RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781074|ref|YP_003065487.1| uracil-DNA glycosylase
[Candidatus Liberibacter asiaticus str. psy62]
(227 letters)
>3a7n_A UDG, uracil-DNA glycosylase; UNG-UGI interactions, UNG-DNA complex,
citrate AS protein LI ligand binding, inhibitor design;
HET: FLC; 1.95A {Mycobacterium tuberculosis H37RV} PDB:
2zhx_A*
Length = 238
Score = 296 bits (758), Expect = 3e-81
Identities = 89/221 (40%), Positives = 128/221 (57%), Gaps = 4/221 (1%)
Query: 6 IHESWKSLLENHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVILG 65
+ W + LE ++ + ++ +FL +E G+R P GS+ RAF PF+ V+V+I+G
Sbjct: 21 VERGWAAALE--PVADQVAHMGQFLRAEIAAGRRYLPAGSNVLRAFT-FPFDNVRVLIVG 77
Query: 66 QDPYHNYGQAHGLCFSVPLGIR-IPPSLVNVYKELQEDVNFIPPTHGFLEHWGHEGVLLL 124
QDPY G A GL FSV +R P SL N++ E D+ + P++G L W GVLLL
Sbjct: 78 QDPYPTPGHAVGLSFSVAPDVRPWPRSLANIFDEYTADLGYPLPSNGDLTPWAQRGVLLL 137
Query: 125 NAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHLV 184
N VLTV ASHRG+GWE T+ I ++ +V +LWG A + +L +
Sbjct: 138 NRVLTVRPSNPASHRGKGWEAVTECAIRALAARAAPLVAILWGRDASTLKPMLAAGNCVA 197
Query: 185 LKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQIP 225
+++ HPSPLSAS GFFG R FS+AN L G ++W++P
Sbjct: 198 IESPHPSPLSASRGFFGSRPFSRANELLVGMGAEPIDWRLP 238
>3cxm_A Uracil-DNA glycosylase; base excision repair, BER, DNA damage
repair, MSGPP, SGPP, hydrolase, 5-bromouracil,
structural genomics; 1.50A {Leishmania naiffi}
Length = 268
Score = 253 bits (648), Expect = 2e-68
Identities = 106/234 (45%), Positives = 145/234 (61%), Gaps = 7/234 (2%)
Query: 1 MEGVKIHESWKSLLENHFQSEH----MRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPF 56
+ G+ + W+ L ++ FL EK KG+ I P + F AF+ PF
Sbjct: 31 LAGLITNPEWRDFLAPITADSWRKGAFIRIERFLDEEKEKGRVILPPAADIFNAFNSCPF 90
Query: 57 NKVKVVILGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDVNFIP-PTHGFLEH 115
+KVV+LGQDPYH+ QAHGLCFSV + +PPSL N+YKEL D+ P HG+L+
Sbjct: 91 RGLKVVLLGQDPYHDLHQAHGLCFSVLPEVPLPPSLRNIYKELTTDIAGFQAPKHGYLQS 150
Query: 116 WGHEGVLLLNAVLTVEEGRAASHRG-RGWEQFTDSVIDLISNNHQN-IVFMLWGASAQKK 173
W +G+L+LNA LTVE +A SH GW FTD+VI +S +H N +VF+LWG AQ+K
Sbjct: 151 WSEQGMLMLNATLTVEAHKANSHSKTSGWAAFTDAVIQHLSQHHPNRLVFLLWGGYAQQK 210
Query: 174 QDVLDHKRHLVLKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQIPLS 227
+ ++D RH+VL+ HPSPLSA+ G+FGCR FS N LQ ++WQ+PL+
Sbjct: 211 KRLIDANRHVVLENVHPSPLSANRGWFGCRCFSACNEALQRMSHLPMHWQLPLN 264
>3fci_A UDG, uracil-DNA glycosylase; DNA repair, alternative splicing,
disease mutation, DNA damage, glycosidase, HOST- virus
interaction, hydrolase; HET: 3FI; 1.27A {Homo sapiens}
PDB: 1emh_A* 1emj_A* 1q3f_A* 1ssp_E* 1ugh_E 1akz_A*
2oxm_A* 2oyt_A* 3fcf_A* 2hxm_A* 3fck_B* 3fcl_A* 2ssp_E*
1yuo_A 4skn_E* 1okb_A
Length = 223
Score = 253 bits (646), Expect = 3e-68
Identities = 112/219 (51%), Positives = 138/219 (63%), Gaps = 2/219 (0%)
Query: 6 IHESWKSLLENHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVILG 65
