RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|255764496|ref|YP_003065012.2| excinuclease ABC subunit C
[Candidatus Liberibacter asiaticus str. psy62]
(616 letters)
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision
repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA
excision; 1.90A {Bacillus stearothermophilus}
Length = 226
Score = 142 bits (359), Expect = 2e-34
Identities = 65/232 (28%), Positives = 108/232 (46%), Gaps = 20/232 (8%)
Query: 379 PKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMVLERR 438
P+RIE +DNS+I G V +VV + K +YRK+ + MR V+ RR
Sbjct: 14 PRRIEAFDNSNIYGADPVSALVVFLDGKPAKKEYRKYKVKTVAGPNDY--ETMREVVRRR 71
Query: 439 FSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQGVLKKLNVENRITIISIA 498
+++++K +I+ G +A + + + + + +A
Sbjct: 72 YTRVLKEGLP---------------LPDLIIIDGGKGHLSAVRDVLENELGLDVPLAGLA 116
Query: 499 KGPKRSAGMEKFFVKKGEALVLNMRDPILYFIQRLRDEAHRFAITTHRKRRKKAAY-SPL 557
K K + + L+ + Y +QR++DE HRFA+ HRK R+K + S L
Sbjct: 117 KDEKHRTSELLAG-DPPDVVPLDRQSQEFYLLQRIQDEVHRFAVMFHRKTRQKTMFHSVL 175
Query: 558 DEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHK 609
D+I G+G RK+ LL FG+VK + ++ E L I + +A KIY H+
Sbjct: 176 DDIPGVGEKRKKALLNYFGSVKKMKEATVEELQRA-NIPRAVAEKIYEKLHE 226
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin
helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB:
2nrv_A 2nrw_A 2nrx_A 2nrz_A
Length = 220
Score = 140 bits (355), Expect = 6e-34
Identities = 70/246 (28%), Positives = 119/246 (48%), Gaps = 33/246 (13%)
Query: 363 QMILKDFTKKFALPHIPKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDV 422
+ L++ K + P RIE D SH+ G V +VV + K YR++ + +
Sbjct: 6 KEALEELMKLLNMKDFPYRIEGIDISHLQGKYTVASLVVFEDGFPKKGDYRRYKIEQD-- 63
Query: 423 KTQDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQGV 482
DD +R V++RR YS P+++ +DGG GQ++AA
Sbjct: 64 -HPDDYESIRTVVKRR-------------------YSKHPLPNLLFVDGGIGQVNAA--- 100
Query: 483 LKKLNVENRITIISIAKGPKRSAGMEKFFVKKGEALVLNMRDPILYFIQRLRDEAHRFAI 542
+ E + E+ V + + L P+L + ++RDE HRFA+
Sbjct: 101 -IEALKEIGKDCPVVGLAK-----KEETVVFENREIHLPHDHPVLRLLVQIRDETHRFAV 154
Query: 543 TTHRKRRKKAAY-SPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIAC 601
+ HRKRR+K + S LD + GIGP+RK+ L++ FG+++ I +S E +A + G + +IA
Sbjct: 155 SYHRKRREKESLRSVLDNVPGIGPIRKKKLIEHFGSLENIRSASLEEIARVIGST-EIAR 213
Query: 602 KIYNHF 607
++ +
Sbjct: 214 RVLDIL 219
>2nrr_A Uvrabc system protein C; UVRC, endonuclase, NER, hydrolase; 1.20A
{Thermotoga maritima}
Length = 159
Score = 122 bits (308), Expect = 2e-28
Identities = 52/186 (27%), Positives = 87/186 (46%), Gaps = 31/186 (16%)
Query: 366 LKDFTKKFALPHIPKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQ 425
L++ K + P RIE D SH+ G V +VV + K YR++ + +
Sbjct: 4 LEELMKLLNMKDFPYRIEGIDISHLQGKYTVASLVVFEDGFPKKGDYRRYKIEQD---HP 60
Query: 426 DDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQGVLKK 485
DD +R V++RR YS P+++ +DGG GQ++AA LK+
Sbjct: 61 DDYESIRTVVKRR-------------------YSKHPLPNLLFVDGGIGQVNAAIEALKE 101
Query: 486 LNVENRITIISIAKGPKRSAGMEKFFVKKGEALVLNMRDPILYFIQRLRDEAHRFAITTH 545
+ + + ++ E+ V + + L P+L + ++RDE HRFA++ H
Sbjct: 102 IGKDCPVVGLA---------KKEETVVFENREIHLPHDHPVLRLLVQIRDETHRFAVSYH 152
Query: 546 RKRRKK 551
RKRR+K
Sbjct: 153 RKRREK 158
>2wsh_A Endonuclease II; GIY-YIG, hydrolase; 1.90A {Enterobacteria phage
T4}
Length = 143
Score = 103 bits (257), Expect = 1e-22
Identities = 23/107 (21%), Positives = 37/107 (34%), Gaps = 22/107 (20%)
Query: 6 MPECPGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHSNNH---------THRITHMISQIN 56
+P V + I ++Y+GK NL+KRI Y + N + I + + +
Sbjct: 36 IPNKYNVIYAIAINDELVYIGKTKNLRKRINYYRTAINRKDKTSDSTKSALIHSALKEGS 95
Query: 57 NIRFTV-------------TCTEVEALLLEANMIKRLKPRFNILLRD 90
+ F T T L IK P +NI +
Sbjct: 96 KVEFYARQCFNLSMTNELGTMTIATIDLEAPLFIKLFNPPWNIQHKK 142
>1yd6_A UVRC; DNA binding protein; 2.00A {Bacillus caldotenax}
Length = 99
Score = 95.1 bits (236), Expect = 5e-20
Identities = 37/91 (40%), Positives = 60/91 (65%), Gaps = 1/91 (1%)
Query: 4 EQMPECPGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHSNNHTHRITHMISQINNIRFTVT 63
+PE PG Y M D G V+YVGKA +L++R++SY H + ++ +I + + VT
