RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2198
(279 letters)
>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 = 163 bits (415), Expect = 7e-49
Identities = 61/228 (26%), Positives = 97/228 (42%), Gaps = 20/228 (8%)
Query: 16 EVNKVKDLKKKKAFQVGKNPIDMTEIVVSTGSEKFDSILKGGIHAGGITELSGASGCGKT 75
E D++ K A +V K +++ +I STGS+ D +L GGI +TE G G GKT
Sbjct: 64 EARDALDIRFKTALEVKKERMNVKKI--STGSQALDGLLAGGIETRTMTEFFGEFGSGKT 121
Query: 76 QLCLQMCLSLQVSQPHKG----VLYICTESVFPTARLAQLCELSPLAKPKCSDKIFITHC 131
QLC Q+ +++Q+ G +YI TE F R+ + + L + I+
Sbjct: 122 QLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRA 181
Query: 132 YEFIDLKRTLESQSGFI--ENKVGMIVIDSIAGIFRNTY-AEDKYVQRAHDMRDLAHYLH 188
++ + + + +IV+DS+ FR Y + R + H L
Sbjct: 182 INTDHQIAIVDDLQELVSKDPSIKLIVVDSVTSHFRAEYPGRENLAVRQQKLNKHLHQLT 241
Query: 189 ELSIKHRIVVICTNQVTS--AMTHSDKNIPALGLTYERAHDMRDLAHY 234
L+ + I VI TNQV + M + D + G T L H
Sbjct: 242 RLAEVYDIAVIITNQVMARPDMFYGDPTVAVGGHT---------LYHV 280
>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous
recombination, breast cancer susceptibility, RECA-like
ATPase, protein complex; HET: DNA MSE; 1.70A {Homo
sapiens} SCOP: c.37.1.11
Length = 243
Score = 157 bits (399), Expect = 1e-47
Identities = 52/205 (25%), Positives = 88/205 (42%), Gaps = 20/205 (9%)
Query: 43 VSTGSEKFDSILKGGIHAGGITELSGASGCGKTQLCLQMCLSLQVSQPHKG----VLYIC 98
++TGS++ D +L+GGI G ITE+ G GKTQ+C + ++ Q+ G +YI
Sbjct: 6 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYID 65
Query: 99 TESVFPTARLAQLCELSPLAKPKCSDKIFITHCYEFIDLKRTLESQSGFI-ENKVGMIVI 157
TE F RL + E L+ D + + + L S + E++ ++++
Sbjct: 66 TEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLIV 125
Query: 158 DSIAGIFRNTY-AEDKYVQRAHDMRDLAHYLHELSIKHRIVVICTNQVTS-----AMTHS 211
DS ++R Y + R + L L+ + + V+ TNQV + AM +
Sbjct: 126 DSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQVDGAAMFAA 185
Query: 212 DKNIPALGLTYERAHDMRDLAHYLH 236
D P G +AH
Sbjct: 186 DPKKPIGGNI---------IAHAST 201
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding
protein, ring protein, octamer, AAA ATPase; 3.20A {Homo
sapiens} SCOP: c.37.1.11 PDB: 2zjb_A
Length = 343
Score = 153 bits (389), Expect = 6e-45
Identities = 53/238 (22%), Positives = 95/238 (39%), Gaps = 30/238 (12%)
Query: 18 NKVKDLKKKKAFQVGKNPIDMTEI--------VVSTGSEKFDSILKGGIHAGGITELSGA 69
KV +K+ + + E ++TGS++FD +L GGI + ITE G
Sbjct: 71 AKVDKIKEAANKLIEPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGE 130
Query: 70 SGCGKTQLCLQMCLSLQVSQPHKG----VLYICTESVFPTARLAQLCELSPLAKPKCSDK 125
GKTQL +C++ Q+ +++I TE+ F RL + + + D
Sbjct: 131 FRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDN 190
Query: 126 IFITHCYEFIDLKRTLESQSGFI---ENKVGMIVIDSIAGIFRNTYA-EDKYVQRAHDMR 181
+ Y L+ + +++IDSI +FR ++ + +R +
Sbjct: 191 VLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLA 250
Query: 182 DLAHYLHELSIKHRIVVICTNQVTS-----AMTHSDKNIPALGLTYERAHDMRDLAHY 234
+ L ++S ++ + V TNQ+T+ +D P G LAH
Sbjct: 251 QMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHI---------LAHA 299
>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 = 143 bits (362), Expect = 7e-41
Identities = 53/245 (21%), Positives = 95/245 (38%), Gaps = 32/245 (13%)
Query: 16 EVNKVKDLKKKKA--------FQVGKNPI----DMTE-----IVVSTGSEKFDSILKGGI 58
E+ +V + + A + + +STGS+ D +L GGI
Sbjct: 69 ELKEVAGISEGTALKIIQAARKAANLGTFMRADEYLKKRATIGRISTGSKSLDKLLGGGI 128
Query: 59 HAGGITELSGASGCGKTQLCLQMCLSLQVSQPHKG----VLYICTESVFPTARLAQLCEL 114
ITE+ G G GKTQL + + +Q+ G V++I TE+ F R+ ++ +
Sbjct: 129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQN 188
