Query: 2048 SAEVNY-GIRFQNNQEMETFLKQLAGEVEKRLEEVKMKGKCITLKL-------------- 2092
E NY + F+ + + +++ E+ + + + L
Sbjct: 1684 IRE-NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKA 1742
Query: 2093 ---MVRSAEAPREASKFLGH--G-----VCDYITKSSSLPIYERPLIITYFLLLVR---- 2138
++S + F GH G + + I + +V
Sbjct: 1743 AFEDLKSKGLIPADATFAGHSLGEYAALAS----LADVMSIES-------LVEVVFYRGM 1791
Query: 2139 --SAEAPREASKFLGHGVC----DYITKS---SSLPMYISQASQILKEVLFIVN------ 2183
PR+ +G+ + S +L + + + ++ IVN
Sbjct: 1792 TMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQ 1851
Query: 2184 ------KLK-VDPVE--LRGIGIQ---VSKLEHQ 2205
L+ +D V L I +Q + +L+
Sbjct: 1852 QYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKS 1885
Score = 40.4 bits (94), Expect = 0.010
Identities = 49/348 (14%), Positives = 83/348 (23%), Gaps = 158/348 (45%)
Query: 839 GSQTQEEEDPDKDYDYLLGMTFWSLTME-RKN-----ELLKKRDDKMTE---LNILK--K 887
GSQ Q GM M+ K ++ + D+ + +IL
Sbjct: 1625 GSQEQ-------------GMG-----MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVI 1666
Query: 888 KAPTDLWSDDLDALREKDKIHPCPGGNRTRGLALKRQTRYQPSNRVLTSRDEPMVVSSGE 947
P +L IH GG + + + R+ Y M+ +
Sbjct: 1667 NNPVNL------------TIHF--GGEKGKRI---RE-NYSA-----------MIFETIV 1697
Query: 948 DAPPPTKASPVKKKKPAAKRPAPKSDSSDLSDSDGDSDFASRKKKTAAAKKAKPA----- 1002
D K + K S S G T + PA
Sbjct: 1698 DGKL--------KTEKIFKEINEHSTSYTFRSEKGLLS------ATQFTQ---PALTLME 1740
Query: 1003 -------KKE------------S--EYSSTVC-------------LFKR----------- 1017
K + S EY++ +F R
Sbjct: 1741 KAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRD 1800
Query: 1018 -FGRRNCNDGGLIPKSQREGAQDSDLENNCRLDEVERKEKEE-E--NSNI---------- 1063
GR N + P L+ + V ++ E N N+
Sbjct: 1801 ELGRSNYGMIAINPGRVAASFSQEALQYVV--ERVGKRTGWLVEIVNYNVENQQYVAAGD 1858
Query: 1064 -------TKIKSKLKEKGSKKRNPLSSLDDTMPSAAGRRVEPKYEELL 1104
T + + +K + + L ++ +E L
Sbjct: 1859 LRALDTVTNVLNFIKLQKID----IIELQKSLS------LEEVEGHLF 1896
Score = 38.5 bits (89), Expect = 0.032
Identities = 58/312 (18%), Positives = 100/312 (32%), Gaps = 105/312 (33%)
Query: 1757 Q--QSV-LSREQNTTEPLAQDII-CADSHTLVRTPSPSPILDMSTSILDTTTSHILSSNV 1812
Q Q + + T AQD+ AD+H T S ILD+ + + I
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWNRADNH-FKDTYGFS-ILDIVIN--NPVNLTIHFGGE 1679
Query: 1813 SLQEMR----TMLREWMCESQPEPSDI-EMFSEYLSNLV---EERHLN------P-I--- 1854
+ +R M+ E + + + + I + +E+ ++ E+ L+ P +
Sbjct: 1680 KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLM 1739
Query: 1855 -VILLRFLRRHVGKKESTVWA-----E--AYQEMLSCVQSAMKHKPSSES--KIV----- 1899
L+ +A E A L+ + M S ES ++V
Sbjct: 1740 EKAAFEDLKSKGLIPADATFAGHSLGEYAA----LASLADVM----SIESLVEVVFYRGM 1791
Query: 1900 ---SAVSCDE-------MY-VDCSQLLQELSLTPLQFASYLRETIAKETGCTCSTGFGSN 1948
AV DE M ++ ++ S LQ Y+ E + K TG
Sbjct: 1792 TMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQ---YVVERVGKRTGWLVE------ 1842
Query: 1949 KLQARLATKKAKPN----GQFHLTPQIISDFMLNIPLS-DLPGVGHSLLFKLNSLGAQTC 2003
+ N Q Q + + DL + ++ LN +
Sbjct: 1843 -----IV------NYNVENQ-----QYV--------AAGDLRAL-DTVTNVLNFIK---- 1873
Query: 2004 GDLQNISLKRLQ 2015
LQ I + LQ
Sbjct: 1874 --LQKIDIIELQ 1883
Score = 38.1 bits (88), Expect = 0.044
Identities = 108/664 (16%), Positives = 176/664 (26%), Gaps = 264/664 (39%)
Query: 890 PTDLWSDDLDALREK-DKIHPCPGGNRTRGLALKRQTRYQPSNRV---------LTSRDE 939
PT + L+E+ +KI P P T G A +P+ ++S E
Sbjct: 23 PTASFFI-ASQLQEQFNKILPEP----TEGFAAD----DEPTTPAELVGKFLGYVSSLVE 73
Query: 940 PMVVSS------------------GED-------APPPTKASPVKKKK---------PAA 965
P V G D + VK K+ A
Sbjct: 74 PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMA 133
Query: 966 KRPAPKSDSSDLSDSDGDSDFASRKKKTAAAKKAKPAKKESEYSSTVCLFKRFGRRNCND 1025
KRP K +S L + A+ L FG
Sbjct: 134 KRPFDKKSNSALFRA-------------VGEGNAQ-------------LVAIFG------ 161
Query: 1026 GGLIPKSQREGAQDSDLENNCRLDEVERKEKEEENSNITKIKSKLKEKGSKKRNPLSSLD 1085
G Q G + +E L L
Sbjct: 162 G------Q--GN------TDDYFEE------------------------------LRDLY 177
Query: 1086 DTMPSAAGRRVEPKYEELLIKAEKAAAPKKPNEVLPGWESNLRPSADKAESRKRTQTSQG 1145
T Y L+ K +A E L S L + AE +QG
Sbjct: 178 QT------------YHVLVGDLIKFSA-----ETL----SELIRTTLDAEK----VFTQG 212
Query: 1146 TESEERKGHLRRWRRKEEESTQTVQVELREGVNISAPKPQASSTKNASNEDF-------L 1198
++ W + P + S L
Sbjct: 213 L-------NILEWLENPS----------------NTPDKDYLLSIPIS---CPLIGVIQL 246
Query: 1199 GEFYNKSRLHHLSTMGSMFKQYVNQLISLQQDKQLPAIQVISIRSPRARPPRRSSTMGSM 1258
+ ++L T G + Y+ Q +++ A + + S
Sbjct: 247 AHYVVTAKLLGF-TPGELRS-YLKGATGHSQG-------LVT-----AVAIAETDSWESF 292
Query: 1259 FKQYVNELREKHDGVF----RGIEAIRKWKTSLGITEDEDLEETFSDNPSPSEPKTTAPK 1314
F + +F R EA TSL + ED E PSP
Sbjct: 293 FVSVRKAITV----LFFIGVRCYEAYP--NTSLPPSILEDSLENNEGVPSP--------- 337
Query: 1315 KKKKGGYMEA----KKRKLEEQFELEANSDSRGGIFQGVAI-FVNGYTKHCMMLDAYYIV 1369
M + + ++++ + NS G + V I VNG +V
Sbjct: 338 -------MLSISNLTQEQVQDYVN-KTNSHLPAG--KQVEISLVNGAKN--------LVV 379
Query: 1370 --PSAEELKAL-MMLHGG-IYHHYESSRTTH----IIASN--LP-----HTKIKKLKPGD 1414
P + L L + L + SR + SN LP H+ + L P
Sbjct: 380 SGP-PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHL--LVPAS 436
Query: 1415 KIIKPEWIVDSIS-AGKLLDHKKYLLYTGTDAKPLTKLLQKSYFE-NTEAPCC-SKSLVE 1471
+I + + +++S K + Y + G+D + L+ + + + P +
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQF 496
Query: 1472 TSSH 1475
++H
Sbjct: 497 KATH 500
Score = 33.5 bits (76), Expect = 1.1
Identities = 34/153 (22%), Positives = 57/153 (37%), Gaps = 39/153 (25%)
Query: 201 FSSKFVVETSC---SEY-KKSFKQVWKDNMSKVTSPEIKSGSKDDFTKI----TFT-PDL 251
FS++F+ + S + + KD + + +KD +I TF DL
Sbjct: 416 FSNRFLP-VASPFHSHLLVPASDLINKD----LVKNNVSFNAKD--IQIPVYDTFDGSDL 468
Query: 252 TKFKMTSLDKDMVDLITRRAYDAAASTKD----VKVFLNGEKLPVKNFQDYVKLYTDRQD 307
S+ + +VD I R +T+ + F G + L T R
Sbjct: 469 RVLS-GSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGL------GVL-THRN- 519
Query: 308 EDGDPVKIIYE---NVNPRWEVAIAPSDRGFQQ 337
+DG V++I ++NP D GF+Q
Sbjct: 520 KDGTGVRVIVAGTLDINP-------DDDYGFKQ 545
>2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA
topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus
aureus} PDB: 2xct_B* 2xcr_B* 2xcq_A* 2xco_A*
Length = 692
Score = 73.9 bits (182), Expect = 5e-13
Identities = 46/137 (33%), Positives = 69/137 (50%), Gaps = 24/137 (17%)
Query: 463 DAGTKNSIDCTLILTEGDSAKSLAVSGLGVVGRDK--YGVFPLRGKLLNVREATHKQILE 520
D +K+ +C + L EGDSA G GRD + PLRGK+LNV +A +IL
Sbjct: 12 DCSSKSPEECEIFLVEGDSA-----GGSTKSGRDSRTQAILPLRGKILNVEKARLDRILN 66
Query: 521 NAEINNLVKILGLQYSKKYTTVEDMKTLRYGRLMIMTDQDQDGSHIKGLIINFIHHNWPT 580
N EI ++ G + D+ RY +++IMTD D DG+HI+ L++ F +
Sbjct: 67 NNEIRQMITAFGTGIGGDF----DLAKARYHKIVIMTDADVDGAHIRTLLLTFFY----- 117
Query: 581 LLRLPFLEEFITPIIKA 597
F+ P+I+A
Sbjct: 118 --------RFMRPLIEA 126
Score = 45.4 bits (108), Expect = 2e-04
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 669 IPMVLVNGAEGIGTGWMTKIPNHNPREIVDNIKRMIRGED 708
P +L NGA GI G T IP HN E+++ + + + D
Sbjct: 365 FPNLLANGASGIAVGMATNIPPHNLTELINGVLSLSKNPD 404
>3olc_X DNA topoisomerase 2-binding protein 1; BRCT domain, DNA repair, RAD9,
DNA binding protein; HET: DNA; 2.40A {Homo sapiens} PDB:
2xnk_A* 2xnh_A*
Length = 298
Score = 71.3 bits (174), Expect = 5e-13
Identities = 23/97 (23%), Positives = 34/97 (35%), Gaps = 13/97 (13%)
Query: 1345 IFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHY-ESSRTTHIIASNLP 1403
IF G I V G +E++ L + HGG Y + + TH+I
Sbjct: 199 IFLGCIICVTGLCG-----------LDRKEVQQLTVKHGGQYMGQLKMNECTHLIVQEPK 247
Query: 1404 HTKIKK-LKPGDKIIKPEWIVDSISAGKLLDHKKYLL 1439
K + + + +W DSI G D Y
Sbjct: 248 GQKYECAKRWNVHCVTTQWFFDSIEKGFCQDESIYKT 284
Score = 52.4 bits (125), Expect = 7e-07
Identities = 16/90 (17%), Positives = 26/90 (28%), Gaps = 12/90 (13%)
Query: 1345 IFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIASNLPH 1404
+ V I K EE+ + + GG + + TH+IA +
Sbjct: 105 VMSDVTISCTSLEK-----------EKREEVHKYVQMMGGRVYRDLNVSVTHLIAGEVGS 153
Query: 1405 TKIKK-LKPGDKIIKPEWIVDSISAGKLLD 1433
K I+ P WI +
Sbjct: 154 KKYLVAANLKKPILLPSWIKTLWEKSQEKK 183
>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 = 73.7 bits (180), Expect = 7e-13
Identities = 98/695 (14%), Positives = 208/695 (29%), Gaps = 206/695 (29%)
Query: 1536 KNASNEDFLGEFYNKSRLHHL-----STMGSMFKQYVNE-LREKHDGVFRGIEAIRKWKT 1589
+ + S L S M +++V E LR + + I+ ++ +
Sbjct: 47 SKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPS 106
Query: 1590 SLGITEDEDLEETFSDNPSPSEPEPVIMHIDMDCFFVSVGIRHHP---------ELQDEP 1640
+ E + ++DN ++ + VS R P EL+
Sbjct: 107 MMTRMYIEQRDRLYNDNQVFAK------------YNVS---RLQPYLKLRQALLELRPAK 151
Query: 1641 VAVAHGKGNSSK-------VR-EGVDRQAEFDIYRQRTMNRMGLNTREYGLGNGMFVGHA 1692
+ G S K V + +F I+ +N + +
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF---WLN-LKNCNSPETV--------- 198
Query: 1693 LKKCPNL--KIVPYDFEGYKEVSYC-LYNLIASLTLNIEAVS-----LYTNESFLNALPE 1744
L+ L +I P ++ + +++ L I ++ L ++ + N L
Sbjct: 199 LEMLQKLLYQIDP---------NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL-- 247
Query: 1745 DIRQEVLDDLSRQQSVLSREQNTTEPLAQDIICADSHTLVRTPSPSPILDMSTSILDTTT 1804
+ VL ++ + ++ C L+ T + D + TT
Sbjct: 248 -L---VLLNV--------QNAKAWNAF--NLSC---KILLTTRFKQ-VTD---FLSAATT 286
Query: 1805 SHI----LSSNVSLQEMRTMLREWM-CESQPEPSDIEMFSEYLSNLVEERHLNPIVILL- 1858