Sbjct: 10 AVLPEQPGCYLMKDKHGTVIYVGKAKSLKERVRSYFT-GTHDGKTQRLVEEIADFEYIVT 68
Query: 64 CTEVEALLLEANMIKRLKPRFNILLRDDKSF 94
+ EAL+LE N+IK+ P++N++L+DDKS+
Sbjct: 69 SSNAEALILEMNLIKKHDPKYNVMLKDDKSY 99
>1yd0_A Uvrabc system protein C; DNA binding protein; 1.50A {Thermotoga
maritima} PDB: 1ycz_A 1yd1_A 1yd4_A 1yd3_A 1yd2_A
1yd5_A
Length = 96
Score = 93.5 bits (232), Expect = 1e-19
Identities = 29/89 (32%), Positives = 48/89 (53%), Gaps = 3/89 (3%)
Query: 4 EQMPECPGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHSNNHTHRITHMISQINNIRFTVT 63
PE PGVY + G +Y+GKA L R++SY++ + + + + V
Sbjct: 10 LLAPEEPGVYIFKN-KGVPIYIGKAKRLSNRLRSYLNPQTEKVF--RIGEEADELETIVV 66
Query: 64 CTEVEALLLEANMIKRLKPRFNILLRDDK 92
E EA +LEAN+IK+ +P++N+ L+D
Sbjct: 67 MNEREAFILEANLIKKYRPKYNVRLKDTD 95
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain,
DNA-binding domain, DNA binding protein; NMR
{Escherichia coli} SCOP: a.60.2.3
Length = 78
Score = 78.7 bits (194), Expect = 4e-15
Identities = 20/67 (29%), Positives = 37/67 (55%), Gaps = 1/67 (1%)
Query: 543 TTHRKRRKKAA-YSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIAC 601
++ R S L+ I G+GP R+++LL+ G ++ + +S E +A + GIS+ +A
Sbjct: 11 SSGLVPRGSHMNTSSLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAE 70
Query: 602 KIYNHFH 608
KI+
Sbjct: 71 KIFWSLK 77
>1mk0_A Intron-associated endonuclease 1; alpha/beta fold, catalytic
domain, DNA-binding surface, hydrolase; HET: CIT; 1.60A
{Enterobacteria phage T4} SCOP: d.226.1.1 PDB: 1ln0_A
Length = 97
Score = 74.6 bits (183), Expect = 6e-14
Identities = 16/87 (18%), Positives = 30/87 (34%), Gaps = 9/87 (10%)
Query: 10 PGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHSNNHTHRITHMISQINN---------IRF 60
G+YQ+ + +YVG A + +KR K + + + + N I
Sbjct: 3 SGIYQIKNTLNNKVYVGSAKDFEKRWKRHFKDLEKGCHSSIKLQRSFNKHGNVFECSILE 62
Query: 61 TVTCTEVEALLLEANMIKRLKPRFNIL 87
+ + + IK L + N
Sbjct: 63 EIPYEKDLIIERANFWIKELNSKINGY 89
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET:
DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Length = 84
Score = 62.2 bits (151), Expect = 3e-10
Identities = 12/64 (18%), Positives = 26/64 (40%), Gaps = 1/64 (1%)
Query: 546 RKRRKKAAYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYN 605
++ L ++ G+ R L+ + ++ S + L SI G + A ++Y+
Sbjct: 9 SEKYNPGPQDFLLKMPGVNAKNCRSLMHHVKNIAELAALSQDELTSILG-NAANAKQLYD 67
Query: 606 HFHK 609
H
Sbjct: 68 FIHT 71
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA
repair, endonuclease, helix-hairpin-helix, DNA binding
protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Length = 63
Score = 60.5 bits (147), Expect = 1e-09
Identities = 12/56 (21%), Positives = 24/56 (42%), Gaps = 1/56 (1%)
Query: 554 YSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHK 609
L ++ G+ R L+ + ++ S + L SI G + A ++Y+ H
Sbjct: 3 QDFLLKMPGVNAKNCRSLMHHVKNIAELAALSQDELTSILG-NAANAKQLYDFIHT 57
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 54.9 bits (132), Expect = 5e-08
Identities = 89/597 (14%), Positives = 148/597 (24%), Gaps = 238/597 (39%)
Query: 88 LRDDKSFPYIL----ITDKHKIP-ALYKH----RDS--STIQGSYFGPFASVDAVEKTIN 136
R P L + +P A + ++ + G FA+ D
Sbjct: 6 TR-----PLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEG-FAADDEPTTPAE 59
Query: 137 SLQRTFFLRSCADSVFRHRTRPCLLFQIKRCSGPCTGEISSEKYMEFVHEAKKFLSGGN- 195
+ + FL + V F ++ + EF + +L G +
Sbjct: 60 LVGK--FLGYVSSLVEPS---KVGQFD----------QVLNLCLTEFENC---YLEGNDI 101
Query: 196 HNL--------------KEKI------ARNMNQATLKEDYESAIIHRDRLAALSHIQNHN 235
H L +++ AR M + + SA+ + N
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL--------FRAVGEGN 153
Query: 236 DSIY-------NRMDCF----SLYHNKN------LACIQTCFFHFGQN-RGTCTFFLK-- 275
+ N D F LY + + + F +
Sbjct: 154 AQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 276 ------TDSEST--NAQILSY---F-------LRQFY-TDKPC------PENI--LLS-- 306
+ +T +LS L + T P + L
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVT---AKLLGFTPGELRSYLKGA 270
Query: 307 -------------------EEAEETSL--LEISFFKQYGYKVKITVPKQGEKRKIIEQAL 345
E + + + FF G + P I+E +L
Sbjct: 271 TGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFF--IGVRCYEAYPNTSLPPSILEDSL 328
