RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1955
(512 letters)
>3na3_A DNA mismatch repair protein MLH1; MUTL protein homolog 1, DNA damag
repair, structural genomics consortium, SGC, protein
bindin; HET: DNA ATP; 2.50A {Homo sapiens}
Length = 348
Score = 296 bits (760), Expect = 5e-97
Identities = 134/198 (67%), Positives = 155/198 (78%)
Query: 313 STSIQVTVKQGGLKLLQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEA 372
STSIQV VK+GGLKL+QIQDNGTGIRKED+DIVCERFTTSKL FEDL SIST+GFRGEA
Sbjct: 45 STSIQVIVKEGGLKLIQIQDNGTGIRKEDLDIVCERFTTSKLQSFEDLASISTYGFRGEA 104
Query: 373 LASISHVAHLTIITKTKTSPCAYRASYIDSKLKDPIKPCAGNQGTQIIAEDLFYNIPTRR 432
LASISHVAH+TI TKT CAYRASY D KLK P KPCAGNQGTQI EDLFYNI TRR
Sbjct: 105 LASISHVAHVTITTKTADGKCAYRASYSDGKLKAPPKPCAGNQGTQITVEDLFYNIATRR 164
Query: 433 KALKQPSEEYNKIADVVSRYAVHNPHVGFTLKKQNENLADIRTNVNSSHSEVIGNIYGNN 492
KALK PSEEY KI +VV RY+VHN + F++KKQ E +AD+RT N+S + I +I+GN
Sbjct: 165 KALKNPSEEYGKILEVVGRYSVHNAGISFSVKKQGETVADVRTLPNASTVDNIRSIFGNA 224
Query: 493 ISRRVRRFSSASQSALAR 510
+SR + ++ +
Sbjct: 225 VSRELIEIGCEDKTLAFK 242
Score = 240 bits (615), Expect = 2e-75
Identities = 100/122 (81%), Positives = 110/122 (90%)
Query: 5 PKIKKLDETVVNRIAAGEVIQRPANALKELLENSLDAKSTSIQVTVKQGGLKLLQIQDNG 64
I++LDETVVNRIAAGEVIQRPANA+KE++EN LDAKSTSIQV VK+GGLKL+QIQDNG
Sbjct: 7 GVIRRLDETVVNRIAAGEVIQRPANAIKEMIENCLDAKSTSIQVIVKEGGLKLIQIQDNG 66
Query: 65 TGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEALASISHVAHLTIITKTKTSPCA 124
TGIRKED+DIVCERFTTSKL FEDL SIST+GFRGEALASISHVAH+TI TKT CA
Sbjct: 67 TGIRKEDLDIVCERFTTSKLQSFEDLASISTYGFRGEALASISHVAHVTITTKTADGKCA 126
Query: 125 YR 126
YR
Sbjct: 127 YR 128
Score = 157 bits (399), Expect = 9e-44
Identities = 65/121 (53%), Positives = 89/121 (73%), Gaps = 6/121 (4%)
Query: 199 ELLSVEGTDDAFQLKVTGWITNVNFSTKKMTFLLFINN------PIKRMIEQVYSIYLPK 252
EL+ + D K+ G+I+N N+S KK FLLFIN+ +++ IE VY+ YLPK
Sbjct: 228 ELIEIGCEDKTLAFKMNGYISNANYSVKKCIFLLFINHRLVESTSLRKAIETVYAAYLPK 287
Query: 253 GSFPFVYLSLCMDPKNVDVNVHPTKHEVHFLHEDTIIERVQSMLEKTLLGSNTSRVFYTQ 312
+ PF+YLSL + P+NVDVNVHPTKHEVHFLHE++I+ERVQ +E LLGSN+SR+++TQ
Sbjct: 288 NTHPFLYLSLEISPQNVDVNVHPTKHEVHFLHEESILERVQQHIESKLLGSNSSRMYFTQ 347
Query: 313 S 313
+
Sbjct: 348 T 348
>1h7s_A PMS1 protein homolog 2; DNA repair, GHL ATPase, mismatch repair,
HNPCC; 1.95A {Homo sapiens} SCOP: d.14.1.3 d.122.1.2
PDB: 1h7u_A* 1ea6_A*
Length = 365
Score = 269 bits (690), Expect = 3e-86
Identities = 50/187 (26%), Positives = 95/187 (50%), Gaps = 4/187 (2%)
Query: 313 STSIQVTVKQGGLKLLQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEA 372
+T+I + +K G+ L+++ DNG G+ +E+ + + + TSK+ +F DL + TFGFRGEA
Sbjct: 51 ATNIDLKLKDYGVDLIEVSDNGCGVEEENFEGLTLKHHTSKIQEFADLTQVETFGFRGEA 110
Query: 373 LASISHVAHLTIITKTKTSPCAYRASYIDSKLKDPIKPCAGNQGTQIIAEDLFYNIPTRR 432
L+S+ ++ +TI T ++ R + + P +GT + + LF +P R
Sbjct: 111 LSSLCALSDVTISTCHASAKVGTRLMFDHNGKIIQKTPYPRPRGTTVSVQQLFSTLPVRH 170
Query: 433 KA-LKQPSEEYNKIADVVSRYAVHNPHVGFTLKKQ---NENLADIRTNVNSSHSEVIGNI 488
K + +EY K+ V+ Y + + + + Q + + T + S E IG++
Sbjct: 171 KEFQRNIKKEYAKMVQVLHAYCIISAGIRVSCTNQLGQGKRQPVVCTGGSPSIKENIGSV 230
Query: 489 YGNNISR 495
+G +
Sbjct: 231 FGQKQLQ 237
Score = 238 bits (610), Expect = 2e-74
Identities = 47/125 (37%), Positives = 81/125 (64%)
Query: 2 DQPPKIKKLDETVVNRIAAGEVIQRPANALKELLENSLDAKSTSIQVTVKQGGLKLLQIQ 61
+ IK +D V++I +G+V+ + A+KEL+ENSLDA +T+I + +K G+ L+++
Sbjct: 10 EPAKAIKPIDRKSVHQICSGQVVLSLSTAVKELVENSLDAGATNIDLKLKDYGVDLIEVS 69
Query: 62 DNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEALASISHVAHLTIITKTKTS 121
DNG G+ +E+ + + + TSK+ +F DL + TFGFRGEAL+S+ ++ +TI T ++
Sbjct: 70 DNGCGVEEENFEGLTLKHHTSKIQEFADLTQVETFGFRGEALSSLCALSDVTISTCHASA 129
Query: 122 PCAYR 126
R
Sbjct: 130 KVGTR 134
Score = 111 bits (280), Expect = 4e-27
Identities = 22/98 (22%), Positives = 47/98 (47%), Gaps = 10/98 (10%)
Query: 212 LKVTGWITNVNFSTKKMTF---LLFINN------PIKRMIEQVYSIYLPKGSFPFVYLSL 262
++G+I+ + + FIN + R++ +VY +Y + +PFV L++
Sbjct: 267 FYISGFISQCTHGVGRSSTDRQFFFINRRPCDPAKVCRLVNEVYHMY-NRHQYPFVVLNI 325
Query: 263 CMDPKNVDVNVHPTKHEVHFLHEDTIIERVQSMLEKTL 300
+D + VD+NV P K ++ E ++ +++ L
Sbjct: 326 SVDSECVDINVTPDKRQILLQEEKLLLAVLKTSLIGMF 363
>3h4l_A DNA mismatch repair protein PMS1; ATP binding, DNA repair, DNA
damage, nucleus, phosphop DNA binding protein, protein