+HI S ++ E++++L +++ C Q P E NP + +
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR-------------EVLTTNPRRLSII 333
Query: 1859 -RFLRRHVGKKESTVWAE-AYQEMLSCVQSAMKHKPSSESKIVSAVSCDEMYVDCSQLLQ 1916
+R + ++ W ++ + ++S++ +E + +M+ S +
Sbjct: 334 AESIRDGLATWDN--WKHVNCDKLTTIIESSLNVLEPAEYR--------KMFDRLS-VFP 382
Query: 1917 ELSLTPLQFASYLRETIAKETGCTCSTGFGSNKLQARLATKKAKPNGQFHLTPQIISDFM 1976
+ P S + + K NKL +K + P I +
Sbjct: 383 PSAHIPTILLSLIWFDVIKSD-----VMVVVNKLHKYSLVEKQPKESTISI-PSIYLE-- 434
Query: 1977 LNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQNEVGNKNGLTLYKHCRGEDDK 2036
L + L + + H + ++ D ++ L Y H
Sbjct: 435 LKVKLENEYAL-HRSI--VDHYNIPKTFDSDDLIPPYLDQ--------YFYSH------- 476
Query: 2037 ELTFEHQRKSVSAEVNYGIR--FQNNQEMETFLKQLAGEVEKRLEEVKMKGKCITLKLMV 2094
+ H + E R F + + FL+Q K+
Sbjct: 477 -IGH-HLKNIEHPERMTLFRMVFLDFR----FLEQ---------------------KI-- 507
Query: 2095 RSAEAPREASKFLGHGVCD------YITKSSSLPIYERPLIITY--FLLLVRSAEAPREA 2146
R AS + + + YI + P YER L+ FL P+
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPYICDND--PKYER-LVNAILDFL--------PKIE 556
Query: 2147 SKFLGHGVCDYI-----TKSSSLPMYISQASQILK 2176
+ D + + ++ + Q+ +
Sbjct: 557 ENLICSKYTDLLRIALMAEDEAI--FEEAHKQVQR 589
Score = 72.2 bits (176), Expect = 2e-12
Identities = 90/576 (15%), Positives = 157/576 (27%), Gaps = 189/576 (32%)
Query: 1001 PAKKESEYSSTVCLFKRFGRRNCNDGGLIPKSQREGAQDSDLENNCRLDEVERKEKEEEN 1060
P+ Y R ND + K V R +
Sbjct: 105 PSMMTRMYIEQR-------DRLYNDNQVFAK-----------------YNVSRLQP---- 136
Query: 1061 SNITKIKSKLKE------------KGSKKRNPLSSL----------DDTMPSAA-----G 1093
K++ L E GS K + + M
Sbjct: 137 --YLKLRQALLELRPAKNVLIDGVLGSGK----TWVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 1094 RRVEPKYEELLIKAEKAAAPKKPNEVLPGWESNLRPSADKAESRKRTQTSQGTESEERKG 1153
P E +L +K +L + N +D + + K +
Sbjct: 191 NCNSP--ETVLEMLQK---------LLYQIDPNWTSRSDHSSNIKL-------RIHSIQA 232
Query: 1154 HLRR-WRRKEEESTQTVQVELREGVNISAPKPQAS---------STKNASNEDFLGEFYN 1203
LRR + K E+ V L N+ K + +T+ DFL
Sbjct: 233 ELRRLLKSKPYENCLLV---LL---NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATT 286
Query: 1204 K--SRLHHLSTMG-----SMFKQYVNQLISLQQDKQLPAIQVISIRSPRARPPRRSSTMG 1256
S HH T+ S+ +Y++ LP +V++ +PR S +
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQ-----DLPR-EVLTT-NPRR-----LSIIA 334
Query: 1257 SMFKQYVNELRE-KHDGVFRGIEAIRKWKTSLGITEDEDLEETFSD-------------- 1301
+ + KH + I ++SL + E + + F
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTII---ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL 391
Query: 1302 ------NPSPSEPKTTAPKKKKKGGYMEAKKRKLEE-------QFELEANSDSRGGIFQG 1348
+ S+ K K +K+ E EL+ ++
Sbjct: 392 LSLIWFDVIKSDVMVVVNKLHKYS---LVEKQPKESTISIPSIYLELKVKLENE------ 442
Query: 1349 VAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLH--GGIYHH--YESSRTTHIIASNLPH 1404
Y H ++D Y I P + L+ + Y H + H+ N+ H
Sbjct: 443 -------YALHRSIVDHYNI-PKTFDSDDLIPPYLDQYFYSHIGH------HL--KNIEH 486
Query: 1405 TKIKKLKP---------GDKIIK--PEWIVDSISAGKLLDHKKYLLYTGTDAKPLTKLLQ 1453
+ L KI W L K Y Y D P + L
Sbjct: 487 PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYI-CDNDPKYERLV 545
Query: 1454 KSYFENTEAPCCSKSLVETSSHTSTVSDSVDNTEES 1489
+ + P ++L+ S +T + ++ +E+
Sbjct: 546 NAILDFL--PKIEENLIC-SKYTDLLRIALMAEDEA 578
Score = 62.9 bits (152), Expect = 1e-09
Identities = 94/664 (14%), Positives = 198/664 (29%), Gaps = 187/664 (28%)
Query: 7 DFDPDVQQNGNG-------PSPKKKTPANKMS-VEKIYQKKSQLEHILLRPDTYIGSVEP 58
DF+ Q + + + K K +++HI++ D V
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDA----VSG 63
Query: 59 ITETMW-LMNRETNHMERREITYVPGLYKIFDEILVNACDNKQRDPKMNCIKITVNQETN 117
W L++++ +++ +V + +I + L++ +QR P M T
Sbjct: 64 TLRLFWTLLSKQEEMVQK----FVEEVLRINYKFLMSPIKTEQRQPSMM----TRMYIEQ 115
Query: 118 TISVWNNGKGIPVVEHKDEKMFVPTMIFGHLLTSSNYNDEEDKVTGVVPTMIFGHLLTSS 177
++N+ + K V + L + K V+ I G L
Sbjct: 116 RDRLYNDNQVFA-------KYNVSRLQPYLKLRQALLELRPAK--NVL---IDGVL---- 159
Query: 178 NYNDEEDKVTGGRNGYGAKLCNIFSSKFVVETSCSEYK----KSFKQVWKDNMSKVTSPE 233
G G K + ++ C YK FK W N+ SPE
Sbjct: 160 --------------GSG-K------TWVALDV-CLSYKVQCKMDFKIFWL-NLKNCNSPE 196
Query: 234 --------IKSGSKDDFTKITFTPDLTKFKMTSLDKDMVDLITRRAY-------DAAAST 278
+ ++T + K ++ S+ ++ L+ + Y +
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA 256
Query: 279 KDVKVFLNGEKLPVKNFQDYVKLYTDRQDEDGDPVKIIYENVNPRWEVAIAPSDRGFQQV 338
K F K+ L T R + D + + +++
Sbjct: 257 KAWNAFNLSCKI----------LLTTRFKQVTDFL-----SAATTTHISLDHHSMTL--- 298
Query: 339 SFVNSIATTKGGRHVDAVVDAIVKQIIEVVKKKNKDL---GCTI----IMLFG------- 384
T D + +++ + + +DL T + +
Sbjct: 299 --------TP---------DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL 341
Query: 385 NKFNNVKNNKLQMAKTLIDIGVRLGGMALKPFQVKNHIWIFINCLI----VN-PT----- 434
++N K+ T+I+ + L+P + + F + + PT
Sbjct: 342 ATWDNWKHVNCDKLTTIIESSLN----VLEPAEYRKM---FDRLSVFPPSAHIPTILLSL 394
Query: 435 --FDSQTKENMT----------LQKGSFGSTC-VPKLEDANDAGTKNSIDCTL---ILTE 478
FD + M ++K ST +P + + K + L I+
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL--ELKVKLENEYALHRSIVDH 452
Query: 479 GDSAKSLAVSGLGVVGRDKYGVFPLRGKLLNVREATHKQILENAEINNL----------- 527
+ K+ L D+Y + H + +E+ E L
Sbjct: 453 YNIPKTFDSDDLIPPYLDQYFYSHI---------GHHLKNIEHPERMTLFRMVFLDFRFL 503
Query: 528 -VKI--LGLQYSKKYTTVEDMKTLRYGRLMIMTDQDQDGSHIKGLIINFIHHNWPTLLRL 584
KI ++ + + ++ L++ + I D D + I++F+ L+
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYI-CDNDPKYERLVNAILDFLPKIEENLICS 562
Query: 585 PFLE 588
+ +
Sbjct: 563 KYTD 566
Score = 57.9 bits (139), Expect = 4e-08
Identities = 77/617 (12%), Positives = 174/617 (28%), Gaps = 153/617 (24%)
Query: 1705 DFEGYKEVSYCLYNLIASLT------LNIEAVSLYTNESFLNALPEDIRQEVLDDLSRQQ 1758
DFE E Y ++++ + + V + I D +S
Sbjct: 8 DFE-TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSK-DAVSGTL 65
Query: 1759 ----SVLSREQNTTEPLAQDIICADSHTLV-----RTPSPSPILDMSTSILDT--TTSHI 1807
++LS+++ + ++++ + L+ PS + M D + +
Sbjct: 66 RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV 125
Query: 1808 LSS-NVSLQEMRTMLREWMCESQPEPSDIEMFSEYL----------SNLVEERHLNPIVI 1856
+ NVS + LR+ + E +P + + + + +
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAK--------NVLIDGVLGSGKTWVALDV-CLSYKV 176
Query: 1857 LLRFLRR----HVGKKESTVWAEAYQEMLS--CVQSAMKHKPSSESKIVSAVSCDEMYVD 1910
+ + ++ S E EML Q S+ + + +
Sbjct: 177 QCKMDFKIFWLNLKNCNSP---ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233
Query: 1911 CSQLLQELSLTPLQFASYL-------RETIAK-ETGC----TCSTGFGS--NKLQARLAT 1956
+LL+ L + C T T F + L A T
Sbjct: 234 LRRLLKSKPYE----NCLLVLLNVQNAKAWNAFNLSCKILLT--TRFKQVTDFLSAATTT 287
Query: 1957 KKAKPNGQFHLTP----QIISDFMLNIPLSDLPGV---GHSLLFKLNSLGAQTCGDLQNI 2009
+ + LTP ++ + L+ DLP + + +
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKY-LDCRPQDLPREVLTTNPRRLSI-------IAESIRD 339
Query: 2010 SLKRLQNEVGNKNGLTLYKHCRGEDDKELTFEHQRKSVSAEVNYGIRFQNNQEMETFLKQ 2069
L N +KH + + + + +N E +
Sbjct: 340 GLATWDN----------WKH--------VNCDKLTTIIESSLNV----LEPAEYRKMFDR 377
Query: 2070 LA-----------------GEVEKRLEEVKMKGKCITLKLMVRSAEAPREASKFLGHGV- 2111
L+ +V K V + K L+ + P+E++ + +
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN-KLHKYSLVEKQ---PKESTISI-PSIY 432
Query: 2112 CDYITKSSSLPIYERPLIITYFLLLVRSAE---APREAS---KFLGH--GVCDYITKSSS 2163
+ K + R ++ Y + ++ P +GH ++ + +
Sbjct: 433 LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL 492
Query: 2164 LPMYISQASQILKEVLFIVNKLKVDPVELRGIGIQVSKLEHQSKTLATIDTFFTNKGKPP 2223
M + + F+ K++ D G ++ L+ L + +
Sbjct: 493 FRM-------VFLDFRFLEQKIRHDSTAWNASGSILNTLQ----QLKFYKPYICDNDPKY 541
Query: 2224 DQLNN------PRPGPS 2234
++L N P+ +
Sbjct: 542 ERLVNAILDFLPKIEEN 558
Score = 53.7 bits (128), Expect = 7e-07
Identities = 101/701 (14%), Positives = 205/701 (29%), Gaps = 191/701 (27%)
Query: 1023 CNDGGLIPKSQREGAQDSDLENNCR--LDEVERKEKEEENSNITKIKSKLKEKGSKKRNP 1080
D ++ + + D C+ D + +EE +I K + S
Sbjct: 18 YKD--ILSVFEDAFVDNFD----CKDVQDMPKSILSKEEIDHIIMSKDAV----SGTLRL 67
Query: 1081 LSSLDDTMPSAAGRRVE----PKYEELL--IKAEKAAAPKKPNEVLPGWESNLRPSADKA 1134
+L + VE Y+ L+ IK E ++P+ +
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTE----QRQPS----------MMTRMYI 113
Query: 1135 ESRKRTQTSQGTESEERKGHLRRWRRKEEESTQTVQVELREGVNIS------APKPQ--A 1186
E R R K ++ R + + +ELR N+ + K A
Sbjct: 114 EQRDRLYNDN---QVFAKYNV--SRLQPYLKLRQALLELRPAKNVLIDGVLGSGK-TWVA 167
Query: 1187 SSTKNASNEDFLGEFYNKSRLHHLSTMGSMFKQYVNQLISLQQDKQLPAIQVISIRSPRA 1246
+ + K + L + + ++ + Q + RS +
Sbjct: 168 LDV--CLSYKVQCKMDFK--IFWL-NLKNCNS--PETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 1247 RPPRRSSTMGSMFKQYVNELREKHDGVFRGIEAIRKWKTSLGITED-EDLE--ETFSDNP 1303
+ ++ ++ + R + + ++ L + + ++ + F +
Sbjct: 221 SNIKLR----------IHSIQAE----LRRLLKSKPYENCLLVLLNVQNAKAWNAF-NLS 265
Query: 1304 SPSEPK---TTAPKKKKKGGYMEAKKRKLEEQFELEANSDSRGGIFQGVAIFVNGYTKH- 1359
K TT + K+ ++ A L+ +S T
Sbjct: 266 C----KILLTT--RFKQVTDFLSAATTT---HISLDHHSM--------------TLTPDE 302
Query: 1360 CMMLDAYYIVPSAEELKALM-----MLHGGIYHHYESSRTTHIIASNLPHTKIKKLKPGD 1414
L Y+ ++L + I ES R N H KL
Sbjct: 303 VKSLLLKYLDCRPQDLPREVLTTNPRRLSIIA---ESIRDGLATWDNWKHVNCDKLT--- 356
Query: 1415 KIIKPEWIVDSISAGKLLDHKKYLLYTG---TDAK-PLTKLLQKSYFENTE-------AP 1463