Query: 346 INAHRSHTQKLSTEISH------QMILKDFTKKFALPHIP--KRIEI-----YDNSHIMG 392
N + LS IS+ Q + H+P K++EI N
Sbjct: 329 ENNEGVPSPMLS--ISNLTQEQVQDYVNKTNS-----HLPAGKQVEISLVNGAKN----- 376
Query: 393 CSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRM-------VLERRF------ 439
+VV G ++ Y NL K R+ RF
Sbjct: 377 ------LVVSGP---PQSLYG-LNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP 426
Query: 440 ---------SQLIKN---EENLNFHPKK--------------QEYS---FPS-------- 462
S LI + N++F+ K + S
Sbjct: 427 FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL 486
Query: 463 ---WPDVV------ILDGGKGQLSAAQGVLKKLNVENR-ITII---SIAKGPKRSAG 506
W ILD G G S GVL N + + +I ++ P G
Sbjct: 487 PVKWETTTQFKATHILDFGPGGASGL-GVLTHRNKDGTGVRVIVAGTLDINPDDDYG 542
>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease,
nucleotide excision repair; 2.8A {Aeropyrum pernix}
SCOP: a.60.2.5 c.52.1.20 PDB: 2bhn_A
Length = 219
Score = 53.4 bits (127), Expect = 2e-07
Identities = 16/85 (18%), Positives = 33/85 (38%), Gaps = 3/85 (3%)
Query: 528 YFIQRLRDEAHRFAITTHRKRR---KKAAYSPLDEINGIGPLRKRLLLQSFGTVKMISRS 584
+ E + + + R ++ L GIG +L+ FG+++ +
Sbjct: 132 SLARLSTREGGQRIVIHKKPRLSDVREWQLYILQSFPGIGRRTAERILERFGSLERFFTA 191
Query: 585 SPETLASIEGISKKIACKIYNHFHK 609
S ++ +EGI +K A +I
Sbjct: 192 SKAEISKVEGIGEKRAEEIKKILMT 216
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex,
RNA-RNA complex, protein-RNA complex, peptidyl
transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
2.20A {Haloarcula marismortui} SCOP: c.9.2.1 PDB:
1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y*
1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y*
1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ...
Length = 241
Score = 52.8 bits (126), Expect = 2e-07
Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 546 RKRRKKAAYSPLDEINGIGPLRKRLLLQS-FGTVKMISRSSPETLASIEGISKKIACKIY 604
+ Y+ L +I+G+GP + L ++ F +V+ + + LA + GI +A +I
Sbjct: 6 EDVEAEEEYTELTDISGVGPSKAESLREAGFESVEDVRGADQSALADVSGIGNALAARIK 65
Query: 605 NHFHK 609
Sbjct: 66 ADVGG 70
Score = 33.1 bits (75), Expect = 0.19
Identities = 6/42 (14%), Positives = 11/42 (26%)
Query: 569 RLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKN 610
LQ+ G + S E + + + H
Sbjct: 95 ETELQARGLTEKTPDLSDEDARLLTQRHRVGKPQFNRQDHHK 136
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding
domain, homodimer, hydrolase; 1.45A {Pyrococcus
furiosus} SCOP: a.60.2.5
Length = 75
Score = 52.2 bits (125), Expect = 3e-07
Identities = 15/64 (23%), Positives = 28/64 (43%)
Query: 546 RKRRKKAAYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYN 605
+ ++ + + R LL+ FG+V+ + +S L +EGI +KIA +I
Sbjct: 5 ALTLAERQRLIVEGLPHVSATLARRLLKHFGSVERVFTASVAELMKVEGIGEKIAKEIRR 64
Query: 606 HFHK 609
Sbjct: 65 VITA 68
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA
repair, endonuclease, helix-hairpin-helix, DNA binding
protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Length = 91
Score = 50.0 bits (119), Expect = 2e-06
Identities = 12/70 (17%), Positives = 32/70 (45%), Gaps = 1/70 (1%)
Query: 541 AITTHRKRRKKAA-YSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKI 599
+ ++ + L + + + LL +FG+++ + +S E LA G+ +
Sbjct: 17 LLMEKLEQDFVSRVTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQK 76
Query: 600 ACKIYNHFHK 609
A ++++ H+
Sbjct: 77 ARRLFDVLHE 86
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase;
HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Length = 89
Score = 48.1 bits (114), Expect = 6e-06
Identities = 12/70 (17%), Positives = 32/70 (45%), Gaps = 1/70 (1%)
Query: 541 AITTHRKRRKKAA-YSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKI 599
+ ++ + L + + + LL +FG+++ + +S E LA G+ +
Sbjct: 4 LLMEKLEQDFVSRVTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQK 63
Query: 600 ACKIYNHFHK 609
A ++++ H+
Sbjct: 64 ARRLFDVLHE 73
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A
{Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2
PDB: 1v9p_A*
Length = 667
Score = 40.9 bits (96), Expect = 9e-04
Identities = 13/49 (26%), Positives = 23/49 (46%)
Query: 560 INGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFH 608
+ G+G + R L + FGT+ + +S E L +E + + A I