Query: 115 SPLAKPKCSDKIFITHCYEFIDLKRTLESQSGFIE------NKVGMIVIDSIAGIFRNTY 168
L + I++ + ++ I+ V ++++DS+ FR+ Y
Sbjct: 189 RGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEY 248
Query: 169 AEDKYV-QRAHDMRDLAHYLHELSIKHRIVVICTNQVTS---AMTHSDKNIPALGLTYER 224
+ +R + LH L+ + I V TNQV + A P G
Sbjct: 249 IGRGALAERQQKLAKHLADLHRLANLYDIAVFVTNQVQARPDAFFGDPT-RPIGGHILAH 307
Query: 225 AHDMR 229
+ +R
Sbjct: 308 SATLR 312
>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA
damage, DNA recombinat repair, nucleotide-binding; HET:
DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*
Length = 400
Score = 143 bits (362), Expect = 2e-40
Identities = 56/241 (23%), Positives = 98/241 (40%), Gaps = 16/241 (6%)
Query: 5 DQMLKLGFQEWEVNKVKDLKKKKAFQVGKNPIDMTE-----IVVSTGSEKFDSILKGGIH 59
D + G E + +K+ + + D I ++TGS+ D++L GG+
Sbjct: 117 DLLEIKGISEAKADKLLNEAARLVPMGFVTAADFHMRRSELICLTTGSKNLDTLLGGGVE 176
Query: 60 AGGITELSGASGCGKTQLCLQMCLSLQVSQPHKG----VLYICTESVFPTARLAQLCELS 115
G ITEL G GK+QLC + ++ Q+ G LYI TE F RL + +
Sbjct: 177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRF 236
Query: 116 PLAKPKCSDKIFITHCYEFIDLKRTLESQSGFI-ENKVGMIVIDSIAGIFRNTY-AEDKY 173
L + + Y R L++ + + E++ +IV+DS+ ++R + +
Sbjct: 237 GLDPDDALNNVAYARAYNADHQLRLLDAAAQMMSESRFSLIVVDSVMALYRTDFSGRGEL 296
Query: 174 VQRAHDMRDLAHYLHELSIKHRIVVICTNQVTS-----AMTHSDKNIPALGLTYERAHDM 228
R + L L+ + + V+ TNQV + + D P G +
Sbjct: 297 SARQMHLAKFMRALQRLADQFGVAVVVTNQVVAQVDGGMAFNPDPKKPIGGNIMAYSSTT 356
Query: 229 R 229
R
Sbjct: 357 R 357
>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 = 134 bits (338), Expect = 1e-37
Identities = 58/224 (25%), Positives = 94/224 (41%), Gaps = 22/224 (9%)
Query: 5 DQMLKLGFQEWEVNKVKDLKKKKAFQVGKNPIDMTE-----IVVSTGSEKFDSILKGGIH 59
+ G E K+ + K+ ID+ + +ST S + DS+L GG+
Sbjct: 37 ELTDIEGISEKAAAKMIMGARDLCDLGFKSGIDLLKQRSTVWKLSTSSSELDSVLGGGLE 96
Query: 60 AGGITELSGASGCGKTQLCLQMCLSLQVSQPHKG--------------VLYICTESVFPT 105
+ +TE +G G GKTQ+ Q C++LQ + +YI TE F
Sbjct: 97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRP 156
Query: 106 ARLAQLCELSPLAKPKCSDKIFITHCYEFIDLKRTLESQSGFIE--NKVGMIVIDSIAGI 163
R+ Q+ E + + D F+ Y E I+ N + ++VIDS+
Sbjct: 157 ERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTST 216
Query: 164 FRNTYAED-KYVQRAHDMRDLAHYLHELSIKHRIVVICTNQVTS 206
FRN Y K +R + L++L+ VV+ TNQV++
Sbjct: 217 FRNEYTGRGKLAERQQKLGRHMATLNKLADLFNCVVLVTNQVSA 260
>2cvh_A DNA repair and recombination protein RADB; filament formation,
homologous recombination, ATPase domain,
hyperthermophIle; HET: DNA; 2.20A {Thermococcus
kodakarensis} PDB: 2cvf_A*
Length = 220
Score = 121 bits (305), Expect = 1e-33
Identities = 46/165 (27%), Positives = 74/165 (44%), Gaps = 8/165 (4%)
Query: 42 VVSTGSEKFDSILKGGIHAGGITELSGASGCGKTQLCLQMCLSLQVSQPHKGVLYICTES 101
++STG++ DS+L GG G +T++ G GKT L LQ L K V Y+ TE
Sbjct: 1 MLSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGLLSG-----KKVAYVDTEG 55
Query: 102 VFPTARLAQLCELSPLAKPKCSDKIFITHCYEFIDLKRTLESQSGFIENKVGMIVIDSIA 161
F RL Q+ E L + + + +F + +R + S +++ ++V+DSI
Sbjct: 56 GFSPERLVQMAETRGLNPEEALSRFILFTPSDFKEQRRVIGSLKKTVDSNFALVVVDSIT 115
Query: 162 GIFRNTYAEDKYVQRAHDMRDLAHYLHELSIKHRIVVICTNQVTS 206
+R + + L ++ KH I VI NQV
Sbjct: 116 AHYRAEENRSGLIAE---LSRQLQVLLWIARKHNIPVIVINQVHF 157
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 69.3 bits (170), Expect = 3e-14
Identities = 35/175 (20%), Positives = 64/175 (36%), Gaps = 23/175 (13%)
Query: 43 VSTGSEKFDSILKGGIHAGGITELSGASGCGKTQLCLQMCLSLQVSQPHKGVLYICT-ES 101
+STG FD +++GGI G L+G G GKT L ++ + +Y+ T ES
Sbjct: 5 LSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLHF-IAKGLRDGDP-CIYVTTEES 62
