RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780288|ref|YP_003064701.1| exodeoxyribonuclease III
protein [Candidatus Liberibacter asiaticus str. psy62]
(281 letters)
>1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A
{Escherichia coli} (A:)
Length = 268
Score = 170 bits (430), Expect = 2e-43
Identities = 80/265 (30%), Positives = 122/265 (46%), Gaps = 8/265 (3%)
Query: 5 TVATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCGQKS 64
++N+N +RAR H L A ++++ PD+I LQETK D FP E + L Y++ GQK
Sbjct: 2 KFVSFNINGLRARPHQLEAIVEKHQPDVIGLQETKVHDDMFPLEEVAKLGYNVFYHGQKG 61
Query: 65 YNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPIT-STK 123
+ GVA+L+K PI + PGDD + Q R I A + + N Y P G K
Sbjct: 62 HYGVALLTKETPIAVRRGFPGDDEEAQRRIIMAEIPSLLGNVTVINGYFPQGESRDHPIK 121
Query: 124 YDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEV---- 179
+ K + + + L+ + P++ GD NI P D T +
Sbjct: 122 FPAKAQFYQNLQNYLETELKRDNPVLIMGDMNISPTDLDIGIGEENRKRWLRTGKCSFLP 181
Query: 180 --RQSFQKLQNMGFTDAIRA-THDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLL 236
R+ +L + G D R T +S++DY + + N+G+RID ++ S
Sbjct: 182 EEREWMDRLMSWGLVDTFRHANPQTADRFSWFDYRSKGFDDNRGLRIDLLLASQPLAECC 241
Query: 237 HSARIDTKPRGWTKPSDHTPVIVSL 261
ID + R KPSDH PV +
Sbjct: 242 VETGIDYEIRSMEKPSDHAPVWATF 266
>2jc4_A Exodeoxyribonuclease III; hydrolase, repair
phosphodiesterase, DNA repair, exonuclease,
endonuclease; HET: 1PE; 1.90A {Neisseria meningitidis}
(A:)
Length = 256
Score = 156 bits (395), Expect = 2e-39
Identities = 91/258 (35%), Positives = 133/258 (51%), Gaps = 4/258 (1%)
Query: 5 TVATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCGQKS 64
+ TWNVNS+ R+ + + +N PDI+ LQE K + FP LQ + +H GQK+
Sbjct: 2 KITTWNVNSLNVRLPQVQNLLADNPPDILVLQELKLDQDKFPAAALQMMGWHCVWSGQKT 61
Query: 65 YNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITSTKY 124
YNGVAI+S+ P ++ LP D Q R I AT + R+ N+Y +G + S K+
Sbjct: 62 YNGVAIVSRSVPQDVHFGLPALPDDPQRRVIAATVSGV----RVINVYCVNGEALDSPKF 117
Query: 125 DDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQSFQ 184
K W F + L+ GD+NI P DCY+P W + RQ FQ
Sbjct: 118 KYKEQWFAALTEFVRDEMTRHGKLVLLGDFNIAPADADCYDPEKWHEKIHCSSVERQWFQ 177
Query: 185 KLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARIDTK 244
L ++G TD++R H Y+++DY + + G+RIDHI++SP + L R+D +
Sbjct: 178 NLLDLGLTDSLRQVHPEGAFYTWFDYRGAMFQRKLGLRIDHILVSPAMAAALKDVRVDLE 237
Query: 245 PRGWTKPSDHTPVIVSLD 262
R +PSDH PV D
Sbjct: 238 TRALERPSDHAPVTAEFD 255
>2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP
endonuclease, lyase; 1.7A {Archaeoglobus fulgidus} (A:)
Length = 257
Score = 156 bits (394), Expect = 3e-39