Sbjct: 512 LPGVGEVLARNLARRFGTMDRLLEASLEELIEVEEVGELTARAILETLK 560
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 39.8 bits (92), Expect = 0.002
Identities = 31/118 (26%), Positives = 48/118 (40%), Gaps = 8/118 (6%)
Query: 490 NRITIISIAKGPKRSAGMEKFFVKKGEALVLNMRDPILYFIQRLRDEAHRFAITTHRKRR 549
N + I + G V+ E LV ++++ + L + T R R
Sbjct: 582 NEVPEGEIVEKYSVEPGDIYRIVETAEWLVYSLKE----IAKVLGAYEIVDYLETLRVRV 637
Query: 550 KKAAY---SPLDEINGIGPLRKRLLLQS-FGTVKMISRSSPETLASIEGISKKIACKI 603
K PL ++ +G R R L S F +++ IS++ PE L IEGI K I
Sbjct: 638 KYGIREELIPLMQLPLVGRRRARALYNSGFRSIEDISQARPEELLKIEGIGVKTVEAI 695
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA
binding, molecular switch, RECA, DMC1; HET: DNA; 1.93A
{Sulfolobus solfataricus P2} PDB: 2bke_A* 2dfl_A*
2zub_A* 2zuc_A* 2zud_A*
Length = 324
Score = 37.6 bits (86), Expect = 0.009
Identities = 11/61 (18%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 557 LDEINGIGP-LRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKNTSHTP 615
++++ GI + +L+ + +++ ++ +SP+ L+ GI A KI
Sbjct: 14 INDLPGISQTVINKLIEAGYSSLETLAVASPQDLSVAAGIPLSTAQKIIKEARDALDIRF 73
Query: 616 T 616
Sbjct: 74 K 74
>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* 3ewa_A* 3ew9_A* 3etl_A*
2gdj_A*
Length = 322
Score = 36.9 bits (84), Expect = 0.014
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 557 LDEINGIGP-LRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHK 609
L ++ G+GP ++L+ + I+ ++ L IEGIS+K A K+
Sbjct: 5 LTDLPGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARD 58
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric
ring, heptamer, ring, oligomer, RAD51 polymerization
motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP:
a.60.4.1 c.37.1.11
Length = 349
Score = 36.7 bits (84), Expect = 0.015
Identities = 15/48 (31%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 557 LDEINGIGP-LRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKI 603
++++ G+GP ++L + T++ I+ +SP L + GIS+ A KI
Sbjct: 37 IEDLPGVGPATAEKLREAGYDTLEAIAVASPIELKEVAGISEGTALKI 84
>3c1y_A DNA integrity scanning protein DISA; DNA damage, DNA repair,
DNA-binding, DNA binding protein; HET: DNA 2BA; 2.10A
{Thermotoga maritima} PDB: 3c1z_A* 3c21_A* 3c23_A*
Length = 377
Score = 36.3 bits (84), Expect = 0.022
Identities = 16/52 (30%), Positives = 25/52 (48%)
Query: 554 YSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYN 605
Y L + I +++ F T+ IS++S E L +EGI +K A I
Sbjct: 314 YRLLKTVARIPLSIGYNVVRMFKTLDQISKASVEDLKKVEGIGEKRARAISE 365
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 35.9 bits (82), Expect = 0.025
Identities = 20/70 (28%), Positives = 36/70 (51%), Gaps = 4/70 (5%)
Query: 5 QMPECPGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHS--NNHTHRITH-MISQINNIRFT 61
++PE G Y + + G LY+ KA + + + + N T+ I+ +ISQ++ I
Sbjct: 957 EIPET-GEYSVKLLKGATLYIPKALRFDRLVAGQIPTGWNAKTYGISDDIISQVDPITLF 1015
Query: 62 VTCTEVEALL 71
V + VEA +
Sbjct: 1016 VLVSVVEAFI 1025
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA
recombination, helicase; 1.90A {Escherichia coli} SCOP:
a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A
1d8l_A
Length = 203
Score = 32.9 bits (75), Expect = 0.19
Identities = 17/84 (20%), Positives = 36/84 (42%), Gaps = 7/84 (8%)
Query: 524 DPILYFIQRLRDEAHR-FAITTHRKRRKKAAYSPLDEINGIGPLRKRLLLQSFGT---VK 579
+ I++ +R++A + ++++ + L + NG+GP +L V
Sbjct: 44 EAIVFTHFVVREDAQLLYGFNN---KQERTLFKELIKTNGVGPKLALAILSGMSAQQFVN 100
Query: 580 MISRSSPETLASIEGISKKIACKI 603
+ R L + GI KK A ++
Sbjct: 101 AVEREEVGALVKLPGIGKKTAERL 124
>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 = 33.2 bits (75), Expect = 0.20
Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 551 KAAYSPLDEI--NGIGPLRKRLLLQS-FGTVKMISRSSPETLASIEGISKKIACKIYN 605
++ P++++ NGI + L +S T + ++ + + L I+GIS+ A K+ N
Sbjct: 77 LGSFVPIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLN 134
>1b22_A DNA repair protein RAD51; DNA binding, riken structural
genomics/proteomics initiative, RSGI, structural
genomics; HET: DNA; NMR {Homo sapiens} SCOP: a.60.4.1
Length = 114
Score = 32.9 bits (75), Expect = 0.21