Query: 102 V-----------FPTARLAQLCELSPLAKPKCSDKIFITHCYEFIDLKRTLESQSGFIEN 150
+ + + A K + + +L + +
Sbjct: 63 RDSIIRQAKQFNWDFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIEAKQKLGY 122
Query: 151 KVGMIVIDSIAGIFRNTYAEDKYVQRAHDMRDLAHYLHELSIKHRIVVICTNQVT 205
+VIDS++ +F + A R +++YL + K + T+Q
Sbjct: 123 GKARLVIDSVSALFLDKPAM---------ARKISYYLKRVLNKWNFTIYATSQYA 168
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 68.0 bits (166), Expect = 1e-13
Identities = 32/185 (17%), Positives = 60/185 (32%), Gaps = 28/185 (15%)
Query: 43 VSTGSEKFDSILKGGIHAGGITELSGASGCGKTQLCLQMCLSLQVSQPHKGVLYICTE-- 100
V +G FD +++GG G L+G +G GKT Q + + +++ E
Sbjct: 12 VKSGIPGFDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYK-GAEEYGEPGVFVTLEER 70
Query: 101 ----------------SVFPTARLAQLCELSPLAKPKCSDKIFITHCYEFIDLKRTLESQ 144
++A + +S + +K + + + R +
Sbjct: 71 ARDLRREMASFGWDFEKYEKEGKIAIVDGVSSVVGLPSEEKFVLEDRFNVDNFLRYIYRV 130
Query: 145 SGFIENKVGMIVIDSIAGIFRNTYAEDKYVQRAHDMRDLAHYLHELSIKHRIVVICTNQV 204
+VIDSI I E++ R + L L E+ + I T +
Sbjct: 131 --VKAINAKRLVIDSIPSIA--LRLEEERKIREV-LLKLNTILLEM----GVTTILTTEA 181
Query: 205 TSAMT 209
Sbjct: 182 PDPQH 186
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 64.2 bits (156), Expect = 7e-12
Identities = 32/176 (18%), Positives = 64/176 (36%), Gaps = 22/176 (12%)
Query: 43 VSTGSEKFDSILKGGIHAGGITELSGASGCGKTQLCLQMCLSLQVSQPHKGVLYICT-ES 101
+ T E FD I GG+ G T +SG SG GKT +Q + + + + +++ E+
Sbjct: 21 MRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYN-GIIEFDEPGVFVTFEET 79
Query: 102 V-----------FPTARLAQLCELSPLAKPKCSDKIFITHCYEFIDLKRTLESQSGFIEN 150
+ A+L +L L + + ++ L + +
Sbjct: 80 PQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYA--IQKY 137
Query: 151 KVGMIVIDSIAGIFRNTYAEDKYVQRAHDMRDLAHYLHELSIKHRIVVICTNQVTS 206
+ + IDS+ +F + V R ++ L L ++ + T +
Sbjct: 138 RARRVSIDSVTSVF--QQYDASSVVRR-ELFRLVARLKQI----GATTVMTTERIE 186
Score = 61.5 bits (149), Expect = 6e-11
Identities = 43/253 (16%), Positives = 71/253 (28%), Gaps = 40/253 (15%)
Query: 14 EWEVNKVKDLKKKKAFQVGKNPIDMTEIVVSTGSEKFDSILKGGIHAGGITELSGASGCG 73
E+ + + + VS+G + D + GG I +GA+G G
Sbjct: 234 EYPFTITDHGINIFPLGAMRLTQRSSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTG 293
Query: 74 KTQLCLQMCLSLQVSQPHKGVLYICT-ESVFPTARLAQLCELSPLAKPKCSDKIFITHCY 132
KT L + + + + ES R A + + C
Sbjct: 294 KTLLVSRFVENA--CANKERAILFAYEESRAQLLRNAY--SWGMDFEEMERQNLLKIVCA 349
Query: 133 EFIDLKRTLESQSGFI-----ENKVGMIVIDSIAGIFRNTYAEDKYVQRAHDMRDLAHYL 187
LE I + K I IDS++ + R R +
Sbjct: 350 YPESA--GLEDHLQIIKSEINDFKPARIAIDSLSALARGVSNN--------AFRQFVIGV 399
Query: 188 HELSIKHRIVVICTNQ---VTSAMTHSDKNIPALG-----LTYERAHD----------MR 229
+ + I + TN A + +D +I + L Y MR
Sbjct: 400 TGYAKQEEITGLFTNTSDQFMGAHSITDSHISTITDTIILLQYVEIRGEMSRAINVFKMR 459
Query: 230 DLAH--YLHEISI 240
H + E I
Sbjct: 460 GSWHDKAIREFMI 472
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 58.6 bits (142), Expect = 2e-10
Identities = 35/183 (19%), Positives = 58/183 (31%), Gaps = 32/183 (17%)
Query: 43 VSTGSEKFDSILKGGIHAGGITELSGASGCGKTQLCLQMCLSLQVSQPHKGVLYICTE-- 100
V TG D IL GGI + LSG G GKT Q + + +Y+ E
Sbjct: 5 VKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQFLWN-GLKMGEP-GIYVALEEH 62
Query: 101 ----------------SVFPTARLAQLCELSPLAKPKCSDKIFITHCYEFIDLKRTLESQ 144
A + + + +I H + D++ +E
Sbjct: 63 PVQVRQNMAQFGWDVKPYEEKGMFAMVDAFTAGIGKSKEYEKYIVH--DLTDIREFIEVL 120
Query: 145 SGFIEN-KVGMIVIDSIAGIFRNTYAEDKYVQRAHDMRDLAHYLHELSIKHRIVVICTNQ 203
I + +V+DS+ ++ N A R + L + I +Q
Sbjct: 121 RQAIRDINAKRVVVDSVTTLYINKPA---------MARSIILQLKRVLAGTGCTSIFVSQ 171