II+ S++ + +++K A P T LL +F+ +
Sbjct: 357 TIIE-----SSLNVLEPAEYRKMFDRLSVFPPSAHIP-TILLSLIWFDVIKSDVMVVVNK 410
Query: 1464 CCSKSLVETSSHTSTVSDSVDNTEESKSEAVNSEESKSEAANPIESKQTVKTKESKLETV 1523
SLVE ST+S E K + E + + ++ KT +S
Sbjct: 411 LHKYSLVEKQPKESTISIP-SIYLELKVKL---ENEYALHRSIVDHYNIPKTFDSD---- 462
Query: 1524 NISAPKPQASSTKNASNED-----FLGEFYNKSRLHHLSTMG-----SMFKQ-YVNELRE 1572
++ P D +G HHL + ++F+ +++
Sbjct: 463 DLIPP-----------YLDQYFYSHIG--------HHLKNIEHPERMTLFRMVFLD---- 499
Query: 1573 KHDGVFRGIEA-IRK----WKTSLGITED-EDLEETFSDNPSPSEPEPVIMHIDMDCFFV 1626
FR +E IR W S I + L + + ++P+ + + F
Sbjct: 500 -----FRFLEQKIRHDSTAWNASGSILNTLQQL-KFYKPYICDNDPKYERLVNAILDFLP 553
Query: 1627 SVG--IRHHPE---LQDEPVAVAHGKGNSSKVREGVDRQAE 1662
+ + L+ +A+ + E +Q +
Sbjct: 554 KIEENLICSKYTDLLR---IALMA---EDEAIFEEAHKQVQ 588
Score = 53.7 bits (128), Expect = 8e-07
Identities = 84/532 (15%), Positives = 158/532 (29%), Gaps = 162/532 (30%)
Query: 508 LNVREATHKQILENAEINNLVKILGLQYSKKYTTVEDMKTLRYGRLMIMTDQDQD----- 562
+ +K IL E + V + V+DM + I++ ++ D
Sbjct: 11 TGEHQYQYKDILSVFE-DAFVDNFDCKD------VQDM--PK----SILSKEEIDHIIMS 57
Query: 563 GSHIKGLIINFIHHNWPTLLRLP--FLEEFITPIIKATKAREELSFYSLPEFEEWKEETT 620
+ G + F W TLL +++F+ ++ R F P E ++ +
Sbjct: 58 KDAVSGTLRLF----W-TLLSKQEEMVQKFVEEVL-----RINYKFLMSPIKTEQRQPSM 107
Query: 621 NWHTYKIKYYKVVYVTGVLLFKMNLHKVTSDSISMFIGRIEPEWYI--------PIIPMV 672
Y I+ +Y + K N V+ R++P + P V
Sbjct: 108 MTRMY-IEQRDRLYNDNQVFAKYN---VS---------RLQPYLKLRQALLELRPA-KNV 153
Query: 673 LVNGAEGIGTGWMT-------KIPNHNPREI--VDNIKRMIRGEDPLPM--KPWY---KN 718
L++G G G W+ K+ +I + N+K E L M K Y N
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL-NLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 719 FKGEIDYCGDSRFVVNGEIA----------------ILDD--DKLEITELQVG-K--WTT 757
+ D+ + + ++ A +L + + + K TT
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT 272
Query: 758 DYKDTLDTLLHGAEKDEVHPGPGRKSHPRPIAPKSYKIDDDS---EEEEIEEVFHDNELA 814
+K D L +H +D S +E++ +
Sbjct: 273 RFKQVTDFL-----------SAATTTHIS--------LDHHSMTLTPDEVKSLL-----L 308
Query: 815 KPQKTGPQ-LERQERQ---------AAEGEDDEAGSQTQEEEDPDKDYDYLLGMTFWSL- 863
K PQ L R+ A D +D + L
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRD-----------GLAT-WDNWKHVNCDKLT 356
Query: 864 -TMERKNELLKKRDDKM--TELNILKK--KAPTD----LWSDD--------LDALREK-- 904
+E +L+ + + L++ PT +W D ++ L +
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416
Query: 905 -DKIHPCPGGNRTRGLAL--KRQTRYQPS-NRVLTSRDEPMVVSSGEDAPPP 952
+K P + L K + + + +R + +D PP
Sbjct: 417 VEK-QPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPP 467
Score = 51.4 bits (122), Expect = 4e-06
Identities = 83/636 (13%), Positives = 197/636 (30%), Gaps = 198/636 (31%)
Query: 1347 QGVAIFVNGYTK--HCMMLDAY---YIVPSAEE---LKALMMLHGG--IYHHYESSRTTH 1396
+ V FV + + ++ PS ++ L+ ++ Y SR
Sbjct: 77 EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP 136
Query: 1397 IIASNLPHTKIKKLKPGDKII--------KPEWIV-DSISAGKLLDHKKYLLY---TGTD 1444
+ L + +L+P ++ K W+ D + K+ + ++
Sbjct: 137 YL--KL-RQALLELRPAKNVLIDGVLGSGK-TWVALDVCLSYKVQCKMDFKIFWLNLKNC 192
Query: 1445 AKP--LTKLLQKSYFENTEAPCCSKSLVETSSHTSTVSDSVDNTEESKSEAVNSEESKSE 1502
P + ++LQK ++ + S H+S + + + + + S+ +
Sbjct: 193 NSPETVLEMLQKLLYQID------PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE-- 244
Query: 1503 AANP------IESKQTVKT--KESK-LETVNISAPKPQASSTKNASNEDFLGEFYNKSRL 1553
N +++ + K L T T+ DFL
Sbjct: 245 --NCLLVLLNVQNAKAWNAFNLSCKILLT------------TRFKQVTDFLSAATTT--- 287
Query: 1554 HHLSTMGSMFKQYVNELREKHDGVFRGIEA---IRKWKTSLGITEDEDL-EETFSDNPSP 1609
H+S + H E + K+ L +DL E + NP
Sbjct: 288 -HISL-------------DHHSMTLTPDEVKSLLLKY---LDC-RPQDLPREVLTTNP-- 327
Query: 1610 SEPEPVIMHIDMDCFFVSVGIRHHPELQDEPVAVAHGKGNSSKVREGVDRQAEFDIYRQR 1669
+ + + +R+G+ +D ++
Sbjct: 328 -------RRLSI------IA---------------------ESIRDGLAT---WDNWKHV 350
Query: 1670 TMNRMGLNTREYGLGNGMFVGHALKKCPN-LKIVPYDF-EGYKEVSYCLYNLIASLTLNI 1727
+++ ++ N L+ P ++ + + +S + + +I
Sbjct: 351 NCDKL---------------TTIIESSLNVLE--PAEYRKMFDRLS------VFPPSAHI 387
Query: 1728 EAVSLYTNESFLNALPEDIRQEVLDDLSRQQSVLSREQNTTEPLAQDIICADSHTLVRTP 1787
+ L + + V++ L + V + + +T + ++
Sbjct: 388 PTILL---SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI---------PSI---- 431
Query: 1788 SPSPILDMSTSILDTTTSHILSSNVSLQEMRTMLREWMCESQPEPSDIEMFSEYLS---- 1843
L++ + + H S+ + + + + + P + F ++
Sbjct: 432 ----YLELKVKLENEYALHR-----SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLK 482
Query: 1844 --NLVEERHLNPIVIL-LRFLRRHVGKKESTVWAEAYQEMLSCVQSAMKHK-------PS 1893
E L +V L RFL + + + +ST W A +L+ +Q +K P
Sbjct: 483 NIEHPERMTLFRMVFLDFRFLEQKI-RHDSTAW-NASGSILNTLQQLKFYKPYICDNDPK 540
Query: 1894 SESKIVSAV-----SCDEMYV--DCSQLLQELSLTP 1922
E ++V+A+ +E + + LL+ ++L
Sbjct: 541 YE-RLVNAILDFLPKIEENLICSKYTDLLR-IALMA 574
Score = 49.5 bits (117), Expect = 2e-05
Identities = 77/651 (11%), Positives = 168/651 (25%), Gaps = 217/651 (33%)
Query: 352 HVD---AVVDAIVKQIIEVVKKK-NKDLGCTIIM-----LFGNK-FNNVKN--NKLQMAK 399
H+D K I+ V + + C + + + +++ + +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTL 65
Query: 400 TLIDIGVRLGGMALKPFQV----KNHIWI-----------------FINCLIVNPTF-DS 437
L + ++ F N+ ++ +I + + D+
Sbjct: 66 RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ--RDRLYNDN 123
Query: 438 Q--TKENMTLQKGSFGSTCVPKLEDANDAGTKNSIDCTLILTEGDSAKSLAVSGLGVVG- 494
Q K N++ + KL A L E AK++ + G+ G
Sbjct: 124 QVFAKYNVSRLQ------PYLKLRQA--------------LLELRPAKNVLIDGVLGSGK 163
Query: 495 --------RDK-------YGVFPLRGKLLNVREA-THKQILENAEINNLVKILGLQYSKK 538
+ +F LN++ + + +LE + L+ + ++ +
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIF-----WLNLKNCNSPETVLEM--LQKLLYQIDPNWTSR 216
Query: 539 -------YTTVEDMKT-LR-------YGR-LMIMTDQDQDGSHIKGLIINFIHHNWPTLL 582
+ ++ LR Y L+++ Q+ N + LL
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL-LNVQNAKAWNAF--NL---SCKILL 270
Query: 583 --RLPFLEEFITPIIKATKAREELSFYSLPEFEEWKEETTNWHTYKIKYYKVVYVTGVLL 640
R + +T + A + +E + L
Sbjct: 271 TTR----FKQVTDFLSAATTTHISLDHHSMTLTP--DEVKS------------------L 306
Query: 641 FKMNLHKVTSDSISMFIGRIEPEWYIPIIPMVL-VNGA---EGIGT--GWMTKIPNHNPR 694
L D P + P L + +G+ T W K N +
Sbjct: 307 LLKYLDCRPQD---------LPREVLTTNPRRLSIIAESIRDGLATWDNW--KHVNCDKL 355
Query: 695 EIVDNIKRMIRGEDPLPMKPWYKNFKGEIDYCGDSRFVVNGEIAILDDDKLEITELQVGK 754
+ I+ + +P + + ++ I
Sbjct: 356 TTI--IESSLNVLEPAEYRKMFDRL------------------SVFPPS-AHIPT----- 389
Query: 755 WTTDYKDTLDTLLHGAEKDEVHPGPGRKSHPRPIAPKSYK---IDDDSEEEEIEEVFHD- 810
L + K + + K +K ++ +E I
Sbjct: 390 ------ILLSLIWFDVIKSD----------VMVVVNKLHKYSLVEKQPKESTIS--IPSI 431
Query: 811 -NELAKPQKTGPQLERQ---ERQAAEGEDDEAGSQTQEEEDPDKDYDYL-LGMTFWSLTM 865
EL + L R + D + Y Y +G ++
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI-----PPYLDQYFYSHIGHHLKNIEH 486
Query: 866 ERKNELLKKRDDKMTELNILKKK--APTDLWS------DDLDALRE-KDKI 907
+ L + + L++K + W+ + L L+ K I
Sbjct: 487 PERMTLFRM---VFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYI 534
Score = 44.1 bits (103), Expect = 6e-04
Identities = 86/662 (12%), Positives = 168/662 (25%), Gaps = 217/662 (32%)
Query: 834 EDDEAGSQTQEEED-----PDKDYD-YLLGMTFWSLTMERKNELLKKR--DDKMTELNIL 885
+D ++EE D D L FW+L K E + ++ ++ +L
Sbjct: 39 QDMPKSILSKEEIDHIIMSKDAVSGTLRL---FWTL--LSKQEEMVQKFVEE------VL 87
Query: 886 KKKAPTDLWSDDLDALREKDKIHPCPGGNRTRGLALKRQTRYQPSNRVLTSRDEPMVVSS 945
+ + + ++ + + P ++++ R N+V VS
Sbjct: 88 RINYK---FL--MSPIKTEQRQ---PSMMTRM--YIEQRDRLYNDNQVFA----KYNVSR 133
Query: 946 GEDAPPPTKASPVKKKKPAAK--RPAPKSDSSDLSDSDGDSDFASRKKKTAAAKKAKPAK 1003
+ P K + A RPA ++ DG K A K
Sbjct: 134 LQ---------PYLKLRQALLELRPAK-----NVL-IDGVLGSG---KTWVALDVCLSYK 175
Query: 1004 KESEYSSTVCLF-KRFGRRNCNDGGLIPKSQREGAQDSDLENNCRLDEVERKEKEEENSN 1062
+ + + F N + L + D + + + +
Sbjct: 176 VQCKMDFKI--FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA- 232
Query: 1063 ITKIKSKLKEKGSKKRNPLSSLDD-------------------T--------MPSAAGRR 1095
+++ LK K N L L + T + +A
Sbjct: 233 --ELRRLLKSK--PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTH 288
Query: 1096 V----------EPKYEELLIKAEKAAAPKKPNEVLPGWESNLRPSADK--AESRKRTQTS 1143
+ + + LL+K P EVL P AES +
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT-----NPRRLSIIAESIR----- 338
Query: 1144 QGTESEERKGHLRRWRR-KEEESTQTVQV--------ELR----------EGVNISAPKP 1184
+ W+ ++ T ++ E R +I P
Sbjct: 339 ------DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI----P 388
Query: 1185 QA------SSTKNASNEDFLGEFYNKS-----------RLHHLSTMGSMFKQYVNQLISL 1227
+ + + + S + + Y+ + L
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI---------YLELKVKL 439
Query: 1228 QQDKQLPAIQVISIRSPRARPPRRSST--MGSMFKQYV------NELREKHDGV------ 1273
+ + L V P+ + F ++ E E+
Sbjct: 440 ENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD 499
Query: 1274 FRGIEA-IRKWKTSLGITEDEDLEETFSDNPSPSEPKTTAPKKKKKGGYMEAKKRKLEEQ 1332
FR +E IR T+ + + T K K Y+ K E
Sbjct: 500 FRFLEQKIRHDSTAWNAS--GSILNTLQQ-----------LKFYKP--YICDNDPKYERL 544
Query: 1333 FELEANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELK-ALMMLHGGIYHHYES 1391
+ F+ ++ + L+ ALM I+ E+
Sbjct: 545 VNAILD-------------FLPKIEENL------ICSKYTDLLRIALMAEDEAIF--EEA 583
Query: 1392 SR 1393
+