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 559 EINGIGP-LRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHK 609
E GI K+L F TV+ ++ + + L +I+GIS+ A KI K
Sbjct: 29 EQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEAAK 80
>1m6i_A Programmed cell death protein 8; apoptosis, AIF, oxidoreductase;
HET: FAD; 1.80A {Homo sapiens} SCOP: c.3.1.5 c.3.1.5
d.87.1.1 PDB: 3gd3_A* 3gd4_A* 1gv4_A*
Length = 493
Score = 32.2 bits (72), Expect = 0.35
Identities = 13/105 (12%), Positives = 31/105 (29%), Gaps = 17/105 (16%)
Query: 461 PSWPDVVILDGGKGQLSAAQGVLKKLNVENRITIIS----------------IAKGPKRS 504
PS +++ GG +AA+ ++ + R+ I+S
Sbjct: 9 PSHVPFLLIGGGTAAFAAARS-IRARDPGARVLIVSEDPELPYMRPPLSKELWFSDDPNV 67
Query: 505 AGMEKFFVKKGEALVLNMRDPILYFIQRLRDEAHRFAITTHRKRR 549
+F G+ + + P Y + + ++
Sbjct: 68 TKTLRFKQWNGKERSIYFQPPSFYVSAQDLPHIENGGVAVLTGKK 112
>1szp_A DNA repair protein RAD51; homologous recombination, asymmetry,
RAD51 filament, DNA binding protein; HET: DNA; 3.25A
{Saccharomyces cerevisiae} SCOP: a.60.4.1 c.37.1.11
Length = 321
Score = 32.2 bits (72), Expect = 0.39
Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 556 PLD--EINGIGP-LRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKI 603
P++ ++NGI K+L T + ++ + + L I+GIS+ A K+
Sbjct: 3 PIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGISEAKADKL 53
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.9 bits (71), Expect = 0.40
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 18/47 (38%)
Query: 73 EANMIKRLKPRFNILLRDDKSFPYILITDKHKIPAL-YKHRDSSTIQ 118
E +K+L+ L DD + PAL K +T++
Sbjct: 18 EKQALKKLQASLK-LYADDSA------------PALAIK----ATME 47
Score = 30.0 bits (66), Expect = 1.4
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 15/37 (40%)
Query: 200 EKIA-RNMNQATLK---EDYESAIIHRDRLAALSHIQ 232
EK A + + QA+LK +D SA AL+ I+
Sbjct: 18 EKQALKKL-QASLKLYADD--SA-------PALA-IK 43
Score = 29.6 bits (65), Expect = 2.2
Identities = 9/31 (29%), Positives = 17/31 (54%), Gaps = 8/31 (25%)
Query: 566 LRKRLLLQSFGTVKMISRSSPETL---ASIE 593
L+K LQ+ ++K+ + S L A++E
Sbjct: 22 LKK---LQA--SLKLYADDSAPALAIKATME 47
>1ywl_A Hypothetical UPF0213 protein EF2693; alpha and beta, structural
genomics, northeast structural genomics consortium
(NESG); NMR {Enterococcus faecalis}
Length = 96
Score = 31.4 bits (71), Expect = 0.56
Identities = 13/70 (18%), Positives = 21/70 (30%), Gaps = 2/70 (2%)
Query: 12 VYQMLDIAGRVLYVGKAYNLQKRIKSYMHSNNHTHRITHMISQINNIRFTVTCTEVEALL 71
Y +L Y G ++R+ + + + I T EA
Sbjct: 9 FY-VLLCQDGSFYGGYTTEPERRLTEHNSGTGAKYTRLAKRRPVIMIHTEKFETRSEATK 67
Query: 72 LEANMIKRLK 81
EA K+L
Sbjct: 68 AEA-AFKKLT 76
>1q1r_A Putidaredoxin reductase; glutathione reductase fold,
oxidoreductase; HET: FAD; 1.91A {Pseudomonas putida}
SCOP: c.3.1.5 c.3.1.5 d.87.1.1 PDB: 1q1w_A*
Length = 431
Score = 31.4 bits (70), Expect = 0.61
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 465 DVVILDGGKGQLSAAQGVLKKLNVENRITIIS 496
+VVI+ G + A G L+ E I ++
Sbjct: 6 NVVIVGTGLAGVEVAFG-LRASGWEGNIRLVG 36
>1zg2_A Hypothetical UPF0213 protein BH0048; BHR2, structure,
autostructure, northeast structural genomics consortium,
PSI; NMR {Bacillus halodurans}
Length = 107
Score = 31.0 bits (70), Expect = 0.74
Identities = 21/104 (20%), Positives = 36/104 (34%), Gaps = 6/104 (5%)
Query: 1 MSSEQMPECPGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHSNNHTHRITHMISQINNIRF 60
M+ + M VY +L+ Y G ++ +RIK + + ++
Sbjct: 1 MAGDPMNHY--VY-ILECKDGSWYTGYTTDVDRRIKKHASGKGAKYTRGRGPFRLVATWA 57
Query: 61 TVTCTEVEALLLEANMIKRLKPRFNILLRDDKSFPYILITDKHK 104
++ EA+ E +K L R L K PY T
Sbjct: 58 --FPSKEEAMRWEY-EVKHLSRRKKEQLVSLKGGPYENTTKLST 98
>1fcd_A Flavocytochrome C sulfide dehydrogenase (flavin- binding subunit);
electron transport(flavocytochrome); HET: FAD HEM; 2.53A
{Allochromatium vinosum} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
Length = 401
Score = 30.5 bits (67), Expect = 1.1
Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 462 SWPDVVILDGGKGQLSAAQGVLKKLNVENRITIIS 496
+ VV++ GG G +AA+ +K + +T+I
Sbjct: 1 AGRKVVVVGGGTGGATAAKY-IKLADPSIEVTLIE 34
>2bc0_A NADH oxidase; flavoprotein, pyridine nucleotide disulfide
oxidoreductase, C(4A)-peroxyflavin, crystallography,