Query: 204 VTS 206
V+
Sbjct: 172 VSV 174
>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 = 55.2 bits (132), Expect = 8e-09
Identities = 40/280 (14%), Positives = 89/280 (31%), Gaps = 67/280 (23%)
Query: 48 EKFDSI---LKGGIHAGGITELSGASGCGKTQLCLQMCLSLQV-SQPHKGVLYI----CT 99
+ + + L A + + G G GKT + L +CLS +V + + ++ C
Sbjct: 135 QPYLKLRQALLELRPAKNVL-IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN 193
Query: 100 ESVFPTARLAQLC-ELSPLAKPKCSDKIFITHCYEFID--LKRTLESQSGFIENKVGMIV 156
L +L ++ P + I I L+R L+S+ + ++V
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP----YENCLLV 249
Query: 157 IDSIAGIFRNTYAEDKYVQRAHDM--------RD--LAHYLHELSIKHRIVVICTNQVT- 205
+ ++ ++ A ++ R + +L + H + + +T
Sbjct: 250 LLNV---------QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 206 --------SAMTHSDKNIP---------ALGLTYERAHDMRDLAHYLHEISIKHWIVVI- 247
+ +++P L + E D ++ +I
Sbjct: 301 DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE 360
Query: 248 -CTNQVTS----------AMTHSDKNIPA--LGLSWSNLI 274
N + ++ +IP L L W ++I
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI 400
Score = 35.2 bits (80), Expect = 0.026
Identities = 49/331 (14%), Positives = 102/331 (30%), Gaps = 120/331 (36%)
Query: 3 HTDQMLKLGFQEWEVNKVKDLKKKKAFQVGKNPIDMTEI--VVSTGSEKFDSILKGGIHA 60
D++ L ++ + +DL ++ NP ++ I + G +D+
Sbjct: 299 TPDEVKSL-LLKYLDCRPQDLPRE-VLTT--NPRRLSIIAESIRDGLATWDNWKH----- 349
Query: 61 GGITELSGASGCGKTQLCLQMCLSLQVSQPHKGVLYICTESVF------PTARLA----- 109
C K ++ L++ ++ + SVF PT L+
Sbjct: 350 ---------VNCDKLTTIIESSLNVLEPAEYRKMFDRL--SVFPPSAHIPTILLSLIWFD 398
Query: 110 -----------QLCELSPLAKPKCSDKIFITHCYEFIDLKRTLESQ-------------- 144
+L + S + K I I Y ++LK LE++
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY--LELKVKLENEYALHRSIVDHYNIP 456
Query: 145 SGFIENKVGMIVIDS-----IA------------GIFRNTYAEDKYVQR----------- 176
F + + +D I +FR + + +++++
Sbjct: 457 KTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNA 516
Query: 177 ----AHDMRDLAHYLHELSIKHRIVVICTNQVTSAMTHSDKNIPALGLTYERAHDMRDLA 232
+ ++ L Y + IC N P YER + +
Sbjct: 517 SGSILNTLQQLKFYK-----PY----IC------------DNDP----KYERL--VNAIL 549
Query: 233 HYLHEISIKHWIVVICTNQVTSAMTHSDKNI 263
+L +I ++ I T+ + A+ D+ I
Sbjct: 550 DFLPKIE-ENLICSKYTDLLRIALMAEDEAI 579
Score = 33.3 bits (75), Expect = 0.096
Identities = 26/174 (14%), Positives = 56/174 (32%), Gaps = 29/174 (16%)
Query: 117 LAKPKCSDKIFITHC----YEFIDLKRTLESQSGFIENKVGMIVIDSIAGIFRNTYAEDK 172
L+K + + F+ Y+F+ E + + + + I+ ++ + K
Sbjct: 72 LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTR---MYIEQRDRLYNDNQVFAK 128
Query: 173 Y-VQRAHDMRDLAHYLHELSIKHRIVVICTNQVTSAMTHSDKNIPALGLTYERAHDMRDL 231
Y V R L L EL + V+I + S K + + +
Sbjct: 129 YNVSRLQPYLKLRQALLELR-PAKNVLID------GVLGSGKTW----VALDVCLSYKVQ 177
Query: 232 AHYLHEISIKHWIVVICTNQVTSAM-------THSDKNIPALGLSWSNLIILLN 278
+I W+ + N + + D N + SN+ + ++
Sbjct: 178 CKMDFKI---FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 50.1 bits (119), Expect = 2e-07
Identities = 28/180 (15%), Positives = 55/180 (30%), Gaps = 28/180 (15%)
Query: 54 LKGGIHAGGITELSGASGCGKTQLCLQMCLSL---------QVSQPHKGVLYICTESVFP 104
+ + AG + L G GK+ L LQ+ + V+Y+ E
Sbjct: 23 VLPNMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGP-VIYLPAEDPPT 81
Query: 105 T--ARLAQLC-ELSPLAKPKCSDKIFITHCYEFIDLKRTLESQSGFIE--NKVGMIVIDS 159
RL L LS + +D + I + E G ++V+D+
Sbjct: 82 AIHHRLHALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKRAAEGRRLMVLDT 141
Query: 160 IAGIFRNTYAEDKYVQRAHDMRDLAHYLHELSIKHRIVVICTNQVTSAMTHSDKNIPALG 219
+ E+ M + + ++ ++ + H+ K +G
Sbjct: 142 LRRFHIEE--ENAS----GPMAQVIGRMEAIAADTGCSIVF-------LHHASKGAAMMG 188