Sbjct: 584 HK 585
>3pa6_A Microcephalin; BRCT domain, cell cycle; HET: MSE; 1.50A {Homo
sapiens} PDB: 3ktf_A* 2wt8_A*
Length = 107
Score = 53.4 bits (128), Expect = 2e-08
Identities = 17/109 (15%), Positives = 37/109 (33%), Gaps = 8/109 (7%)
Query: 1340 DSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIA 1399
I + V +V ++ + Y ++ ++ G + + TH+I
Sbjct: 2 HMAAPILKDVVAYVEVWS--SNGTENY-----SKTFTTQLVDMGAKVSKTFNKQVTHVIF 54
Query: 1400 SN-LPHTKIKKLKPGDKIIKPEWIVDSISAGKLLDHKKYLLYTGTDAKP 1447
+ T K K G K++ W+ +AG +D + +
Sbjct: 55 KDGYQSTWDKAQKRGVKLVSVLWVEKCRTAGAHIDESLFPAANMNEHLS 103
>1l0b_A BRCA1; TANDEM-BRCT, three-helix bundle, unknown function; 2.30A
{Rattus norvegicus} SCOP: c.15.1.3 c.15.1.3
Length = 229
Score = 55.5 bits (133), Expect = 3e-08
Identities = 18/133 (13%), Positives = 45/133 (33%), Gaps = 14/133 (10%)
Query: 1322 MEAKKRKLEEQFELEANSDSRG---GIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKAL 1378
++ +K +FE++ + + G + + + + +EL+ +
Sbjct: 81 IQERKLLSVHEFEVKGDVVTGSNHQGPRRSRESQEKLFEGLQIYCCEPFTNMPKDELERM 140
Query: 1379 MMLHGGIYHHYESSRTTH------IIASNLPHTKIKKLK-----PGDKIIKPEWIVDSIS 1427
+ L G T ++ T+ +++ +W++DSIS
Sbjct: 141 LQLCGASVVKELPLLTRDTGAHPIVLVQPSAWTEDNDCPDIGQLCKGRLVMWDWVLDSIS 200
Query: 1428 AGKLLDHKKYLLY 1440
+ D YL+
Sbjct: 201 VYRCRDLDAYLVQ 213
Score = 49.0 bits (116), Expect = 5e-06
Identities = 12/86 (13%), Positives = 27/86 (31%), Gaps = 7/86 (8%)
Query: 1373 EELKALMMLHGGIYHHYESSRTTHIIASNLPHTKIKK-------LKPGDKIIKPEWIVDS 1425
++ + + TTH+I ++ + G I+ W++ S
Sbjct: 21 MIVQKFAEKYRLALTDVITEETTHVIIKTDAEFVCERTLKYFLGIAGGKWIVSYSWVIKS 80
Query: 1426 ISAGKLLDHKKYLLYTGTDAKPLTKL 1451
I KLL ++ + +
Sbjct: 81 IQERKLLSVHEFEVKGDVVTGSNHQG 106
>3u3z_A Microcephalin; DNA repair, cell cycle regulation, cell cycle; HET:
SEP PTR; 1.50A {Homo sapiens} PDB: 3szm_A* 3t1n_A* 3sht_A
3shv_A*
Length = 199
Score = 54.8 bits (131), Expect = 5e-08
Identities = 20/122 (16%), Positives = 39/122 (31%), Gaps = 13/122 (10%)
Query: 1325 KKRKLEEQFELEANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIV-------PSAEELKA 1377
+ + E + ++ + ++ P +L
Sbjct: 82 ELGHWISEEPFELSHHFPAAPLCRSECHLSAGPYRGTLFADQPVMFVSPASSPPVAKLCE 141
Query: 1378 LMMLHGGIYHHYESSRTTHIIASNLPHTKIKKLKPGDKIIKPEWIVDSISAGKLLDHKKY 1437
L+ L GG + R I+ K K K + +W++DSI+ K+ + Y
Sbjct: 142 LVHLCGGRVS--QVPRQASIVIGPYSGKK----KATVKYLSEKWVLDSITQHKVCAPENY 195
Query: 1438 LL 1439
LL
Sbjct: 196 LL 197
Score = 43.2 bits (101), Expect = 3e-04
Identities = 10/64 (15%), Positives = 26/64 (40%), Gaps = 2/64 (3%)
Query: 1376 KALMMLHGGIYHHYESSRTTHIIASNLPHTK--IKKLKPGDKIIKPEWIVDSISAGKLLD 1433
+ + L G TTH+++ T + + G ++ +W++ S+ G +
Sbjct: 29 QVVDKLKGFSIAPDVCETTTHVLSGKPLRTLNVLLGIARGCWVLSYDWVLWSLELGHWIS 88
Query: 1434 HKKY 1437
+ +
Sbjct: 89 EEPF 92
>1s16_A Topoisomerase IV subunit B; two-domain protein complexed with
ADPNP; HET: ANP; 2.10A {Escherichia coli} SCOP: d.14.1.3
d.122.1.2
Length = 390
Score = 54.0 bits (131), Expect = 4e-07
Identities = 52/291 (17%), Positives = 93/291 (31%), Gaps = 81/291 (27%)
Query: 89 DEILVNACDNKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKMFVPTMIFGHL 148
DE L + + ++ + ++ V ++G+G+PV H +E VP +
Sbjct: 45 DEALAGHAKR---------VDVILHAD-QSLEVIDDGRGMPVDIHPEEG--VPAV----- 87
Query: 149 LTSSNYNDEEDKVTGVVPTMI-----FGHLLTSSNYNDEEDKVTGGRNGYGAKLCNIFSS 203
E ++ + F + NY + +GG +G G + N S
Sbjct: 88 ---------E-----LILCRLHAGGKFSN----KNY-----QFSGGLHGVGISVVNALSK 124
Query: 204 KFVVETSCSEYKKSFKQVWKD--------NMSKVTSP--EI-KSGSKDDFTKITFTPDLT 252
+ V V +D + + G ++ T + F PD T
Sbjct: 125 RVEVN------------VRRDGQVYNIAFENGEKVQDLQVVGTCGKRNTGTSVHFWPDET 172
Query: 253 KFKMTSLDKDMVDLITRRAYDAAASTKDVKVFLNGEKLPVKN---FQDYVKLYTDRQDED 309
F V +T A V++ E + +QD + Y
Sbjct: 173 FFDSPRFS---VSRLTHVLKAKAVLCPGVEITFKDEINNTEQRWCYQDGLNDYLAEAVNG 229
Query: 310 GDPV--KIIY---ENVNPRWEVAIAPSDRGFQQV--SFVNSIATTKGGRHV 353
+ K + A+ G + + S+VN I T +GG HV
Sbjct: 230 LPTLPEKPFIGNFAGDTEAVDWALLWLPEGGELLTESYVNLIPTMQGGTHV 280
>2nte_A BARD-1, BRCA1-associated ring domain protein 1; BRCT, ring finger,
zinc-binding protein, ubiquitin LI antitumor protein;
1.90A {Homo sapiens} PDB: 3fa2_A 2r1z_A
Length = 210
Score = 51.3 bits (122), Expect = 7e-07
Identities = 13/71 (18%), Positives = 25/71 (35%), Gaps = 4/71 (5%)
Query: 1373 EELKALMMLHGGIYHHYESSRTTHIIASNLPHTKIKK----LKPGDKIIKPEWIVDSISA 1428
+ L L ++ + S TH++ K + G I+K EW+ +
Sbjct: 16 KMLSELAVILKAKKYTEFDSTVTHVVVPGDAVQSTLKCMLGILNGCWILKFEWVKACLRR 75
Query: 1429 GKLLDHKKYLL 1439
+KY +
Sbjct: 76 KVCEQEEKYEI 86
Score = 37.4 bits (86), Expect = 0.025
Identities = 23/138 (16%), Positives = 46/138 (33%), Gaps = 29/138 (21%)
Query: 1322 MEAKKRKLEEQFEL-EANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMM 1380
+ K + EE++E+ E SR Q + +G + + + L L+
Sbjct: 73 LRRKVCEQEEKYEIPEGPRRSRLNREQLLPKLFDGCYFYLW---GTFKHHPKDNLIKLVT 129
Query: 1381 LHGG--------------------IYH----HYESSRTTHIIASNLPHTKIKKLK-PGDK 1415
GG YH + T +II +L + ++++
Sbjct: 130 AGGGQILSRKPKPDSDVTQTINTVAYHARPDSDQRFCTQYIIYEDLCNYHPERVRQGKVW 189
Query: 1416 IIKPEWIVDSISAGKLLD 1433
W +D + + +LL
Sbjct: 190 KAPSSWFIDCVMSFELLP 207
>1t15_A Breast cancer type 1 susceptibility protein; protein-peptide complex,
antitumor protein; HET: SEP; 1.85A {Homo sapiens} SCOP:
c.15.1.3 c.15.1.3 PDB: 1jnx_X* 1t29_A* 1t2v_A* 1y98_A*
3coj_X* 3k0h_A* 3k0k_A* 3pxe_A* 3pxb_A 3pxc_X 1t2u_A
1n5o_X 3pxa_A 3k15_A* 3k16_A* 3pxd_A 2ing_X 1oqa_A
Length = 214
Score = 49.8 bits (118), Expect = 2e-06
Identities = 20/133 (15%), Positives = 43/133 (32%), Gaps = 15/133 (11%)
Query: 1322 MEAKKRKLEEQFEL---EANSDSRGGIFQGVAIFVNGYTKHCM-MLDAYYIVPSAEELKA 1377
++ +K E FE+ N + G + + + ++L+
Sbjct: 78 IKERKMLNEHDFEVRGDVVNGRNHQGPKRARESQDRKIFRGLEICCYGPFTNMPTDQLEW 137
Query: 1378 LMMLHGGIYHHYESS----RTTHIIASNLPHTKIKK-------LKPGDKIIKPEWIVDSI 1426
++ L G SS H I P + ++ EW++DS+
Sbjct: 138 MVQLCGASVVKELSSFTLGTGVHPIVVVQPDAWTEDNGFHAIGQMCEAPVVTREWVLDSV 197
Query: 1427 SAGKLLDHKKYLL 1439
+ + + YL+
Sbjct: 198 ALYQCQELDTYLI 210
Score = 48.6 bits (115), Expect = 6e-06
Identities = 10/74 (13%), Positives = 25/74 (33%), Gaps = 7/74 (9%)
Query: 1373 EELKALMMLHGGIYHHYESSRTTHIIASNLPHTKIKK-------LKPGDKIIKPEWIVDS 1425
+ H + + TTH++ ++ + G ++ W+ S
Sbjct: 18 MLVYKFARKHHITLTNLITEETTHVVMKTDAEFVCERTLKYFLGIAGGKWVVSYFWVTQS 77
Query: 1426 ISAGKLLDHKKYLL 1439
I K+L+ + +
Sbjct: 78 IKERKMLNEHDFEV 91
>4emv_A DNA topoisomerase IV, B subunit; protein-inhibitor complex, ATP
binding, structure-based drug antimicrobial, virtual
screen; HET: DNA 0R9; 1.70A {Streptococcus pneumoniae
GA47373} PDB: 4em7_A*
Length = 226
Score = 49.1 bits (118), Expect = 5e-06
Identities = 52/234 (22%), Positives = 89/234 (38%), Gaps = 77/234 (32%)
Query: 42 LEHILLRPDTYIGSVEPITETMWLMNRETNHMERREITYVPGLYKI----FDEILVNACD 97
L+ + RP YIGS + +H+ +++I DE L D
Sbjct: 22 LDAVRKRPGMYIGSTDG---------AGLHHL----------VWEIVDNAVDEALSGFGD 62
Query: 98 NKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKMFVPTMIFGHLLTSSNYNDE 157
I +T+N++ +++V ++G+G+P H PT+ E
Sbjct: 63 R---------IDVTINKD-GSLTVQDHGRGMPTGMHAMGI---PTV-------------E 96
Query: 158 EDKVTGVVPTMI-----FGHLLTSSNYNDEEDKVTGGRNGYGAKLCNIFSSKFVVETSCS 212
V+ T++ FG Y K +GG +G G+ + N SS VE
Sbjct: 97 ------VIFTILHAGGKFGQ----GGY-----KTSGGLHGVGSSVVNALSSWLEVEI--- 138
Query: 213 EYK--KSFKQVWKDNMSKVTSPEIKSGSKDDF--TKITFTPDLTKFKMTSLDKD 262
+ +KQ +++ VT+ + + TK+TF PD T F T +
Sbjct: 139 -TRDGAVYKQRFENGGKPVTTLKKIGTALKSKTGTKVTFMPDATIFSTTDFKYN 191
>3sqd_A PAX-interacting protein 1; tandem BRCT domains, cell cycle; HET: SEP;
2.15A {Homo sapiens}
Length = 219
Score = 48.4 bits (115), Expect = 7e-06
Identities = 18/85 (21%), Positives = 37/85 (43%), Gaps = 3/85 (3%)
Query: 1373 EELKALMMLHGGIYHHYESSRTTHIIASNLPHTK--IKKLKPGDKIIKPEWIVDSISAGK 1430
++ + + GG + + TH+IAS + T + + I+ PEW+ + K
Sbjct: 30 QQYIKKLYILGGEVAE-SAQKCTHLIASKVTRTVKFLTAISVVKHIVTPEWLEECFRCQK 88
Query: 1431 LLDHKKYLLYTGTDAKPLTKLLQKS 1455
+D + Y+L + L++S
Sbjct: 89 FIDEQNYILRDAEAEVLFSFSLEES 113
Score = 39.9 bits (93), Expect = 0.005
Identities = 14/112 (12%), Positives = 33/112 (29%), Gaps = 26/112 (23%)
Query: 1342 RGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTT------ 1395
+F+ ++ PS +KA++ GG + S
Sbjct: 119 VSPLFKAKYFYITPGIC-----------PSLSTMKAIVECAGGKVLSKQPSFRKLMEHKQ 167
Query: 1396 -------HIIASNLPHTKIKKL-KPGDKIIKPEWIVDSISAGKLLDHKKYLL 1439
+I+ ++ G + E+++ + LD++ Y
Sbjct: 168 NSSLSEIILISCENDLHLCREYFARGIDVHNAEFVLTGVLTQT-LDYESYKF 218
>1kij_A DNA gyrase subunit B; topoisomerase, gyrase B-coumarin complex,
isomerase; HET: DNA NOV; 2.30A {Thermus thermophilus}
SCOP: d.14.1.3 d.122.1.2
Length = 390
Score = 49.8 bits (120), Expect = 8e-06
Identities = 67/337 (19%), Positives = 112/337 (33%), Gaps = 95/337 (28%)
Query: 42 LEHILLRPDTYIGSVEPITETMWLMNRETNHMERREITYVPGLYKI----FDEILVNACD 97
LE + RP YIG +H+ +I DE L
Sbjct: 14 LEGVRHRPAMYIGGTGV---------EGYHHL----------FKEILDNAVDEALAGYAT 54
Query: 98 NKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKMFVPTMIFGHLLTSSNYNDE 157
I + +N++ +++V +NG+GIPV +E P + E
Sbjct: 55 E---------ILVRLNED-GSLTVEDNGRGIPVDLMPEEG--KPAV-------------E 89
Query: 158 EDKVTGVVPTMI-----FGHLLTSSNYNDEEDKVTGGRNGYGAKLCNIFSSKFVVETS-- 210