binding; HET: DNA ANP; 2.50A {Saccharomyces cerevisiae}
Length = 367
Score = 263 bits (675), Expect = 4e-84
Identities = 51/187 (27%), Positives = 94/187 (50%), Gaps = 5/187 (2%)
Query: 313 STSIQVTVKQGGLKLLQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEA 372
+ I++ K GL+ ++ DNG GI + + + + TSK+ +F+D+ + T GFRGEA
Sbjct: 42 ANQIEIIFKDYGLESIECSDNGDGIDPSNYEFLALKHYTSKIAKFQDVAKVQTLGFRGEA 101
Query: 373 LASISHVAHLTIITKTKTSPCAYRASYIDSKLKDPIKPCAGNQGTQIIAEDLFYNIPTRR 432
L+S+ +A L++IT T + + + N+GT ++ LF+N+P R+
Sbjct: 102 LSSLCGIAKLSVITTTSPPKADKLEYDMVGHITSK-TTTSRNKGTTVLVSQLFHNLPVRQ 160
Query: 433 KA-LKQPSEEYNKIADVVSRYAVHNPHVGFTL---KKQNENLADIRTNVNSSHSEVIGNI 488
K K ++ K V+ YA+ N + F++ + + + T NSS + I ++
Sbjct: 161 KEFSKTFKRQFTKCLTVIQGYAIINAAIKFSVWNITPKGKKNLILSTMRNSSMRKNISSV 220
Query: 489 YGNNISR 495
+G R
Sbjct: 221 FGAGGMR 227
Score = 232 bits (593), Expect = 8e-72
Identities = 43/122 (35%), Positives = 75/122 (61%)
Query: 5 PKIKKLDETVVNRIAAGEVIQRPANALKELLENSLDAKSTSIQVTVKQGGLKLLQIQDNG 64
+I ++++ V+RI +G+VI A+KEL++NS+DA + I++ K GL+ ++ DNG
Sbjct: 4 TQIHQINDIDVHRITSGQVITDLTTAVKELVDNSIDANANQIEIIFKDYGLESIECSDNG 63
Query: 65 TGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEALASISHVAHLTIITKTKTSPCA 124
GI + + + + TSK+ +F+D+ + T GFRGEAL+S+ +A L++IT T
Sbjct: 64 DGIDPSNYEFLALKHYTSKIAKFQDVAKVQTLGFRGEALSSLCGIAKLSVITTTSPPKAD 123
Query: 125 YR 126
Sbjct: 124 KL 125
Score = 112 bits (282), Expect = 2e-27
Identities = 22/123 (17%), Positives = 51/123 (41%), Gaps = 10/123 (8%)
Query: 193 ASLNNLELLSVEGTDDAFQLKVTGWITNVNFSTKKMT---FLLFINN------PIKRMIE 243
+ + D ++++V G+I+ +F + + +++N + +
Sbjct: 243 NRMLGKYTDDPDFLDLDYKIRVKGYISQNSFGCGRNSKDRQFIYVNKRPVEYSTLLKCCN 302
Query: 244 QVYSIYLPKGSFPFVYLSLCMDPKNVDVNVHPTKHEVHFLHEDTIIERVQSMLEKTLLGS 303
+VY + FP V+L+L + +DVNV P K + +E +I+ ++ L
Sbjct: 303 EVYKTF-NNVQFPAVFLNLELPMSLIDVNVTPDKRVILLHNERAVIDIFKTTLSDYYNRQ 361
Query: 304 NTS 306
+
Sbjct: 362 ELA 364
>1b63_A MUTL; DNA mismatch repair, ATPase; HET: ANP; 1.90A {Escherichia
coli K12} SCOP: d.14.1.3 d.122.1.2 PDB: 1nhh_A* 1nhi_A*
1bkn_A 1nhj_A* 1b62_A*
Length = 333
Score = 207 bits (529), Expect = 8e-63
Identities = 63/184 (34%), Positives = 98/184 (53%), Gaps = 1/184 (0%)
Query: 313 STSIQVTVKQGGLKLLQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEA 372
+T I + +++GG KL++I+DNG GI+K+++ + R TSK+ +DL +I + GFRGEA
Sbjct: 41 ATRIDIDIERGGAKLIRIRDNGCGIKKDELALALARHATSKIASLDDLEAIISLGFRGEA 100
Query: 373 LASISHVAHLTIITKTKTSPCAYRASYIDSKLKDPIKPCAGNQGTQIIAEDLFYNIPTRR 432
LASIS V+ LT+ ++T A++A + +KP A GT + DLFYN P RR
Sbjct: 101 LASISSVSRLTLTSRTAEQQEAWQAYAEGRDMNVTVKPAAHPVGTTLEVLDLFYNTPARR 160
Query: 433 KALKQPSEEYNKIADVVSRYAVHNPHVGFTLKKQNENLADIR-TNVNSSHSEVIGNIYGN 491
K L+ E+N I +++ R A+ V L + + R +G I G
Sbjct: 161 KFLRTEKTEFNHIDEIIRRIALARFDVTINLSHNGKIVRQYRAVPEGGQKERRLGAICGT 220
Query: 492 NISR 495
Sbjct: 221 AFLE 224
Score = 196 bits (500), Expect = 1e-58
Identities = 57/120 (47%), Positives = 88/120 (73%)
Query: 7 IKKLDETVVNRIAAGEVIQRPANALKELLENSLDAKSTSIQVTVKQGGLKLLQIQDNGTG 66
I+ L + N+IAAGEV++RPA+ +KEL+ENSLDA +T I + +++GG KL++I+DNG G
Sbjct: 5 IQVLPPQLANQIAAGEVVERPASVVKELVENSLDAGATRIDIDIERGGAKLIRIRDNGCG 64
Query: 67 IRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEALASISHVAHLTIITKTKTSPCAYR 126
I+K+++ + R TSK+ +DL +I + GFRGEALASIS V+ LT+ ++T A++
Sbjct: 65 IKKDELALALARHATSKIASLDDLEAIISLGFRGEALASISSVSRLTLTSRTAEQQEAWQ 124
Score = 82.9 bits (206), Expect = 1e-17
Identities = 29/110 (26%), Positives = 47/110 (42%), Gaps = 10/110 (9%)
Query: 199 ELLSVEGTDDAFQLKVTGWITNVNFSTKKMTFL--LFINN-PIK-----RMIEQVYSIYL 250
+ L++E L + GW+ + N +T + + ++N ++ I Q L
Sbjct: 225 QALAIEWQHGD--LTLRGWVADPNHTTPALAEIQYCYVNGRMMRDRLINHAIRQACEDKL 282
Query: 251 PKGSFPFVYLSLCMDPKNVDVNVHPTKHEVHFLHEDTIIERVQSMLEKTL 300
P L L +DP VDVNVHP KHEV F + + + + L
Sbjct: 283 GADQQPAFVLYLEIDPHQVDVNVHPAKHEVRFHQSRLVHDFIYQGVLSVL 332
>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 = 50.0 bits (119), Expect = 2e-06
Identities = 77/428 (17%), Positives = 135/428 (31%), Gaps = 147/428 (34%)
Query: 21 GEVIQRPANALKELLENSLDAKSTSIQVTVKQGGLKLLQ-IQDNGTGIRKEDMDIVCER- 78
G++I+ A L EL+ +LDA+ V GL +L+ +++ D D +
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEK------VFTQGLNILEWLENPSN---TPDKDYLLSIP 235
Query: 79 --FTTSKLTQFED-LNSISTFGFR-GEALASIS----HVAHL---TIITKTKTSPCAYR- 126
