RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780383|ref|YP_003064796.1| endonuclease III [Candidatus
Liberibacter asiaticus str. psy62]
(227 letters)
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase;
1.20A {Escherichia coli} (A:1-23,A:110-225)
Length = 139
Score = 113 bits (284), Expect = 2e-26
Identities = 29/118 (24%), Positives = 51/118 (43%), Gaps = 5/118 (4%)
Query: 111 LSHILINEFDNKIPQTLEGLTRLPGIGRKGANVILSMAFGIPTIGVDTHIFRISNRIGLA 170
S +++ +D +TL + LPG+GR A ILS++ G +D ++ R+ R
Sbjct: 6 FSAQVLDWYDKYGRKTLPEVAALPGVGRSTAGAILSLSLGKHFPILDGNVKRVLARCYAV 65
Query: 171 PGKT-----PNKVEQSLLRIIPPKHQYNAHYWLVLHGRYVCKARKPQCQSCIISNLCK 223
G NK+ ++ P + ++ G +C KP+C C + N C
Sbjct: 66 SGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSLCPLQNGCI 123
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A
{Escherichia coli} (A:23-133)
Length = 111
Score = 109 bits (275), Expect = 2e-25
Identities = 55/111 (49%), Positives = 80/111 (72%)
Query: 42 ELYYVNHFTLIVAVLLSAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGIY 101
EL + + F L++AVLLSAQ+TDV+VNKAT L+ +A+TP ML +G + ++ YI+TIG+Y
Sbjct: 1 ELNFSSPFELLIAVLLSAQATDVSVNKATAKLYPVANTPAAMLELGVEGVKTYIKTIGLY 60
Query: 102 RKKSENIISLSHILINEFDNKIPQTLEGLTRLPGIGRKGANVILSMAFGIP 152
K+ENII IL+ + + ++P+ L LPG+GRK ANV+L+ AFG P
Sbjct: 61 NSKAENIIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLNTAFGWP 111
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S]
cluster, iron-sulfur cluster, hydrolase/DNA complex;
HET: PED; 1.70A {Geobacillus stearothermophilus}
(A:28-137)
Length = 110
Score = 109 bits (273), Expect = 4e-25
Identities = 52/110 (47%), Positives = 79/110 (71%)
Query: 43 LYYVNHFTLIVAVLLSAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGIYR 102
L + N F L++AV+LSAQ TD VNK TK LFE TP +A+ ++L+ IR+IG+YR
Sbjct: 1 LVHRNPFELLIAVVLSAQCTDALVNKVTKRLFEKYRTPHDYIAVPLEELEQDIRSIGLYR 60
Query: 103 KKSENIISLSHILINEFDNKIPQTLEGLTRLPGIGRKGANVILSMAFGIP 152
K+ NI L +LI++++ ++P+ + L +LPG+GRK ANV++S+AFG+P
Sbjct: 61 NKARNIQKLCAMLIDKYNGEVPRDRDELMKLPGVGRKTANVVVSVAFGVP 110
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA
glycosylase, DNA mismatch, methylation, base twisting,
hydrolase; 2.00A {Methanothermobacterthermautotrophicus}
(A:29-139)
Length = 111
Score = 102 bits (255), Expect = 4e-23
Identities = 21/106 (19%), Positives = 56/106 (52%)
Query: 45 YVNHFTLIVAVLLSAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGIYRKK 104
+ + +++ +L ++T +V K F + +L + ++ I+ IG+ ++
Sbjct: 4 TRDPYVILITEILLRRTTAGHVKKIYDKFFVKYKCFEDILKTPKSEIAKDIKEIGLSNQR 63
Query: 105 SENIISLSHILINEFDNKIPQTLEGLTRLPGIGRKGANVILSMAFG 150
+E + L+ ++IN++ ++P+ + + LPG+G+ ++ +AFG
Sbjct: 64 AEQLKELARVVINDYGGRVPRNRKAILDLPGVGKYTCAAVMCLAFG 109
>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-,
structural genomics, PSI-2, protein structure
initiative; 2.55A {Bacillus halodurans}
(A:1-49,A:127-233)
Length = 156
Score = 102 bits (254), Expect = 5e-23
Identities = 15/107 (14%), Positives = 30/107 (28%), Gaps = 9/107 (8%)
Query: 118 EFDNKIPQTLEGLTRLPGIGRKGANVILSMAFGIPT-IGVDTHIFRISNRIGLAPGKTPN 176
+ +E LT + GIG+ A + G + V + + G+
Sbjct: 51 LEGAEATTVIEKLTAIKGIGQWTAEXFXXFSLGRLDVLSVGDVGLQRGAKWLYGNGEGDG 110