Identities = 86/262 (32%), Positives = 139/262 (53%), Gaps = 6/262 (2%)
Query: 3 VVTVATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCGQ 62
++ +AT+NVNSIR+R+H + W+KEN PDI+C+QETK E++ FP + YH+ G
Sbjct: 1 MLKIATFNVNSIRSRLHIVIPWLKENKPDILCMQETKVENRKFPEADFHRIGYHVVFSGS 60
Query: 63 KSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITST 122
K NGVAI S +P ++ L + D I+ + N Y+P G I S
Sbjct: 61 KGRNGVAIASLEEPEDVSFGLDSEPKDEDRLIRAKIAGID-----VINTYVPQGFKIDSE 115
Query: 123 KYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQS 182
KY K+ W++R + + ++ ++ GD N+ P+P D ++P +N F + R++
Sbjct: 116 KYQYKLQWLERLYHYLQKTVDFRSFAVWCGDMNVAPEPIDVHSPDKLKNHVXFHEDARRA 175
Query: 183 FQKLQNMGFTDAIRATHDTHHLYSFWDYYA-DSWSKNKGIRIDHIMLSPEATSLLHSARI 241
++K+ +GF D +R H +Y+F+DY + + G R D I+ +P
Sbjct: 176 YKKILELGFVDVLRKIHPNERIYTFYDYRVKGAIERGLGWRGDAILATPPLAERCVDCYA 235
Query: 242 DTKPRGWTKPSDHTPVIVSLDI 263
D KPR KPSDH P++ D+
Sbjct: 236 DIKPRLAEKPSDHLPLVAVFDV 257
>1hd7_A DNA-(apurinic or apyrimidinic site) lyase; DNA repair,
endonuclease, APE1, HAP1, REF-1; 1.95A {Homo sapiens}
(A:)
Length = 318
Score = 154 bits (388), Expect = 2e-38
Identities = 75/267 (28%), Positives = 130/267 (48%), Gaps = 17/267 (6%)
Query: 4 VTVATWNVNSIRARI-HNLAAWIKENNPDIICLQETKTEDKNFPFETLQSL----NYHIE 58
+ + +WNV+ +RA I W+KE PDI+CLQETK + P E + Y
Sbjct: 62 LKICSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQYWSA 121
Query: 59 TCGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNP 118
++ Y+GV +LS+ P+++ + ++ D + R I A F + + Y+P+
Sbjct: 122 PSDKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEF----DSFVLVTAYVPNAGR 177
Query: 119 ITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLE 178
+ + + W + F +F + L +PL+ GD N+ + D NP + +A FT +
Sbjct: 178 -GLVRLEYRQRWDEAFRKFL-KGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQ 235
Query: 179 VRQSFQKLQNM-GFTDAIRATH-DTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLL 236
RQ F +L D+ R + +T + Y+FW Y ++ SKN G R+D+ +LS L
Sbjct: 236 ERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPAL 295
Query: 237 HSARIDTKPRGWTKPSDHTPVIVSLDI 263
++I + SDH P+ + L +
Sbjct: 296 CDSKIRS----KALGSDHCPITLYLAL 318
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A
{Leishmania major} (A:1-134,A:233-439)
Length = 341
Score = 149 bits (376), Expect = 5e-37
Identities = 33/202 (16%), Positives = 66/202 (32%), Gaps = 31/202 (15%)
Query: 61 GQKSYNGVAILSKYQPIEIVTHLPG--DDLDVQARFIEATFTINT------QTLRIGNLY 112
+ G A+ S+ Q D + R + + + + + N Y
Sbjct: 139 HARCTRGFALPSEPQADAAAGSRVLVEGAGDEEGRVLTTFLSPDPDSASSSSRIALVNTY 198
Query: 113 LPHGNPITSTKYDDKISWIKRFLRFASQRLEL------------------EEPLIFAGDY 154
+ + + S+ + + I+AGD