+ Q + + GF GE + + H L I +T + +
Sbjct: 236 ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVS 295
Query: 127 ---------W----CTYLADLMALALMEMSQYLQRDKEQ------IGDKEEKQWYRTVEH 167
+ C +L + L+ ++ I + ++Q V
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK 355
Query: 168 TLVPLMKSQYQPSEKIVERACLLEIASLN-----------------NLELLSVEGTDDAF 210
T + + P+ K V EI+ +N NL L +
Sbjct: 356 T------NSHLPAGKQV------EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403
Query: 211 QLKVTGWITNVNFSTKKMTFLLFINNPIKRMIEQVYSIYLPKGSFPF--VYLSLCMDPKN 268
Q ++ FS +K+ F + +LP S PF L D N
Sbjct: 404 QSRIP-------FSERKLKF---------------SNRFLPVAS-PFHSHLLVPASDLIN 440
Query: 269 VDVNVHPTKHEVHFLHED-------------------TIIERVQSMLEKTLLGSNTSRVF 309
D+ K+ V F +D +I ER+ + V
Sbjct: 441 KDL----VKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI-------IRLPVK 489
Query: 310 YTQSTSIQVT--VKQG-----GL-KLLQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLN 361
+ +T + T + G GL L +GTG+R ++ L D+N
Sbjct: 490 WETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVR-----VI----VAGTL----DIN 536
Query: 362 SISTFGFR 369
+GF+
Sbjct: 537 PDDDYGFK 544
Score = 48.5 bits (115), Expect = 5e-06
Identities = 54/312 (17%), Positives = 92/312 (29%), Gaps = 145/312 (46%)
Query: 32 KELLENSLDAKST--------------SIQ---------VTVKQGGLKLLQIQDNGTGIR 68
+L + S A+ SI +T+ GG K G IR
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK-------GKRIR 1685
Query: 69 KEDMDIVCERFTTSKLTQ---FEDLN-SISTFGFRGEALASISHVAHLTIITKTK-TSPC 123
+ ++ E KL F+++N +++ FR E +++ T+ T P
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEK----------GLLSATQFTQP- 1734
Query: 124 AYRWCTYLADLMALALMEMSQYLQRD-KEQ-------------IGDKEEKQWY------- 162
AL LME + + D K + +G E Y
Sbjct: 1735 ------------ALTLMEKAAF--EDLKSKGLIPADATFAGHSLG--E----YAALASLA 1774
Query: 163 ---------RTVE------HTLVP---LMKSQY-----QPS-----------EKIVERAC 188
V VP L +S Y P + +VER
Sbjct: 1775 DVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVG 1834
Query: 189 -----LLEIASLNNLELLSVEGTDDAFQLKVTGWITNVNFSTKKMTFL---------LFI 234
L+EI + N VE Q G + ++ T + F+ L
Sbjct: 1835 KRTGWLVEIVNYN------VENQ----QYVAAGDLRALDTVTNVLNFIKLQKIDIIELQK 1884
Query: 235 NNPIKRMIEQVY 246
+ ++ + ++
Sbjct: 1885 SLSLEEVEGHLF 1896
Score = 37.0 bits (85), Expect = 0.017
Identities = 48/278 (17%), Positives = 85/278 (30%), Gaps = 105/278 (37%)
Query: 271 VNVHPTKHEVHFLHED--TIIERVQSMLEKTLLGSN--TSRVFYTQSTSIQVTVKQGGLK 326
V +P +HF E I E +M+ +T++ T ++F K+
Sbjct: 1665 VINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIF-----------KEINEH 1713
Query: 327 LLQIQDNGTGIRKEDMD--------IVCERFTTSKLTQFEDLNSISTFGFR--------- 369
K + + K FEDL S G
Sbjct: 1714 STSYTFRSE---KGLLSATQFTQPAL----TLMEKA-AFEDLKS---KGLIPADATFAGH 1762
Query: 370 --GE--ALASISHVAHLTIITKTKTSPCAYRASYI------DSKLKDPIKPCAGNQGT-- 417
GE ALAS++ V ++I + + YR + D + A N G
Sbjct: 1763 SLGEYAALASLADV--MSIESLVEV--VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVA 1818
Query: 418 --------QIIAEDLF-----------YNIPTR-------RKALKQPSEEYNKIADVVSR 451
Q + E + YN+ + +AL + + +V++
Sbjct: 1819 ASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRAL-------DTVTNVLN- 1870
Query: 452 YAVHNPHVGFTLKKQNENLADIRTNVNSSHSEVIGNIY 489
+K Q ++ I + S EV G+++
Sbjct: 1871 ----------FIKLQKIDI--IELQKSLSLEEVEGHLF 1896
Score = 29.2 bits (65), Expect = 3.7
Identities = 21/136 (15%), Positives = 40/136 (29%), Gaps = 51/136 (37%)
Query: 420 IAEDLFYNIPTRR----KALKQPSEEYNK------IADVVSRYAVHNPHVGFTLKKQNEN 469
+ F+ + K L +P+E + A++V ++ +G+ +
Sbjct: 22 VPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF------LGYVSSLVEPS 75
Query: 470 ------------LADIRTNV---NSSHS-----------------EVIGNIY-GNNISRR 496
L + N H+ E+I N +++R
Sbjct: 76 KVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKR 135
Query: 497 VRRFSSASQSALARKA 512
F S SAL R
Sbjct: 136 --PFDKKSNSALFRAV 149
>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein,
decatenation, ATPase, drug design, DNA-binding,
magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus
shibatae}
Length = 530
Score = 46.3 bits (109), Expect = 2e-05
Identities = 25/173 (14%), Positives = 59/173 (34%), Gaps = 30/173 (17%)
Query: 30 ALKELLENSLDA-----KSTSIQVTVKQGGLK----LLQIQDNGTGIRKEDMDIVCERFT 80
++EL+ENSLDA +I++T+ + + DNG GI +++ R
Sbjct: 35 TVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQEVPNAFGRV- 93