ESWK L F + L F+ E RK ++P F + VKVVILG
Sbjct: 4 FGESWKKHLSGEFGKPYFIKLMGFVAEE-RKHYTVYPPPHQVFTWTQMCDIKDVKVVILG 62
Query: 66 QDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDV-NFIPPTHGFLEHWGHEGVLLL 124
QDPYH QAHGLCFSV + PPSL N+YKEL D+ +F+ P HG L W +GVLLL
Sbjct: 63 QDPYHGPNQAHGLCFSVQRPVPPPPSLENIYKELSTDIEDFVHPGHGDLSGWAKQGVLLL 122
Query: 125 NAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHLV 184
NAVLTV +A SH+ RGWEQFTD+V+ ++ N +VF+LWG+ AQKK +D KRH V
Sbjct: 123 NAVLTVRAHQANSHKERGWEQFTDAVVSWLNQNSNGLVFLLWGSYAQKKGSAIDRKRHHV 182
Query: 185 LKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQ 223
L+ AHPSPLS GFFGCRHFSK N LQ+ GK ++W+
Sbjct: 183 LQTAHPSPLSVYRGFFGCRHFSKTNELLQKSGKKPIDWK 221
>2zhx_A UDG, uracil-DNA glycosylase; DNA repair, UNG-UGI complex, UNG-DNA
interactions, cytoplasm, DNA damage; 3.10A
{Mycobacterium tuberculosis}
Length = 238
Score = 251 bits (643), Expect = 8e-68
Identities = 89/221 (40%), Positives = 128/221 (57%), Gaps = 4/221 (1%)
Query: 6 IHESWKSLLENHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVILG 65
+ W + LE ++ + ++ +FL +E G+R P GS+ RAF PF+ V+V+I+G
Sbjct: 21 VERGWAAALE--PVADQVAHMGQFLRAEIAAGRRYLPAGSNVLRAFT-FPFDNVRVLIVG 77
Query: 66 QDPYHNYGQAHGLCFSVPLGIR-IPPSLVNVYKELQEDVNFIPPTHGFLEHWGHEGVLLL 124
QDPY G A GL FSV +R P SL N++ E D+ + P++G L W GVLLL
Sbjct: 78 QDPYPTPGHAVGLSFSVAPDVRPWPRSLANIFDEYTADLGYPLPSNGDLTPWAQRGVLLL 137
Query: 125 NAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHLV 184
N VLTV ASHRG+GWE T+ I ++ +V +LWG A + +L +
Sbjct: 138 NRVLTVRPSNPASHRGKGWEAVTECAIRALAARAAPLVAILWGRDASTLKPMLAAGNCVA 197
Query: 185 LKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQIP 225
+++ HPSPLSAS GFFG R FS+AN L G ++W++P
Sbjct: 198 IESPHPSPLSASRGFFGSRPFSRANELLVGMGAEPIDWRLP 238
>4eug_A UDG, UNG, protein (glycosylase); 1.40A {Escherichia coli} SCOP:
c.18.1.1 PDB: 5eug_A 1eug_A 2uug_A 3eug_A 2eug_A 1uug_A
1lqj_A 1lqm_A 1lqg_A 1flz_A 1eui_A 2jhq_A
Length = 229
Score = 249 bits (638), Expect = 3e-67
Identities = 114/221 (51%), Positives = 145/221 (65%), Gaps = 1/221 (0%)
Query: 7 HESWKSLLENHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVILGQ 66
+W +L Q + N + + SE++ G I+P F AF T VKVVILGQ
Sbjct: 4 ELTWHDVLAEEKQQPYFLNTLQTVASERQSGVTIYPPQKDVFNAFRFTELGDVKVVILGQ 63
Query: 67 DPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDV-NFIPPTHGFLEHWGHEGVLLLN 125
DPYH GQAHGL FSV GI IPPSL+N+YKEL+ + F P HG+LE W +GVLLLN
Sbjct: 64 DPYHGPGQAHGLAFSVRPGIAIPPSLLNMYKELENTIPGFTRPNHGYLESWARQGVLLLN 123
Query: 126 AVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHLVL 185
VLTV G+A SH GWE FTD VI LI+ + + +VF+LWG+ AQKK ++D +RH VL
Sbjct: 124 TVLTVRAGQAHSHASLGWETFTDKVISLINQHREGVVFLLWGSHAQKKGAIIDKQRHHVL 183
Query: 186 KAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQIPL 226
KA PSPLSA GFFGC HF AN++L++HG+T ++W L
Sbjct: 184 KAPQPSPLSAHRGFFGCNHFVLANQWLEQHGETPIDWMPVL 224
>2boo_A UDG, uracil-DNA glycosylase; UNG, base excision repair, radiation