Query: 177 --KVEQSLLRIIPPK-----HQYNAHYWLVLHGRYVCKARKPQCQSC 216
+ P + + + A R + + Q C
Sbjct: 111 KKLLIYHGKAWAPYETVACLYLWKAAGTFAEEYRSLEELLHHGNQ-C 156
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A
{Escherichia coli} (A:1-22,A:134-211)
Length = 100
Score = 98.4 bits (245), Expect = 7e-22
Identities = 40/71 (56%), Positives = 54/71 (76%)
Query: 153 TIGVDTHIFRISNRIGLAPGKTPNKVEQSLLRIIPPKHQYNAHYWLVLHGRYVCKARKPQ 212
TI VDTHIFR+ NR APGK +VE+ LL+++P + + + H+WL+LHGRY C ARKP+
Sbjct: 23 TIAVDTHIFRVCNRTQFAPGKNVEQVEEKLLKVVPAEFKVDCHHWLILHGRYTCIARKPR 82
Query: 213 CQSCIISNLCK 223
C SCII +LC+
Sbjct: 83 CGSCIIEDLCE 93
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA
glycosylase, transition state analog, DNA repair; HET:
NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A*
1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A* (A:34-143)
Length = 110
Score = 98.5 bits (245), Expect = 8e-22
Identities = 18/108 (16%), Positives = 45/108 (41%), Gaps = 1/108 (0%)
Query: 45 YVNHFTLIVAVLLSAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGIYRKK 104
+ + + V+ ++ Q+ V + + T + + E ++ +G Y +
Sbjct: 3 DRDPYKVWVSEVMLQQTRVETVIPYFEQFIDRFPTLEALADADEDEVLKAWEGLGYYSRV 62
Query: 105 SENIISLSHILINEFDNKIPQTLEGLTRLPGIGRKGANVILSMAFGIP 152
++ + + K+P + +RL G+G +LS+A+G+P
Sbjct: 63 RNLHAAVKEV-KTRYGGKVPDDPDEFSRLKGVGPYTVGAVLSLAYGVP 109
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA
glycosylase, DNA mismatch, methylation, base twisting,
hydrolase; 2.00A {Methanothermobacterthermautotrophicus}
(A:1-28,A:140-221)
Length = 110
Score = 96.6 bits (240), Expect = 3e-21
Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 4/76 (5%)
Query: 152 PTIGVDTHIFRISNRIGLAPGKTPNKVEQSL----LRIIPPKHQYNAHYWLVLHGRYVCK 207
P VD + R+ NR + N ++L ++P + + L+ +C
Sbjct: 28 PAAMVDANFVRVINRYFGGSYENLNYNHKALWELAETLVPGGKCRDFNLGLMDFSAIICA 87
Query: 208 ARKPQCQSCIISNLCK 223
RKP+C+ C +S LC
Sbjct: 88 PRKPKCEKCGMSKLCS 103
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S]
cluster, iron-sulfur cluster, hydrolase/DNA complex;
HET: PED; 1.70A {Geobacillus stearothermophilus}
(A:1-27,A:138-226)
Length = 116
Score = 96.2 bits (239), Expect = 3e-21
Identities = 30/76 (39%), Positives = 48/76 (63%), Gaps = 1/76 (1%)
Query: 153 TIGVDTHIFRISNRIGLAPGK-TPNKVEQSLLRIIPPKHQYNAHYWLVLHGRYVCKARKP 211
I VDTH+ R+S R+G + +VE++L++IIP + H+ ++ GRY CKA+ P
Sbjct: 28 AIAVDTHVERVSKRLGFCRWDDSVLEVEKTLMKIIPKEEWSITHHRMIFFGRYHCKAQSP 87
Query: 212 QCQSCIISNLCKRIKQ 227
QC SC + +LC+ K+
Sbjct: 88 QCPSCPLLHLCREGKK 103
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA
glycosylase, transition state analog, DNA repair; HET:
NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A*
1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A* (A:1-33,A:144-218)
Length = 108
Score = 95.4 bits (237), Expect = 5e-21
Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 5/78 (6%)
Query: 151 IPTIGVDTHIFRISNRIG-----LAPGKTPNKVEQSLLRIIPPKHQYNAHYWLVLHGRYV 205
+P VD ++ R+ +R+ +A T + EQ + I+ ++ + L+ G V
Sbjct: 31 LPWPAVDGNVMRVLSRLFLVTDDIAKPSTRKRFEQIVREIMAYENPGAFNEALIELGALV 90
Query: 206 CKARKPQCQSCIISNLCK 223
C R+P C C + C+
Sbjct: 91 CTPRRPSCLLCPVQAYCQ 108
>1ngn_A Methyl-CPG binding protein MBD4; mismacth repair in