Query: 81 TSKLTQFEDLNSISTFGFRGEALASISHVAHLT----IITKTKTSPCAYRWCTYLADLMA 136
+ T G G + + + + I +T +
Sbjct: 94 ----LYSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIETSPVNSKRIYT-------- 141
Query: 137 LALMEMSQYLQRDKEQIGDKEEKQWYRTVEHTLVPL-MKSQYQPSEKIVERAC 188
++ + +++ I ++ + R T V + + + ++ +
Sbjct: 142 ---FKLKIDINKNEPIIVERGSVENTRGFHGTSVAISIPGDWPKAKSRIYEYI 191
Score = 38.6 bits (89), Expect = 0.004
Identities = 23/163 (14%), Positives = 49/163 (30%), Gaps = 16/163 (9%)
Query: 315 SIQVTVKQGGLKLLQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEALA 374
+I + + + + DNG GI +++ R + T G G +
Sbjct: 59 TIDLIDDARQIYKVNVVDNGIGIPPQEVPNAFGRV-----LYSSKYVNRQTRGMYGLGVK 113
Query: 375 SISHVAHLT----IITKTKT---SPCAYRASYIDSKLKDPIKPCAGNQGTQIIAEDLFYN 427
+ + + I +T ID +PI + + F+
Sbjct: 114 AAVLYSQMHQDKPIEIETSPVNSKRIYTFKLKIDINKNEPIIV----ERGSVENTRGFHG 169
Query: 428 IPTRRKALKQPSEEYNKIADVVSRYAVHNPHVGFTLKKQNENL 470
+ ++I + + R + P+ F K N+
Sbjct: 170 TSVAISIPGDWPKAKSRIYEYIKRTYIITPYAEFIFKDPEGNV 212
>2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase;
4.00A {Methanosarcina mazei}
Length = 621
Score = 46.3 bits (109), Expect = 2e-05
Identities = 32/145 (22%), Positives = 55/145 (37%), Gaps = 26/145 (17%)
Query: 30 ALKELLENSLDA-----KSTSIQVTVKQGGLK--LLQIQDNGTGIRKEDMDIVCERFTTS 82
+KE ++N+LDA I V V++ G + I+DNG GI +E + V +
Sbjct: 41 TVKEAVDNALDACEEAGILPDILVQVERTGPDYVTVIIEDNGPGIVREQIPKVFAKLLYG 100
Query: 83 KLTQFEDLNSISTFGFRGEALASISHVAHLT----IITKTKTSPCAYRWCTYLADLMALA 138
+ G +G +++ A +T +KTSP A
Sbjct: 101 SRFH----ALKQSRGQQGIGISAAVLYAQMTAGRHTKILSKTSPTAPAHY---------- 146
Query: 139 LMEMSQYLQRDKEQIGDKEEKQWYR 163
E+ ++ I E + W+R
Sbjct: 147 -YELMINTSTNEPDILVDEVRDWFR 170
Score = 43.6 bits (102), Expect = 1e-04
Identities = 40/169 (23%), Positives = 65/169 (38%), Gaps = 29/169 (17%)
Query: 316 IQVTVKQGGLK--LLQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEAL 373
I V V++ G + I+DNG GI +E + V + + G +G +
Sbjct: 62 ILVQVERTGPDYVTVIIEDNGPGIVREQIPKVFAKLLYGSRFH----ALKQSRGQQGIGI 117
Query: 374 ASISHVAHLT------IITKT-KTSPCAYRASYIDSKLKDP------IKPCAGNQGTQII 420
++ A +T I++KT T+P Y I++ +P ++ GTQI
Sbjct: 118 SAAVLYAQMTAGRHTKILSKTSPTAPAHYYELMINTSTNEPDILVDEVRDWFRPHGTQIE 177
Query: 421 AEDLFYNIPTRRKALKQPSEEYNKIADVVSRYAVHNPHVGFTLKKQNEN 469
E K +Q EY + A+ NPH TL + N
Sbjct: 178 LEMR----AAYVKGRRQSIYEY------LKATAIVNPHARITLIDPDGN 216
>3rbn_A DNA mismatch repair protein MLH1; structural genomics, structural
genomics consortium, SGC, DN mismatch repair,
endonucleases, protein binding; HET: DNA; 2.16A {Homo
sapiens}
Length = 284
Score = 43.5 bits (102), Expect = 8e-05
Identities = 17/88 (19%), Positives = 34/88 (38%), Gaps = 2/88 (2%)
Query: 113 TIITKTKTSPCAYRWCTYLADLMALALMEMS--QYLQRDKEQIGDKEEKQWYRTVEHTLV 170
T + + C A ++ +S L + ++ W TVEH +
Sbjct: 195 TEVNWDEEKECFESLSKECAMFYSIRKQYISEESTLSGQQSEVPGSIPNSWKWTVEHIVY 254
Query: 171 PLMKSQYQPSEKIVERACLLEIASLNNL 198
++S P + E +L++A+L +L
Sbjct: 255 KALRSHILPPKHFTEDGNILQLANLPDL 282
>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 = 43.7 bits (102), Expect = 1e-04
Identities = 42/400 (10%), Positives = 115/400 (28%), Gaps = 96/400 (24%)
Query: 9 KLDETVVNRIAAGEVIQRPANALKELL---------ENSL----DAKSTSIQVTVK--QG 53
++D +R I+ ++++ L EN L + ++
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA---WNAFNL 264
Query: 54 GLKLL------QIQD--NGTGIRKEDMDIVCERFTTSK-LTQFEDLNSISTFGFRGEALA 104
K+L Q+ D + +D T + + E L
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL- 323
Query: 105 SISHVAHLTIITKTKTSPCAYRWCTYLADLMALALMEMSQYLQRDKEQIGDKEEKQWYRT 164
+ + I + W + + +++ ++ + E ++ +
Sbjct: 324 TTNPRRLSIIAESIRDGLA--TWDNWKH----VNCDKLTTIIESSLNVLEPAEYRKMFDR 377
Query: 165 V----EHTLVPLM-------KSQYQPSEKIVE---RACLLE------IASLNNLELLSVE 204
+ +P + +V + L+E S+ ++ L
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKV 437
Query: 205 GTDDAFQL--KVTGWITNVNFSTKKMTFLLFINNPIKRMIEQ-VYSIYLP---------- 251
++ + L + + + N ++ I ++Q YS ++
Sbjct: 438 KLENEYALHRSI---VDHYNIPKT-----FDSDDLIPPYLDQYFYS-HIGHHLKNIEHPE 488
Query: 252 -KGSFPFVYLSLC-MDPK--------NVDVNVHPT-----KHEVHFLHEDTIIERVQSML 296
F V+L ++ K N ++ T ++ + D ER+ + +
Sbjct: 489 RMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI 548
Query: 297 EKTLLGSNTSRVFYTQSTSIQVTV--KQGGL---KLLQIQ 331
L + + + +++ + + + Q+Q