resistance, DNA damage, DNA repair, glycosidase,
hydrolase; 1.8A {Deinococcus radiodurans}
Length = 247
Score = 249 bits (637), Expect = 3e-67
Identities = 109/223 (48%), Positives = 146/223 (65%), Gaps = 3/223 (1%)
Query: 4 VKIHESWKSLLENHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVI 63
+ E W+ L F + + L +FL E RK I+P F A TP +VKV+I
Sbjct: 21 ANLPEDWQEALLPEFSAPYFHELTDFLRQE-RKEYTIYPPAPDVFNALRYTPLGEVKVLI 79
Query: 64 LGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDVN-FIPPTHGFLEHWGHEGVL 122
LGQDPYH QAHGL FSV G+R+PPSL N+YKEL ED+ F+ P HG+L W +GVL
Sbjct: 80 LGQDPYHGPNQAHGLSFSVRPGVRVPPSLRNIYKELTEDIPGFVAPKHGYLRSWAEQGVL 139
Query: 123 LLNAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRH 182
LLNAVLTV G+A SH+G+GWE FTD+VI ++ + +VF+LWG+ A+KK+ ++ K H
Sbjct: 140 LLNAVLTVRAGQANSHQGKGWEHFTDAVIKAVNAKEERVVFILWGSYARKKKKLITGKNH 199
Query: 183 LVLKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQIP 225
+V+++ HPSPLS FFG R FSK N L++ G+ V WQ+P
Sbjct: 200 VVIESGHPSPLSE-QYFFGTRPFSKTNEALEKAGRGPVEWQLP 241
>1udg_A Uracil-DNA glycosylase; hydrolase; 1.75A {Herpes simplex virus}
SCOP: c.18.1.1 PDB: 1lau_E 1udh_A 1udi_E 2c53_A* 2c56_A*
Length = 244
Score = 231 bits (589), Expect = 1e-61
Identities = 85/225 (37%), Positives = 117/225 (52%), Gaps = 4/225 (1%)
Query: 1 MEGVKIHESWKSLLENHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVK 60
I ++W+ L+E + +L + + + P F ++V+
Sbjct: 23 RRVFLIDDAWRPLMEPELANPLTAHLLAEYNRR-CQTEEVLPPREDVFSWTRYCTPDEVR 81
Query: 61 VVILGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDV-NFIPPTHGFLEHWGHE 119
VVI+GQDPYH+ GQAHGL FSV + PPSL NV ++ HG LE W +
Sbjct: 82 VVIIGQDPYHHPGQAHGLAFSVRANVPPPPSLRNVLAAVKNCYPEARMSGHGCLEKWARD 141
Query: 120 GVLLLNAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDH 179
GVLLLN LTV+ G AASH GW++F VI ++ +VFMLWG AQ D
Sbjct: 142 GVLLLNTTLTVKRGAAASHSRIGWDRFVGGVIRRLAARRPGLVFMLWGTHAQNAIR-PDP 200
Query: 180 KRHLVLKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQI 224
+ H VLK +HPSPLS F C+HF ANRYL+ + ++W +
Sbjct: 201 RVHCVLKFSHPSPLSKV-PFGTCQHFLVANRYLETRSISPIDWSV 244
>2j8x_A Uracil-DNA glycosylase; hydrolase/inhibitor, hydrolase/inhibitor
complex, EBV, DNA repair, lytic protein, epstein-BARR
virus; 2.3A {Epstein-barr virus} SCOP: c.18.1.1
Length = 231
Score = 229 bits (585), Expect = 4e-61
Identities = 90/232 (38%), Positives = 124/232 (53%), Gaps = 11/232 (4%)
Query: 2 EGVKIHESWKSLLENH-FQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVK 60
E + + + W L+ + + + R ++P + +K
Sbjct: 2 ENLLLPDLWLDFLQLSPIFQRKLAAVIACV-RRLRTQATVYPEEDMCMAWARFCDPSDIK 60
Query: 61 VVILGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDVNFIPPT-HGFLEHWGHE 119
VVILGQDPYH GQA+GL FSV G +PPSL N+Y EL + P HG L+ W +
Sbjct: 61 VVILGQDPYHG-GQANGLAFSVAYGFPVPPSLRNIYAELHRSLPEFSPPDHGCLDAWASQ 119
Query: 120 GVLLLNAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDH 179