methylated DNA, DNA binding protein; 2.10A {Mus
musculus} (A:1-129)
Length = 129
Score = 94.7 bits (235), Expect = 9e-21
Identities = 16/116 (13%), Positives = 42/116 (36%), Gaps = 7/116 (6%)
Query: 37 PSPKGELYYVNHFTLIVAVLLSAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIR 96
+ E+ + + + L++A + +++ E + + A + + ++
Sbjct: 20 FNLVQEILFHDPWKLLIATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLK 79
Query: 97 TIGIYRKKSENIISLSHILINEFDNKIPQTLEGLTRLPGIGRKGANVILSMAFGIP 152
+G+Y +++ II S D + + L GIG+ G +
Sbjct: 80 PLGLYDLRAKTIIKFS-------DEYLTKQWRYPIELHGIGKYGNDSYRIFCVNEW 128
>1pu6_A 3-methyladenine DNA glycosylase; helix-hairpin-helix, base
excision repair, hydrolase; HET: KCX; 1.64A
{Helicobacter pylori} (A:23-145)
Length = 123
Score = 93.5 bits (232), Expect = 2e-20
Identities = 28/115 (24%), Positives = 50/115 (43%), Gaps = 11/115 (9%)
Query: 49 FTLIVAVLLSAQSTDVNVNKATKHLFE-------IADTPQKMLAIGEKKLQNYIRTIGIY 101
F ++ +L+ + V K+ ++L +K+ I KL +R G Y
Sbjct: 9 FEALLGAVLTQNTKFEAVLKSLENLKNAFILENDDEINLKKIAYIEFSKLAECVRPSGFY 68
Query: 102 RKKSENIISLSHILINEFDN----KIPQTLEGLTRLPGIGRKGANVILSMAFGIP 152
+K++ +I LS ++ +F + K T E L GIG++ A+ IL A
Sbjct: 69 NQKAKRLIDLSGNILKDFQSFENFKQEVTREWLLDQKGIGKESADAILCYACAKE 123
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase;
1.20A {Escherichia coli} (A:24-109)
Length = 86
Score = 87.5 bits (217), Expect = 1e-18
Identities = 10/84 (11%), Positives = 29/84 (34%), Gaps = 1/84 (1%)
Query: 45 YVNHFTLIVAVLLSAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGIYRKK 104
+ + ++ ++ Q+ V + T + ++ + +G Y +
Sbjct: 4 DKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLGYYA-R 62
Query: 105 SENIISLSHILINEFDNKIPQTLE 128
+ N+ + + K P+T E
Sbjct: 63 ARNLHKAAQQVATLHGGKFPETFE 86
>1m3q_A 8-oxoguanine DNA glycosylase; DNA repair, END product, HOGG,
8-aminoguanine, RE-ligation, hydrolase/DNA complex; HET:
DRZ ANG; 1.90A {Homo sapiens} (A:123-255)
Length = 133
Score = 85.9 bits (212), Expect = 4e-18
Identities = 16/131 (12%), Positives = 36/131 (27%), Gaps = 21/131 (16%)
Query: 43 LYYVNHFTLIVAVLLSAQSTDVNVNKATKHLFEIADTPQKMLAIGE-----------KKL 91
L + + + + S+ + + + L + L
Sbjct: 2 LLRQDPIECLFSFICSSNNNIARITGMVERLCQAFGPRLIQLDDVTYHGFPSLQALAGPE 61
Query: 92 QNYIRTIGIYRKKSENIISLSHILINEFDNKIP----------QTLEGLTRLPGIGRKGA 141
++ + + + ++ E + + L LPG+G K A
Sbjct: 62 VEAHLRKLGLGYRARYVSASARAILEEQGGLAWLQQLRESSYEEAHKALCILPGVGTKVA 121
Query: 142 NVILSMAFGIP 152
+ I MA P
Sbjct: 122 DCICLMALDKP 132
>1mpg_A ALKA, 3-methyladenine DNA glycosylase II; DNA repair, base
excision, methylation, hydrolase; 1.80A {Escherichia
coli} (A:105-231)
Length = 127
Score = 85.4 bits (211), Expect = 5e-18
Identities = 20/120 (16%), Positives = 40/120 (33%), Gaps = 14/120 (11%)
Query: 45 YVNHFTLIVAVLLSAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKL---------QNYI 95
V+ F V +L + K T + ++ +
Sbjct: 6 CVDAFEQGVRAILGQLVSVAMAAKLTARVAQLYGERLDDFPEYICFPTPQRLAAADPQAL 65
Query: 96 RTIGIYRKKSENIISLSHILIN-----EFDNKIPQTLEGLTRLPGIGRKGANVILSMAFG 150
+ +G+ K++E +I L++ + + Q ++ L PGIGR AN +
Sbjct: 66 KALGMPLKRAEALIHLANAALEGTLPMTIPGDVEQAMKTLQTFPGIGRWTANYFALRGWQ 125
>3fhf_A Mjogg, N-glycosylase/DNA lyase, DNA-; helix-hairpin-helix,
8-oxoguanine, 8-OXOG, DNA damage, DNA repair,