Sbjct: 549 LDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 36.8 bits (84), Expect = 0.022
Identities = 32/267 (11%), Positives = 74/267 (27%), Gaps = 80/267 (29%)
Query: 2 DQPPKIKKLDETVVNRIAAGEVIQRPANALKELLENSLDAKSTSIQVTVK-------QGG 54
D P ++ + ++ I E I+ + D +T I+ ++ +
Sbjct: 317 DLPREVLTTNPRRLSII--AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374
Query: 55 LKLLQI-QDN------------GTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGE 101
L + + I+ + M +V + S + + ++IS E
Sbjct: 375 FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434
Query: 102 ALASISHVA--HLTIITK----------TKTSPCA--YRWCTYLADLMALALME------ 141
+ + H +I+ P Y + +++ +
Sbjct: 435 LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY-FYSHIGHHLKNIEHPERMTLF 493
Query: 142 ---------MSQYLQRD--------------------KEQIGDKEEKQWYRTVEHTLVPL 172
+ Q ++ D K I D + E + +
Sbjct: 494 RMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDP-----KYERLVNAI 548
Query: 173 MKSQYQPSEKIV--ERACLLEIASLNN 197
+ + E ++ + LL IA L
Sbjct: 549 LDFLPKIEENLICSKYTDLLRIA-LMA 574
>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 = 41.3 bits (96), Expect = 5e-04
Identities = 25/167 (14%), Positives = 58/167 (34%), Gaps = 30/167 (17%)
Query: 30 ALKELLENSLDA-----KSTSIQVTVKQGGLK----LLQIQDNGTGIRKEDMDIVCERFT 80
++EL+ENSLDA +I++T+ + + DNG GI +++ R
Sbjct: 36 TVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQEVPNAFGRV- 94
Query: 81 TSKLTQFEDLNSISTFGFRGEALASISHVAHLT----IITKTKTSPCAYRWCTYLADLMA 136
+ T G G + + + + I +T +
Sbjct: 95 ----LYSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIETSPVNSKRIYT-------- 142
Query: 137 LALMEMSQYLQRDKEQIGDKEEKQWYRTVEHTLVPL-MKSQYQPSEK 182
++ + +++ I ++ + R T V + + + ++
Sbjct: 143 ---FKLKIDINKNEPIIVERGSVENTRGFHGTSVAISIPGDWPKAKS 186
Score = 33.6 bits (76), Expect = 0.14
Identities = 26/165 (15%), Positives = 46/165 (27%), Gaps = 20/165 (12%)
Query: 315 SIQVTVKQGGLKLLQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEALA 374
+I + + + + DNG GI +++ R + T G G +
Sbjct: 60 TIDLIDDARQIYKVNVVDNGIGIPPQEVPNAFGRV-----LYSSKYVNRQTRGMYGLGVK 114
Query: 375 SISHVAHLT------IITKT-KTSPCAYRASYIDSKLKDPIKPCAGNQGTQIIAEDLFYN 427
+ + + I T + ID +PI G+
Sbjct: 115 AAVLYSQMHQDKPIEIETSPVNSKRIYTFKLKIDINKNEPIIVERGSVENTRGFHGTSVA 174
Query: 428 IPTRRK--ALKQPSEEYNKIADVVSRYAVHNPHVGFTLKKQNENL 470
I K EY + R + P+ F K N+
Sbjct: 175 ISIPGDWPKAKSRIYEY------IKRTYIITPYAEFIFKDPEGNV 213
>1id0_A PHOQ histidine kinase; PHOQ/PHOP, signal transduction,
transferase; HET: ANP; 1.60A {Escherichia coli} SCOP:
d.122.1.3 PDB: 3cgz_A 3cgy_A
Length = 152
Score = 37.6 bits (88), Expect = 0.002
Identities = 12/57 (21%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 29 NALKELLENSLD-----AKSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERF 79
N E++ N LD ++++ +Q L + ++D+G GI +++ +R
Sbjct: 43 NDFVEVMGNVLDNACKYCLEF-VEISARQTDEHLYIVVEDDGPGIPLSKREVIFDRG 98
Score = 32.6 bits (75), Expect = 0.13
Identities = 8/41 (19%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 310 YTQSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERF 349
Y ++++ +Q L + ++D+G GI +++ +R
Sbjct: 59 YCLEF-VEISARQTDEHLYIVVEDDGPGIPLSKREVIFDRG 98
>2e0a_A Pyruvate dehydrogenase kinase isozyme 4; PDK4, ATP-binding,
structural genomics, NPPSFA, NATI project on protein
structural and functional analyses; HET: ANP; 1.86A
{Homo sapiens} PDB: 2zdx_A* 2zdy_A* 2zkj_A* 3d2r_A*
Length = 394
Score = 39.0 bits (90), Expect = 0.003
Identities = 21/92 (22%), Positives = 34/92 (36%), Gaps = 10/92 (10%)
Query: 31 LKELLENSLDA---------KSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFT 80
L EL +N++ A T I+V V G L ++I D G G+ +D +
Sbjct: 235 LFELFKNAMRATVEHQENQPSLTPIEVIVVLGKEDLTIKISDRGGGVPLRIIDRLFSYTY 294
Query: 81 TSKLTQFEDLNSISTFGFRGEALASISHVAHL 112
++ T D + + G L A
Sbjct: 295 STAPTPVMDNSRNAPLAGFGYGLPISRLYAKY 326
Score = 35.2 bits (80), Expect = 0.043
Identities = 27/131 (20%), Positives = 41/131 (31%), Gaps = 9/131 (6%)
Query: 261 SLCMDPKNVDVNVHPTKHEVHFLHEDTIIERVQSMLEKTL--LGSNTSRVFYTQSTS--- 315
LC + T+ F + I V S L L L N R +
Sbjct: 196 MLCDQYYLSSPELKLTQVNGKFPDQPIHIVYVPSHLHHMLFELFKNAMRATVEHQENQPS 255
Query: 316 ---IQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGE 371
I+V V G L ++I D G G+ +D + ++ T D + + G
Sbjct: 256 LTPIEVIVVLGKEDLTIKISDRGGGVPLRIIDRLFSYTYSTAPTPVMDNSRNAPLAGFGY 315
Query: 372 ALASISHVAHL 382