Sbjct: 199 VANSGMGLTRLPYRVQSFDPSMREYLHRLDTWATENAAVPSAAAMGSGSSPHGFIWAGDL 258
Query: 155 NIIPQPHDCYNPIIWEN---DACFTLEVRQSFQK-LQNMGFTDAIRA-THDTHHLYSFWD 209
N+ + +D Y +++ + F E R SF++ +Q D R +YSFW
Sbjct: 259 NVAERDYDRYYAGTFKSMQECSGFAPEERMSFRETMQRTNSVDIFRQLYPQAGPVYSFWS 318
Query: 210 YYADSWSKNKGIRIDHIMLSPE 231
+ +N G R+D+ ++S
Sbjct: 319 QRINGRPRNLGWRLDYFVVSSR 340
>2o3h_A DNA-(apurinic or apyrimidinic site) lyase; APE,
endonuclease; 1.90A {Homo sapiens} PDB: 1bix_A 1dew_A*
1de8_B* 1de9_A* 2o3c_A (A:)
Length = 285
Score = 144 bits (362), Expect = 2e-35
Identities = 75/267 (28%), Positives = 130/267 (48%), Gaps = 17/267 (6%)
Query: 4 VTVATWNVNSIRARI-HNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETC-- 60
+ +A+WNV+ +RA I W+KE PDI+CLQETK + P E + +
Sbjct: 29 LKIASWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQYWSA 88
Query: 61 --GQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNP 118
++ Y+GV +LS+ P+++ + ++ D + R I A F + + Y+P+
Sbjct: 89 PSDKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEF----DSFVLVTAYVPNAGR 144
Query: 119 ITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLE 178
+ + + W + F +F + L +PL+ GD N+ + D NP + +A FT +
Sbjct: 145 -GLVRLEYRQRWDEAFRKFL-KGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQ 202
Query: 179 VRQSFQKLQNM-GFTDAIRATH-DTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLL 236
RQ F +L D+ R + +T + Y+FW Y ++ SKN G R+D+ +LS L
Sbjct: 203 ERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPAL 262
Query: 237 HSARIDTKPRGWTKPSDHTPVIVSLDI 263
++I SDH P+ + L +
Sbjct: 263 CDSKIR----SKALGSDHCPITLYLAL 285
>2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase,
DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL;
1.50A {Neisseria meningitidis} (A:)
Length = 259
Score = 141 bits (354), Expect = 1e-34
Identities = 65/267 (24%), Positives = 122/267 (45%), Gaps = 13/267 (4%)
Query: 3 VVTVATWNVNSIRARI-HNLAAWIKENNPDIICLQETKTEDKNFPFETLQSL--NYHIET 59
++ + + NVN IR+ +I + DI+C+QE K ++ + + + H
Sbjct: 1 MLKIISANVNGIRSAYKKGFYEYIAASGADIVCVQELKAQEADLSADMKNPHGMHGHWHC 60
Query: 60 CGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPI 119
++ Y+GVA+ SK +P + + ++ D + RF+ F L + +LYLP G+
Sbjct: 61 AEKRGYSGVAVYSKRKPDNVQIGMGIEEFDREGRFVRCDF----GRLSVISLYLPSGSSA 116
Query: 120 TSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEV 179
+ K ++ F ++ GD+NI Q D N + ++ F E
Sbjct: 117 E-ERQQVKYRFLDAFYPMLEAMKNEGRDIVVCGDWNIAHQNIDLKNWKGNQKNSGFLPEE 175
Query: 180 RQSFQKLQN-MGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHS 238
R+ K+ + +G+TD R + Y++W +++K+ G RID+ M++PE + S
Sbjct: 176 REWIGKVIHKLGWTDMWRTLYPDVPGYTWWSNRGQAYAKDVGWRIDYQMVTPELAAKAVS 235