glycosidase, hydrolase; 2.00A {Methanocaldococcus
jannaschii} (A:38-150)
Length = 113
Score = 80.6 bits (199), Expect = 1e-16
Identities = 19/114 (16%), Positives = 44/114 (38%), Gaps = 14/114 (12%)
Query: 45 YVNHFTLIVAVLLSAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGI--YR 102
F + +L+A T + K + + L + ++L+ ++ +G YR
Sbjct: 4 NEEWFKELCFCILTANFTAEGGIRIQKEIGD------GFLTLPREELEEKLKNLGHRFYR 57
Query: 103 KKSENIISLSHILINEFDNKIPQT-----LEGLTRLPGIGRKGANVIL-SMAFG 150
K++E I+ + + + + + GIG K A+ L ++ +
Sbjct: 58 KRAEYIVLARRFKNIKDIVESFENEKVAREFLVRNIKGIGYKEASHFLRNVGYD 111
>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-,
structural genomics, PSI-2, protein structure
initiative; 2.55A {Bacillus halodurans} (A:50-126)
Length = 77
Score = 74.7 bits (184), Expect = 1e-14
Identities = 9/78 (11%), Positives = 28/78 (35%), Gaps = 3/78 (3%)
Query: 49 FTLIVAVLLSAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGIYRKKSENI 108
F +V+ ++ Q + + + ++ + + +R G+ ++K E I
Sbjct: 3 FQSLVSSIVEQQLSIKAASAIYGRVEQLVGGALEKPEQLYRVSDEALRQAGVSKRKIEYI 62
Query: 109 ISLSHILINEFDNKIPQT 126
+ + ++ T
Sbjct: 63 RHVCEHVE---SGRLDFT 77
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase,
translation termination, ATP-binding, cytoplasm,
hydrolase, membrane; 2.80A {Schizosaccharomyces pombe}
(A:1-326)
Length = 326
Score = 33.2 bits (75), Expect = 0.026
Identities = 15/97 (15%), Positives = 25/97 (25%), Gaps = 9/97 (9%)
Query: 123 IPQTLEGLTR-LPGIGRKGANVILSMAFGIPTIGVDTHIFRISNRIGLAPGKTPNKVEQS 181
+P L R + G + G AF + + I LAP + Q
Sbjct: 150 LPLLLSNPPRNMIGQSQSGTGKTA--AFALTMLSRVDASVPKPQAICLAP--SRELARQ- 204
Query: 182 LLRIIPPKHQYNAHYWLVLHGRYVCKARKPQCQSCII 218
I+ + + + K I
Sbjct: 205 ---IMDVVTEMGKYTEVKTAFGIKDSVPKGAKIDAQI 238
>3i0w_A 8-oxoguanine-DNA-glycosylase; OGG, cacogg, DNA, 8-OXOG,
8OXOG, glycosylase, cytosine, hydrolase,lyase/DNA
complex; HET: 8OG; 1.73A {Clostridium acetobutylicum}
PDB: 3i0x_A* 3f10_A* 3f0z_A (A:111-127,A:196-236)
Length = 58
Score = 33.1 bits (76), Expect = 0.033
Identities = 5/24 (20%), Positives = 12/24 (50%)
Query: 130 LTRLPGIGRKGANVILSMAFGIPT 153
L + G+G + A+ I+ + +
Sbjct: 35 LKKFMGVGPQVADCIMLFSMQKYS 58
>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop,
transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces
cerevisiae} PDB: 3bjy_A* (A:240-306)
Length = 67
Score = 30.0 bits (68), Expect = 0.31
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 130 LTRLPGIGRKGANVILSMAFGIPTIG 155
L LPG+G + + S ++
Sbjct: 4 LDDLPGVGHSTLSRLESTFDSPHSLN 29
>2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix,
tumour suppressor, DNA damage, DNA recombination, DNA
repair, hydrolase, magnesium; NMR {Mus musculus} (A:)
Length = 87
Score = 29.3 bits (66), Expect = 0.40
Identities = 7/87 (8%), Positives = 22/87 (25%), Gaps = 18/87 (20%)
Query: 58 SAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGIYRKKSENIISLSHILIN 117
S + V N + + ++ ++K ++ L
Sbjct: 6 SVRPLPVCPNP------LFVRWLTEWRDEAASRGRHTRFV---FQKALRSLQRYPLPL-- 54
Query: 118 EFDNKIPQTLEGLTRLPGIGRKGANVI 144
++ + L G + ++
Sbjct: 55 -------RSGKEAKILQHFGDRLCRML 74
>1a59_A Citrate synthase; cold-activity; HET: COA CIT; 2.09A
{Antarctic bacterium ds2-3r} (A:)
Length = 378