L A
Sbjct: 316 GLPISRLYAKY 326
>1ysr_A Sensor-type histidine kinase PRRB; ATP-binding domain, structural
genomics, mycobacterium tuberculosis structural
proteomics project; 1.78A {Mycobacterium tuberculosis}
SCOP: d.122.1.3 PDB: 1ys3_A
Length = 150
Score = 36.8 bits (86), Expect = 0.004
Identities = 13/58 (22%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query: 28 ANALKELLENSLD-----AKSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERF 79
L+ ++N++ +T +Q++ + + I DNG+G+ + + +V ERF
Sbjct: 44 PAGLRLAVDNAIANAVKHGGATLVQLSAVSSRAGVEIAIDDNGSGVPEGERQVVFERF 101
Score = 35.7 bits (83), Expect = 0.010
Identities = 11/41 (26%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 310 YTQSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERF 349
+ +T +Q++ + + I DNG+G+ + + +V ERF
Sbjct: 61 HGGATLVQLSAVSSRAGVEIAIDDNGSGVPEGERQVVFERF 101
>3jz3_A Sensor protein QSEC; helix-turn-helix, kinase domain, ATP-binding,
cell inner MEM cell membrane, kinase, membrane,
nucleotide-binding; 2.50A {Escherichia coli}
Length = 222
Score = 36.4 bits (85), Expect = 0.011
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 9/58 (15%)
Query: 28 ANALKELLENSLD------AKSTSIQVTVKQGGLKLLQIQDNGTGIRKEDMDIVCERF 79
L L+ N LD + + + VT+ ++DNG G+ E + + ERF
Sbjct: 115 PLLLSLLVRNLLDNAVRYSPQGSVVDVTLNADNF---IVRDNGPGVTPEALARIGERF 169
Score = 34.1 bits (79), Expect = 0.078
Identities = 11/41 (26%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 310 YTQS-TSIQVTVKQGGLKLLQIQDNGTGIRKEDMDIVCERF 349
Y+ + + VT+ ++DNG G+ E + + ERF
Sbjct: 132 YSPQGSVVDVTLNADNF---IVRDNGPGVTPEALARIGERF 169
>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 = 35.6 bits (83), Expect = 0.011
Identities = 11/53 (20%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 34 LLENSLDA--KSTSIQVTVKQ-GGLKLLQIQDNGTGIRKEDMDIVCERFTTSK 83
L++N+++A ++ I++T + + + ++G I +E + + F T+K
Sbjct: 55 LVQNAIEATGENGKIKITSEDMYTKVRVSVWNSGPPIPEELKEKIFSPFFTTK 107
Score = 31.8 bits (73), Expect = 0.27
Identities = 6/35 (17%), Positives = 15/35 (42%)
Query: 319 TVKQGGLKLLQIQDNGTGIRKEDMDIVCERFTTSK 353
+ + + ++G I +E + + F T+K
Sbjct: 73 SEDMYTKVRVSVWNSGPPIPEELKEKIFSPFFTTK 107
>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 = 37.1 bits (85), Expect = 0.012
Identities = 14/78 (17%), Positives = 28/78 (35%), Gaps = 11/78 (14%)
Query: 31 LKELLENSLDA----------KSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERF 79
L EL +NS+ A +++ V G L ++I D G G+ +D +
Sbjct: 258 LFELFKNSMRATVELYEDRKEGYPAVKTLVTLGKEDLSIKISDLGGGVPLRKIDRLFNYM 317
Query: 80 TTSKLTQFEDLNSISTFG 97
++ + +
Sbjct: 318 YSTAPRPSLEPTRAAPLA 335
Score = 34.8 bits (79), Expect = 0.070
Identities = 27/245 (11%), Positives = 63/245 (25%), Gaps = 33/245 (13%)
Query: 156 KEEKQWYRTVEHTLVPLMKSQYQPSEKIVERACLLE---------IASL--NNLELLSVE 204
+ WY L+ + + + +L + ++ +E
Sbjct: 91 GLVQSWYMQSFLELLEYENKSPEDPQVLDNFLQVLIKVRNRHNDVVPTMAQGVIEYKEKF 150
Query: 205 GTDDAFQLKVTGWITNVNFSTKKMTFLLFINNPIKRMIEQVYSIYLPKGSFPFVYLS--- 261
G D + ++ + L+ + + P ++
Sbjct: 151 GFDPFISTNIQYFLDRFYTNRISFRMLINQHTLLFGGDTNPVHPKHIGSIDPTCNVADVV 210
Query: 262 ---------LCMDPKNVDVNVHPTKHEVHFLHEDTIIERVQSMLEKTL--LGSNTSR--- 307
LC V + + + + V S L L L N+ R
Sbjct: 211 KDAYETAKMLCEQYYLVAPELEVEEFNAKAPDKPIQVVYVPSHLFHMLFELFKNSMRATV 270
Query: 308 ----VFYTQSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNS 362
+++ V G L ++I D G G+ +D + ++ +
Sbjct: 271 ELYEDRKEGYPAVKTLVTLGKEDLSIKISDLGGGVPLRKIDRLFNYMYSTAPRPSLEPTR 330
Query: 363 ISTFG 367
+
Sbjct: 331 AAPLA 335
>1bxd_A ENVZ(290-450), protein (osmolarity sensor protein (ENVZ));
histidine kinase, osmosensor, His-Asp phosphorelay
system, signal transduction; HET: ANP; NMR {Escherichia
coli BL21} SCOP: d.122.1.3
Length = 161
Score = 35.7 bits (83), Expect = 0.013
Identities = 11/52 (21%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 30 ALKELLENSLDAKSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFT 80
A+ ++ N+ + I+V+ + Q++D+G GI E + + F
Sbjct: 51 AVANMVVNAARYGNGWIKVSSGTEPNRAWFQVEDDGPGIAPEQRKHLFQPFV 102
Score = 31.5 bits (72), Expect = 0.33
Identities = 9/38 (23%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 314 TSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFT 350
I+V+ + Q++D+G GI E + + F
Sbjct: 65 GWIKVSSGTEPNRAWFQVEDDGPGIAPEQRKHLFQPFV 102
>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase,