>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding,
cytoplasm, damage, DNA recombination, DNA repair,
DNA-binding; 1.95A {Thermotoga maritima}
Length = 356
Score = 33.1 bits (76), Expect = 0.097
Identities = 19/67 (28%), Positives = 24/67 (35%), Gaps = 1/67 (1%)
Query: 21 KDLKKKKAFQVGKNPIDMTEIVVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCL 79
++ K +G V+ TGS D GG G I E+ G GKT L L
Sbjct: 20 ENFGKGSIMILGDETQVQPVEVIPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLAL 79
Query: 80 QMCLSLQ 86
Q
Sbjct: 80 HAIAEAQ 86
>1u94_A RECA protein, recombinase A; homologous recombination, ATPase,
DNA repair, DNA binding protein; 1.90A {Escherichia
coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A
1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A
Length = 356
Score = 32.7 bits (75), Expect = 0.11
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 43 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 88
>3cmw_A Protein RECA, recombinase A; homologous recombination,
recombination/DNA complex; HET: DNA ADP; 2.80A
{Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*
Length = 1706
Score = 33.1 bits (76), Expect = 0.11
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 14 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 59
Score = 32.7 bits (75), Expect = 0.14
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 363 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 408
Score = 32.7 bits (75), Expect = 0.14
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 1062 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1107
Score = 32.7 bits (75), Expect = 0.15
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 712 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 757
Score = 32.7 bits (75), Expect = 0.15
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 1411 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1456
>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET:
DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11
PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*
Length = 296
Score = 32.6 bits (75), Expect = 0.12
Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 2/55 (3%)
Query: 43 VSTGSEKFDSILKGGIHAGGITELSGASGCGKTQLCLQMCLSLQVSQPHKGVLYI 97
+ +G + G G + ++ SG GK+ Q L + K V
Sbjct: 18 LFSGCTGINDKT-LGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAM-GKKVGLA 70
>3cmu_A Protein RECA, recombinase A; homologous recombination,
recombination/DNA complex; HET: DNA ADP; 4.20A
{Escherichia coli}
Length = 2050
Score = 33.1 bits (76), Expect = 0.13
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 14 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 59
Score = 32.7 bits (75), Expect = 0.15
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 1061 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1106
Score = 32.7 bits (75), Expect = 0.15
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 363 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 408
Score = 32.7 bits (75), Expect = 0.15
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 712 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 757
Score = 32.7 bits (75), Expect = 0.15
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 1407 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1452
Score = 32.7 bits (75), Expect = 0.15
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
+STGS D L GG+ G I E+ G GKT L LQ+ + Q
Sbjct: 1755 TISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1800