Query: 239 ARIDTKPRGWTKPSDHTPVIVSLDIPE 265
A + + SDH P++V D
Sbjct: 236 AHVYKDEK----FSDHAPLVVEYDYAA 258
>3g6s_A Putative endonuclease/exonuclease/phosphatase family
protein; alpha-beta protein, structural genomics, PSI-2;
2.50A {Bacteroides vulgatus atcc 8482} (A:)
Length = 267
Score = 125 bits (314), Expect = 5e-30
Identities = 33/278 (11%), Positives = 67/278 (24%), Gaps = 25/278 (8%)
Query: 4 VTVATWNVNSIRA---------RIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQS-- 52
V AT+N+ R + +IK++ DI+ QE L
Sbjct: 4 VRWATFNIRYDNPQDSLNNWQYRKDRVCQFIKDHELDIVGXQEVLHNQFQDLRAGLPEYD 63
Query: 53 LNYHIETCGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLY 112
G+ + + + E++ + + + +
Sbjct: 64 GIGVGRDDGKTAGEYAPLFYRKDKYEVLDSNTFWLAENPDSVGXXGW----DAVCVRIAT 119
Query: 113 LPHGNPITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWEND 172
+ K ++ + E A + P + D
Sbjct: 120 WAKFKDKATGKIFXAVNTHFDHVGE-------EARRQSALLIIRKIKEIVGERPAVVTGD 172
Query: 173 ACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEA 232
T N T + + +ID I ++P+
Sbjct: 173 FNVTDASDAYETITTNEFVXKDAYKTAARVTGVDYTFHDFARIPAEDCEKIDFIFVTPQV 232
Query: 233 TSLLHSARIDTKPRGWTKPSDHTPVIVSLDIPEPRKKQ 270
+ S I + SDH P + L++
Sbjct: 233 L--VKSCEIPAEVP-EALLSDHNPQLADLELEHHHHHH 267
>3l1w_A Uncharacterized protein; APC29019.2, conserved protein,
enterococcus faecalis V583, PSI-2, MCSG, structural
genomics; 1.60A {Enterococcus faecalis} (A:)
Length = 257
Score = 123 bits (308), Expect = 3e-29
Identities = 37/268 (13%), Positives = 70/268 (26%), Gaps = 27/268 (10%)
Query: 6 VATWNVNSIRA---------RIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYH 56
+AT+NV R + I ++ + C+QE +
Sbjct: 3 IATYNVRVDTEYDQDWQWSFRKEAVCQLINFHDWSLCCIQEVRPNQVRDLKAYTTFTCLS 62
Query: 57 IETCGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHG 116
E G G+AIL Q ++ + + + + + L+
Sbjct: 63 AEREGDGQGEGLAILYNEQKVQAIDTGYFWLSETPQQPSIHPE-AGCPRIALWGLFKETT 121
Query: 117 NPITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFT 176
+ + I R A + LEE Y +
Sbjct: 122 QNTPFLVINVHLDHISAHARLAGXTVILEELHDKIAQYPTLLXGDFNAESGEE------- 174
Query: 177 LEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLL 236
+L F D+ +F ++ + + ID+I + +
Sbjct: 175 ------VHQLVQKKFQDSKNLATHYGPRGTFQNFT-YTKPWAELEEIDYIYVKGW---QV 224
Query: 237 HSARIDTKPRGWTKPSDHTPVIVSLDIP 264
T PSDH P+ +
Sbjct: 225 QQTASLTDSIDGRFPSDHFPLEAEVAGE 252
>2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered
alpha beta sandwich, gene regulation; 2.00A {Bombyx
mori} (A:)
Length = 240
Score = 114 bits (285), Expect = 2e-26
Identities = 20/269 (7%), Positives = 55/269 (20%), Gaps = 48/269 (17%)