V+ + F Y KV+GG +G GA + N S VVE
Sbjct: 90 ------VIYNTLHSGGKFEQ----GAY-----KVSGGLHGVGASVVNALSEWTVVEVFRE 134
Query: 211 CSEYKKSFKQ-VWKDNMSKV-TSPEIKSGSKDDFTKITFTPDLTKFKMTSLDKDMVDLIT 268
++ +F + + + V +P K+G T++TF PD F D I
Sbjct: 135 GKHHRIAFSRGEVTEPLRVVGEAPRGKTG-----TRVTFKPDPEIFGNLRFD---PSKIR 186
Query: 269 RRAYDAAASTKDVKVFLNGEKLP-VKNFQ------DYVKLYTDRQDEDGDPVKIIY---E 318
R + A +K+ + + F + K ++ K
Sbjct: 187 ARLREVAYLVAGLKLVFQDRQHGKEEVFLDKGGVASFAK-ALAEGEDLLYE-KPFLIRGT 244
Query: 319 NVNPRWEVAIAPSDRGFQQ--VSFVNSIATTKGGRHV 353
+ EV + G+ +++ N I T GG H+
Sbjct: 245 HGEVEVEVGFLHTQ-GYNAEILTYANMIPTRDGGTHL 280
>3l41_A BRCT-containing protein 1; BRC1, BRCT domain, tandem BRCT repeat,
phosphoserine binding domain, DNA repair, cell division,
mitosis; HET: SEP; 1.45A {Schizosaccharomyces pombe} PDB:
3l40_A*
Length = 220
Score = 48.0 bits (114), Expect = 9e-06
Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 4/73 (5%)
Query: 1369 VPSAEELKALMMLHGGIYHHYESSRTTHIIASNLPHTK--IKKLKPGDKIIKPEWIVDSI 1426
+ L L + S+ TH+IA + T + + G ++ +WI +
Sbjct: 16 YDKKPSIDNLKKL--DMSITSNPSKCTHLIAPRILRTSKFLCSIPYGPCVVTMDWINSCL 73
Query: 1427 SAGKLLDHKKYLL 1439
+++D + YLL
Sbjct: 74 KTHEIVDEEPYLL 86
Score = 34.9 bits (80), Expect = 0.18
Identities = 6/114 (5%), Positives = 29/114 (25%), Gaps = 25/114 (21%)
Query: 1342 RGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSR-------- 1393
+ + +++ T + + +++ +GG+
Sbjct: 110 GPSLLEDYVVYLTSKTVA---------PENVPAVISIVKSNGGVCSTLNVYNKRLARHLE 160
Query: 1394 --TTHIIASNLPHTKIKKL------KPGDKIIKPEWIVDSISAGKLLDHKKYLL 1439
+I N + +W++ ++ ++ + +
Sbjct: 161 DGNVVLITCNEDSHIWTNFLDNASQNKTIFLQNYDWLIKTVLRQEIDVNDRIAD 214
>3fv5_A DNA topoisomerase 4 subunit B; topoisomerase IV B subunit complex,
antibiotic resistance, ATP-binding, nucleotide-binding;
HET: DNA 1EU; 1.80A {Escherichia coli} PDB: 1s14_A*
Length = 201
Score = 47.9 bits (115), Expect = 1e-05
Identities = 44/240 (18%), Positives = 78/240 (32%), Gaps = 79/240 (32%)
Query: 42 LEHILLRPDTYIGSVEPITETMWLMNRETNHMERREITYVPGLYKIF----DEILVNACD 97
LE + RP Y + P NH+ ++ DE L
Sbjct: 2 LEPVRRRPGMYTDTTRP------------NHL----------GQEVIDNSVDEALAGHAK 39
Query: 98 NKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKMFVPTMIFGHLLTSSNYNDE 157
+ + ++ + ++ V ++G+G+PV H +E VP + E
Sbjct: 40 R---------VDVILHAD-QSLEVIDDGRGMPVDIHPEEG--VPAV-------------E 74
Query: 158 EDKVTGVVPTMI-----FGHLLTSSNYNDEEDKVTGGRNGYGAKLCNIFSSKFVVETS-- 210
++ + F + NY + +GG +G G + N S + V
Sbjct: 75 ------LILCRLHAGGKFSN----KNY-----QFSGGLHGVGISVVNALSKRVEVNVRRD 119
Query: 211 CSEYKKSFKQVWKDNMSKVTSPEIKSGSKDDFTKITFTPDLTKFKMTSLDKDMVDLITRR 270
Y +F+ K +V G ++ T + F PD T F V +T
Sbjct: 120 GQVYNIAFENGEKVQDLQVVG---TCGKRNTGTSVHFWPDETFFDSPRFS---VSRLTHV 173
>2ep8_A Pescadillo homolog 1; A/B/A 3 layers, nucleolus, ribosome biogenesis,
DNA damage, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 45.2 bits (107), Expect = 1e-05
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 1392 SRTTHIIASNLPHTKIKKLKPGDKIIKPEWIVDSISAGKLLDHKKYL 1438
SR TH I + + G ++P+W+ DS++A LL +Y
Sbjct: 57 SRITHQI---VDRPGQQTSVIGRCYVQPQWVFDSVNARLLLPVAEYF 100
>2etx_A Mediator of DNA damage checkpoint protein 1; tandem BRCT domains
histone gamma-H2AX, cell cycle; 1.33A {Homo sapiens} PDB:
2azm_A* 3k05_A* 2ado_A
Length = 209
Score = 47.0 bits (111), Expect = 2e-05
Identities = 12/128 (9%), Positives = 37/128 (28%), Gaps = 9/128 (7%)
Query: 1322 MEAKKRKLEEQFELEANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIV----PSAEELKA 1377
+A +++ + + F + + Y+ P ++
Sbjct: 77 RKAGFFLPPDEYVVTDPEQEKNFGFSLQDALSRARERRLLEGYEIYVTPGVQPPPPQMGE 136
Query: 1378 LMMLHGGIYHHYE---SSRTTHIIASNLPHTKIKKL-KPGDKIIKPEWIVDSISAGKLLD 1433
++ GG Y +I + G ++ PE+++ + +
Sbjct: 137 IISCCGGTYLPSMPRSYKPQRVVITCPQDFPHCSIPLRVGLPLLSPEFLLTGVLKQE-AK 195
Query: 1434 HKKYLLYT 1441
+ ++L
Sbjct: 196 PEAFVLSP 203
Score = 45.4 bits (107), Expect = 7e-05
Identities = 21/162 (12%), Positives = 50/162 (30%), Gaps = 18/162 (11%)
Query: 1373 EELKALMMLHGGIYHHYESSRTTHIIASNLPHTK--IKKLKPGDKIIKPEWIVDSISAGK 1430
+ ++ GG ++ +H++ + T + L G I+ +W+ S AG
Sbjct: 23 ARGERAVLALGGSLAG-SAAEASHLVTDRIRRTVKFLCALGRGIPILSLDWLHQSRKAGF 81
Query: 1431 LLDHKKYLLYTGTDAKPLTKLLQKSYFENTEAPCCSKSLVETSSHTS------------- 1477
L +Y++ K LQ + E + +
Sbjct: 82 FLPPDEYVVTDPEQEKNFGFSLQDALSRARERRLLEGYEIYVTPGVQPPPPQMGEIISCC 141
Query: 1478 --TVSDSVDNTEESKSEAVNSEESKSEAANPIESKQTVKTKE 1517
T S+ + + + + + + P+ + + E
Sbjct: 142 GGTYLPSMPRSYKPQRVVITCPQDFPHCSIPLRVGLPLLSPE 183
>3lnu_A Topoisomerase IV subunit B; PARE, ATP-binding, nucleotide-BI
topoisomerase; 2.20A {Xanthomonas oryzae PV} PDB:
3lps_A*
Length = 408
Score = 48.3 bits (116), Expect = 2e-05
Identities = 53/291 (18%), Positives = 94/291 (32%), Gaps = 82/291 (28%)
Query: 89 DEILVNACDNKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKMFVPTMIFGHL 148
DE L I++T+ ++ + V ++G+G+PV H +EK +P +
Sbjct: 64 DEALAGHAKQ---------IEVTLYKD-GSCEVSDDGRGMPVDIHPEEK--IPGV----- 106
Query: 149 LTSSNYNDEEDKVTGVVPTMI-----FGHLLTSSNYNDEEDKVTGGRNGYGAKLCNIFSS 203
E ++ T + F + NY +GG +G G + N S+
Sbjct: 107 --------E------LILTRLHAGGKFNN----RNY-----TFSGGLHGVGVSVVNALST 143
Query: 204 KFVVETSCSEYKKSFKQVWKD--------NMSKVTSP--EI-KSGSKDDFTKITFTPDLT 252
K + + ++ S + G K+ T++ F D
Sbjct: 144 KVELF------------IKREGSEHRMEFRDGNAASKLEVVGTVGKKNTGTRLRFWADPK 191
Query: 253 KFKMTSLDKDMVDLITRRAYDAAASTKDVKVFLNGEKLP-VKNFQ------DYVKLYTDR 305
F + V + A + V L+ E ++ DY+K
Sbjct: 192 YFDTPKFN---VRALRHLLRAKAVLCPGLTVKLHDEATGEQDSWYFENGLRDYLK-GEMA 247
Query: 306 QDED--GDPVKIIYENVNPRWEVAIAPSDRGFQQV-SFVNSIATTKGGRHV 353
+ E D + + A G S+VN I T + G HV
Sbjct: 248 EHEMLPADLFVGSLKKDTEIVDWAAGWVPEGELVQESYVNLIPTAQHGTHV 298
>4duh_A DNA gyrase subunit B; structure-based drug design, antibacterial,
DNA gyrase B, GY isomerase-isomerase inhibitor complex;
HET: DNA RLI; 1.50A {Escherichia coli} PDB: 1aj6_A*
1kzn_A* 3g7e_A*
Length = 220
Score = 46.3 bits (111), Expect = 3e-05
Identities = 47/227 (20%), Positives = 81/227 (35%), Gaps = 74/227 (32%)
Query: 42 LEHILLRPDTYIGSVEPITETMWLMNRETNHMERREITYVPGLYKI----FDEILVNACD 97
L+ + RP YIG + +HM ++++ DE L C
Sbjct: 16 LDAVRKRPGMYIGDTDD--------GTGLHHM----------VFEVVDNAIDEALAGHCK 57
Query: 98 NKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKMFVPTMIFGHLLTSSNYNDE 157
I +T++ + N++SV ++G+GIP H +E V E
Sbjct: 58 E---------IIVTIHAD-NSVSVQDDGRGIPTGIHPEEG--VSAA-------------E 92
Query: 158 EDKVTGVVPTMI-----FGHLLTSSNYNDEEDKVTGGRNGYGAKLCNIFSSKFVVETS-- 210
V+ T++ F ++Y KV+GG +G G + N S K +
Sbjct: 93 ------VIMTVLHAGGKFDD----NSY-----KVSGGLHGVGVSVVNALSQKLELVIQRE 137
Query: 211 CSEYKKSFKQVWKDNMSKVTSPEIKSGSKDDFTKITFTPDLTKFKMT 257
+++ ++ VT K+G T + F P L F
Sbjct: 138 GKIHRQIYEHGVPQAPLAVTGETEKTG-----TMVRFWPSLETFTNV 179
>3ilw_A DNA gyrase subunit A; DNA topology, topoisomerase, antibiotic
resistance, breakage-reunion domain, struct genomics;
HET: DNA; 1.60A {Mycobacterium tuberculosis} PDB:
3ifz_A*
Length = 470
Score = 45.6 bits (109), Expect = 2e-04
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 669 IPMVLVNGAEGIGTGWMTKIPNHNPREIVDNIKRMIRGEDP 709
P +L NG+ GI G T IP HN RE+ D + + E+
Sbjct: 140 FPNLLANGSGGIAVGMATNIPPHNLRELADAVFWAL--ENH 178
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA bindi topology; 3.00A {Escherichia
coli}
Length = 716
Score = 45.6 bits (109), Expect = 2e-04
Identities = 15/37 (40%), Positives = 20/37 (54%)
Query: 669 IPMVLVNGAEGIGTGWMTKIPNHNPREIVDNIKRMIR 705
+P +L+NG GI G T IP HN RE+ +I
Sbjct: 135 LPNILLNGTTGIAVGMATDIPPHNLREVAQAAIALID 171
>1unn_C POL IV, DNA polymerase IV; beta-clamp, translesion, transferase,
DNA-directed D polymerase, DNA replication; HET: DNA;
1.9A {Escherichia coli} SCOP: d.240.1.1
Length = 115
Score = 42.0 bits (99), Expect = 2e-04
Identities = 17/103 (16%), Positives = 31/103 (30%), Gaps = 13/103 (12%)
Query: 2042 HQRKSVSAEVNYGIRFQNNQEMETFLKQLAGEVEKRLEEVKMKGKCITLKLMVRSAEAPR 2101
H V E + E E +++L E+E+RL +VK + ++ +
Sbjct: 2 HHHHHVGVERTMAEDIHHWSECEAIIERLYPELERRLAKVKPDLLIARQGVKLKFDD--- 58
Query: 2102 EASKFLGHGVCDYITKSSSLPIYERPLIITYFLLLVRSAEAPR 2144
F T+ P + +I R
Sbjct: 59 ----F------QQTTQEHVWPRLNKADLIATARKTWDERRGGR 91
>3lpx_A GYRA, DNA gyrase, A subunit; topoisomraseii, ATP-binding,
isomerase, nucleo binding; HET: DNA; 2.60A {Colwellia
psychrerythraea} PDB: 2wl2_A* 2y3p_A* 3nuh_A* 1ab4_A
Length = 500
Score = 45.3 bits (108), Expect = 2e-04
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 669 IPMVLVNGAEGIGTGWMTKIPNHNPREIVDNIKRMIRGED 708
+P +LVNG GI G T IP HN E+++ +I +
Sbjct: 133 VPNLLVNGTSGIAVGMATNIPPHNLTEVINACLALIDNSE 172
>3al2_A DNA topoisomerase 2-binding protein 1; BRCT domain, protein binding,
DNA binding protein; HET: DNA MSE; 2.00A {Homo sapiens}
PDB: 3al3_A*
Length = 235
Score = 44.4 bits (104), Expect = 2e-04
Identities = 14/110 (12%), Positives = 35/110 (31%), Gaps = 4/110 (3%)
Query: 1373 EELKALMMLHGGIYH--HYESSRTTHIIASNLPHTK--IKKLKPGDKIIKPEWIVDSISA 1428
+ L+ GG+ THI+ + + + + G ++ ++ +A
Sbjct: 23 IDYCHLIEKLGGLVIEKQCFDPTCTHIVVGHPLRNEKYLASVAAGKWVLHRSYLEACRTA 82
Query: 1429 GKLLDHKKYLLYTGTDAKPLTKLLQKSYFENTEAPCCSKSLVETSSHTST 1478
