RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780288|ref|YP_003064701.1| exodeoxyribonuclease III protein [Candidatus Liberibacter asiaticus str. psy62] (281 letters) >3g91_A MTH0212, exodeoxyribonuclease; double-strand specific 3'-5' exonuclease, AP endonuclease; HET: PG4; 1.23A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3fzi_A 3g0a_A 3g1k_A 3g2c_A 3g3c_A* 3g3y_A* 3g4t_A* 3g00_A 3g0r_A* 3g2d_A* 3g38_A 3g8v_A* 3ga6_A Length = 265 Score = 228 bits (581), Expect = 1e-60 Identities = 66/268 (24%), Positives = 112/268 (41%), Gaps = 12/268 (4%) Query: 1 MSVVTVATWNVNSIRA-RIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYH--I 57 M+V+ + +WNVN +RA W E PDI+CLQE K + P + Y Sbjct: 1 MAVLKIISWNVNGLRAVHRKGFLKWFMEEKPDILCLQEIKAAPEQLPRKLRHVEGYRSFF 60 Query: 58 ETCGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGN 117 +K Y+GVA+ +K P + + D + R A F + N+Y P+G Sbjct: 61 TPAERKGYSGVAMYTKVPPSSLREGFGVERFDTEGRIQIADF----DDFLLYNIYFPNGA 116 Query: 118 PITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTL 177 + K+ + FL ++ + +I GD+N + D P N + F Sbjct: 117 MSE-ERLKYKLEFYDAFLEDVNRERDSGRNVIICGDFNTAHREIDLARPKENSNVSGFLP 175 Query: 178 EVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLH 237 R K G+ D R + Y++W Y + +N G R+D+ ++ E + Sbjct: 176 VERAWIDKFIENGYVDTFRMFNSDPGQYTWWSYRTRARERNVGWRLDYFFVNEEFKGKVK 235 Query: 238 SARIDTKPRGWTKPSDHTPVIVSLDIPE 265 + I + G SDH P+ + +++ E Sbjct: 236 RSWILSDVMG----SDHCPIGLEIELLE 259 >2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP endonuclease, lyase; 1.7A {Archaeoglobus fulgidus} Length = 257 Score = 194 bits (492), Expect = 3e-50 Identities = 87/259 (33%), Positives = 137/259 (52%), Gaps = 6/259 (2%) Query: 6 VATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCGQKSY 65 +AT+NVNSIR+R+H + W+KEN PDI+C+QETK E++ FP + YH+ G K Sbjct: 4 IATFNVNSIRSRLHIVIPWLKENKPDILCMQETKVENRKFPEADFHRIGYHVVFSGSKGR 63 Query: 66 NGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITSTKYD 125 NGVAI S +P ++ L + D I + N Y+P G I S KY Sbjct: 64 NGVAIASLEEPEDVSFGLDSEPKDEDRLIRAKIAGI-----DVINTYVPQGFKIDSEKYQ 118 Query: 126 DKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQSFQK 185 K+ W++R + + ++ ++ GD N+ P+P D ++P +N CF + R++++K Sbjct: 119 YKLQWLERLYHYLQKTVDFRSFAVWCGDMNVAPEPIDVHSPDKLKNHVCFHEDARRAYKK 178 Query: 186 LQNMGFTDAIRATHDTHHLYSFWDYYA-DSWSKNKGIRIDHIMLSPEATSLLHSARIDTK 244 + +GF D +R H +Y+F+DY + + G R D I+ +P D K Sbjct: 179 ILELGFVDVLRKIHPNERIYTFYDYRVKGAIERGLGWRGDAILATPPLAERCVDCYADIK 238 Query: 245 PRGWTKPSDHTPVIVSLDI 263 PR KPSDH P++ D+ Sbjct: 239 PRLAEKPSDHLPLVAVFDV 257 >1hd7_A DNA-(apurinic or apyrimidinic site) lyase; DNA repair, endonuclease, APE1, HAP1, REF-1; 1.95A {Homo sapiens} SCOP: d.151.1.1 PDB: 1e9n_A 2isi_A Length = 318 Score = 189 bits (481), Expect = 6e-49 Identities = 73/265 (27%), Positives = 122/265 (46%), Gaps = 17/265 (6%) Query: 6 VATWNVNSIRARIHN-LAAWIKENNPDIICLQETKTEDKNFPFETLQSL----NYHIETC 60 + +WNV+ +RA I W+KE PDI+CLQETK + P E + Y Sbjct: 64 ICSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQYWSAPS 123 Query: 61 GQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPIT 120 ++ Y+GV +LS+ P+++ + ++ D + R I A F + + Y+P+ Sbjct: 124 DKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEF----DSFVLVTAYVPNAGRGL 179 Query: 121 STKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVR 180 + + L +PL+ GD N+ + D NP + +A FT + R Sbjct: 180 VRLEYRQRWDEAFRKFL--KGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQER 237 Query: 181 QSFQKLQNM-GFTDAIRATH-DTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHS 238 Q F +L D+ R + +T + Y+FW Y ++ SKN G R+D+ +LS L Sbjct: 238 QGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPALCD 297 Query: 239 ARIDTKPRGWTKPSDHTPVIVSLDI 263 ++I R SDH P+ + L + Sbjct: 298 SKI----RSKALGSDHCPITLYLAL 318 >2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} Length = 467 Score = 183 bits (465), Expect = 4e-47 Identities = 56/320 (17%), Positives = 100/320 (31%), Gaps = 65/320 (20%) Query: 6 VATWNVNSIRARIHN----LAAWIKENNPDIICLQETKTEDKNFPFETLQSL-----NYH 56 TWNV +R + L A+++ PD++CLQETK + Sbjct: 152 FITWNVAGLRGLLKKNASALRAFMEAEKPDVLCLQETKLNVDEADANATLGVVDGYSFVD 211 Query: 57 IETCGQKSYNGVAILSKYQPIEIVTH-----------------------LPGDDLDVQAR 