Query: 1 MSVVTVATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETC 60
+ + N+ L + ++ DI+ +QE +
Sbjct: 5 RPRLRIGQINLGGAEDATRELPSIARDLGLDIVLVQEQY--------------SMVGFLA 50
Query: 61 GQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPIT 120
++ + + + + + L + + Y + +PI
Sbjct: 51 QCGAHPKAGVYIRNRVLPCAVLHHLSS--THITVVHIGG----WDLYMVSAYFQYSDPID 104
Query: 121 STKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVR 180
+ ++ D N
Sbjct: 105 PYLHRLGNIL----------DRLRGARVVICADTNAHSPLWHSLPRHYVGRGQEVADRRA 154
Query: 181 QSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSAR 240
+ + H + + Y D +G+R+
Sbjct: 155 KMEDFIGARRLVVHNADGHLPTFSTANGESYVDVTLSTRGVRVSEWR------------- 201
Query: 241 IDTKPRGWTKPSDHTPVIVSLDIPEPRKK 269
SDH ++ + ++
Sbjct: 202 -----VTNESSSDHRLIVFGVGGGTTGER 225
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin,
hydrolase; 1.90A {Listeria ivanovii} (A:)
Length = 301
Score = 111 bits (276), Expect = 1e-25
Identities = 40/297 (13%), Positives = 83/297 (27%), Gaps = 44/297 (14%)
Query: 4 VTVATWNVNSIRA----------RIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSL 53
+ + NV R +A N D++ L E +
Sbjct: 11 FKITSHNVYLFSRNIYPNWGQMHRADLIAQADYMKNNDVVILNEAFDTSASHRLLNNLRE 70
Query: 54 NYHIETCGQKSYN------------------GVAILSKYQPIEIVTHL----PGDDLDVQ 91
Y +T GVA++S++ +E H+ G D
Sbjct: 71 MYPHQTPVIGRSKHGWDKTEGNYSNFALEDGGVAVVSQWPIVEKSQHIFQRGGGADRLSN 130
Query: 92 ARFIEATFTINTQTLRIGNLYLPHGNPITS--TKYDDKISWIKRFLRF-ASQRLELEEPL 148
F N + I + + + S T + ++ F A + + +E +
Sbjct: 131 KGFAYVKIMKNGKPYHIIGTHTQADDSLISKDTSRAIRAEQMQEIQTFIAKKNIPKDEII 190
Query: 149 IFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATH--DTHHLYS 206
GD N+ + ++ + + + Q T+++ Y
Sbjct: 191 FIGGDLNVNYGTDEYHDMLKLL---NVSSPANFNGQMATWDPTTNSMLKESYPKAAPEYL 247
Query: 207 FWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARIDTKPRGWTKPSDHTPVIVSLDI 263
+ + + ++ + S + K + SDH PV+ D
Sbjct: 248 DYIFVENGHARPHSWHNKVLHTKSP----QWSVKSWFKTYTYQDFSDHYPVVGFTDN 300
>1vyb_A ORF2 contains A reverse transcriptase domain; endonuclease,
APE-1 type, retrotransposition, retrotransposon,
transferase; 1.8A {Homo sapiens} (A:)
Length = 238
Score = 111 bits (276), Expect = 1e-25
Identities = 50/261 (19%), Positives = 88/261 (33%), Gaps = 34/261 (13%)
Query: 4 VTVATWNVNSIRARI--HNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCG 61
+T+ T N+N + + I H LA+WIK +P + C+QET ++ ++ + G
Sbjct: 8 ITILTLNINGLNSAIKRHRLASWIKSQDPSVCCIQETHLTCRDTHRLKIKGWRKIYQANG 67
Query: 62 QKSYNGVAILSKYQPIEIVTH-LPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPIT 120
++ GVAIL + T + + L I N+Y P+
Sbjct: 68 KQKKAGVAILVSDKTDFKPTKIKRDKEGHYIMVKGSIQQ----EELTILNIYAPNTGA-- 121