>3cu0_A Galactosylgalactosylxylosylprotein 3-beta- glucuronosyltransferase
3; glcat-I, glycosyltransferase, heparan sulfate
biosynthesis, glycoprotein; HET: GAL UDP; 1.90A {Homo
sapiens} SCOP: c.68.1.7 PDB: 1kws_A* 1fgg_A*
Length = 281
Score = 32.3 bits (73), Expect = 0.13
Identities = 9/41 (21%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 221 TYERAH---DMRDLAHYLHEISIKHWIVVICTNQVTSAMTH 258
TY R ++ L+ L + HW++V T ++
Sbjct: 29 TYARLVQKAELVRLSQTLSLVPRLHWLLVEDAEGPTPLVSG 69
>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants,
DNA-repair, ATP-binding, DNA DA recombination, DNA
repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium
smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A*
1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A
2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A*
2zrp_A* 2zre_A* ...
Length = 349
Score = 32.3 bits (74), Expect = 0.13
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
V+ TGS D L GG+ G + E+ G GKT + L + Q
Sbjct: 41 VIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ 86
>1xp8_A RECA protein, recombinase A; recombination, radioresistance,
DNA-repair, ATPase, DNA-BIND protein, DNA binding
protein; HET: AGS; 2.50A {Deinococcus radiodurans}
SCOP: c.37.1.11 d.48.1.1
Length = 366
Score = 32.0 bits (73), Expect = 0.18
Identities = 22/46 (47%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 42 VVSTGSEKFDSILK-GGIHAGGITELSGASGCGKTQLCLQMCLSLQ 86
VVSTGS D L GGI G ITE+ G GKT L L + Q
Sbjct: 54 VVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQ 99
>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding
domain, ABC motor domain, ferric iron transport, cell
inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}
Length = 359
Score = 31.4 bits (72), Expect = 0.30
Identities = 12/24 (50%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 58 IHAGGITELSGASGCGKTQLCLQM 81
+ G I + GASGCGKT L L+
Sbjct: 27 LDPGEILFIIGASGCGKTTL-LRC 49
>1v84_A Galactosylgalactosylxylosylprotein 3-beta- glucuronosyltransferase
1; glycoprotein, glycocyltransferase, HNK-1 epitop; HET:
GAL NDG NAG TLA UDP; 1.82A {Homo sapiens} SCOP: c.68.1.7
PDB: 1v83_A* 1v82_A*
Length = 253
Score = 31.1 bits (70), Expect = 0.35
Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 221 TYERAH---DMRDLAHYLHEISIKHWIVVICTNQVTSAMTH 258
TY R ++ +A+ L + HW+VV + T
Sbjct: 11 TYSRPVQKAELTRMANTLLHVPNLHWLVVEDAPRRTPLTAR 51
>3io5_A Recombination and repair protein; storage dimer, inactive
conformation, RECA like core domain, binding, DNA
damage, DNA recombination; 2.40A {Enterobacteria phage
T4}
Length = 333
Score = 30.9 bits (70), Expect = 0.38
Identities = 36/193 (18%), Positives = 55/193 (28%), Gaps = 57/193 (29%)
Query: 42 VVSTGSEKFDSILKGGIHAGGI----TELSGASGCGKTQLCLQMCLSLQVSQPHKGVLYI 97
VV T + L G GG+ L+G S K+ L M S P L+
Sbjct: 6 VVRTKIPMMNIAL-SGEITGGMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFY 64
Query: 98 CTESVFPTARLAQLCELSPLAKPKCSDKIFITHCYEFIDLKRTLESQSGFIE-------- 149
+E A L + +D +R + + +E
Sbjct: 65 DSEFGITPAYLRSMG----------------------VDPERVIHTPVQSLEQLRIDMVN 102
Query: 150 -------NKVGMIVIDSIAGIFRNTYAE----DKYVQ---RAHDM----RDLAHYLHELS 191
+ ++ IDS+ + E +K V RA M R + Y
Sbjct: 103 QLDAIERGEKVVVFIDSLGNLASKKETEDALNEKVVSDMTRAKTMKSLFRIVTPYFS--- 159
Query: 192 IKHRIVVICTNQV 204
I I N
Sbjct: 160 -TKNIPCIAINHT 171
>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 = 29.9 bits (66), Expect = 0.57
Identities = 7/36 (19%), Positives = 18/36 (50%), Gaps = 12/36 (33%)
Query: 191 SIKHRIVVICTNQVTSAMT-HSDKNIPALGL--TYE 223
++K ++ +++ ++D + PAL + T E