GVLLLN +LTV++G+ SH GW FTD VI L+S + VFMLWGA A K +++
Sbjct: 120 GVLLLNTILTVQKGKPGSHADIGWAWFTDHVISLLSERLKACVFMLWGAKAGDKASLINS 179
Query: 180 KRHLVLKAAHPSPL-------SASHGFFGCRHFSKANRYLQEHGKTTVNWQI 224
K+HLVL + HPSPL SA F G HF AN +L+E G ++W++
Sbjct: 180 KKHLVLTSQHPSPLAQNSTRKSAQQKFLGNNHFVLANNFLREKGLGEIDWRL 231
>2owr_A UDG, uracil-DNA glycosylase; uracil-DNA glycosylase fold in the
core: 3 layers (A/B/A); HET: EPE; 2.30A {Vaccinia virus}
PDB: 2owq_A
Length = 218
Score = 196 bits (499), Expect = 4e-51
Identities = 36/219 (16%), Positives = 71/219 (32%), Gaps = 19/219 (8%)
Query: 4 VKIHESWKSLLENHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVI 63
+ H W+ ++ E + +LL ++ P +F P +V +
Sbjct: 13 ITYHNDWEPVMSQLV--EFYNEVASWLLRDE-----TSPIPDKFFIQLK-QPLRNKRVCV 64
Query: 64 LGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDVNFIPPTHGFLEHWGHEGVLL 123
G DPY G+ F P S+ + + I L +GV+
Sbjct: 65 CGIDPYPK--DGTGVPFESPNFT--KKSIKEIASSISRLTGVIDYKGYNLNII--DGVIP 118
Query: 124 LNAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHL 183
N L+ + G W++ + ++ I+ + + + + L+
Sbjct: 119 WNYYLSCKLGET-KSHAIYWDKISKLLLQHITKHVSVLYCLGKTD-FSNIRAKLESPVTT 176
Query: 184 VLKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNW 222
++ P + F R F N L+ K +NW
Sbjct: 177 IV---GYHPAARDRQFEKDRSFEIINVLLELDNKAPINW 212
>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 = 49.6 bits (118), Expect = 6e-07
Identities = 49/289 (16%), Positives = 81/289 (28%), Gaps = 129/289 (44%)
Query: 11 KSLLENHFQSEHM--RNLKEF----LLSEKRKGK----RIFPRG-----SHYFR----AF 51
K L++N+ + M R + L +G IF G YF +
Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF--GGQGNTDDYFEELRDLY 177
Query: 52 DI-TPFNKVKVVI---------LGQDP----YHNYGQAHGLCFSVPLG-IRIPPSLVNVY 96
V +I L + + GL L + P
Sbjct: 178 QTYHVL--VGDLIKFSAETLSELIRTTLDAEKV-FT--QGLNI---LEWLENP------- 222
Query: 97 KELQEDVNF---IP---PTHGFLE--HW----------------------GH-EGVLLLN 125
D ++ IP P G ++ H+ GH +G++
Sbjct: 223 -SNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAV 281
Query: 126 AVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLW-GASAQKK----------- 173
A+ A + WE F SV I+ ++F + G +
Sbjct: 282 AI-------AETD---SWESFFVSVRKAIT-----VLF--FIGVRCYEAYPNTSLPPSIL 324
Query: 174 QDVLDHKRHLVLKAAHPSP-LSASHGFFGCR------HFSKANRYLQEH 215
+D L++ PSP LS S + +K N +L
Sbjct: 325 EDSLENNE------GVPSPMLSIS----NLTQEQVQDYVNKTNSHLPAG 363
>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding,
hydrolase, nucleotide- binding, RNA-binding,
methylation, mRNA processing; HET: ADP; 2.60A {Homo
sapiens}
Length = 242
Score = 30.4 bits (68), Expect = 0.34
Identities = 13/67 (19%), Positives = 25/67 (37%)
Query: 97 KELQEDVNFIPPTHGFLEHWGHEGVLLLNAVLTVEEGRAASHRGRGWEQFTDSVIDLISN 156
++L+ V T G L + G L + A G+E ++D I
Sbjct: 147 RDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRP 206
Query: 157 NHQNIVF 163
+ Q +++
Sbjct: 207 DRQTLMW 213
>3agp_A Elongation factor TS, elongation factor TU, linke replicase; RNA