Query: 121 STKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVR 180
+ + +L+ + GD+N D + +
Sbjct: 122 ---------PRFIKQVLSDLQRDLDSHTLIMGDFNTPLSTLDRSTR------QKVNKDTQ 166
Query: 181 QSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSAR 240
+ L D R H Y+F+ + +IDHI+ S S
Sbjct: 167 ELNSALHQADLIDIYRTLHPKSTEYTFFSAP-----HHTYSKIDHIVGSKALLSKCKRTE 221
Query: 241 IDTKPRGWTKPSDHTPVIVSL 261
I SDH+ + + L
Sbjct: 222 II-----TNYLSDHSAIKLEL 237
>1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding
protein; 2.40A {Bombyx mori} (A:)
Length = 245
Score = 107 bits (268), Expect = 1e-24
Identities = 30/260 (11%), Positives = 63/260 (24%), Gaps = 36/260 (13%)
Query: 4 VTVATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCGQK 63
V N+ + LA I +QE + T
Sbjct: 20 YRVLQANLQRKKLATAELAIEAATRKAAIALIQEPYVGGAKSMKGFRGVRVFQS-TAQGD 78
Query: 64 SYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITSTK 123
AI ++++ + ++ I + + + Y + +
Sbjct: 79 GTVKAAIAVFDHDLDVIQYPQLTTNNIVVVGIRTRA----WEITLVSYYFEP-DKPIESY 133
Query: 124 YDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQSF 183
+ ++ LIF GD N + TL
Sbjct: 134 LEQIKRVERKMGPK---------RLIFGGDANAKSTWWGSKEDDARGDQLMGTLGELG-- 182
Query: 184 QKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARIDT 243
+ + +F K R+D + + L+ R+D
Sbjct: 183 ------------LHILNEGDVPTFDTIR---GGKRYQSRVDVTFCTEDMLDLIDGWRVDE 227
Query: 244 KPRGWTKPSDHTPVIVSLDI 263
SDH ++ ++ +
Sbjct: 228 DLV----SSDHNGMVFNIRL 243
>2imq_X Salivary nitrophorin; ferrous heme, beta-sandwich, transport
protein; HET: HEM; 1.30A {Cimex lectularius} (X:)
Length = 282
Score = 102 bits (255), Expect = 4e-23
Identities = 33/283 (11%), Positives = 79/283 (27%), Gaps = 32/283 (11%)
Query: 4 VTVATWNVNSIRAR--IHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLN------- 54
V +WN RA + L PD+I + + + +
Sbjct: 9 VHTVSWNSGHERAPTNLEELLGLNSGETPDVIAVAVQGFGFQTDKPQQGPACVKNFQSLL 68
Query: 55 ----YHIETCGQKSYNGVAILSKYQPIEIVTHL-----PGDDLDVQARFIEATFTINTQT 105
Y G+ + + ++ T D ++ I +FTI +
Sbjct: 69 TSKGYTKLKNTITETMGLTVYCLEKHLDQNTLKNETIIVTVDDQKKSGGIVTSFTIYNKR 128
Query: 106 LRIGNLYLPHGNPITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDC-- 163
+ + + L + S++ + + L + GD N+ + +
Sbjct: 129 FSFTTSRMSDED----VTSTNTKYAYDTRLDY-SKKDDPSDFLFWIGDLNVRVETNATHA 183
Query: 164 --YNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGI 221
+ +++++ ++ G+T+ T+ D Y
Sbjct: 184 KSLVDQNNIDGLMAFDQLKKAKEQKLFDGWTEPQVTFKPTYKFKPNTDEY---DLSATPS 240
Query: 222 RIDHIMLSPEATSLLHSARIDTKPRGWTKPSDHTPVIVSLDIP 264
D + + + K ++H PV+ +
Sbjct: 241 WTDRALYKS--GTGKTIQPLSYNSLTNYKQTEHRPVLAKFRVT 281
>2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken
structural genomics/proteomics initiative, RSGI,
structural genomics, hydrolase; 1.40A {Bacillus cereus}
(A:)
Length = 306
Score = 99.0 bits (244), Expect = 6e-22
Identities = 41/309 (13%), Positives = 90/309 (29%), Gaps = 62/309 (20%)
Query: 4 VTVATWNVNSIRA----------RIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSL 53
+ V T NV + R + A N D++ L E +
Sbjct: 10 LKVMTHNVYMLSTNLYPNWGQTERADLIGAADYIKNQDVVILNEVFDNSASDRLLGNLKK 69
Query: 54 NYHIET-------------------CGQKSYNGVAILSKYQPIEIVTHLP----GDDLDV 90
Y +T GVAI+SK+ E + ++ G D
Sbjct: 70 EYPNQTAVLGRSSGSEWDKTLGNYSSSTPEDGGVAIVSKWPIAEKIQYVFAKGCGPDNLS 129
Query: 91 QARFIEATFTINTQTLRIGNLYLPHG--NPITSTKYDDKISWIKRFLRF-ASQRLELEEP 147
F+ N + + + +L ++ + + +K F ++ + E
Sbjct: 130 NKGFVYTKIKKNDRFVHVIGTHLQAEDSMCGKTSPASVRTNQLKEIQDFIKNKNIPNNEY 189
Query: 148 LIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSF 207
++ GD N+ + N + + + + H +
Sbjct: 190 VLIGGDMNVNKINAENNNDSEYASMFKT-------------LNASVPSYTGHTATWDATT 236
Query: 208 WDYYADSWSKNKGIRIDHIMLSPEATSLLHSARIDTKPRG-------------WTKPSDH 254
++ + +D+I+ S + + + +P+ + SDH
Sbjct: 237 NSIAKYNFPDSPAEYLDYIIASKDHANPSYIENKVLQPKSPQWTVTSWFQKYTYNDYSDH 296
Query: 255 TPVIVSLDI 263
PV ++ +
Sbjct: 297 YPVEATISM 305
>1i9z_A Synaptojanin, phosphatidylinositol phosphate phosphatase;
spsynaptojanin, IPP5C, IP3, IP2,, hydrolase; HET: 2IP;
1.80A {Schizosaccharomyces pombe} (A:18-321)
Length = 304
Score = 93.6 bits (231), Expect = 2e-20
Identities = 29/301 (9%), Positives = 62/301 (20%), Gaps = 51/301 (16%)
Query: 4 VTVATWNVNSIRA--RIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIE--- 58
+ VA++N+N A ++ N DI + + E
Sbjct: 10 IFVASYNLNGCSATTKLENWLFPENTPLADIYVVGFQEIVQLTPQQVISADPAKRREWES 69
Query: 59 -------------------TCGQKSYNGVAILSKYQPIEIVTHLPGDDLDV-------QA 92
GQ + I K + + ++ G
Sbjct: 70 CVKRLLNGKCTSGPGYVQLRSGQLVGTALMIFCKESCLPSIKNVEGTVKKTGLGGVSGNK 129
Query: 93 RFIEATFTINTQTLRIGNLYLPHGNPITSTKYDDKISWIKRFLRFASQRLELEEPLIFAG 152
+ F L +L G + D + + + + +++ G
Sbjct: 130 GAVAIRFDYEDTGLCFITSHLAAGYTNYDERDHDYRTIASGLRFRRGRSIFNHDYVVWFG 189
Query: 153 DYNIIP--------QPHDCYNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATH-DTHH 203
D+N ++ T+
Sbjct: 190 DFNYRISLTYEEVVPCIAQGKLSYLFEYDQLNKQMLTGKVFPFFSELPITFPPTYKFDIG 249
Query: 204 LYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARIDTKPRGWTKPSDHTPVIVSLDI 263
+ + L P + SDH P+ + +
Sbjct: 250 TDIYDTSDKHRVPAWTDRILYRGELVPHSYQ-----------SVPLYYSDHRPIYATYEA 298
Query: 264 P 264
Sbjct: 299 N 299
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A
{Leishmania major} (A:135-232,A:440-467)
Length = 126
Score = 79.3 bits (195), Expect = 5e-16