Score = 29.1 bits (64), Expect = 0.50
Identities = 18/132 (13%), Positives = 44/132 (33%), Gaps = 8/132 (6%)
Query: 63 DVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGIYRKKSENIISLSHILINEFDNK 122
D ++ + + +K++ G + +N + + + ++ + +
Sbjct: 244 DEAATRSKAWMVDALAQKKKVMGFGHRVYKNGDSRVPTMKSALD------AMIKHYDRPE 297
Query: 123 IPQTLEGLTRLPGIGRKG-ANVILSMAFGIPTIGVDTHIFRISNRIGLAPGKTPNKVEQS 181
+ GL ++ N+ +G DT +F G T + +EQ
Sbjct: 298 MLGLYNGLEAAMEEAKQIKPNLDYPAGPTYNLMGFDTEMFTPLFIAARITGWTAHIMEQV 357
Query: 182 L-LRIIPPKHQY 192
+I P +Y
Sbjct: 358 ADNALIRPLSEY 369
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA
replication; 2.46A {Deinococcus radiodurans} (A:1-118)
Length = 118
Score = 28.6 bits (64), Expect = 0.65
Identities = 8/70 (11%), Positives = 23/70 (32%), Gaps = 8/70 (11%)
Query: 75 EIADTPQKMLAIGEKKLQNYIRTIGIYRKKSENIISLSHILINEFDNKIPQTLEGLTRLP 134
+ ++ + + ++ YR + ++ L+ E T +P
Sbjct: 12 RLVHALERTADLLDILGGEDFKSRA-YRSAARSLEELNE-ETPELL------AREFTGIP 63
Query: 135 GIGRKGANVI 144
+G+ A +
Sbjct: 64 KVGKGIAAEL 73
Score = 26.3 bits (58), Expect = 3.4
Identities = 8/57 (14%), Positives = 19/57 (33%), Gaps = 6/57 (10%)
Query: 99 GIYRKKSENIISL----SHILINEFDNKIPQTLEGLTRLPGIGRKGANVILSMAFGI 151
+ + + + + + ++P L L + G+G K + GI
Sbjct: 64 KVGKGIAAELSDFARSGTFAPLEAAAGQLPPGLLDLLGVRGLGPKKIRSLWLA--GI 118
>2fmp_A DNA polymerase beta; nucleotidyl transferase,
transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo
sapiens} (A:1-119)
Length = 119
Score = 27.9 bits (62), Expect = 1.2
Identities = 16/84 (19%), Positives = 28/84 (33%), Gaps = 16/84 (19%)
Query: 61 STDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGIYRKKSENIISLSHILINEFD 120
+ +N I D ++ + Q + YRK + I H +
Sbjct: 6 APQETLNG------GITDMLTELANFEKNVSQAIHKYNA-YRKAASVIAKYPHKI----- 53
Query: 121 NKIPQTLEGLTRLPGIGRKGANVI 144
++ +LPG+G K A I
Sbjct: 54 ----KSGAEAKKLPGVGTKIAEKI 73
>1m3q_A 8-oxoguanine DNA glycosylase; DNA repair, END product, HOGG,
8-aminoguanine, RE-ligation, hydrolase/DNA complex; HET:
DRZ ANG; 1.90A {Homo sapiens} (A:96-122,A:256-317)
Length = 89
Score = 27.5 bits (61), Expect = 1.6
Identities = 7/34 (20%), Positives = 13/34 (38%), Gaps = 5/34 (14%)
Query: 156 VDTHIFRISNR-----IGLAPGKTPNKVEQSLLR 184
V+ H++ I+ R + K P+ L
Sbjct: 31 VEVHMWHIAQRDYSWHPTTSQAKGPSPQTNKELG 64
>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine
ladder, asparagine ladder, virulence factor, solenoid,
cell WALL; 2.70A {Listeria monocytogenes} (A:)
Length = 457
Score = 26.5 bits (56), Expect = 2.8
Identities = 1/27 (3%), Positives = 5/27 (18%), Gaps = 3/27 (11%)
Query: 107 NIISLSHILINEFDNKIPQTLEGLTRL 133
+ + + E +
Sbjct: 433 YTFTSEN---GAIVGTVTTPFEAPQPI 456
>3i0w_A 8-oxoguanine-DNA-glycosylase; OGG, cacogg, DNA, 8-OXOG,
8OXOG, glycosylase, cytosine, hydrolase,lyase/DNA
complex; HET: 8OG; 1.73A {Clostridium acetobutylicum}
PDB: 3i0x_A* 3f10_A* 3f0z_A (A:81-110,A:237-290)
Length = 84
Score = 26.6 bits (59), Expect = 3.0
Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 4/46 (8%)
Query: 156 VDTHIFRISNRIGLAPGKTPNKVEQSLLRIIPP----KHQYNAHYW 197
VDT + + + +AP + K+ QY +Y
Sbjct: 34 VDTWVKKAMMSLYVAPDVSLKKIRDFGREKFGSLSGFAQQYLFYYA 79
>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc
finger, toprim, walker B ATP binding motif; 2.50A
{Deinococcus radiodurans} (A:1-66)
Length = 66
Score = 26.6 bits (59), Expect = 3.2
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 119 FDNKIPQTLEGLTRLPGIGRKGA 141
+ + + L+RLPGIG K A
Sbjct: 3 YPPSLVSLIRELSRLPGIGPKSA 25
>2jhn_A ALKA, 3-methyladenine DNA-glycosylase; DNA repair,
N1-methyladenine, N3-methylcytosine, hyperthermophiles,
hydrolase; HET: MBO MES; 1.8A {Archaeoglobus fulgidus}
PDB: 2jhj_A (A:112-130,A:199-234)
Length = 55
Score = 26.3 bits (58), Expect = 3.6
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 130 LTRLPGIGRKGANVILSMAFG 150
LT GIGR A ++LS+A G
Sbjct: 33 LTSFKGIGRWTAELVLSIALG 53
>2bcq_A DNA polymerase lambda; misalignment, extrahelical,
mutagenesis, mutation, deletion, streisinger, slippage,
transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo
sapiens} (A:1-128)
Length = 128
Score = 26.3 bits (58), Expect = 4.0
Identities = 14/78 (17%), Positives = 26/78 (33%), Gaps = 13/78 (16%)
Query: 68 KATKHLFEIADTPQKMLAIGEKKLQNY-IRTIGIYRKKSENIISLSHILINEFDNKIPQT 126
KAT H I + + + + + Y K + S + +
Sbjct: 8 KATNHNLHITEKLEVLAKAYSVQGDKWRALG---YAKAINALKSFHKPV---------TS 55
Query: 127 LEGLTRLPGIGRKGANVI 144
+ +PGIG++ A I
Sbjct: 56 YQEACSIPGIGKRMAEKI 73
>2jk8_A BEPA, putative cell filamentation protein (BEPA protein);
T4SS, OB fold, FIC domain, substrate protein, protein
translocation; 2.8A {Bartonella henselae} PDB: 2vy3_A
2vza_A* (A:186-302)
Length = 117
Score = 26.0 bits (57), Expect = 4.2
Identities = 12/71 (16%), Positives = 20/71 (28%), Gaps = 17/71 (23%)
Query: 58 SAQSTDVNVNKATKHLFEIADTPQKMLAI----------GEKKLQNYIRTI-------GI 100
S + + +HLFE P+K+ + G + G
Sbjct: 13 SVAVAENGDLEPMQHLFEDISNPEKIRLLKEFMHTMKNTGRNVNDRPVMVAKEGETYTGT 72
Query: 101 YRKKSENIISL 111
YR +L
Sbjct: 73 YRGAGLEGFAL 83
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA;
heptameric ring, heptamer, ring, oligomer, RAD51
polymerization motif; HET: DNA; 2.85A {Pyrococcus
furiosus} (A:1-95)
Length = 95
Score = 25.9 bits (57), Expect = 4.4
Identities = 10/82 (12%), Positives = 23/82 (28%), Gaps = 14/82 (17%)
Query: 77 ADTPQKMLAIGEKKLQNYIRTIGIYRKKSENIISLSHI--------------LINEFDNK 122
+ +++ E + +KK + I S+ + + +
Sbjct: 3 GEEVKEIDEFEELGFEPATEETPKKKKKEKIIRSIEDLPGVGPATAEKLREAGYDTLEAI 62
Query: 123 IPQTLEGLTRLPGIGRKGANVI 144
+ L + GI A I
Sbjct: 63 AVASPIELKEVAGISEGTALKI 84
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric
complex, octameric RUVA, AAA-ATPase domain, complex with
nucleotide, hydrolase; HET: ANP; 3.30A {Thermus
thermophilus} (A:)
Length = 191
Score = 26.1 bits (57), Expect = 4.7
Identities = 11/54 (20%), Positives = 20/54 (37%), Gaps = 3/54 (5%)
Query: 93 NYIRTIGIYRKKSENIISLSHILINEFDNKIPQ-TLEGLTRLPGIGRKGANVIL 145
+ G+ K + + LS + + + LT G+GR+ A I
Sbjct: 73 LLLSVSGVGPKVALAL--LSALPPRLLARALLEGDARLLTSASGVGRRLAERIA 124
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA
recombination, helicase; 1.90A {Escherichia coli}
(A:66-144)
Length = 79
Score = 25.7 bits (57), Expect = 4.8
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 130 LTRLPGIGRKGANVIL 145
L +LPGIG+K A ++
Sbjct: 45 LVKLPGIGKKTAERLI 60
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA;
recombination, branch migration, DNA binding,