G + + Y + + LT + + A K + +
Sbjct: 83 GHFVQEEDYEWGSSSILDVLTGINVQQRRLALAAMRWRKKIQQRQESGIV 132
Score = 38.6 bits (89), Expect = 0.015
Identities = 22/155 (14%), Positives = 42/155 (27%), Gaps = 25/155 (16%)
Query: 1296 EETFSDNPSPSEPKTTAPKKKKKGGYMEAKKRKLEEQFELEANSDSRGGIFQGVAIFVNG 1355
EE + S T +++ + A + + + Q E S G F G + ++
Sbjct: 88 EEDYEWGSSSILDVLTGINVQQRRLALAAMRWRKKIQQRQE--SGIVEGAFSGWKVILHV 145
Query: 1356 YTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYES----SRTTHII-------ASNLPH 1404
K L+ G S TH+ +
Sbjct: 146 DQ------------SREAGFKRLLQSGGAKVLPGHSVPLFKEATHLFSDLNKLKPDDSGV 193
Query: 1405 TKIKKLKPGDKIIKPEWIVDSISAGKLLDHKKYLL 1439
+ ++ E+I D + + Y L
Sbjct: 194 NIAEAAAQNVYCLRTEYIADYLMQESPPHVENYCL 228
>2inr_A DNA topoisomerase 4 subunit A; topoisomerase II fold; HET: DNA;
2.80A {Staphylococcus aureus}
Length = 514
Score = 45.2 bits (108), Expect = 2e-04
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 669 IPMVLVNGAEGIGTGWMTKIPNHNPREIVDNIKRMI 704
P +LVNG+ GI G+ T IP HN E++ + I
Sbjct: 183 FPNLLVNGSTGISAGYATDIPPHNLAEVIQATLKYI 218
>2nov_A DNA topoisomerase 4 subunit A; protein, PARC, TOPO IV,
GRAM-positive bacteria, quinolone target, DNA binding,
DNA cleavage; HET: DNA; 2.67A {Streptococcus pneumoniae}
PDB: 3foe_A* 3fof_A* 3k9f_A* 3ksa_A* 3ksb_A* 3ltn_A*
3rad_A* 3rae_A* 3raf_A*
Length = 496
Score = 45.2 bits (108), Expect = 2e-04
Identities = 17/36 (47%), Positives = 22/36 (61%)
Query: 669 IPMVLVNGAEGIGTGWMTKIPNHNPREIVDNIKRMI 704
P +LVNG+ GI G+ T IP HN E++D MI
Sbjct: 159 FPNLLVNGSTGISAGYATDIPPHNLAEVIDAAVYMI 194
>3pc7_A DNA ligase 3; DNA repair, BRCT domain, protein:protein interactions,
XRCC1 domain, DNA binding protein; HET: DNA MSE; 1.65A
{Homo sapiens} PDB: 3pc8_C* 1imo_A* 1in1_A* 3qvg_A*
Length = 88
Score = 40.4 bits (94), Expect = 4e-04
Identities = 18/88 (20%), Positives = 33/88 (37%), Gaps = 18/88 (20%)
Query: 1345 IFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIASNLPH 1404
IF GV +++ T L Y++ G + ++ + TH++ S
Sbjct: 16 IFTGVRLYLPPSTPDFSRLRRYFVA-----------FDGDLVQEFDMTSATHVLGSR--- 61
Query: 1405 TKIKKLKPGDKIIKPEWIVDSISAGKLL 1432
P + + PEWI I +L+
Sbjct: 62 ----DKNPAAQQVSPEWIWACIRKRRLV 85
>3ef0_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH,
BRCT, hydrolase, ALF4, transition state analog, cobalt,
magnesium; 2.10A {Schizosaccharomyces pombe}
Length = 372
Score = 44.0 bits (103), Expect = 5e-04
Identities = 24/101 (23%), Positives = 41/101 (40%), Gaps = 9/101 (8%)
Query: 1342 RGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIASN 1401
+ + +G + +G + + + I A G S TH+IA+
Sbjct: 279 KQKVLKGCRLLFSGVIPLGVDVLSSDIAKWAMSF-------GAEVVLDFSVPPTHLIAAK 331
Query: 1402 LPHTKIKKLK--PGDKIIKPEWIVDSISAGKLLDHKKYLLY 1440
+ K+KK K++K W+ +S+S K L YLLY
Sbjct: 332 IRTEKVKKAVSMGNIKVVKLNWLTESLSQWKRLPESDYLLY 372
>1ei1_A DNA gyrase B, GYRB; ATPase domain, dimer, isomerase; HET: DNA ANP;
2.30A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2
Length = 391
Score = 44.0 bits (105), Expect = 5e-04
Identities = 68/346 (19%), Positives = 122/346 (35%), Gaps = 113/346 (32%)
Query: 42 LEHILLRPDTYIGSVEPITETMWLMNRETNHMERREITYVPGL----YKI----FDEILV 93
L+ + RP YIG + T GL +++ DE L
Sbjct: 15 LDAVRKRPGMYIGDTDDGT----------------------GLHHMVFEVVDNAIDEALA 52
Query: 94 NACDNKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKMFVPTMIFGHLLTSSN 153
C I +T++ + N++SV ++G+GIP H +E V
Sbjct: 53 GHCKE---------IIVTIHAD-NSVSVQDDGRGIPTGIHPEEG--VSAA---------- 90
Query: 154 YNDEEDKVTGVVPTMI-----FGHLLTSSNYNDEEDKVTGGRNGYGAKLCNIFSSKFVVE 208
E V+ T++ F ++Y KV+GG +G G + N S K +
Sbjct: 91 ---E------VIMTVLHAGGKFDD----NSY-----KVSGGLHGVGVSVVNALSQKLELV 132
Query: 209 TSCSEYKKSFKQVWKD--------NMSKVTSP-EIKSGSKDDFTKITFTPDLTKFKMTSL 259
+ ++ +P + ++ T + F P L F +
Sbjct: 133 ------------IQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLETFTNVTE 180
Query: 260 DKDMVDLITRRAYDAAASTKDVKVFLNGEKLP-VKNFQ------DYVKLYTDRQDEDGDP 312
+ +++ +R + + V + L ++ +F +V+ Y ++ P
Sbjct: 181 FE--YEILAKRLRELSFLDSGVSIRLRDKRDGKEDHFHYEGGIKAFVE-YLNKNKTPIHP 237
Query: 313 VKIIY---ENVNPRWEVAIAPSDRGFQQ--VSFVNSIATTKGGRHV 353
I Y E EVA+ +D GFQ+ F N+I GG H+
Sbjct: 238 -NIFYFSTEKDGIGVEVALQWND-GFQENIYCFTNNIPQRDGGTHL 281
>2vxb_A DNA repair protein RHP9; BRCT, nucleus, cell cycle, DNA damage, DNA
replication inhibitor, phosphoprotein, checkpoint
signalling; HET: DNA; 2.3A {Schizosaccharomyces pombe}
PDB: 2vxc_A*
Length = 241
Score = 43.0 bits (100), Expect = 5e-04
Identities = 10/63 (15%), Positives = 24/63 (38%), Gaps = 2/63 (3%)
Query: 1382 HGGIYHHYESSRTTHIIASNLPHTK--IKKLKPGDKIIKPEWIVDSISAGKLLDHKKYLL 1439
H +S +++ ++ L + P++I + +++D YLL
Sbjct: 57 HLKPQKRSKSWNQAFVVSDTFSRKVKYLEALAFNIPCVHPQFIKQCLKMNRVVDFSPYLL 116
Query: 1440 YTG 1442
+G
Sbjct: 117 ASG 119
Score = 29.9 bits (66), Expect = 8.7
Identities = 14/123 (11%), Positives = 34/123 (27%), Gaps = 3/123 (2%)
Query: 1312 APKKKKKGGYMEAKKRKLEEQFELEANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPS 1371
+ + + + + L +R G G I
Sbjct: 118 SGYSHRLDCTLSQRIEPFDTTDSLYDRLLARKGPLFGKKILFIIPEAKSWQ-KKIENTEQ 176
Query: 1372 AEELKALMMLHGGIYHHYESSRTTHIIASNLPHTKIKKL--KPGDKIIKPEWIVDSISAG 1429
++ A + + E + +L T + + ++ PEWIV+ + +
Sbjct: 177 GQKALAHVYHALALGADVEIRPNVAHLECDLILTMDGNIVDETNCPVVDPEWIVECLISQ 236
Query: 1430 KLL 1432
+
Sbjct: 237 SDI 239
>3ef1_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH,
BRCT, hydrolase, BEF3, acylphosphate analog, cobalt,
magnesium; HET: BFD; 2.15A {Schizosaccharomyces pombe}
Length = 442
Score = 43.8 bits (102), Expect = 5e-04
Identities = 24/101 (23%), Positives = 41/101 (40%), Gaps = 9/101 (8%)
Query: 1342 RGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHYESSRTTHIIASN 1401
+ + +G + +G + + + I A G S TH+IA+
Sbjct: 349 KQKVLKGCRLLFSGVIPLGVDVLSSDIAKWAMSF-------GAEVVLDFSVPPTHLIAAK 401
Query: 1402 LPHTKIKKLK--PGDKIIKPEWIVDSISAGKLLDHKKYLLY 1440
+ K+KK K++K W+ +S+S K L YLLY
Sbjct: 402 IRTEKVKKAVSMGNIKVVKLNWLTESLSQWKRLPESDYLLY 442
>3cwv_A DNA gyrase, B subunit, truncated; structural genomics, unknown
function, B-subunit binding, isomerase,
nucleotide-binding, topoisomerase; HET: DNA; 1.95A
{Myxococcus xanthus}
Length = 369
Score = 43.3 bits (103), Expect = 8e-04
Identities = 45/360 (12%), Positives = 104/360 (28%), Gaps = 106/360 (29%)
Query: 42 LEHILLRPDTYIGSVEPITETMWLMNRETNHMERREITYVPGLYKI----FDEILVNACD 97
+E++ RP Y G V +H+ +Y + ++E C
Sbjct: 12 VENVRKRPGMYCGDVGE---------YGLHHL----------VYFLLDVAYEEARRGECR 52
Query: 98 NKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKMFVPTMIFGHLLTSSNYNDE 157
+ + + V + +I+++ + +
Sbjct: 53 D---------VVLEVGGD-GSIALFCTSRTVTA--------------------------- 75
Query: 158 EDKVTGVVPTMI-----FGHLLTSSNYNDEEDKVTGGRNGYGAKLCNIFSSKFVVETS-- 210
E + + G G + + SS++ V+
Sbjct: 76 E-----NLVRVATGAGFLG----RPPG-----DGWGWDSMLV--VSLALSSRYQVDIWAD 119
Query: 211 CSEYKKSFKQVWKDNMSKVTSPEIKSGSKDDF-TKITFTPDLTKFKMTSLDKDMVDLITR 269
+++ + +P + ++ F PD T F++ + D ++R
Sbjct: 120 GRQWRVMGEHGHPQGEGAAVTPMEPMPVSAERGVRVHFVPDATIFEVLAFD---RARLSR 176
Query: 270 RAYDAAASTKDVKVFL----NGEKLPVKNFQ------DYVKLYTDRQDE--DGDPVKIIY 317
R + AA ++V GE+ + + +PV +
Sbjct: 177 RCNELAALAPGLRVSFADLQRGER---TLWHLPGGVAQWAH-VLTEARPQLHPEPVVFDF 232
Query: 318 ENVNPRWEVAIAPSDRGFQQ--VSFVNSIATTKGGRHVDAVVDAIVKQIIEVVKKKNKDL 375
R + A+ + +SF N++ T + G HV V A+ + ++ +
Sbjct: 233 TWDGLRVQCALQWCE-DEDSTLLSFANAVRTVRHGAHVKGVTQALRGALAKLSGETRGAF 291
>1kzy_C Tumor suppressor P53-binding protein 1; tandem-BRCT and linker
complexed with non-BRCT protein, three-helix bundle,
parallel beta sheet; 2.50A {Homo sapiens} SCOP: c.15.1.4
c.15.1.4 PDB: 1gzh_B
Length = 259
Score = 42.5 bits (99), Expect = 9e-04
Identities = 15/82 (18%), Positives = 30/82 (36%), Gaps = 8/82 (9%)
Query: 1373 EELKALMMLHGGIY------HHYESSRTTHIIASNLPHTK--IKKLKPGDKIIKPEWIVD 1424
+ ++ + G ++ +IA T+ L G + W+ D
Sbjct: 61 QYTESQLRAGAGYILEDFNEAQCNTAYQCLLIADQHCRTRKYFLCLASGIPCVSHVWVHD 120
Query: 1425 SISAGKLLDHKKYLLYTGTDAK 1446
S A +L +++ YLL G +
Sbjct: 121 SCHANQLQNYRNYLLPAGYSLE 142
Score = 39.4 bits (91), Expect = 0.008
Identities = 12/113 (10%), Positives = 29/113 (25%), Gaps = 22/113 (19%)
Query: 1341 SRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIY----------HHYE 1390
R FQ + + + + E ++M G
Sbjct: 151 PRENPFQNLKVLLVSDQQQ----------NFLELWSEILMTGGAASVKQHHSSAHNKDIA 200
Query: 1391 SSRTTHIIA--SNLPHTKIKKLKPGDKIIKPEWIVDSISAGKLLDHKKYLLYT 1441
++ S ++ EW++ + G+ + K++ Y
Sbjct: 201 LGVFDVVVTDPSCPASVLKCAEALQLPVVSQEWVIQCLIVGERIGFKQHPKYK 253
>2l42_A DNA-binding protein RAP1; BRCT domain, protein binding; NMR
{Saccharomyces cerevisiae}
Length = 106
Score = 39.3 bits (91), Expect = 0.001
Identities = 20/107 (18%), Positives = 38/107 (35%), Gaps = 15/107 (14%)
Query: 1335 LEANSDSRGGIFQGVAIFVNGYTKHCMMLDAYYIVPSAEELKALMMLHGGIYHHY--ESS 1392
+E G + ++N DA+ + ++L L+ +GG S
Sbjct: 1 MEKKEQVSGPPLSNMKFYLNRDA------DAHDSLNDIDQLARLIRANGGEVLDSKPRES 54
Query: 1393 RTTHIIASNLPHTKIKKLKPGDKIIKPEWIVDSISAGKLLDHKKYLL 1439
+ I S HT + + P +I + LL+ + YL+
Sbjct: 55 KENVFIVSPYNHTNLP-------TVTPTYIKACCQSNSLLNMENYLV 94
>3ttz_A DNA gyrase subunit B; protein-inhibitor complex, ATP-binding,