Identities = 18/82 (21%), Positives = 29/82 (35%), Gaps = 9/82 (10%)
Query: 5 TVATWNVNSIRARI----HNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLN-----Y 55
TWNV +R + L A+++ PD++CLQETK +
Sbjct: 17 KFITWNVAGLRGLLKKNASALRAFMEAEKPDVLCLQETKLNVDEADANATLGVVDGYSFV 76
Query: 56 HIETCGQKSYNGVAILSKYQPI 77
++ Y+G K
Sbjct: 77 DHPCAFKRGYSGTRTYMKNSTT 98
>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 = 28.2 bits (62), Expect = 1.4
Identities = 11/91 (12%), Positives = 20/91 (21%), Gaps = 26/91 (28%)
Query: 172 DACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPE 231
+ ++ L G D RI H +L
Sbjct: 258 RDIKVFVLDEADNMLDQQGLGDQSM-------------------------RIKH-LLPRN 291
Query: 232 ATSLLHSARIDTKPRGWTKPSDHTPVIVSLD 262
+L SA + + + + L
Sbjct: 292 TQIVLFSATFSERVEKYAERFAPNANEIRLK 322
>2efk_A CDC42-interacting protein 4; EFC domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 2.30A {Homo sapiens} (A:)
Length = 301
Score = 26.8 bits (58), Expect = 3.2
Identities = 6/38 (15%), Positives = 16/38 (42%)
Query: 109 GNLYLPHGNPITSTKYDDKISWIKRFLRFASQRLELEE 146
G+ + + + R+++F +R E+E+
Sbjct: 1 GSSGSSGQFEVLERHTQWGLDLLDRYVKFVKERTEVEQ 38
>2w1v_A Nitrilase-2, nitrilase homolog 2; hydrolase; 1.49A {Mus
musculus} (A:)
Length = 276
Score = 26.2 bits (56), Expect = 4.5
Identities = 8/44 (18%), Positives = 15/44 (34%), Gaps = 6/44 (13%)
Query: 1 MSVVTVA------TWNVNSIRARIHNLAAWIKENNPDIICLQET 38
MS +A + + R +L + +I+ L E
Sbjct: 1 MSTFRLALIQLQVSSIKSDNLTRACSLVREAAKQGANIVSLPEC 44
>2gia_A Mitochondrial RNA-binding protein 2; T. brucei, guide RNA,
matchmaking, RNA editing, translation; 1.89A
{Trypanosoma brucei TREU927} (A:101-195)
Length = 95
Score = 25.1 bits (54), Expect = 9.9
Identities = 19/76 (25%), Positives = 32/76 (42%), Gaps = 8/76 (10%)
Query: 86 DDLDVQARFIEATFTIN-----TQTLRIGNLYLPHG-NPITSTKYDDKISWIKRFLRFAS 139
+ ++V +R+ ATFT N T TL+ + + + D+ W F +
Sbjct: 14 EKVEVHSRYTNATFTPNPAAPYTFTLKCTSTRPAQQKQQVAGEEGDETFEWTVEF--DVA 71
Query: 140 QRLELEEPLIFAGDYN 155
+ L L+ L A YN
Sbjct: 72 ESLMLQRFLTQALHYN 87
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
0.319 0.134 0.419
Gapped
Lambda K H
0.267 0.0355 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 2,234,946
Number of extensions: 100357
Number of successful extensions: 318
Number of sequences better than 10.0: 1
Number of HSP's gapped: 273
Number of HSP's successfully gapped: 29
Length of query: 281
Length of database: 4,956,049
Length adjustment: 87
Effective length of query: 194
Effective length of database: 2,015,014
Effective search space: 390912716
Effective search space used: 390912716
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: 54 (25.6 bits)