conformational dynamics; HET: FAD; 2.00A {Streptococcus
pyogenes} PDB: 2bcp_A* 2bc1_A*
Length = 490
Score = 30.5 bits (67), Expect = 1.1
Identities = 6/73 (8%), Positives = 21/73 (28%)
Query: 466 VVILDGGKGQLSAAQGVLKKLNVENRITIISIAKGPKRSAGMEKFFVKKGEALVLNMRDP 525
+V++ + + +L N I + ++ + A +
Sbjct: 38 IVVVGANHAGTACIKTMLTNYGDANEIVVFDQNSNISFLGAGMALWIGEQIAGPEGLFYS 97
Query: 526 ILYFIQRLRDEAH 538
++ L + +
Sbjct: 98 DKEELESLGAKVY 110
>3maj_A DNA processing chain A; MCSG, PSI-2, structural genomics, protein
structure initiati midwest center for structural
genomics; HET: DNA; 2.05A {Rhodopseudomonas palustris}
Length = 382
Score = 30.3 bits (68), Expect = 1.4
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 557 LDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIAC 601
L +GP R L+ FG+ + PE LA G ++
Sbjct: 28 LIRAENVGPRTFRSLINHFGSARAALERLPE-LARRGGAARAGRI 71
>1e52_A Excinuclease ABC subunit; DNA excision repair, UVRB, DNA repair,
UVRC binding domain; NMR {Escherichia coli} SCOP:
a.2.9.1 PDB: 1qoj_A
Length = 63
Score = 30.1 bits (68), Expect = 1.5
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 198 LKEKIAR---NMNQATLKEDYESAIIHRDRLAAL 228
L++KI M Q ++E A RD+L L
Sbjct: 22 LQQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQL 55
>2pwj_A Mitochondrial peroxiredoxin; alpha and beta protein,
oxidoreductase; 2.80A {Pisum sativum}
Length = 171
Score = 29.8 bits (66), Expect = 2.0
Identities = 16/131 (12%), Positives = 43/131 (32%), Gaps = 23/131 (17%)
Query: 367 KDFTKKFALPHIPKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQD 426
+T + H+P D G +V C+ + + + N + + + ++
Sbjct: 53 GAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAI--NDPYTVNAWAEKIQAKDAIEFYG 110
Query: 427 DCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDG-----------GKGQ 475
D + +L + + + +S ++DG +
Sbjct: 111 DFDGS----FHKSLELTTDLSAGLLGIRSERWSA------YVVDGKVKALNVEESPSDVK 160
Query: 476 LSAAQGVLKKL 486
+S A+ +L ++
Sbjct: 161 VSGAETILGQI 171
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 29.8 bits (66), Expect = 2.1
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 555 SPLDEINGIGPLRKRLLLQS-FGTVKMISRSSPETLASI-EGISKKIACKI 603
L I IG +R R L + + I R + + I GI++++ I
Sbjct: 632 LELVRIRHIGRVRARKLYNAGIRNAEDIVRHREKVASLIGRGIAERVVEGI 682
>3mf2_A BLL0957 protein; aminoacyl-tRNA synthetase, seryl-tRNA synthetase,
zinc ION, amino acid:[carrier protein] ligase; HET: AMP;
2.15A {Bradyrhizobium japonicum} PDB: 3mey_A* 3mf1_A*
Length = 346
Score = 29.5 bits (66), Expect = 2.3
Identities = 12/104 (11%), Positives = 28/104 (26%), Gaps = 17/104 (16%)
Query: 150 SVFR----HRTRPCLLFQIKRCSGPCTGEISSEKYMEFVHEAKKFL-------------S 192
FR F+++ T + S+ ++ A+
Sbjct: 176 DCFRREPSKHLDRLQSFRMREYVCIGTPDDVSDFRERWMVRAQAIARDLGLTFRVDYASD 235
Query: 193 GGNHNLKEKIARNMNQATLKEDYESAIIHRDRLAALSHIQNHND 236
+ + A + Q LK + + ++ A H +
Sbjct: 236 PFFGRVGQMKAVSQKQQQLKFELLIPLRSEEQPTACMSFNYHRE 279
>3iwa_A FAD-dependent pyridine nucleotide-disulphide oxidoreductase;
structural genomics, PSI-2, protein structure
initiative; 2.30A {Desulfovibrio vulgaris DP4}
Length = 472
Score = 29.4 bits (64), Expect = 2.5
Identities = 12/85 (14%), Positives = 29/85 (34%), Gaps = 1/85 (1%)
Query: 465 DVVILDGGKGQLSAAQGVLKKLNVENRITIISIAKGPKRSAGMEKFFVKKGEALVLNMRD 524
VV++ AA K+L+ E +T+I A ++V + + +++
Sbjct: 5 HVVVIGAVALGPKAACR-FKRLDPEAHVTMIDQASRISYGGCGIPYYVSGEVSNIESLQA 63
Query: 525 PILYFIQRLRDEAHRFAITTHRKRR 549
++ + + R
Sbjct: 64 TPYNVVRDPEFFRINKDVEALVETR 88
>2v3a_A Rubredoxin reductase; alkane degradation, NADH oxidoreductase, FAD,
NAD, flavoprotein, oxidoreductase; HET: FAD; 2.4A
{Pseudomonas aeruginosa} PDB: 2v3b_A*
Length = 384
Score = 29.4 bits (64), Expect = 2.7
Identities = 8/33 (24%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 464 PDVVILDGGKGQLSAAQGVLKKLNVENRITIIS 496
+VI+ G + A+ +KL+ E + +I+
Sbjct: 5 APLVIIGTGLAGYNLARE-WRKLDGETPLLMIT 36
>3h28_A Sulfide-quinone reductase; monotopic membrane protein,
flavoprotein, polysulfur, oxidoreductase; HET: FAD DCQ
LMT; 2.00A {Aquifex aeolicus} PDB: 3h27_A* 3h29_A*
3hyv_A* 3hyw_A* 3hyx_A*
Length = 430
Score = 29.1 bits (64), Expect = 3.2