phosphoprotein, transfe two-component regulatory system;
3.80A {Thermotoga maritima}
Length = 349
Score = 35.3 bits (82), Expect = 0.034
Identities = 12/53 (22%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 34 LLENSLDAKST--SIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFTTSK 83
L++N+++A I++T + K+ + + ++G I +E + + F T+K
Sbjct: 252 LVQNAIEATGENGKIKITSEDMYTKVRVSVWNSGPPIPEELKEKIFSPFFTTK 304
Score = 31.5 bits (72), Expect = 0.62
Identities = 6/35 (17%), Positives = 15/35 (42%)
Query: 319 TVKQGGLKLLQIQDNGTGIRKEDMDIVCERFTTSK 353
+ + + ++G I +E + + F T+K
Sbjct: 270 SEDMYTKVRVSVWNSGPPIPEELKEKIFSPFFTTK 304
>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 = 35.5 bits (81), Expect = 0.041
Identities = 17/92 (18%), Positives = 31/92 (33%), Gaps = 10/92 (10%)
Query: 31 LKELLENSLDA---------KSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFT 80
+ EL +N++ A IQV V G L +++ D G G+ +D +
Sbjct: 248 VFELFKNAMRATMEHHANRGVYPPIQVHVTLGNEDLTVKMSDRGGGVPLRKIDRLFNYMY 307
Query: 81 TSKLTQFEDLNSISTFGFRGEALASISHVAHL 112
++ + + G L A
Sbjct: 308 STAPRPRVETSRAVPLAGFGYGLPISRLYAQY 339
Score = 31.7 bits (71), Expect = 0.68
Identities = 13/69 (18%), Positives = 23/69 (33%), Gaps = 1/69 (1%)
Query: 315 SIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEAL 373
IQV V G L +++ D G G+ +D + ++ + + G L
Sbjct: 271 PIQVHVTLGNEDLTVKMSDRGGGVPLRKIDRLFNYMYSTAPRPRVETSRAVPLAGFGYGL 330
Query: 374 ASISHVAHL 382
A
Sbjct: 331 PISRLYAQY 339
>3sl2_A Sensor histidine kinase YYCG; ATP binding, intact ATP, bergerat
fold, TR; HET: ATP; 1.61A {Bacillus subtilis}
Length = 177
Score = 34.2 bits (79), Expect = 0.041
Identities = 13/51 (25%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 34 LLENSL----DAKSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERF 79
++ N+L + + + V + L + ++D G GI K+D++ V +RF
Sbjct: 51 IISNALKYSPEGGHVTFSIDVNEEEELLYISVKDEGIGIPKKDVEKVFDRF 101
Score = 33.0 bits (76), Expect = 0.12
Identities = 11/44 (25%), Positives = 24/44 (54%), Gaps = 4/44 (9%)
Query: 310 YTQS-TSIQVTV---KQGGLKLLQIQDNGTGIRKEDMDIVCERF 349
Y+ + ++ ++ L + ++D G GI K+D++ V +RF
Sbjct: 58 YSPEGGHVTFSIDVNEEEELLYISVKDEGIGIPKKDVEKVFDRF 101
>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 = 33.8 bits (76), Expect = 0.056
Identities = 9/31 (29%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 6 KIKKLDETVVNRIAAGEVIQRPANALKELLE 36
+KKL ++ ++ A + PA A+K +E
Sbjct: 21 ALKKLQASL--KLYADD--SAPALAIKATME 47
>2c2a_A Sensor histidine kinase; phosphotransfer, PHOQ, selenomethionyl
MAD, two-component systems, transferase; HET: ADP; 1.9A
{Thermotoga maritima} SCOP: a.30.2.1 d.122.1.3 PDB:
3dge_A*
Length = 258
Score = 34.4 bits (80), Expect = 0.060
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 6/52 (11%)
Query: 34 LLENSL-----DAKSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERF 79
LL N + DA ++V + + + + ++DNG GI D + E+F
Sbjct: 146 LLNNGVKYSKKDAPDKYVKVILDEKDGGVLIIVEDNGIGIPDHAKDRIFEQF 197
Score = 32.5 bits (75), Expect = 0.29
Identities = 9/38 (23%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 313 STSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERF 349
++V + + + + ++DNG GI D + E+F
Sbjct: 160 DKYVKVILDEKDGGVLIIVEDNGIGIPDHAKDRIFEQF 197
>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 = 34.0 bits (77), Expect = 0.096
Identities = 16/78 (20%), Positives = 29/78 (37%), Gaps = 10/78 (12%)
Query: 31 LKELLENSLDA---------KSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFT 80
L EL +N++ A I+V V G L +++ D G G+ ++ +
Sbjct: 236 LFELFKNAMRATVESHESSLILPPIKVMVALGEEDLSIKMSDRGGGVPLRKIERLFSYMY 295
Query: 81 TSKLTQFEDLNSISTFGF 98
++ T GF
Sbjct: 296 STAPTPQPGTGGTPLAGF 313
Score = 29.8 bits (66), Expect = 2.3
Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 1/55 (1%)
Query: 315 SIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGF 368
I+V V G L +++ D G G+ ++ + ++ T GF
Sbjct: 259 PIKVMVALGEEDLSIKMSDRGGGVPLRKIERLFSYMYSTAPTPQPGTGGTPLAGF 313
>4ew8_A Sensor protein DIVL; signal transduction, two-component regulatory
system, hiska GHKL domain, structural genomics; 2.50A
{Caulobacter crescentus}
Length = 268
Score = 33.3 bits (77), Expect = 0.13
Identities = 11/53 (20%), Positives = 25/53 (47%), Gaps = 7/53 (13%)
Query: 34 LLENSLDAKST----SIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFTT 81