93 ++ Y+G K H L D + R Sbjct: 212 HPCAFKRGYSGTRTYMKNSTTVKGLHARCTRGFALPSEPQADAAAGSRVLVEGAGDEEGR 271 Query: 94 FIEATFTINTQT------LRIGNLYLPHGNPITSTKYDDKISWIKRFLRF---------- 137 + + + + + + N Y+ + + S+ + Sbjct: 272 VLTTFLSPDPDSASSSSRIALVNTYVANSGMGLTRLPYRVQSFDPSMREYLHRLDTWATE 331 Query: 138 --------ASQRLELEEPLIFAGDYNIIPQPHDCYNPIIW---ENDACFTLEVRQSFQK- 185 A I+AGD N+ + +D Y + + + F E R SF++ Sbjct: 332 NAAVPSAAAMGSGSSPHGFIWAGDLNVAERDYDRYYAGTFKSMQECSGFAPEERMSFRET 391 Query: 186 LQNMGFTDAIRATH-DTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARIDTK 244 +Q D R + +YSFW + +N G R+D+ ++S S + Sbjct: 392 MQRTNSVDIFRQLYPQAGPVYSFWSQRINGRPRNLGWRLDYFVVSSRLASYVVDCFP--- 448 Query: 245 PRGWTKPSDHTPVIVSLDIP 264 SDH P + + P Sbjct: 449 -MPTVMGSDHCPFQMWMRHP 467 >2jc4_A Exodeoxyribonuclease III; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: 1PE; 1.90A {Neisseria meningitidis} Length = 256 Score = 166 bits (421), Expect = 4e-42 Identities = 91/257 (35%), Positives = 133/257 (51%), Gaps = 4/257 (1%) Query: 6 VATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCGQKSY 65 + TWNVNS+ R+ + + +N PDI+ LQE K + FP LQ + +H GQK+Y Sbjct: 3 ITTWNVNSLNVRLPQVQNLLADNPPDILVLQELKLDQDKFPAAALQMMGWHCVWSGQKTY 62 Query: 66 NGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITSTKYD 125 NGVAI+S+ P ++ LP D Q R I AT +R+ N+Y +G + S K+ Sbjct: 63 NGVAIVSRSVPQDVHFGLPALPDDPQRRVIAATV----SGVRVINVYCVNGEALDSPKFK 118 Query: 126 DKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQSFQK 185 K W F + L+ GD+NI P DCY+P W + RQ FQ Sbjct: 119 YKEQWFAALTEFVRDEMTRHGKLVLLGDFNIAPADADCYDPEKWHEKIHCSSVERQWFQN 178 Query: 186 LQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARIDTKP 245 L ++G TD++R H Y+++DY + + G+RIDHI++SP + L R+D + Sbjct: 179 LLDLGLTDSLRQVHPEGAFYTWFDYRGAMFQRKLGLRIDHILVSPAMAAALKDVRVDLET 238 Query: 246 RGWTKPSDHTPVIVSLD 262 R +PSDH PV D Sbjct: 239 RALERPSDHAPVTAEFD 255 >1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A {Escherichia coli} SCOP: d.151.1.1 Length = 268 Score = 166 bits (420), Expect = 5e-42 Identities = 77/264 (29%), Positives = 118/264 (44%), Gaps = 8/264 (3%) Query: 6 VATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCGQKSY 65 ++N+N +RAR H L A ++++ PD+I LQETK D FP E + L Y++ GQK + Sbjct: 3 FVSFNINGLRARPHQLEAIVEKHQPDVIGLQETKVHDDMFPLEEVAKLGYNVFYHGQKGH 62 Query: 66 NGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITSTKYD 125 GVA+L+K PI + PGDD + Q R I A + + N Y P G Sbjct: 63 YGVALLTKETPIAVRRGFPGDDEEAQRRIIMAEIPSLLGNVTVINGYFPQGESRDHPIKF 122 Query: 126 DK-ISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYN------PIIWENDACFTLE 178 + + + L+ + P++ GD NI P D + F E Sbjct: 123 PAKAQFYQNLQNYLETELKRDNPVLIMGDMNISPTDLDIGIGEENRKRWLRTGKCSFLPE 182 Query: 179 VRQSFQKLQNMGFTDAIRATHDTHHLYS-FWDYYADSWSKNKGIRIDHIMLSPEATSLLH 237 R+ +L + G D R + ++DY + + N+G+RID ++ S Sbjct: 183 EREWMDRLMSWGLVDTFRHANPQTADRFSWFDYRSKGFDDNRGLRIDLLLASQPLAECCV 242 Query: 238 SARIDTKPRGWTKPSDHTPVIVSL 261 ID + R KPSDH PV + Sbjct: 243 ETGIDYEIRSMEKPSDHAPVWATF 266 >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 Length = 285 Score = 148 bits (374), Expect = 1e-36 Identities = 75/265 (28%), Positives = 127/265 (47%), Gaps = 17/265 (6%) Query: 6 VATWNVNSIRARIHN-LAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCG--- 61 +A+WNV+ +RA I W+KE PDI+CLQETK + P E + + Sbjct: 31 IASWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQYWSAPS 90 Query: 62 -QKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPIT 120 ++ Y+GV +LS+ P+++ + ++ D + R I A F Y+P+ Sbjct: 91 DKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLV----TAYVPNAGRGL 146 Query: 121 STKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVR 180 + + + W + F +F +PL+ GD N+ + D NP + +A FT + R Sbjct: 147 -VRLEYRQRWDEAFRKFLKGL-ASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQER 204 Query: 181 Q-SFQKLQNMGFTDAIRATH-DTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHS 238 Q + LQ + D+ R + +T + Y+FW Y ++ SKN G R+D+ +LS L Sbjct: 205 QGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPALCD 264 Query: 239 ARIDTKPRGWTKPSDHTPVIVSLDI 263 ++I R SDH P+ + L + Sbjct: 265 SKI----RSKALGSDHCPITLYLAL 285 >3mtc_A Type II inositol-1,4,5-trisphosphate 