Sbjct: 21 ALK---------KLQASLKLYADDSAPALAIKATME 47
>2d0j_A Galactosylgalactosylxylosylprotein 3-beta- glucuronosyltransferase
2; rossmann-like fold, glucuronyltransferase; 2.00A
{Homo sapiens}
Length = 246
Score = 30.0 bits (67), Expect = 0.63
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 3/41 (7%)
Query: 221 TYERAH---DMRDLAHYLHEISIKHWIVVICTNQVTSAMTH 258
TY R ++ LA+ +++ HWI+V + ++
Sbjct: 11 TYSRPVQKAELTRLANTFRQVAQLHWILVEDAAARSELVSR 51
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 29.2 bits (66), Expect = 0.97
Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 2/46 (4%)
Query: 66 LSGASGCGKTQLCLQMCLSLQVSQPHKGVLYICTESVFPTARLAQL 111
+ G G GK+ L LQ Q + K YI S+ T +
Sbjct: 41 VWGEEGAGKSHL-LQAW-VAQALEAGKNAAYIDAASMPLTDAAFEA 84
>4eq6_A Chromosome segregation in meiosis protein 2; DNA binding protein;
1.80A {Saccharomyces cerevisiae} PDB: 4dt1_A
Length = 214
Score = 29.1 bits (64), Expect = 1.4
Identities = 28/130 (21%), Positives = 51/130 (39%), Gaps = 24/130 (18%)
Query: 74 KTQLCLQMCLSLQVSQPHKGVLYICTESVFPTARLAQLCELSPLAKP---KCSDKIFITH 130
K +LC + +L + +I S FP L+Q +L P P + + I I
Sbjct: 18 KNKLCQFIKQNLSKEHVVTQLFFIDATSSFP---LSQFQKLVPPTLPENVRIYENIRINT 74
Query: 131 CYEFIDLKRTLESQSGFIE-NKVG---------------MIVIDSIAGIFRNTYAEDKYV 174
C + +L + NK+ ++ I+ + +FRN+ +
Sbjct: 75 CLDLEELSAITVKLLQILSMNKINAQRGTEDAVTEPLKIILYINGLEVMFRNSQFKSS-P 133
Query: 175 QRAHD-MRDL 183
QR+H+ +RD
Sbjct: 134 QRSHELLRDT 143
>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP;
2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*
Length = 271
Score = 28.3 bits (64), Expect = 2.7
Identities = 9/26 (34%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 53 ILKG---GIHAGGITELSGASGCGKT 75
+L+G ++ G +T L G +G GK+
Sbjct: 34 VLQGLTFTLYPGKVTALVGPNGSGKS 59
>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP,
cyclic peptide, membrane protein; 3.80A {Mus musculus}
PDB: 3g61_A* 3g60_A*
Length = 1284
Score = 28.5 bits (64), Expect = 3.2
Identities = 12/25 (48%), Positives = 14/25 (56%), Gaps = 3/25 (12%)
Query: 53 ILKG---GIHAGGITELSGASGCGK 74
ILKG + +G L G SGCGK
Sbjct: 405 ILKGLNLKVKSGQTVALVGNSGCGK 429
>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding,
chromatin regulator, growth regulation, hydrolase,
nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo
sapiens} PDB: 2xsz_A*
Length = 456
Score = 28.4 bits (63), Expect = 3.2
Identities = 16/78 (20%), Positives = 30/78 (38%), Gaps = 2/78 (2%)
Query: 53 ILKGGIHAGGITELSGASGCGKTQLCLQMCLSLQVSQPHK--GVLYICTESVFPTARLAQ 110
++K AG L+G G GKT L L + L P + + + T L +
Sbjct: 55 LIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLME 114
Query: 111 LCELSPLAKPKCSDKIFI 128
+ + K + +++
Sbjct: 115 NFRRAIGLRIKETKEVYE 132
>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta
motif, beta sandwich, ligand binding protein; 1.90A
{Alicyclobacillus acidocaldarius}
Length = 355
Score = 27.6 bits (62), Expect = 4.3
Identities = 10/24 (41%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 58 IHAGGITELSGASGCGKTQLCLQM 81
I G + L G SG GKT + L++
Sbjct: 38 IREGEMVGLLGPSGSGKTTI-LRL 60
>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural
genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}
Length = 263
Score = 27.3 bits (61), Expect = 5.5
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 61 GGITELSGASGCGKTQLCLQMCLSLQVSQPHKGVLYI 97
G + G +G GKT L L+ L P+ G ++I
Sbjct: 30 GEKVIILGPNGSGKTTL-LRAISGL---LPYSGNIFI 62
>1zym_A Enzyme I; phosphotransferase; 2.50A {Escherichia coli} SCOP:
a.60.10.1 c.8.1.2 PDB: 1eza_A 1ezb_A 1ezc_A 1ezd_A
2eza_A 2ezb_A 2ezc_A 3ezb_A 3eze_A 3eza_A