polymerase, translation, transferase; 2.80A {Escherichia
coli O157} PDB: 3agq_A
Length = 1289
Score = 27.8 bits (62), Expect = 2.0
Identities = 16/74 (21%), Positives = 30/74 (40%), Gaps = 9/74 (12%)
Query: 44 GSHYFRAFDITPFNKVKVVILGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDV 103
G HY+ D+TPF ++ D + ++ G+ P +VY + ++ +
Sbjct: 1092 GKHYYSGVDVTPFYIRHRIVSPADLILVLNNLYR--WATIDGVWD-PRAHSVYLKYRKLL 1148
Query: 104 ------NFIPPTHG 111
N IP +G
Sbjct: 1149 PKQLQRNTIPDGYG 1162
>3mmp_G RNA-directed RNA polymerase beta chain; RDRP,HOST-factor complex,
translation, transferase; HET: PXN; 2.50A
{Enterobacteria phage qbeta}
Length = 589
Score = 27.9 bits (61), Expect = 2.1
Identities = 16/74 (21%), Positives = 30/74 (40%), Gaps = 9/74 (12%)
Query: 44 GSHYFRAFDITPFNKVKVVILGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDV 103
G HY+ D+TPF ++ D + ++ G+ P +VY + ++ +
Sbjct: 398 GKHYYSGVDVTPFYIRHRIVSPADLILVLNNLYR--WATIDGVWD-PRAHSVYLKYRKLL 454
Query: 104 ------NFIPPTHG 111
N IP +G
Sbjct: 455 PKQLQRNTIPDGYG 468
>2nn6_A Polymyositis/scleroderma autoantigen 1; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: d.14.1.4 d.101.1.1
Length = 358
Score = 27.0 bits (59), Expect = 3.7
Identities = 17/116 (14%), Positives = 29/116 (25%), Gaps = 35/116 (30%)
Query: 22 HMRNL------KEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVILGQDPYHNYGQA 75
HM+ + FLL + KR+ R ++ +R I+ G
Sbjct: 17 HMKETPLSNCERRFLLRAIEEKKRLDGRQTYDYRNIRISF-----------------GTD 59
Query: 76 HG-----------LCFSVPLGIRIPPSLVNVYKELQEDVNFIPPTHGFLEHWGHEG 120
+G L V + P L ++ E
Sbjct: 60 YGCCIVELGKTRVLG-QVSCELVSPKLNRATEGILFFNLELSQMAAPAFEPGRQSD 114
>1nsx_A Galactose mutarotase; epimerase, galactose metabolism, isomerase;
HET: GAL; 1.75A {Lactococcus lactis} SCOP: b.30.5.4 PDB:
1nsz_A* 1mmu_A* 1l7k_A* 1l7j_A* 1mmx_A* 1mmy_A* 1mmz_A*
1mn0_A* 1ns0_A* 1ns4_A* 1ns8_A* 1nsr_A* 1nsu_A* 1nsv_A*
1ns7_A* 1ns2_A* 1nsm_A* 1nss_A*
Length = 347
Score = 27.0 bits (59), Expect = 4.0
Identities = 15/84 (17%), Positives = 25/84 (29%), Gaps = 10/84 (11%)
Query: 140 GRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHLVLKAAHPSPLSASHGF 199
G G + + L + I F GA D +HL+L +
Sbjct: 9 GLGSDLIS-----LTNKAGVTISFTNLGARIV---DWQKDGKHLILGFDSAKEYLEKDAY 60
Query: 200 FGCRHFSKANRYLQEHGKTTVNWQ 223
G A R + G ++ +
Sbjct: 61 PGATVGPTAGRI--KDGLVKISGK 82
>3ijd_A Uncharacterized protein; structural genomics, unknown function,
PSI-2, protein structure initiative; HET: C2F; 2.00A
{Clostridium thermocellum atcc 27405}
Length = 315
Score = 26.4 bits (58), Expect = 4.8
Identities = 11/43 (25%), Positives = 16/43 (37%), Gaps = 3/43 (6%)
Query: 62 VILGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDVN 104
+I P + F LGI IP L N ++ +N
Sbjct: 214 IIFTLTPCGSTKTL---EFMKWLGISIPRWLENDLMNCEDILN 253
>2fq3_A Transcription regulatory protein SWI3; four-helix bundle; 1.40A
{Saccharomyces cerevisiae} SCOP: a.4.1.18
Length = 104