Identities = 12/31 (38%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 466 VVILDGGKGQLSAAQGVLKKLNVENRITIIS 496
VV++ GG G ++ A L+ L + +IT+IS
Sbjct: 5 VVVIGGGVGGIATAYN-LRNLMPDLKITLIS 34
>1yqz_A Coenzyme A disulfide reductase; oxidoreductase; HET: COA FAD; 1.54A
{Staphylococcus aureus}
Length = 438
Score = 29.0 bits (63), Expect = 3.3
Identities = 8/33 (24%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 464 PDVVILDGGKGQLSAAQGVLKKLNVENRITIIS 496
P +V++ G + A +++L+ E+ I I
Sbjct: 2 PKIVVVGAVAGGATCASQ-IRRLDKESDIIIFE 33
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 701
Score = 28.8 bits (64), Expect = 3.3
Identities = 31/203 (15%), Positives = 50/203 (24%), Gaps = 37/203 (18%)
Query: 276 TDSESTNAQILSYFLRQFYTDKPCPENILLSEEAEETSLLEISFFKQYGYKVKITVPKQG 335
ES + Y D E E + E + + +
Sbjct: 142 EHKESLQKILHGYKKGTLDGDDLVLEISNALEISSEM----GLKILEDVFPEFKDLTAVS 197
Query: 336 EKRKIIEQALINAHRSHTQKLSTEISHQMILKDFT--KKFALPHIPKRIEIYDNSHIMGC 393
K RSH ++ K K F++ +R + D SH+M
Sbjct: 198 SK---------LTLRSHMTSGWFLTVSDLMNKKPLPFKLFSIDRCFRREQKEDKSHLMTY 248
Query: 394 SAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMVLERRFSQLIKNEENLNFHP 453
+ C + + ND K + E SQ
Sbjct: 249 HSASCAIA------------GEGVDINDGKA---------IAEGLLSQFGFTNFKFIPDE 287
Query: 454 KKQEYSFPSW-PDVVILDGGKGQ 475
KK +Y P +V +
Sbjct: 288 KKSKYYTPETQTEVYAYHPKLKE 310
>2owo_A DNA ligase; protein/DNA complex, ligase/DNA complex; HET: DNA OMC
AMP; 2.30A {Escherichia coli K12}
Length = 671
Score = 28.7 bits (63), Expect = 3.6
Identities = 23/182 (12%), Positives = 53/182 (29%)
Query: 430 MMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQGVLKKLNVE 489
++ +VL R + + + V GG + + LK
Sbjct: 387 VVNVVLSERPEDTREVVFPTHCPVCGSDVERVEGEAVARCTGGLICGAQRKESLKHFVSR 446
Query: 490 NRITIISIAKGPKRSAGMEKFFVKKGEALVLNMRDPILYFIQRLRDEAHRFAITTHRKRR 549
+ + + +++ + L + + K
Sbjct: 447 RAMDVDGMGDKIIDQLVEKEYVHTPADLFKLTAGKLTGLERMGPKSAQNVVNALEKAKET 506
Query: 550 KKAAYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHK 609
A + I +G L FGT++ + +S E L + + +A ++N F +
Sbjct: 507 TFARFLYALGIREVGEATAAGLAAYFGTLEALEAASIEELQKVPDVGIVVASHVHNFFAE 566
Query: 610 NT 611
+
Sbjct: 567 ES 568
>3ef6_A Toluene 1,2-dioxygenase system ferredoxin-- NAD(+) reductase; FAD
binding protein, NADH binding protein, aromatic
hydrocarbons catabolism; HET: FAD; 1.80A {Pseudomonas
putida}
Length = 410
Score = 29.0 bits (63), Expect = 3.8
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 465 DVVILDGGKGQLSAAQGVLKKLNVENRITIIS 496
V I+ G G + AQ L+ E RI++I
Sbjct: 4 HVAIIGNGVGGFTTAQA-LRAEGFEGRISLIG 34
>2h31_A Multifunctional protein ADE2; alpha-beta-alpha, ligase, lyase;
2.80A {Homo sapiens}
Length = 425
Score = 28.8 bits (64), Expect = 3.8
Identities = 28/210 (13%), Positives = 59/210 (28%), Gaps = 9/210 (4%)
Query: 315 LEISFFKQYGYKVKITVPKQGEKRKIIEQALINAHRSHTQKLSTEISHQMI-LKDFTKKF 373
+ + P Q + ++I A Q +SH + + +K
Sbjct: 121 FYPPKVELFFKDDANNDP-QWSEEQLIAAKFCFAGLLIGQTEVDIMSHATQAIFEILEKS 179
Query: 374 ALPHIPKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRM 433
LP + + D G +V+ + + +R + +
Sbjct: 180 WLP---QNCTLVDMKIEFGVDVTTKEIVLADVIDNDS-WRLWPSGDRSQQKDKQSYRDLK 235
Query: 434 VLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLS---AAQGVLKKLNVEN 490
+ Q++K + S VV+L G L + +
Sbjct: 236 EVTPEGLQMVKKNFEWVAERVELLLKSESQCRVVVLMGSTSDLGHCEKIKKACGNFGIPC 295
Query: 491 RITIISIAKGPKRSAGMEKFFVKKGEALVL 520
+ + S KGP + ++ + G V
Sbjct: 296 ELRVTSAHKGPDETLRIKAEYEGDGIPTVF 325
>3h8l_A NADH oxidase; membrane protein, complete form, rossman-like fold,
oxidoreductase; HET: FAD; 2.57A {Acidianus ambivalens}
PDB: 3h8i_A*
Length = 409
Score = 28.7 bits (62), Expect = 4.3
Identities = 8/31 (25%), Positives = 18/31 (58%)
Query: 466 VVILDGGKGQLSAAQGVLKKLNVENRITIIS 496
V++L G G L+AA + + + + + +I+
Sbjct: 4 VLVLGGRFGALTAAYTLKRLVGSKADVKVIN 34
>3kpk_A Sulfide-quinone reductase, putative; oxidoreductases,
sulfide:quinone oxidoreductase, C160A mutan
oxidoreductase; HET: FAD LMT; 2.05A {Acidithiobacillus
ferrooxidans atcc 23} PDB: 3kpg_A* 3kpi_A*
Length = 434
Score = 28.6 bits (63), Expect = 4.3
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 466 VVILDGGKGQLSAAQGVLKKLNVENRITIIS 496