5-phosphatas; INPP5BA,phosphoinositide 5-phosphatase, inositol signalling, phosphatase, magnesium; HET: PIF; 2.40A {Homo sapiens} Length = 313 Score = 145 bits (367), Expect = 1e-35 Identities = 44/301 (14%), Positives = 83/301 (27%), Gaps = 48/301 (15%) Query: 4 VTVATWNVNSIRARIHNLAAWIK--ENNPDI--ICLQETKTEDKNFPFETLQSLNYHIET 59 T+NVN + L W+ PD+ + QE + F F + Sbjct: 10 FFAGTYNVNGQSPK-ECLRLWLSNGIQAPDVYCVGFQELDLSKEAFFFHDTPKEEEWFKA 68 Query: 60 -------------CGQKSYNGVAIL-----------SKYQPIEIVTHLPGDDLDVQARFI 95 G+ +L S+ + + T + G + I Sbjct: 69 VSEGLHPDAKYAKVKLIRLVGIMLLLYVKQEHAAYISEVEAETVGTGIMGRMGNKGGVAI 128 Query: 96 EATFTINTQTLRIGNLYLPHGNPITS------TKYDDKISWIKRFLRFASQRLELEEPLI 149 F + ++ + N +L ++ + + + + ++ Sbjct: 129 --RFQFHNTSICVVNSHLAAHIEEYERRNQDYKDICSRMQFCQPDPSLPPLTISNHDVIL 186 Query: 150 FAGDYNIIPQPHDCYNPIIW--ENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSF 207 + GD N + D E D Q ++ + T Sbjct: 187 WLGDLNYRIEELDVEKVKKLIEEKDFQMLYAYDQLKIQVAAKTVFEGFTEGELTFQPTYK 246 Query: 208 WDYYADSWSKNKGIRI----DHIMLSPEATSLLHSARIDTKPRGWTKPSDHTPVIVSLDI 263 +D +D W ++ R D I+ + + L K SDH PV DI Sbjct: 247 YDTGSDDWDTSEKCRAPAWCDRILWKGKNITQLSYQS-----HMALKTSDHKPVSSVFDI 301 Query: 264 P 264 Sbjct: 302 G 302 >2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL; 1.50A {Neisseria meningitidis} Length = 259 Score = 142 bits (357), Expect = 1e-34 Identities = 63/263 (23%), Positives = 115/263 (43%), Gaps = 13/263 (4%) Query: 6 VATWNVNSIRARI-HNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETC--GQ 62 + + NVN IR+ +I + DI+C+QE K ++ + + H + Sbjct: 4 IISANVNGIRSAYKKGFYEYIAASGADIVCVQELKAQEADLSADMKNPHGMHGHWHCAEK 63 Query: 63 KSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITST 122 + Y+GVA+ SK +P + + ++ D + RF+ F L + +LYLP G+ Sbjct: 64 RGYSGVAVYSKRKPDNVQIGMGIEEFDREGRFVRCDF----GRLSVISLYLPSGSSAE-E 118 Query: 123 KYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQS 182 + K ++ F ++ GD+NI Q D N + ++ F E R+ Sbjct: 119 RQQVKYRFLDAFYPMLEAMKNEGRDIVVCGDWNIAHQNIDLKNWKGNQKNSGFLPEEREW 178 Query: 183 FQKLQNMGFTDAI-RATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARI 241 K+ + + R + Y++W +++K+ G RID+ M++PE + SA + Sbjct: 179 IGKVIHKLGWTDMWRTLYPDVPGYTWWSNRGQAYAKDVGWRIDYQMVTPELAAKAVSAHV 238 Query: 242 DTKPRGWTKPSDHTPVIVSLDIP 264 K SDH P++V D Sbjct: 239 YK----DEKFSDHAPLVVEYDYA 257 >3nr8_B Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; structural genomics consortium, SGC, trisphosphate 5-phosphatase 2, SHIP2, INPPL1, SHIP-2; 2.80A {Homo sapiens} Length = 316 Score = 133 bits (334), Expect = 5e-32 Identities = 47/309 (15%), Positives = 89/309 (28%), Gaps = 56/309 (18%) Query: 4 VTVATWNVNSIRARI------------HNLAAWIKENNPDI--ICLQETKTEDKNFPFET 49 V + TWN+ S+ L DI QE D+ + Sbjct: 10 VFIGTWNMGSVPPPKNVTSWFTSKGLGKTLDEVTVTIPHDIYVFGTQENSVGDREWLDLL 69 Query: 50 LQSLN------YHIETCGQKSYNGVAILSKYQPIEIVTH---------LPGDDLDVQARF 94 L Y VA+L K + ++H + + A Sbjct: 70 RGGLKELTDLDYRPIAMQSLWNIKVAVLVKPEHENRISHVSTSSVKTGIANTLGNKGAVG 129 Query: 95 IEATFTINTQTLRIGNLYLPHGNPITSTKYDDKISWIKRFLRFASQRLELEE------PL 148 + +F N + N +L GN T+ + + + ++ L ++L + L Sbjct: 130 V--SFMFNGTSFGFVNCHLTSGNEKTARRNQNYLDILRL-LSLGDRQLNAFDISLRFTHL 186 Query: 149 IFAGDYNIIPQPHDCY-----NPIIWENDACFTLEVRQSFQKLQNMGFTDA-------IR 196 + GD N + +E + + + F++ R Sbjct: 187 FWFGDLNYRLDMDIQEILNYISRKEFEPLLRVDQLNLEREKHKVFLRFSEEEISFPPTYR 246 Query: 197 ATHDTHHLYSFWDYYADSWSKNKGIRIDHIM--LSPEATSLLHSARIDTKPRGWTKPSDH 254 + Y++ N D I+ PE + +S SDH Sbjct: 247 YERGSRDTYAWHKQKPTGVRTNVPSWCDRILWKSYPETHIICNSYGC----TDDIVTSDH 302 Query: 255 TPVIVSLDI 263 +PV + ++ Sbjct: 303 SPVFGTFEV 311 >2imq_X Salivary nitrophorin; ferrous heme, beta-sandwich, transport protein; HET: HEM; 1.30A {Cimex lectularius} SCOP: d.151.1.2 PDB: 1ntf_A* 1y21_A* 1yjh_A* 1si6_X* Length = 282 Score = 129 bits (325), Expect = 6e-31 Identities = 27/283 (9%), Positives = 62/283 (21%), Gaps = 34/283 (12%) Query: 4 VTVATWNVNSIRAR--IHNLAAWIKENNPDI--ICLQETKTEDKNFPFETLQSLNYHIET 59 V +WN RA + L PD+ + +Q + + Sbjct: 9 VHTVSWNSGHERAPTNLEELLGLNSGETPDVIAVAVQGFGFQTDKPQQG-PACVKNFQSL 67 Query: 60 CGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPI 119 K Y + V L + T + + G + Sbjct: 68 LTSKGYTKLKNTITETMGLTVYCLE----KHLDQNTLKNET----IIVTVDDQKKSGGIV 119 