Length = 258
Score = 26.8 bits (60), Expect = 6.7
Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 156 VIDSIAGIFRNTYAEDKYVQ-RAHDMRDLA 184
VI+ A +D+Y++ RA D+RD+
Sbjct: 107 VIEGQASALEEL--DDEYLKERAADVRDIG 134
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 27.5 bits (61), Expect = 6.8
Identities = 6/23 (26%), Positives = 8/23 (34%)
Query: 66 LSGASGCGKTQLCLQMCLSLQVS 88
L G G GKT + +
Sbjct: 243 LYGPPGTGKTLIARAVANETGAF 265
>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein;
ATP-binding, nucleotide-binding, membrane,
transmembrane, transport protein; 3.00A {Methanosarcina
acetivorans} SCOP: b.40.6.3 c.37.1.12
Length = 348
Score = 27.1 bits (61), Expect = 7.3
Identities = 7/14 (50%), Positives = 10/14 (71%), Gaps = 1/14 (7%)
Query: 68 GASGCGKTQLCLQM 81
G +G GKT L L++
Sbjct: 33 GPTGAGKT-LFLEL 45
>3fce_A D-alanine--poly(phosphoribitol) ligase subunit 1; DLTA, AMP-forming
domain, adenylation, D-alanine protein ligase, ATP
complex; HET: ATP; 1.90A {Bacillus cereus} PDB: 3fcc_A*
3dhv_A*
Length = 512
Score = 27.1 bits (61), Expect = 7.8
Identities = 8/49 (16%), Positives = 19/49 (38%), Gaps = 11/49 (22%)
Query: 158 DSIAGIFRN---TYAE-DKYVQRAHDMRDLAHYLHELSIKH-RIVVICT 201
D A ++R+ TY + + + LAH++ +++
Sbjct: 16 DQTAFVWRDAKITYKQLK---EDSD--A-LAHWISSEYPDDRSPIMVYG 58
>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and
permease protein; asymmetric dimer, tetramer,
P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus
lactis} SCOP: c.37.1.12
Length = 243
Score = 26.7 bits (60), Expect = 7.9
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 3/29 (10%)
Query: 53 ILKG---GIHAGGITELSGASGCGKTQLC 78
IL+ I +G SG GK+ +
Sbjct: 17 ILRDISFEAQPNSIIAFAGPSGGGKSTIF 45
>1ydx_A Type I restriction enzyme specificity protein Mg4; type-I HSDS, DNA
binding protein; 2.30A {Mycoplasma genitalium} SCOP:
d.287.1.2 d.287.1.2
Length = 406
Score = 27.0 bits (60), Expect = 7.9
Identities = 14/86 (16%), Positives = 19/86 (22%), Gaps = 10/86 (11%)
Query: 2 NHTDQMLKL--------GFQEWEVNKVKDL-KKKKAFQVGKNPIDMT-EIVVSTGSEKFD 51
H D K W + L KK + K I + G K
Sbjct: 15 GHIDDDDKHMTPKLKLNNNINWTKRTIDSLFDLKKGEMLEKELITPEGKYEYFNGGVKNS 74
Query: 52 SILKGGIHAGGITELSGASGCGKTQL 77
+ CG +L
Sbjct: 75 GRTDKFNTFKNTISVIVGGSCGYVRL 100
>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur
cluster, adenosine diphosphate, nucleotide-binding; HET:
ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*
Length = 607
Score = 26.9 bits (60), Expect = 9.2
Identities = 9/40 (22%), Positives = 14/40 (35%)
Query: 39 TEIVVSTGSEKFDSILKGGIHAGGITELSGASGCGKTQLC 78
+ V G F + G + + G +G GKT
Sbjct: 95 EDCVHRYGVNAFVLYRLPIVKDGMVVGIVGPNGTGKTTAV 134
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 26.9 bits (60), Expect = 9.3
Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 3/46 (6%)
Query: 52 SILKGGIHAGGITELSGASGCGKTQLCLQMCLSLQVSQPHKGVLYI 97
+ G I G + + G +G GKT + V +P +G +
Sbjct: 303 EVEPGEIKKGEVIGIVGPNGIGKTTFVKMLA---GVEEPTEGKIEW 345
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
0.321 0.135 0.405
Gapped
Lambda K H
0.267 0.0474 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,194,842
Number of extensions: 242825
Number of successful extensions: 936
Number of sequences better than 10.0: 1
Number of HSP's gapped: 912
Number of HSP's successfully gapped: 78
Length of query: 279
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 187
Effective length of database: 4,133,061
Effective search space: 772882407
Effective search space used: 772882407
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (26.4 bits)