structure-based drug antimicrobial, isomerase-isomerase
inhibitor complex; HET: DNA 07N; 1.63A {Staphylococcus
aureus} PDB: 3u2d_A* 3u2k_A* 3g75_A* 3g7b_A*
Length = 198
Score = 40.9 bits (97), Expect = 0.002
Identities = 24/101 (23%), Positives = 39/101 (38%), Gaps = 33/101 (32%)
Query: 42 LEHILLRPDTYIGSVEPITETMWLMNRETNHMERREITYVPGLYKI----FDEILVNACD 97
LE + RP YIGS R +H+ +++I DE L +
Sbjct: 13 LEAVRKRPGMYIGSTSE---------RGLHHL----------VWEIVDNSIDEALAGYAN 53
Query: 98 NKQRDPKMNCIKITVNQETNTISVWNNGKGIPVVEHKDEKM 138
I++ + ++ N I V +NG+GIPV +
Sbjct: 54 Q---------IEVVIEKD-NWIKVTDNGRGIPVDIQEKMGR 84
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 39.8 bits (92), Expect = 0.005
Identities = 15/83 (18%), Positives = 28/83 (33%), Gaps = 35/83 (42%)
Query: 1278 EAIRKWKTSLGITEDEDLEETFSDNPSPSEPKTTAPKKKKKGGYMEAKK----------- 1326
E+IRKW+ + + L+E A K ++ +AKK
Sbjct: 85 ESIRKWREE----QRKRLQE-----------LDAASKVMEQEWREKAKKDLEEWNQRQSE 129
Query: 1327 ---------RKLEEQFELEANSD 1340
R ++ F + ++D
Sbjct: 130 QVEKNKINNRIADKAFYQQPDAD 152
Score = 34.4 bits (78), Expect = 0.22
Identities = 18/88 (20%), Positives = 32/88 (36%), Gaps = 20/88 (22%)
Query: 840 SQTQEEEDPDKDYDYLLGMTFWSLTMERKNELLKKRDDKMTE-LNILKKKAPTDL--WSD 896
+ +E + + W E + + L++ D ++KA DL W+
Sbjct: 78 DRLTQEPESIRK---------WR---EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQ 125
Query: 897 DLDALREKDKIHPCPGGNRTRGLALKRQ 924
EK+KI+ NR A +Q
Sbjct: 126 RQSEQVEKNKIN-----NRIADKAFYQQ 148
Score = 32.1 bits (72), Expect = 1.3
Identities = 11/65 (16%), Positives = 28/65 (43%), Gaps = 13/65 (20%)
Query: 1140 TQTSQGTESEERKGHLRRWRRKEEESTQTVQVELREGVNISAPKPQASSTKNASNEDFLG 1199
Q + T+ E +R+WR ++ + +++ + +A K + + +D L
Sbjct: 75 AQADRLTQEPE---SIRKWREEQRK-----RLQELD----AASKVMEQEWREKAKKD-LE 121
Query: 1200 EFYNK 1204
E+ +
Sbjct: 122 EWNQR 126
Score = 30.5 bits (68), Expect = 4.1
Identities = 8/81 (9%), Positives = 26/81 (32%), Gaps = 9/81 (11%)
Query: 799 SEEEEIEEVFHDNELAKPQKTGPQLERQERQAAEGEDDEAGSQTQEEEDPDKDYDYLLGM 858
E E I + + Q+ +L+ + + E + ++ E+ ++ +
Sbjct: 82 QEPESIRK------WREEQR--KRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEK 133
Query: 859 TFWSLTMERKNELLKKRDDKM 879
+ ++ D +
Sbjct: 134 NKIN-NRIADKAFYQQPDADI 153
Score = 30.1 bits (67), Expect = 5.8
Identities = 7/20 (35%), Positives = 12/20 (60%), Gaps = 4/20 (20%)
Query: 1582 EAIRKWKTSLGITEDEDLEE 1601
E+IRKW+ + + L+E
Sbjct: 85 ESIRKWREE----QRKRLQE 100
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 37.1 bits (86), Expect = 0.077
Identities = 42/270 (15%), Positives = 95/270 (35%), Gaps = 31/270 (11%)
Query: 1031 KSQREGAQDSDLENNCRLDEVERKEKEEENSNITKIKSKLKEKGSKKRNPLSSLDDTMPS 1090
R A+ +LE E +E+EE + + K K++++ L +
Sbjct: 914 MRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAAR-- 971
Query: 1091 AAGRRVEPKYEELLIKAEKAAAPKKPNEVLPGWE---SNLRPSADKAESRKRTQTSQGTE 1147
++++ L K KK + + E + L E R T+ E
Sbjct: 972 ---QKLQ------LEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAE 1022
Query: 1148 SEERKGHLRRWRRKEEESTQTVQVELREGVNISAPKPQASSTKNASNEDFLGEFYNKSRL 1207
EE+ +L + + K E ++V L++ + ++ GE +
Sbjct: 1023 EEEKAKNLTKLKNKHESMISELEVRLKK-------EEKSRQELEKIKRKLEGE--SSDLH 1073
Query: 1208 HHLSTMGSMFKQYVNQLISLQQDKQLPAIQVISIRSPRARPPRRSSTMGSMFKQYVNELR 1267
++ + + + QL +++ Q ++ S + ++ + + ++++L+
Sbjct: 1074 EQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIREL----ESHISDLQ 1129
Query: 1268 EKHDGVFRGIEAIRKWKTSLGITEDEDLEE 1297
E + K K L E+LE
Sbjct: 1130 EDLESEKAARNKAEKQKRDL----SEELEA 1155
>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 = 35.3 bits (80), Expect = 0.090
Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 26/53 (49%)
Query: 1055 EKEEENSNITKIKSKLKEKGSKKRNPLSSLDDTMPSAAGRRVEPKYEELLIKA 1107
EK+ + K+++ LK L + DD+ P+ A IKA
Sbjct: 18 EKQA----LKKLQASLK---------LYA-DDSAPALA------------IKA 44
Score = 34.5 bits (78), Expect = 0.14
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 7/34 (20%)
Query: 288 EKLPVKNFQDYVKLYTDRQDEDGDP---VKIIYE 318
EK +K Q +KLY D D P +K E
Sbjct: 18 EKQALKKLQASLKLYAD----DSAPALAIKATME 47
Score = 33.8 bits (76), Expect = 0.29
Identities = 7/32 (21%), Positives = 14/32 (43%), Gaps = 3/32 (9%)
Query: 1510 KQTVKTKESKLETVNISAPKPQASSTKNASNE 1541
KQ +K ++ L+ + A + A+ E
Sbjct: 19 KQALKKLQASLK---LYADDSAPALAIKATME 47
Score = 32.6 bits (73), Expect = 0.63
Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 3/26 (11%)
Query: 467 KNSI---DCTLILTEGDSAKSLAVSG 489
K ++ +L L DSA +LA+
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKA 44
>2q8g_A [pyruvate dehydrogenase [lipoamide]] kinase isozy; GHKL
ATPase/kinase family, pyruvate dehydrogenase complex,
mitochondrial kinase; HET: AZX; 1.90A {Homo sapiens}
PDB: 2q8f_A* 2q8h_A
Length = 407
Score = 35.9 bits (82), Expect = 0.14
Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 9/70 (12%)
Query: 77 EITYVPG-LYKIFDEILVNAC----DNKQRDPKMNCIKITVNQETN--TISVWNNGKGIP 129
++ YVP LY + E+ NA ++ I++ V T+ + + G G+P
Sbjct: 236 QVVYVPSHLYHMVFELFKNAMRATMEHHANRGVYPPIQVHVTLGNEDLTVKMSDRGGGVP 295
Query: 130 VVEHKDEKMF 139
K +++F
Sbjct: 296 --LRKIDRLF 303
>1wck_A BCLA protein; collagen-like protein, bacterial surface antigen,
jelly- roll topology, structural protein; 1.36A {Bacillus
anthracis}
Length = 220
Score = 35.3 bits (81), Expect = 0.16
Identities = 11/47 (23%), Positives = 17/47 (36%)
Query: 2232 GPSNSTITPGPSNSTLPPGPSNSTLPPGPSNSTLLPGPSFGLSLPLG 2278
GP+ T G + T P GP+ + P+ L L +
Sbjct: 56 GPTGPTGPTGATGLTGPTGPTGPSGLGLPAGLYAFNSGGISLDLGIN 102
Score = 34.2 bits (78), Expect = 0.30
Identities = 13/41 (31%), Positives = 19/41 (46%)
Query: 2231 PGPSNSTITPGPSNSTLPPGPSNSTLPPGPSNSTLLPGPSF 2271
G + T GP+ T P G + T P GP+ + L P+
Sbjct: 46 TGTTGPTGPTGPTGPTGPTGATGLTGPTGPTGPSGLGLPAG 86
Score = 32.6 bits (74), Expect = 0.96
Identities = 7/42 (16%), Positives = 11/42 (26%)
Query: 2231 PGPSNSTITPGPSNSTLPPGPSNSTLPPGPSNSTLLPGPSFG 2272
G + T GP+ + P+ S L
Sbjct: 64 TGATGLTGPTGPTGPSGLGLPAGLYAFNSGGISLDLGINDPV 105
Score = 32.3 bits (73), Expect = 1.3
Identities = 6/39 (15%), Positives = 11/39 (28%)
Query: 2232 GPSNSTITPGPSNSTLPPGPSNSTLPPGPSNSTLLPGPS 2270
S + + + PS + +L G S
Sbjct: 167 LISLGAPIVIQAITQITTTPSLVEVIVTGLGLSLALGTS 205
Score = 31.9 bits (72), Expect = 2.1
Identities = 8/35 (22%), Positives = 14/35 (40%)
Query: 2232 GPSNSTITPGPSNSTLPPGPSNSTLPPGPSNSTLL 2266
+ + IT PS + +L G S S ++
Sbjct: 176 IQAITQITTTPSLVEVIVTGLGLSLALGTSASIII 210
Score = 31.1 bits (70), Expect = 3.4
Identities = 5/43 (11%), Positives = 8/43 (18%)
Query: 2228 NPRPGPSNSTITPGPSNSTLPPGPSNSTLPPGPSNSTLLPGPS 2270
GP+ + P+ S S
Sbjct: 70 TGPTGPTGPSGLGLPAGLYAFNSGGISLDLGINDPVPFNTVGS 112
>2btz_A Pyruvate dehydrogenase kinase isoenzyme 2; GHKL motif regulation,
transferase; 2.2A {Homo sapiens} PDB: 2bu2_A* 2bu5_A*
2bu6_A* 2bu7_A* 2bu8_A* 3crk_A* 1jm6_A* 3crl_A*
Length = 394
Score = 35.5 bits (81), Expect = 0.19
Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 9/70 (12%)
Query: 77 EITYVPG-LYKIFDEILVNAC----DNKQRDPKMNCIKITV--NQETNTISVWNNGKGIP 129
+ YVP LY + E+ NA ++ + + IK+ V +E +I + + G G+P
Sbjct: 224 HMVYVPSHLYHMLFELFKNAMRATVESHESSLILPPIKVMVALGEEDLSIKMSDRGGGVP 283
Query: 130 VVEHKDEKMF 139
K E++F
Sbjct: 284 --LRKIERLF 291
>2f6a_E Collagen; CNA, mscramm, adhesion, ECM, cell adhesion/structural
protein complex; 3.29A {Staphylococcus aureus}
Length = 30
Score = 30.6 bits (69), Expect = 0.27
Identities = 15/30 (50%), Positives = 15/30 (50%), Gaps = 3/30 (10%)
Query: 2240 PGPSNSTLPPGPSNSTLPPGPSNSTLLPGP 2269
PGP PPGP T PPGP PGP
Sbjct: 3 PGPPGPPGPPGPRGRTGPPGPPGP---PGP 29
Score = 30.6 bits (69), Expect = 0.30
Identities = 15/30 (50%), Positives = 15/30 (50%), Gaps = 3/30 (10%)
Query: 2231 PGPSNSTITPGPSNSTLPPGPSNSTLPPGP 2260
PGP PGP T PPGP PPGP
Sbjct: 3 PGPPGPPGPPGPRGRTGPPGPPG---PPGP 29
>1th8_A Anti-sigma F factor; SPOIIAB, SPOIIAA, anti-ANTI-sigma,
sporulation, serine kinase, transcription; HET: ADP;
2.40A {Geobacillus stearothermophilus} SCOP: d.122.1.3
PDB: 1thn_A* 1til_A* 1l0o_A* 1tid_A*
Length = 145
Score = 33.1 bits (76), Expect = 0.37
Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 87 IFDEILVNACDNKQRDPKMNCIKITVNQETN--TISVWNNGKGIPVVEHKDEKMF 139
+ E + NA + + + I+V E ++V + G GIP +E + +F
Sbjct: 43 VVSEAVTNAIIHGYNNDPNGIVSISVIIEDGVVHLTVRDEGVGIPDIEEARQPLF 97
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric
ring, heptamer, ring, oligomer, RAD51 polymerizat motif;
HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1
c.37.1.11
Length = 349
Score = 34.6 bits (79), Expect = 0.39
Identities = 15/52 (28%), Positives = 21/52 (40%)
Query: 1968 TPQIISDFMLNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQNEVG 2019
TP+ + + DLPGVG + KL G T + S L+ G
Sbjct: 24 TPKKKKKEKIIRSIEDLPGVGPATAEKLREAGYDTLEAIAVASPIELKEVAG 75
>3adm_A Collagen-like peptide; triple helix, model peptide, structural
protein; HET: HYP; 1.18A {Synthetic}
Length = 27
Score = 29.9 bits (67), Expect = 0.58
Identities = 15/30 (50%), Positives = 15/30 (50%), Gaps = 6/30 (20%)
Query: 2240 PGPSNSTLPPGPSNSTLPPGPSNSTLLPGP 2269
PGP PPGPS PPGP PGP
Sbjct: 2 PGPPGPPGPPGPSGPPGPPGP------PGP 25