Query: 120 TSTKYDDKISWI-----------KRFLRFASQRLELEEPLIFAGDYNIIPQPHDCY---- 164 TS +K ++A D+ + Sbjct: 120 TSFTIYNKRFSFTTSRMSDEDVTSTNTKYAYDTRLDYSKKDDPSDFLFWIGDLNVRVETN 179 Query: 165 NPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRI- 223 ++ +F +L+ + + + + + Sbjct: 180 ATHAKSLVDQNNIDGLMAFDQLKKAKEQKLFDGWTEPQVTFKPTYKFKPNTDEYDLSATP 239 Query: 224 ---DHIMLSPEATSLLHSARIDTKPRGWTKPSDHTPVIVSLDI 263 D + + ++ K ++H PV+ + Sbjct: 240 SWTDRALYKSGTGKTIQPLSYNS--LTNYKQTEHRPVLAKFRV 280 >2xsw_A 72 kDa inositol polyphosphate 5-phosphatase; inositol signalling, SGC stockholm, structural genomics CONS hydrolase; 1.90A {Homo sapiens} Length = 357 Score = 125 bits (314), Expect = 1e-29 Identities = 36/298 (12%), Positives = 87/298 (29%), Gaps = 41/298 (13%) Query: 4 VTVATWNVNSIRARIHNLAAWI----KENNPDI--ICLQETKTEDKNFPFETLQSLNYHI 57 + VATWN+ + +L ++ + D+ I +QE ++ + + ++L H Sbjct: 28 LFVATWNMQGQKELPPSLDEFLLPAEADYAQDLYVIGVQEGCSDRREWETRLQETLGPHY 87 Query: 58 ETCGQKSYNGVAIL-----------SKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTL 106 ++ + + S+ + + T + A I FT + Sbjct: 88 VLLSSAAHGVLYMSLFIRRDLIWFCSEVECSTVTTRIVSQIKTKGALGIS--FTFFGTSF 145 Query: 107 RIGNLYLPHG------------NPITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDY 154 + G + + + + A+ + + + GD+ Sbjct: 146 LFITSHFTSGDGKVAERLLDYTRTVQALVLPRNVPDTNPYRSSAADVTTRFDEVFWFGDF 205 Query: 155 NI-IPQPHDCYNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATH---DTHHLYSFWDY 210 N + + ++ + + Q Q ++ M + +D Sbjct: 206 NFRLSGGRTVVDALLCQGLVVDVPALLQHDQLIREMRKGSIFKGFQEPDIHFLPSYKFDI 265 Query: 211 YADSWSKNKGIRI----DHIMLSPEATSLLHSARIDTKPRGWTKPSDHTPVIVSLDIP 264 D++ R D ++ + + K SDH PV + Sbjct: 266 GKDTYDSTSKQRTPSYTDRVLYRSRHKGDIC--PVSYSSCPGIKTSDHRPVYGLFRVK 321 >2f1n_A CDT B, cytolethal distending toxin subunit B; E.coli, DNAse I, microbatch; 1.73A {Escherichia coli} SCOP: d.151.1.1 Length = 262 Score = 109 bits (273), Expect = 5e-25 Identities = 36/292 (12%), Positives = 65/292 (22%), Gaps = 74/292 (25%) Query: 1 MSVVTVATWNVNSIRARIHN------LAAWIKENNPDIICLQETKTEDKNFPFE------ 48 ++ VATWN+ A + EN DI+ +QE + Sbjct: 13 LTDFRVATWNLQGASATTESKWNINVRQLISGENAVDILAVQEAGSPPSTAVDTGRVIPS 72 Query: 49 -----------------TLQSLNYHIETCGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQ 91 Q Y +A++S + E+ P Sbjct: 73 PGIPVRELIWNLSTNSRPQQVYIYFSAVDALGGRVNLALVSNRRADEVFVLSPVRQGGRP 132 Query: 92 ARFIEATFTINTQTLRIGNLYLPHGNPITSTKYDDKISWIKRFLRFASQRLELEEPLIFA 151 I + + +++ F R + + + Sbjct: 133 LLGIR------IGNDAFFTAHAIAMRNNDAPALVEEVYN---FFRDSRDPVHQALNWMIL 183 Query: 152 GDYNIIPQPHDCYNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYY 211 GD+N P + + Sbjct: 184 GDFNREPADLEMN----------------------------------LTVPVRRASEIIS 209 Query: 212 ADSWSKNKGIRIDHIMLSPEATSLLH--SARIDTKPRGWTKPSDHTPVIVSL 261 + ++ +D+ + A I R SDH PV VS Sbjct: 210 PAAATQTSQRTLDYAVAGNSVAFRPSPLQAGIVYGARRTQISSDHFPVGVSR 261 >3g6s_A Putative endonuclease/exonuclease/phosphatase family protein; alpha-beta protein, structural genomics, PSI-2; 2.50A {Bacteroides vulgatus atcc 8482} Length = 267 Score = 108 bits (270), Expect = 1e-24 Identities = 37/273 (13%), Positives = 79/273 (28%), Gaps = 29/273 (10%) Query: 4 VTVATWNV---------NSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLN 54 V AT+N+ N+ + R + +IK++ DI+ +QE L + Sbjct: 4 VRWATFNIRYDNPQDSLNNWQYRKDRVCQFIKDHELDIVGMQEVLHNQFQDLRAGLPEYD 63 Query: 55 YHI--ETCGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLY 112 G+ + + + E++ + + + + Sbjct: 64 GIGVGRDDGKTAGEYAPLFYRKDKYEVLDSNTFWLAENPDSVGMMGWDAVCVRIATWAKF 123 Query: 113 LPHGNPITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWEND 172 + + R S L + + + P + D Sbjct: 124 KDKATGKIFMAVNTHFDHVGEEARRQSALLIIRK-----------IKEIVGERPAVVTGD 172 Query: 173 ACFTLE--VRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSP 230 T ++ + + A T Y+F D+ +ID I ++P Sbjct: 173 FNVTDASDAYETITTNEFVMKDAYKTAARVTGVDYTFHDF--ARIPAEDCEKIDFIFVTP 230 Query: 231 EATSLLHSARIDTKPRGWTKPSDHTPVIVSLDI 263 + + S I + SDH P + L++ Sbjct: 231 QVL--VKSCEIPAEVPEA-LLSDHNPQLADLEL 260 >1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding protein; 2.40A {Bombyx mori} SCOP: d.151.1.1 Length = 245 Score = 107 bits (267), Expect = 3e-24 Identities = 31/263 (11%), Positives = 65/263 (24%), Gaps = 40/263 (15%) 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-------- 126 Query: 124 YDDKISWIKRFLRFASQRLELEEP--LIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQ 181 I+ +L + P LIF GD N + T Sbjct: 127 ----DKPIESYLEQIKRVERKMGPKRLIFGGDANAKSTWWGSKEDDARGDQLMGT----- 177 Query: 182 SFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARI 241 + + + +F ++ R+D + + L+ R+ Sbjct: 178 ---------LGELGLHILNEGDVPTFDTIRGGKRYQS---RVDVTFCTEDMLDLIDGWRV 225 Query: 242 DTKPRGWTKPSDHTPVIVSLDIP 264 D SDH ++ ++ + Sbjct: 226 DEDLVS----SDHNGMVFNIRLQ 244 >1vyb_A ORF2 contains A reverse transcriptase domain; endonuclease, APE-1 type, retrotransposition, retrotransposon, transferase; 1.8A {Homo sapiens} SCOP: d.151.1.1 PDB: 2v0s_A 2v0r_A Length = 238 Score = 105 bits (261), Expect = 1e-23 Identities = 56/262 (21%), Positives = 92/262 (35%), Gaps = 32/262 (12%) Query: 2 SVVTVATWNVNSIRARI--HNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIET 59 S +T+ T N+N + + I H LA+WIK +P + C+QET ++ ++ + Sbjct: 6 SHITILTLNINGLNSAIKRHRLASWIKSQDPSVCCIQETHLTCRDTHRLKIKGWRKIYQA 65 Query: 60 CGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPI 119 G++ GVAIL + T D + +I +I + L I N+Y P+ Sbjct: 66 NGKQKKAGVAILVSDKTDFKPT---KIKRDKEGHYIMVKGSIQQEELTILNIYAPNTGAP 122 Query: 120 TSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEV 179 K + GD+N D D Sbjct: 123 RFIKQVLSDLQRDLDSHT-----------LIMGDFNTPLSTLDRSTRQKVNKD------T 165 Query: 180 RQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSA 239 ++ L D R H Y+F+ ++S +IDHI+ S S Sbjct: 166 QELNSALHQADLIDIYRTLHPKSTEYTFFSAPHHTYS-----KIDHIVGSKALLSKCKRT 220 Query: 240 RIDTKPRGWTKPSDHTPVIVSL 261 I SDH+ + + L Sbjct: 221 EII-----TNYLSDHSAIKLEL 237 >3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein; structural genomics, PSI-2, protein structure initiative; HET: MSE PEG; 1.90A {Bacteroides thetaiotaomicron} Length = 298 Score = 103 bits (257), Expect = 4e-23 Identities = 45/295 (15%), Positives = 79/295 (26%), Gaps = 47/295 (15%) Query: 4 VTVATWNV-----------NSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQS 52 +TVA++N+ + R +A ++ ++ DI QE E L Sbjct: 7 LTVASYNLRNANGSDSARGDGWGQRYPVIAQMVQYHDFDIFGTQECFLHQLKDMKEALPG 66 Query: 53 LNYHIETC--GQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGN 110 +Y G+ AI + +IV + + + + G+ Sbjct: 67 YDYIGVGRDDGKDKGEHSAIFYRTDKFDIVEKGDFWLSETPDVPSKGWDAVLPRICSWGH 126 Query: 111 LYLPHGNPITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWE 170 ++ + I + R S L + P I Sbjct: 127 FKC-KDTGFEFLFFNLHMDHIGKKARVESAFLV---------QEKMKELGRGKNLPAILT 176 Query: 171 NDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSP 230 D + + D+ + L ++ + + RIDHI +SP Sbjct: 177 GDFNVDQTHQSYDAFVSKGVLCDSYEKCDYRYALNGTFNNF--DPNSFTESRIDHIFVSP 234 Query: 231 EATSLLHSARIDTKPRGWTK----------------------PSDHTPVIVSLDI 263 + DT PSDH PV V L Sbjct: 235 SFHVKRYGVLTDTYRSVRENSKKEDVRDCPEEITIKAYEARTPSDHFPVKVELVF 289 >3l1w_A Uncharacterized protein; APC29019.2, conserved protein, enterococcus faecalis V583, PSI-2, MCSG, structural genomics; 1.60A {Enterococcus faecalis} Length = 257 Score = 99.5 bits (246), Expect = 8e-22 Identities = 41/267 (15%), Positives = 73/267 (27%), Gaps = 27/267 (10%) Query: 4 VTVATWNV---------NSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLN 54 + +AT+NV R + I ++ + C+QE + Sbjct: 1 MKIATYNVRVDTEYDQDWQWSFRKEAVCQLINFHDWSLCCIQEVRPNQVRDLKAYTTFTC 60 Query: 55 YHIETCGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLP 114 E G G+AIL Q ++ + + + + G Sbjct: 61 LSAEREGDGQGEGLAILYNEQKVQAIDTGYFWLSETPQQPSIHPEAGCPRIALWGLFKET 120 Query: 115 HGNPITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDAC 174 + + I R A + LEE Y P + D Sbjct: 121 -TQNTPFLVINVHLDHISAHARLAGMTVILEELHDKIAQY-----------PTLLMGD-- 166 Query: 175 FTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATS 234 F E + +L F D+ +F ++ + ID+I + Sbjct: 167 FNAESGEEVHQLVQKKFQDSKNLATHYGPRGTFQNFTYT-KPWAELEEIDYIYVKG---W 222 Query: 235 LLHSARIDTKPRGWTKPSDHTPVIVSL 261 + T PSDH P+ + Sbjct: 223 QVQQTASLTDSIDGRFPSDHFPLEAEV 249 >3i41_A Beta-hemolysin; beta toxin, sphingomyelinase, toxin; 1.75A {Staphylococcus aureus RN4220} PDB: 3i46_A 3i48_A Length = 317 Score = 93.9 bits (232), Expect = 