oligomerization, acidic PIN; 2.40A {Mycobacterium
tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A
(A:80-154)
Length = 75
Score = 25.7 bits (57), Expect = 5.0
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 130 LTRLPGIGRKGANVIL 145
LTR+PGIG++GA ++
Sbjct: 46 LTRVPGIGKRGAERMV 61
>2ysg_A Syntaxin-binding protein 4; synip, STXBP4, WW domain,
structural genomics, NPPSFA, national project on
protein structural and functional analyses; NMR {Homo
sapiens} (A:)
Length = 40
Score = 25.8 bits (57), Expect = 5.1
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 10/39 (25%)
Query: 12 GNSPLGCLYTPKELEEIFYLFSLKWPSPKGELYYVNHFT 50
G+S L P EE + + G Y++NH T
Sbjct: 1 GSSGSSGL--PYGWEEAY--------TADGIKYFINHVT 29
>1o6v_A Internalin A; bacterial infection, extracellular
recognition, cell WALL attached, leucine rich repeat;
1.5A {Listeria monocytogenes} (A:46-466)
Length = 421
Score = 25.6 bits (54), Expect = 5.2
Identities = 5/28 (17%), Positives = 10/28 (35%), Gaps = 3/28 (10%)
Query: 106 ENIISLSHILINEFDNKIPQTLEGLTRL 133
+ + +L + K +E L L
Sbjct: 1 DQVTTLQA---DRLGIKSIDGVEYLNNL 25
>2jxw_A WW domain-binding protein 4; WW domain containing protein,
FBP21, WBP4, metal- binding, mRNA processing, mRNA
splicing, nucleus, polymorphism; NMR {Homo sapiens}
(A:39-75)
Length = 37
Score = 25.8 bits (57), Expect = 5.8
Identities = 6/13 (46%), Positives = 6/13 (46%)
Query: 38 SPKGELYYVNHFT 50
S G YY N T
Sbjct: 15 SEDGFTYYYNTET 27
>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis,
oxygen-evolving, tetra- manganese, membrane; HET: CL1
PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus
elongatus} (U:48-134)
Length = 87
Score = 25.4 bits (56), Expect = 5.8
Identities = 10/82 (12%), Positives = 26/82 (31%), Gaps = 30/82 (36%)
Query: 58 SAQSTDVNVNKATKHLFEIADTPQKMLAIGEKKLQNYIRTIGIYRKKSENIISLSHILIN 117
+A +++N F + G+Y ++ I+
Sbjct: 2 TAYGEKIDLNNTNIAAFI--------------------QYRGLYPTLAKLIV-------- 33
Query: 118 EFDNKIPQTLEGLTRLPGIGRK 139
N +++E + +PG+ +
Sbjct: 34 --KNAPYESVEDVLNIPGLTER 53
>2ysb_A Salvador homolog 1 protein; WW domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Mus musculus}
(A:)
Length = 49
Score = 25.5 bits (56), Expect = 6.0
Identities = 5/13 (38%), Positives = 9/13 (69%)
Query: 38 SPKGELYYVNHFT 50
+ +G YY++H T
Sbjct: 21 TMRGRKYYIDHNT 33
>1ymz_A CC45; artificial protein, computational design, unknown
function; NMR {Synthetic} (A:)
Length = 43
Score = 25.5 bits (56), Expect = 6.6
Identities = 5/13 (38%), Positives = 8/13 (61%)
Query: 38 SPKGELYYVNHFT 50
+G++YY N T
Sbjct: 18 DVEGKVYYFNVRT 30
>1i5h_W Rnedd4, ubiquitin ligase NEDD4; NEDD4, WW domains, ENAC,
PY motif, liddle syndrome, proline-rich, ligase; NMR
{Rattus norvegicus} (W:)
Length = 50
Score = 25.5 bits (56), Expect = 6.7
Identities = 3/13 (23%), Positives = 7/13 (53%)
Query: 38 SPKGELYYVNHFT 50
G ++++NH
Sbjct: 21 HTDGRVFFINHNI 33
>1ybe_A Naprtase, nicotinate phosphoribosyltransferase; structural
genomics, protein structure initiative, NYSGXRC, PSI;
2.50A {Agrobacterium tumefaciens} (A:1-50,A:167-381)
Length = 265
Score = 25.3 bits (55), Expect = 7.0
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 141 ANVILSMAFGIPTIGVDTHIF 161