>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP
complex, calcium stimulation, RECA, DMC1; HET: DNA ANP;
1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11
PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A*
3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A*
3etl_A* 4dc9_A* 2gdj_A*
Length = 322
Score = 33.8 bits (77), Expect = 0.60
Identities = 13/43 (30%), Positives = 19/43 (44%)
Query: 1977 LNIPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQNEVG 2019
+ L+DLPGVG S KL G + ++ L + G
Sbjct: 1 MGDNLTDLPGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEG 43
>3toy_A Mandelate racemase/muconate lactonizing enzyme FA protein; enolase,
magnesium binding site, lyase; HET: P4C; 1.80A
{Bradyrhizobium SP} PDB: 3tte_A*
Length = 383
Score = 33.8 bits (78), Expect = 0.64
Identities = 19/104 (18%), Positives = 35/104 (33%), Gaps = 21/104 (20%)
Query: 634 YVTGVLLFKMNLHKVTSDSISMFIGRIEPEWY-IPI-------------IPMVLV----- 674
+ +GV L NL S + I + P+ P+VL+
Sbjct: 7 HSSGVDLGTENL-YFQSMMTTAAITGVTARAVITPMKRPLRNAFGVIDSGPLVLIDVTTD 65
Query: 675 NGAEGIG-TGWMTKIPNHNPREIVDNIKRMIRGEDPLPMKPWYK 717
G G T++ +V++I R + G+ +P+
Sbjct: 66 QGVTGHSYLFAYTRLALKPLVHLVEDIGRELAGKALVPVDLMKA 109
>1y8o_A [pyruvate dehydrogenase [lipoamide]] kinase isozy; pyruvate
dehydrogenase kinase 3, lipoyl-bearing domain; HET: RED
ADP; 2.48A {Homo sapiens} SCOP: a.29.5.1 d.122.1.4 PDB:
1y8n_A* 1y8p_A* 2pnr_A* 2q8i_A*
Length = 419
Score = 33.6 bits (76), Expect = 0.85
Identities = 15/71 (21%), Positives = 30/71 (42%), Gaps = 10/71 (14%)
Query: 77 EITYVPG-LYKIFDEILVNACDN-----KQRDPKMNCIKITVNQETN--TISVWNNGKGI 128
++ YVP L+ + E+ N+ + R +K V +I + + G G+
Sbjct: 246 QVVYVPSHLFHMLFELFKNSMRATVELYEDRKEGYPAVKTLVTLGKEDLSIKISDLGGGV 305
Query: 129 PVVEHKDEKMF 139
P K +++F
Sbjct: 306 P--LRKIDRLF 314
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga
maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19
Length = 780
Score = 33.8 bits (78), Expect = 0.86
Identities = 12/56 (21%), Positives = 21/56 (37%)
Query: 1951 QARLATKKAKPNGQFHLTPQIISDFMLNIPLSDLPGVGHSLLFKLNSLGAQTCGDL 2006
++ +K + + L+ + GVG + KL LG +T DL
Sbjct: 87 KSLEMIEKLRSWFLIDYLECSGEEVDLSTDIQYAKGVGPNRKKKLKKLGIETLRDL 142
>2kb3_A Oxoglutarate dehydrogenase inhibitor; forkhead-associated domain,
kinase substrate, GARA, FHA, cytoplasm, phosphoprotein;
HET: TPO; NMR {Corynebacterium glutamicum} PDB: 2kb4_A
Length = 143
Score = 31.8 bits (72), Expect = 0.99
Identities = 14/62 (22%), Positives = 20/62 (32%)
Query: 2217 TNKGKPPDQLNNPRPGPSNSTITPGPSNSTLPPGPSNSTLPPGPSNSTLLPGPSFGLSLP 2276
N G P Q+ ++ S T P LP G + + GP+ G
Sbjct: 3 DNNGTPEPQVETTSVFRADLLKEMESSTGTAPASTGAENLPAGSALLVVKRGPNAGARFL 62
Query: 2277 LG 2278
L
Sbjct: 63 LD 64
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA
binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A
{Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A*
2zuc_A* 2zud_A*
Length = 324
Score = 32.8 bits (75), Expect = 1.3
Identities = 11/41 (26%), Positives = 19/41 (46%)
Query: 1979 IPLSDLPGVGHSLLFKLNSLGAQTCGDLQNISLKRLQNEVG 2019
++DLPG+ +++ KL G + L S + L G
Sbjct: 12 KTINDLPGISQTVINKLIEAGYSSLETLAVASPQDLSVAAG 52
>2kpy_A Major pollen allergen ART V 1; defensin-like, poly-proline; NMR
{Artemisia vulgaris}
Length = 108
Score = 30.2 bits (67), Expect = 2.5
Identities = 10/38 (26%), Positives = 14/38 (36%)
Query: 2222 PPDQLNNPRPGPSNSTITPGPSNSTLPPGPSNSTLPPG 2259
PP P++ P P++ PP S PP
Sbjct: 69 PPPAAGGSPSPPADGGSPPPPADGGSPPVDGGSPPPPS 106
>3pty_A Arabinosyltransferase C; beta-sandwich, carbohydrate binding,
carbohydrate; HET: AFO; 2.00A {Mycobacterium
tuberculosis}
Length = 406
Score = 31.5 bits (71), Expect = 3.5
Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 5/61 (8%)
Query: 2216 FTNKGKPPDQLNNP---RPGPSNSTITPGPSNSTLPPGPSNSTLPPGPSNSTLLPGPSFG 2272
FT G P D +P RPG + G + P +T PG + S +
Sbjct: 67 FTPNGIPADVTADPVMERPGDRSFLNDDGLITGSEPGTEGGTTAAPGINGSR--ARLPYN 124
Query: 2273 L 2273
L
Sbjct: 125 L 125
>1x9f_C Erythrocruorin, globin III, extracellular, globin C; crystal,
dodecamer, allosteric, oxygen storage/transport complex;
HET: HEM; 2.60A {Lumbricus terrestris} SCOP: a.1.1.2 PDB:
2gtl_C*
Length = 153
Score = 30.4 bits (68), Expect = 4.1
Identities = 11/66 (16%), Positives = 23/66 (34%), Gaps = 10/66 (15%)
Query: 1834 DIEMFSEYLSNL---------VEERHLNPI-VILLRFLRRHVGKKESTVWAEAYQEMLSC 1883
D L +L V++ H IL L + + ++ W + +L+
Sbjct: 87 DPPALDAALDHLAHQHEVREGVQKAHFKKFGEILATGLPQVLDDYDALAWKSCLKGILTK 146
Query: 1884 VQSAMK 1889
+ S +
Sbjct: 147 ISSRLN 152
>1wcz_A Glutamyl endopeptidase; virulence factor, hydrolase; 2.00A
{Staphylococcus aureus} SCOP: b.47.1.1
Length = 268
Score = 31.2 bits (70), Expect = 4.2
Identities = 14/85 (16%), Positives = 26/85 (30%), Gaps = 2/85 (2%)
Query: 2182 VNKLKVDPVELRGIGIQVSKLEHQSKTLATIDTFFTNKGKPPDQLNNPR--PGPSNSTIT 2239
++ V + I + + + I+ ++ PD +NP P+N
Sbjct: 183 IHWGGVPNEFNGAVFINENVRNFLKQNIEDINFANDDQPNNPDNPDNPNNPDNPNNPDEP 242
Query: 2240 PGPSNSTLPPGPSNSTLPPGPSNST 2264
P N P P N +
Sbjct: 243 NNPDNPNNPDNPDNGDNNNSDNPDA 267
>1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix
two-turns helix; 2.00A {Sulfolobus shibatae} SCOP:
a.156.1.3 d.14.1.3 d.122.1.2 PDB: 1mx0_A* 1z5b_A*
1z5a_A* 1z59_A* 1z5c_A* 2hkj_A*
Length = 471
Score = 31.3 bits (70), Expect = 4.5
Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 7/61 (11%)
Query: 84 LYKIFDEILVNACDNKQRDPKMNCIKITV-----NQETNTISVWNNGKGIPVVEHKDEKM 138
LY+ E++ N+ D + IKIT+ ++ ++V +NG GIP +
Sbjct: 33 LYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIP--PQEVPNA 90
Query: 139 F 139
F
Sbjct: 91 F 91
>3m5q_A Manganese peroxidase 1; heme, Mn(II)-binding site, Ca(II)-binding
site, glycosylation, ultrahigh resolution, calcium; HET:
NAG MAN HEM; 0.93A {Phanerochaete chrysosporium} PDB:
1mnp_A* 1yyg_A* 1yzp_A* 1yzr_A* 1yyd_A* 3m8m_A* 1mn1_A*
1mn2_A*
Length = 357
Score = 31.0 bits (70), Expect = 5.3
Identities = 16/77 (20%), Positives = 23/77 (29%), Gaps = 2/77 (2%)
Query: 2195 IGIQVSKLEHQSKTLATIDTFFTNKGKPPDQLNNPRPGPSNSTITPGPSNSTLPPGPSNS 2254
+G + L S + P S + P+ +T P G S S
Sbjct: 279 LGHNRNSLIDCSDVVPVPKPATGQPAMFPASTGPQDLELSCPS-ERFPTLTTQP-GASQS 336
Query: 2255 TLPPGPSNSTLLPGPSF 2271
+ P S PG F
Sbjct: 337 LIAHCPDGSMSCPGVQF 353
>1pn0_A Phenol 2-monooxygenase; two dimers, TLS refinement, oxidoreductase;
HET: FAD; 1.70A {Trichosporon cutaneum} SCOP: c.3.1.2
c.47.1.10 d.16.1.2 PDB: 1foh_A*
Length = 665
Score = 31.2 bits (70), Expect = 5.7
Identities = 6/21 (28%), Positives = 11/21 (52%)
Query: 45 ILLRPDTYIGSVEPITETMWL 65
+++RPD Y V + T +
Sbjct: 617 VVVRPDGYTSLVTDLEGTAEI 637
>1y0f_B Collagen I alpha 2; native, in SITU, triple-helix, supermolecular,
packing structure; 5.16A {Rattus norvegicus} SCOP:
i.25.1.1 PDB: 1ygv_B 3hqv_B 3hr2_B
Length = 1026
Score = 31.2 bits (71), Expect = 5.9
Identities = 18/52 (34%), Positives = 21/52 (40%)
Query: 2219 KGKPPDQLNNPRPGPSNSTITPGPSNSTLPPGPSNSTLPPGPSNSTLLPGPS 2270
G GP+ GP+ T PG + T PPGPS T PGP
Sbjct: 678 VGAAGPPGPVGAAGPAGPRGDAGPTGMTGFPGAAGRTGPPGPSGLTGPPGPP 729
>3i3g_A N-acetyltransferase; malaria, structural genomics, structural
genomics consortium, SGC,; 1.86A {Trypanosoma brucei}
PDB: 3fb3_A
Length = 161
Score = 29.7 bits (67), Expect = 6.7
Identities = 16/79 (20%), Positives = 29/79 (36%), Gaps = 15/79 (18%)
Query: 321 NPRWEVAIAPSDR---GFQQVSFVNSIATTKGGRHV----DAVVDA------IVKQIIEV 367
+V G + T+GGR V D VVD + K +I
Sbjct: 63 GIVTKVFCHQPTGRIVGSASLMIQPKF--TRGGRAVGHIEDVVVDPSYRGAGLGKALIMD 120
Query: 368 VKKKNKDLGCTIIMLFGNK 386
+ + ++ GC ++L ++
Sbjct: 121 LCEISRSKGCYKVILDSSE 139
>3a0y_A Sensor protein; ATP-LID, kinase, phosphoprotein, transferase,
two-component regulatory system; 1.57A {Thermotoga
maritima} PDB: 3a0t_A* 3a0x_A 3a0w_A 3a0z_A
Length = 152
Score = 29.4 bits (67), Expect = 6.7
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 91 ILVNACDNKQRDPKMNCIKITVNQETNT--ISVWNNGKGIPVVEHKDEKMFVP 141
++ NA + + K IKIT +SVWN+G IP E EK+F P
Sbjct: 55 LVQNAIEATGENGK---IKITSEDMYTKVRVSVWNSGPPIP--EELKEKIFSP 102
>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 = 30.3 bits (67), Expect = 9.9
Identities = 15/93 (16%), Positives = 34/93 (36%)
Query: 1097 EPKYEELLIKAEKAAAPKKPNEVLPGWESNLRPSADKAESRKRTQTSQGTESEERKGHLR 1156
+ E L + E+ A P+ S ++A+ + + ++ + E+ +G
Sbjct: 11 HHQLENLYFQGEETAVPENSGANTELVSGESEHSTNEADKQNEGEHARENKLEKAEGVAT 70
Query: 1157 RWRRKEEESTQTVQVELREGVNISAPKPQASST 1189
S + E E + + P+ +AS
Sbjct: 71 ASETASPASNEAATTETAEAASAAKPEEKASEV 103
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
0.313 0.131 0.377
Gapped
Lambda K H
0.267 0.0563 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 34,299,647
Number of extensions: 2111591
Number of successful extensions: 4631
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4481
Number of HSP's successfully gapped: 194
Length of query: 2307
Length of database: 6,701,793
Length adjustment: 109
Effective length of query: 2198
Effective length of database: 3,658,404
Effective search space: 8041171992
Effective search space used: 8041171992
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 (21.9 bits)
S2: 65 (29.2 bits)