3e-20 Identities = 47/303 (15%), Positives = 88/303 (29%), Gaps = 67/303 (22%) Query: 4 VTVATWNVNSIRA----------RIHNLAAWIKENNPDIICLQE--TKTEDKNFPFETLQ 51 + + + NV + R + N D++ E + Sbjct: 30 LKLVSHNVYMLSTVLYPNWGQYKRADLIGQSSYIKNNDVVIFNEAFDNGASDKLLSNVKK 89 Query: 52 SLNYHIETCGQKSY----------------NGVAILSKYQPIEIVTHL----PGDDLDVQ 91 Y G+ GVAI+SKY E + H+ G D D Sbjct: 90 EYPYQTPVLGRSQSGWDKTEGSYSSTVAEDGGVAIVSKYPIKEKIQHVFKSGCGFDNDSN 149 Query: 92 ARFIEATFTINTQTLRIGNLYLPHGNPITSTKYDDKISW--IKRFLRF-ASQRLELEEPL 148 F+ N + + + + + +D KI +K F + + +E + Sbjct: 150 KGFVYTKIEKNGKNVHVIGTHTQSEDSRCGAGHDRKIRAEQMKEISDFVKKKNIPKDETV 209 Query: 149 IFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFW 208 GD N+ + + L+N+ D + A H++ Sbjct: 210 YIGGDLNVNKGTPEFKDM-------------------LKNLNVNDVLYAGHNSTWDPQSN 250 Query: 209 DYYADSWSKNKGIRIDHIMLSPE--ATSLLHSARIDTKPRGW-----------TKPSDHT 255 ++ K +D+I + L + + KP+ W SDH Sbjct: 251 SIAKYNYPNGKPEHLDYIFTDKDHKQPKQLVNEVVTEKPKPWDVYAAAYYYVYNDFSDHY 310 Query: 256 PVI 258 P+ Sbjct: 311 PIK 313 >1sr4_B CDT B, cytolethal distending toxin protein B; bacterial, virulence, DNA damage, genotoxin, cytotoxins, cell cycle, apoptosis, lectin; 2.00A {Haemophilus ducreyi} SCOP: d.151.1.1 PDB: 2f2f_B Length = 261 Score = 89.4 bits (220), Expect = 9e-19 Identities = 35/297 (11%), Positives = 64/297 (21%), Gaps = 73/297 (24%) Query: 1 MSVVTVATWNVNSIRA------RIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLN 54 +S VATWN+ A I+ E DI+ +QE + + + + Sbjct: 2 LSDFKVATWNLQGSSAVNESKWNINVRQLLSGEQGADILMVQEAGSLPSSAVRTSRVIQH 61 Query: 55 YHIETCG-----------------------QKSYNGVAILSKYQPIEIVTHLPGDDLDVQ 91 + +AI+S+ Q E + Sbjct: 62 GGTPIEEYTWNLGTRSRPNMVYIYYSRLDVGANRVNLAIVSRRQADEAFIVHSDSSVLQS 121 Query: 92 ARFIEATFTINTQTLRIGNLYLPHGNPITSTKYDDKISWIKRFLRFASQRLELEEPLIFA 151 + T ++ + I F +S + Sbjct: 122 RPAVGIRI----GTDVFFTVHALATGGSDAVSLIRNIFT--TFNSSSSPPERRVYSWMVV 175 Query: 152 GDYNIIPQPHDCYNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYY 211 GD+N + + + Sbjct: 176 GDFN--------------------------------RAPANLEVALRQEPAVSENTIIIA 203 Query: 212 ADSWSKNKGIRIDHIMLSPE------ATSLLHSARIDTKPRGWTKPSDHTPVIVSLD 262 + G +D+ +L A + SDH PV D Sbjct: 204 PTEPTHRSGNILDYAILHDAHLPRREQARERIGASLMLNQLRSQITSDHFPVSFVRD 260 >3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB: 3ngo_A 3ngn_A Length = 398 Score = 86.6 bits (213), Expect = 6e-18 Identities = 42/360 (11%), Positives = 82/360 (22%), Gaps = 90/360 (25%) Query: 4 VTVATWNV------------------NSIRARIHNLAAWIKENNPDIICLQE-TKTEDKN 44 TV +NV + R + I + DII LQE + Sbjct: 32 FTVMCYNVLCDKYATRQLYGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEVETEQYFT 91 Query: 45 FPFETLQSLNYH-----------IETCGQKSYNGVAILSKYQPIEIVTH----------- 82 L+ Y + +K +G AI K + +V Sbjct: 92 LFLPALKERGYDGFFSPKSRAKIMSEQERKHVDGCAIFFKTEKFTLVQKHTVEFNQVAMA 151 Query: 83 LPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITSTKYDDKI-----------SWI 131 + R + L + G + + Sbjct: 152 NSDGSEAMLNRVMTKDNIGVAVVLEVHKELFGAGMKPIHAADKQLLIVANAHMHWDPEYS 211 Query: 132 KRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQSFQKLQNMGF 191 L + + ++ D + + +L + L N G Sbjct: 212 DVKLIQTMMFVSEVKNILEKASSRPGSPTADPNSIPLVLCADLNSLPDSGVVEYLSNGGV 271 Query: 192 TDAIR----------------------ATHDTHHLYSFWDYYAD------SWSKNKGIRI 223 D + + H + Y + +++ + I Sbjct: 272 ADNHKDFKELRYNECLMNFSCNGKNGSSEGRITHGFQLKSAYENNLMPYTNYTFDFKGVI 331 Query: 224 DHIMLSPEATSLLHSARIDTK----------PRGWTKPSDHTPVIVSLDIPEPRKKQQDS 273 D+I S ++ PSDH ++ L++ P + Sbjct: 332 DYIFYSKTHMNVEGVLGPLDPQWLVENNITGCPHPHIPSDHFSLLTQLELHPPLLPLVNG 391 >2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered alpha beta sandwich, gene regulation; 2.00A {Bombyx mori} Length = 240 Score = 81.9 bits (201), Expect = 2e-16 Identities = 27/279 (9%), Positives = 69/279 (24%), Gaps = 53/279 (18%) Query: 5 TVATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCGQKS 64 + N+ L + ++ DI+ +QE + + Sbjct: 9 RIGQINLGGAEDATRELPSIARDLGLDIVLVQEQYS--------------MVGFLAQCGA 54 Query: 65 YNGVAILSKY--QPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITST 122 + + + P ++ HL + V I L + + Y + +PI Sbjct: 55 HPKAGVYIRNRVLPCAVLHHLSSTHITV--------VHIGGWDLYMVSAYFQYSDPI--- 103 Query: 123 KYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQS 182 D + + L ++ D N + Sbjct: 104 --DPYLHRLGNILDRLR-----GARVVICADTNAHSPLWHSLPRHYVGRGQEVADRRAKM 156 Query: 183 FQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARID 242 + H + N +D + + + R+ Sbjct: 157 EDFIGARRLVVHNADGHLPTF-----------STANGESYVDVTLSTRGV--RVSEWRVT 203 Query: 243 TKPRGWTKPSDHTPVIVSLDIPEPRKK-QQDSTSQNMKP 280 + SDH ++ + ++ + + +++P Sbjct: 204 NES-----SSDHRLIVFGVGGGTTGERDEDEEARSDLRP 237 >2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.40A {Bacillus cereus} SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X Length = 306 Score = 80.0 bits (195), Expect = 6e-16 Identities = 42/298 (14%), Positives = 88/298 (29%), Gaps = 40/298 (13%) Query: 4 VTVATWNVNSIRA----------RIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSL 53 + V T NV + R + A N D++ L E + Sbjct: 10 LKVMTHNVYMLSTNLYPNWGQTERADLIGAADYIKNQDVVILNEVFDNSASDRLLGNLKK 69 Query: 54 NYHIETC-------------------GQKSYNGVAILSKYQPIEIVTHL----PGDDLDV 90 Y +T GVAI+SK+ E + ++ G D Sbjct: 70 EYPNQTAVLGRSSGSEWDKTLGNYSSSTPEDGGVAIVSKWPIAEKIQYVFAKGCGPDNLS 129 Query: 91 QARFIEATFTINTQTLRIGNLYLPHGNPITSTKYDDKI---SWIKRFLRFASQRLELEEP 147 F+ N + + + +L + + + + ++ + E Sbjct: 130 NKGFVYTKIKKNDRFVHVIGTHLQAEDSMCGKTSPASVRTNQLKEIQDFIKNKNIPNNEY 189 Query: 148 LIFAGDYNIIPQPHDCYNPIIWEN--DACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLY 205 ++ GD N+ + N + + + T++I + Sbjct: 190 VLIGGDMNVNKINAENNNDSEYASMFKTLNASVPSYTGHTATWDATTNSIAKYNFPDSPA 249 Query: 206 SFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARIDTKPRGWTKPSDHTPVIVSLDI 263 + DY S I++ +L P++ ++ + SDH PV ++ + Sbjct: 250 EYLDYIIASKDHANPSYIENKVLQPKSPQWTVTSWFQKYT--YNDYSDHYPVEATISM 305 >1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 Length = 301 Score = 70.3 bits (170), Expect = 5e-13 Identities = 40/302 (13%), Positives = 78/302 (25%), Gaps = 66/302 (21%) Query: 5 TVATWNV----------NSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLN 54 + + NV R +A N D++ L E + Sbjct: 12 KITSHNVYLFSRNIYPNWGQMHRADLIAQADYMKNNDVVILNEAFDTSASHRLLNNLREM 71 Query: 55 YHIETC------------------GQKSYNGVAILSKYQPIEIVTHLPGDDLDVQA---- 92 Y +T GVA++S++ +E H+ Sbjct: 72 YPHQTPVIGRSKHGWDKTEGNYSNFALEDGGVAVVSQWPIVEKSQHIFQRGGGADRLSNK 131 Query: 93 RFIEATFTINTQTLRIGNLYLPHGNPITSTKYDDKISWIK---RFLRFASQRLELEEPLI 149 F N + I + + + S I + A + + +E + Sbjct: 132 GFAYVKIMKNGKPYHIIGTHTQADDSLISKDTSRAIRAEQMQEIQTFIAKKNIPKDEIIF 191 Query: 150 FAGDYNIIPQPHDCYNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWD 209 GD N+ + ++ + N + + Sbjct: 192 IGGDLNVNYGTDEYHDMLKLLNVSSPAN------------------FNGQMATWDPTTNS 233 Query: 210 YYADSWSKNKGIRIDHIMLSPE--ATSLLHSARIDTKPRGWT-----------KPSDHTP 256 +S+ K +D+I + H+ + TK W+ SDH P Sbjct: 234 MLKESYPKAAPEYLDYIFVENGHARPHSWHNKVLHTKSPQWSVKSWFKTYTYQDFSDHYP 293 Query: 257 VI 258 V+ Sbjct: 294 VV 295 >2a40_B Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse I, ARP2/3, structural protein; HET: HIC NAG ATP; 1.80A {Bos taurus} SCOP: d.151.1.1 PDB: 1dnk_A* 2a3z_B* 2a41_B* 2a42_B* 2d1k_B* 2dnj_A* 3cjc_D* 3dni_A* 1atn_D* Length = 260 Score = 61.5 bits (147), Expect = 2e-10 Identities = 37/284 (13%), Positives = 75/284 (26%), Gaps = 55/284 (19%) Query: 6 VATWNVNSI---RARIHNLAAWIKE--NNPDIICLQETKTEDKNFPFETLQSLNYHIET- 59 +A +N+ + + LA++I DI+ +QE + + L LN Sbjct: 3 IAAFNIRTFGETKMSNATLASYIVRIVRRYDIVLIQEVRDSHLVAVGKLLDYLNQDDPNT 62 Query: 60 ------------CGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLR 107 ++ Y + +K ++ + G + F + + Sbjct: 63 YHYVVSEPLGRNSYKERYLFLFRPNKVSVLDTYQYDDGCESCGNDSFSREPAVVKFSSHS 122 Query: 108 IGNLYLPHGNPITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPI 167 ++ + Q+ ++ GD+N Sbjct: 123 TKVKEFAIVALHSAPSDAVAEINSLYDVYLDVQQKWHLNDVMLMGDFNADC--------- 173 Query: 168 IWENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIM 227 + T S + + F I + DT + + D I+ Sbjct: 174 -----SYVTSSQWSSIRLRTSSTFQWLIPDSADT-------------TATSTNCAYDRIV 215 Query: 228 LSPE----------ATSLLHSARIDTKPRGWTKPSDHTPVIVSL 261 ++ A A SDH PV V+L Sbjct: 216 VAGSLLQSSVVPGSAAPFDFQAAYGLSNEMALAISDHYPVEVTL 259 >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 = 44.5 bits (105), Expect = 2e-05 Identities = 45/269 (16%), Positives = 74/269 (27%), Gaps = 139/269 (51%) Query: 43 