+NV+L+M + +G + H
Sbjct: 115 SNVLLAMDSDLEAVGTNAHEL 135
>1so7_A Sialidase 2; neuraminidase, ganglioside, sugar-induced form,
hydrolase; 1.49A {Homo sapiens} (A:1-79,A:271-382)
Length = 191
Score = 25.3 bits (55), Expect = 7.3
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 7 SDSYQGNSPLGCLYTPKELEEI-FYLFSLKW 36
G+ GCLY + EEI F +F+LK
Sbjct: 152 GTGPDGSPLFGCLYEANDYEEIVFLMFTLKQ 182
>1ywi_A Formin-binding protein 3; WW domain, class II,
proline-rich peptides, protein-protein interactions,
structural protein; NMR {Homo sapiens} (A:)
Length = 41
Score = 25.4 bits (56), Expect = 7.4
Identities = 7/13 (53%), Positives = 7/13 (53%)
Query: 38 SPKGELYYVNHFT 50
SP G YY N T
Sbjct: 19 SPDGRTYYYNTET 31
>1wr3_A Ubiquitin-protein ligase NEDD4-2; all-beta; NMR {Mus
musculus} (A:)
Length = 36
Score = 25.4 bits (56), Expect = 7.6
Identities = 6/13 (46%), Positives = 6/13 (46%)
Query: 38 SPKGELYYVNHFT 50
G YYVNH
Sbjct: 14 DNLGRTYYVNHNN 26
>1jmq_A YAP65, 65 kDa YES-associated protein; polyproline ligand,
YAP65 mutant, structural protein; NMR {Homo sapiens}
(A:)
Length = 46
Score = 25.1 bits (55), Expect = 7.7
Identities = 4/13 (30%), Positives = 7/13 (53%)
Query: 38 SPKGELYYVNHFT 50
+ G+ Y+ NH
Sbjct: 18 TSSGQRYFKNHID 30
>2ysi_A Transcription elongation regulator 1; Ca150, FBP28, WW
domain, structural genomics, NPPSFA; NMR {Mus musculus}
(A:)
Length = 40
Score = 25.0 bits (55), Expect = 8.7
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 38 SPKGELYYVNHFT 50
+P G++YY N T
Sbjct: 17 TPDGKVYYYNART 29
>1wr4_A Ubiquitin-protein ligase NEDD4-2; all-beta; NMR {Mus
musculus} (A:)
Length = 36
Score = 25.0 bits (55), Expect = 9.0
Identities = 7/13 (53%), Positives = 7/13 (53%)
Query: 38 SPKGELYYVNHFT 50
KG YYVNH
Sbjct: 14 DAKGRTYYVNHNN 26
>2djy_A SMAD ubiquitination regulatory factor 2; beta sheet,
polyproline type II helix, PPII, ligase/signaling
protein complex; NMR {Homo sapiens} (A:)
Length = 42
Score = 25.1 bits (55), Expect = 9.0
Identities = 4/13 (30%), Positives = 8/13 (61%)
Query: 38 SPKGELYYVNHFT 50
+ G +Y+V+H
Sbjct: 17 TATGRVYFVDHNN 29
>1tk7_A CG4244-PB; WW domain, notch, signaling protein; NMR
{Drosophila melanogaster} (A:51-88)
Length = 38
Score = 25.0 bits (55), Expect = 9.3
Identities = 5/13 (38%), Positives = 9/13 (69%)
Query: 38 SPKGELYYVNHFT 50
+ GE ++V+H T
Sbjct: 16 TAAGERFFVDHNT 28
>1wr7_A NEDD4-2; all-beta, ligase; NMR {Mus musculus} (A:)
Length = 41
Score = 25.0 bits (55), Expect = 9.9
Identities = 4/13 (30%), Positives = 9/13 (69%)
Query: 38 SPKGELYYVNHFT 50
+P G ++++H T
Sbjct: 18 APNGRPFFIDHNT 30
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.321 0.138 0.411
Gapped
Lambda K H
0.267 0.0700 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,669,515
Number of extensions: 73522
Number of successful extensions: 317
Number of sequences better than 10.0: 1
Number of HSP's gapped: 304
Number of HSP's successfully gapped: 67
Length of query: 227
Length of database: 4,956,049
Length adjustment: 85
Effective length of query: 142
Effective length of database: 2,082,624
Effective search space: 295732608
Effective search space used: 295732608
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 (21.8 bits)
S2: 53 (24.3 bits)