Score = 26.6 bits (59), Expect = 4.8
Identities = 7/28 (25%), Positives = 11/28 (39%)
Query: 91 SLVNVYKELQEDVNFIPPTHGFLEHWGH 118
S+ + + D + H FL WG
Sbjct: 69 SVTTARRNVSGDAAALFRLHKFLTKWGL 96
>1tuv_A Protein YGIN; menadione oxidase, monooxygenase, CO-crystal with
natural product, ferredoxin fold, unknown function;
HET: VK3; 1.70A {Escherichia coli} SCOP: d.58.4.11 PDB:
1r6y_A
Length = 114
Score = 26.2 bits (57), Expect = 6.3
Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 6 IHESWKS--LLENHFQSEHMRNLKE 28
+ E W+S LE H Q+ HM+ E
Sbjct: 62 MIEQWESIAHLEAHLQTPHMKAYSE 86
>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural
genomics, structural genomics consortium, SGC,
ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo
sapiens}
Length = 249
Score = 26.0 bits (56), Expect = 7.4
Identities = 12/68 (17%), Positives = 26/68 (38%), Gaps = 1/68 (1%)
Query: 97 KELQEDVNFIPPTHG-FLEHWGHEGVLLLNAVLTVEEGRAASHRGRGWEQFTDSVIDLIS 155
L + + I T G ++H + L A+ + A +E D ++ +I
Sbjct: 156 LALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIP 215
Query: 156 NNHQNIVF 163
+ + +F
Sbjct: 216 RDRKTFLF 223
>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX,
structural genomics, helicase, alternative splicing,
ATP-binding; 1.85A {Homo sapiens} PDB: 2g9n_A*
Length = 237
Score = 25.6 bits (55), Expect = 8.4
Identities = 15/104 (14%), Positives = 32/104 (30%), Gaps = 5/104 (4%)
Query: 75 AHGLCFSVPLGIRIPPSLVNVYKELQEDVNFIPPTHGFLEHWGHEGVLLLNAVLTVEEGR 134
+ + I + K E + + T G + + L +
Sbjct: 122 GDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDE 181
Query: 135 AASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLD 178
A RG++ + ++ + Q ++ SA DVL+
Sbjct: 182 ADEMLSRGFKDQIYEIFQKLNTSIQVVLL-----SATMPTDVLE 220
>1yht_A DSPB; beta barrel, hydrolase; 2.00A {Aggregatibacter
actinomycetemcomitans} SCOP: c.1.8.6
Length = 367
Score = 25.9 bits (56), Expect = 8.7
Identities = 12/93 (12%), Positives = 27/93 (29%), Gaps = 4/93 (4%)
Query: 131 EEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHLVLKAAHP 190
++ R + + D ID+ + + + L D+
Sbjct: 129 QKDRGVKYLQGLKSRQVDDEIDITNADSITFMQSLMSEVI----DIFGDTSQHFHIGGDE 184
Query: 191 SPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQ 223
S + +K + +L++ G T W
Sbjct: 185 FGYSVESNHEFITYANKLSYFLEKKGLKTRMWN 217
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 0.138 0.436
Gapped
Lambda K H
0.267 0.0543 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,103,551
Number of extensions: 97213
Number of successful extensions: 334
Number of sequences better than 10.0: 1
Number of HSP's gapped: 305
Number of HSP's successfully gapped: 32
Length of query: 227
Length of database: 5,693,230
Length adjustment: 89
Effective length of query: 138
Effective length of database: 3,535,514
Effective search space: 487900932
Effective search space used: 487900932
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: 55 (25.4 bits)