KNFPFETLQSLNYHIETCGQKSYNGVAILSKYQPIEI----------VTHLP----GDDL 88 N E +Q ++ N + L + +EI V+ P G L Sbjct: 342 SNLTQEQVQD---YVNKT-----N--SHLPAGKQVEISLVNGAKNLVVSGPPQSLYG--L 389 Query: 89 DVQARFIEATFTINTQT--------LRIGNLYLPHGNPITS---TKYDDKISWIKRFLRF 137 ++ R +A ++ Q+ L+ N +L P+ S + L Sbjct: 390 NLTLRKAKAPSGLD-QSRIPFSERKLKFSNRFL----PVASPFHSHL----------LVP 434 Query: 138 ASQRLE---LEEPLIFAGD------Y-------------NIIPQPHD--CYNPIIWENDA 173 AS + ++ + F Y +I + D P+ WE Sbjct: 435 ASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWET-T 493 Query: 174 CFTLEVRQSFQKLQNMGFTDAIRATH--D------------THHLYSFWDYYADSWSKNK 219 F+ ATH D TH NK Sbjct: 494 T-------QFK------------ATHILDFGPGGASGLGVLTHR--------------NK 520 Query: 220 ---GIRIDHIMLSPEATSLLHSARIDTKP 245 G+R+ I+ A +L D P Sbjct: 521 DGTGVRV--IV----AGTL------DINP 537 Score = 31.8 bits (72), Expect = 0.17 Identities = 13/78 (16%), Positives = 26/78 (33%), Gaps = 10/78 (12%) Query: 70 ILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITSTKYDDKIS 129 LS + +E V +P A ++ F + L + T+ Sbjct: 10 TLS-HGSLEHVLLVP-TASFFIASQLQEQFN---KILPEPTEGFAADDEPTT-----PAE 59 Query: 130 WIKRFLRFASQRLELEEP 147 + +FL + S +E + Sbjct: 60 LVGKFLGYVSSLVEPSKV 77 Score = 30.3 bits (68), Expect = 0.45 Identities = 58/323 (17%), Positives = 99/323 (30%), Gaps = 129/323 (39%) Query: 18 IHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCGQKSYNGVAILSKYQPI 77 IH LAA + + +T E ++ NY + +P Sbjct: 101 IHALAA---KLLQEN----DTTLVKTK---ELIK--NY---------ITARIMA--KRPF 137 Query: 78 EIVTHLPGDDL-----DVQARFIEATF----TINT--QTLRIGNLYLPHGNPITSTKYDD 126 L + A+ + A F + + LR +LY T Y Sbjct: 138 ---DKKSNSALFRAVGEGNAQ-LVAIFGGQGNTDDYFEELR--DLY--------QT-YH- 181 Query: 127 KISWIKRFLRFASQRL-EL-EEPLIFAGDYNIIPQPHDCYNPII-W-EN-----DACFTL 177 + ++F+++ L EL L + Q + I+ W EN D + L Sbjct: 182 --VLVGDLIKFSAETLSELIRTTLDAEKVF---TQGLN----ILEWLENPSNTPDKDYLL 232 Query: 178 EVRQSF------QKLQ------NMGFT-----DAIRATHDTHH---------LYSFWDYY 211 + S Q +GFT ++ T H + Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA--TGHSQGLVTAVAIAE----- 285 Query: 212 ADSWS---KN--KGIRIDHIML------SPEA---TSLLHSARIDTKPRGWTKPSDHTPV 257 DSW + K I +L EA TSL S D+ PS P+ Sbjct: 286 TDSWESFFVSVRKAIT----VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPS---PM 338 Query: 258 I-VSLDIPEPRKKQQ---DSTSQ 276 + +S ++ +++ Q + T+ Sbjct: 339 LSIS-NL--TQEQVQDYVNKTNS 358 >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 = 35.7 bits (81), Expect = 0.013 Identities = 9/27 (33%), Positives = 16/27 (59%), Gaps = 8/27 (29%) Query: 180 RQSFQKLQ-NMG-FTD------AIRAT 198 +Q+ +KLQ ++ + D AI+AT Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKAT 45 >3i1j_A Oxidoreductase, short chain dehydrogenase/reductase family; dimer, mixed alpha-beta, structural genomics, PSI-2; 1.90A {Pseudomonas syringae PV} Length = 247 Score = 27.2 bits (60), Expect = 3.9 Identities = 13/50 (26%), Positives = 17/50 (34%) Query: 212 ADSWSKNKGIRIDHIMLSPEATSLLHSARIDTKPRGWTKPSDHTPVIVSL 261 AD +R + I T + A D P P D PV + L Sbjct: 182 ADELEGVTAVRANSINPGATRTGMRAQAYPDENPLNNPAPEDIMPVYLYL 231 >3gdb_A Endo-D, putative uncharacterized protein SPR0440; alpha-beta-barrels, cell WALL, peptidoglycan-anchor, secreted, hydrolase; HET: PGE; 1.87A {Streptococcus pneumoniae} Length = 937 Score = 26.0 bits (56), Expect = 9.9 Identities = 14/70 (20%), Positives = 24/70 (34%), Gaps = 4/70 (5%) Query: 26 KENNPDIICLQETKTEDKNFPFETLQSL-NYHIETCGQKSYNGVAI--LSKYQPIEIVTH 82 KE PD+ E + K F + + L + + N L+ + +V Sbjct: 144 KEVQPDVPKNTEKTLKPKEIKFNSWEELLKWEPGAREDDAIN-RGSVVLASRRTGHLVNE 202 Query: 83 LPGDDLDVQA 92 + VQA Sbjct: 203 KASKEAKVQA 212 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 0.319 0.134 0.419 Gapped Lambda K H 0.267 0.0490 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,522,559 Number of extensions: 113837 Number of successful extensions: 491 Number of sequences better than 10.0: 1 Number of HSP's gapped: 410 Number of HSP's successfully gapped: 40 Length of query: 281 Length of database: 5,693,230 Length adjustment: 91 Effective length of query: 190 Effective length of database: 3,487,026 Effective search space: 662534940 Effective search space used: 662534940 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: 56 (25.9 bits)