VVIL G G + AA + + L + +T+IS
Sbjct: 4 VVILGAGTGGMPAAYEMKEALGSGHEVTLIS 34
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-binding,
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 28.3 bits (62), Expect = 5.1
Identities = 15/82 (18%), Positives = 35/82 (42%), Gaps = 7/82 (8%)
Query: 526 ILYFIQRLRDEAHRFAITTHRKRRK---KAAYSPLDEINGIGPLRKRLLLQS-FGTVKMI 581
+ + L+ H + R + K L +I+G+G R RLL + + +
Sbjct: 625 AYHLSRELKLNEHADKLRILNLRVRDGIKEELLELVQISGVGRKRARLLYNNGIKELGDV 684
Query: 582 SRSSPETLASIEGISKKIACKI 603
+P+ + ++ + +K+ K+
Sbjct: 685 -VMNPDKVKNL--LGQKLGEKV 703
>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens}
SCOP: a.118.8.1
Length = 152
Score = 28.0 bits (62), Expect = 6.4
Identities = 11/88 (12%), Positives = 30/88 (34%), Gaps = 4/88 (4%)
Query: 175 ISSEKYMEFVHEAKKFLSGG--NHNLKEKIARNMNQATLKEDYESAIIHRDRLAALSHIQ 232
+S E ++F + + + G + + + + A + ++ +D I+ + L +
Sbjct: 9 VSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKE 68
Query: 233 NHNDSIYNRMDCFSLYHNKNLACIQTCF 260
D ++ Y K
Sbjct: 69 EQRDYVFYL--AVGNYRLKEYEKALKYV 94
>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 = 27.9 bits (61), Expect = 7.1
Identities = 13/59 (22%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 554 YSPLDEI--NGIGPLRKRLLLQS-FGTVKMISRSSPETLASIEGISKKIACKIYNHFHK 609
+ +D + +GI + L T+K I ++ L +++G+S+ KI +K
Sbjct: 24 FQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANK 82
>1qni_A Nitrous-oxide reductase; oxidoreductase, denitrification, MAD,
electron transfer; 2.40A {Pseudomonas nautica} SCOP:
b.6.1.4 b.69.3.1
Length = 581
Score = 27.8 bits (62), Expect = 7.3
Identities = 17/88 (19%), Positives = 31/88 (35%), Gaps = 15/88 (17%)
Query: 461 PSWPDVVILDGGKG-QLSAAQGVLKKLN-VENRITIISIAKGPKRSA-GMEKFFVKKGEA 517
P + G L + V++ N V +T + GM F VK+G+
Sbjct: 458 PYFASCRAQAEKDGVTLESDNKVIRDGNKVRVYMTSV-------APQYGMTDFKVKEGDE 510
Query: 518 LVLNMRDPILYFIQRLRDEAHRFAITTH 545
+ + + + + D H F + H
Sbjct: 511 VTV-----YITNLDMVEDVTHGFCMVNH 533
>1zk7_A HGII, reductase, mercuric reductase; mercuric ION reductase,
oxidoreductase; HET: FAD; 1.60A {Pseudomonas aeruginosa}
PDB: 1zx9_A*
Length = 467
Score = 27.6 bits (60), Expect = 8.2
Identities = 16/154 (10%), Positives = 41/154 (26%), Gaps = 1/154 (0%)
Query: 319 FFKQYGYKVKITVPKQGEKRKIIEQALINAHRSHTQKLSTEISHQMILKDFTKKFALPHI 378
+ + +G +R ++ + A + + T+ A I
Sbjct: 116 EARFKDDQSLTVRLNEGGERVVMFDRCLVATGASPAVPPIPGLKESPYWTSTEALASDTI 175
Query: 379 PKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMVLERR 438
P+R+ + S ++ +G V + F + A +E
Sbjct: 176 PERLAVI-GSSVVALELAQAFARLGSKVTVLARNTLFFREDPAIGEAVTAAFRAEGIEVL 234
Query: 439 FSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGG 472
+++ D +++ G
Sbjct: 235 EHTQASQVAHMDGEFVLTTTHGELRADKLLVATG 268
>3fv6_A YQZB protein; CBS domain dimer, metabolism regulator, central
glycolytic gene regulator, transcription; 1.95A
{Bacillus subtilis} PDB: 3fwr_A* 3fws_A*
Length = 159
Score = 27.4 bits (60), Expect = 9.0
Identities = 15/123 (12%), Positives = 40/123 (32%), Gaps = 4/123 (3%)
Query: 354 QKLSTEISHQMILKDF-TKKFALPHIPKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQY 412
+L + ++ +KDF + I + + +YD M VG + VV + +
Sbjct: 7 TQLLADKLKKLQVKDFQSIPVV---IHENVSVYDAICTMFLEDVGTLFVVDRDAVLVGVL 63
Query: 413 RKFNLHPNDVKTQDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGG 472
+ +L + Q+ ++ ++ R + + + ++
Sbjct: 64 SRKDLLRASIGQQELTSVPVHIIMTRMPNITVCRREDYVMDIAKHLIEKQIDALPVIKDT 123
Query: 473 KGQ 475
Sbjct: 124 DKG 126
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.322 0.135 0.399
Gapped
Lambda K H
0.267 0.0500 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 5,205,917
Number of extensions: 247169
Number of successful extensions: 997
Number of sequences better than 10.0: 1
Number of HSP's gapped: 973
Number of HSP's successfully gapped: 70
Length of query: 616
Length of database: 5,693,230
Length adjustment: 98
Effective length of query: 518
Effective length of database: 3,317,318
Effective search space: 1718370724
Effective search space used: 1718370724
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: 60 (27.4 bits)