L+EN+L + T + ++ ++ ++ L + D G G+ + +RF
Sbjct: 163 LVENAL--RQTPPGGRVTLSARRALGEVRLDVSDTGRGVPFHVQAHIFDRFVG 213
Score = 33.3 bits (77), Expect = 0.13
Identities = 6/38 (15%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 315 SIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFTT 351
+ ++ ++ ++ L + D G G+ + +RF
Sbjct: 176 RVTLSARRALGEVRLDVSDTGRGVPFHVQAHIFDRFVG 213
>1gkz_A [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase;
transferase, mitochondrial protein kinase, potassium;
HET: ADP; 2.2A {Rattus norvegicus} SCOP: a.29.5.1
d.122.1.4 PDB: 1gjv_A 1gkx_A*
Length = 388
Score = 33.5 bits (76), Expect = 0.17
Identities = 20/96 (20%), Positives = 36/96 (37%), Gaps = 12/96 (12%)
Query: 31 LKELLENSLDA----------KSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERF 79
L ELL+N++ A + +T+ + L ++I D G GI +D+D V +
Sbjct: 243 LPELLKNAMRATMESHLDTPYNVPDVVITIANNDVDLIIRISDRGGGIAHKDLDRVMDYH 302
Query: 80 TTSKLTQFEDLNSISTFG-FRGEALASISHVAHLTI 114
T+ +D FG + +
Sbjct: 303 FTTAEASTQDPRISPLFGHLDMHSGGQSGPMHGFGF 338
Score = 28.1 bits (62), Expect = 7.2
Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 2/71 (2%)
Query: 316 IQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFG-FRGEAL 373
+ +T+ + L ++I D G GI +D+D V + T+ +D FG +
Sbjct: 268 VVITIANNDVDLIIRISDRGGGIAHKDLDRVMDYHFTTAEASTQDPRISPLFGHLDMHSG 327
Query: 374 ASISHVAHLTI 384
+
Sbjct: 328 GQSGPMHGFGF 338
>3d36_A Sporulation kinase B; GHKL ATPase, four helix bundle, class I
two-component histidine kinase, phosphoprotein; HET:
ADP; 2.03A {Geobacillus stearothermophilus}
Length = 244
Score = 29.1 bits (66), Expect = 2.8
Identities = 16/53 (30%), Positives = 32/53 (60%), Gaps = 3/53 (5%)
Query: 34 LLENSLDAKST--SIQVTV-KQGGLKLLQIQDNGTGIRKEDMDIVCERFTTSK 83
+++N+++A ++QV V G L++I D G G+ KE ++ + E + T+K
Sbjct: 131 VMKNAIEAMPNGGTLQVYVSIDNGRVLIRIADTGVGMTKEQLERLGEPYFTTK 183
Score = 27.5 bits (62), Expect = 9.2
Identities = 11/35 (31%), Positives = 19/35 (54%)
Query: 319 TVKQGGLKLLQIQDNGTGIRKEDMDIVCERFTTSK 353
G L++I D G G+ KE ++ + E + T+K
Sbjct: 149 VSIDNGRVLIRIADTGVGMTKEQLERLGEPYFTTK 183
>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 = 28.1 bits (63), Expect = 3.5
Identities = 11/60 (18%), Positives = 27/60 (45%), Gaps = 8/60 (13%)
Query: 30 ALKELLENSL-----DAKSTSIQVTVKQGGLKL-LQIQDNGTGIRKEDMDIVCERFTTSK 83
+ E + N++ + + + ++V + L ++D G GI D++ + T+K
Sbjct: 43 VVSEAVTNAIIHGYNNDPNGIVSISVIIEDGVVHLTVRDEGVGI--PDIEEARQPLFTTK 100
>2c0j_B R32611_2; palmitate; HET: PLM; 2.20A {Homo sapiens} PDB: 2j3t_B*
Length = 160
Score = 28.3 bits (63), Expect = 3.9
Identities = 12/68 (17%), Positives = 21/68 (30%), Gaps = 7/68 (10%)
Query: 134 LMALALMEMSQYLQRDKEQIGDKEEKQWYRTVEHTLVPLMKSQYQPSEKIVERACLLEIA 193
L EM L G +K +E ++ + + ER +A
Sbjct: 7 LFEFLHTEMVAELWAHDPDPGPGGQKMSLSVLE-------GMGFRVGQALGERLPRETLA 59
Query: 194 SLNNLELL 201
L++L
Sbjct: 60 FREELDVL 67
>3f2s_A CK, chetk-alpha, choline kinase alpha; non-protein kinase,
structural genomics consortium, SGC, hemicholinium-3,
alternative splicing, cytoplasm; HET: ADP HC6; 1.70A
{Homo sapiens} PDB: 3f2r_A* 3g15_A* 2i7q_A 2cko_A
2ckp_A* 2ckq_A*
Length = 401
Score = 28.5 bits (62), Expect = 5.9
Identities = 23/164 (14%), Positives = 50/164 (30%), Gaps = 6/164 (3%)
Query: 2 DQPPKIKKLDETVVNRIAAGEVIQRPANALKELLENSLDAKSTSIQVTVKQGGLKLLQIQ 61
D + V+ R+ + R N + + + ++ +L +
Sbjct: 75 DTTATLGDEPRKVLLRLYGAILQMRSCNKEGSEQAQKENEFQGAEAMVLESVMFAILAER 134
Query: 62 DNGTGIRKEDMDIVCERFTTSKLTQFEDLNSISTFGFRGEALASISHVAHLTIITKTKTS 121
G + E+F S+ E+L+ E +A+ H + K
Sbjct: 135 SLGPKLYGIFPQGRLEQFIPSRRLDTEELSLPDISAEIAEKMATF----HGMKMPFNKEP 190
Query: 122 P-CAYRWCTYLADLMALALMEMSQYLQRDKEQIGD-KEEKQWYR 163
YL +++ + E S+ + K + E + R
Sbjct: 191 KWLFGTMEKYLKEVLRIKFTEESRIKKLHKLLSYNLPLELENLR 234
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
0.317 0.132 0.372
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,412,974
Number of extensions: 432889
Number of successful extensions: 757
Number of sequences better than 10.0: 1
Number of HSP's gapped: 736
Number of HSP's successfully gapped: 63
Length of query: 512
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 414
Effective length of database: 3,965,535
Effective search space: 1641731490
Effective search space used: 1641731490
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.4 bits)