RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780215|ref|YP_003064628.1| hypothetical protein CLIBASIA_00500 [Candidatus Liberibacter asiaticus str. psy62] (262 letters) >gnl|CDD|30053 cd01310, TatD_DNAse, TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.. Length = 251 Score = 267 bits (685), Expect = 2e-72 Identities = 114/254 (44%), Positives = 164/254 (64%), Gaps = 3/254 (1%) Query: 2 LIDTHCHLLLPDFDEDRHDVIMRAHQANVLKMIAIAIKVKDFVPLIKLCQDYPSSIFCSV 61 LIDTHCHL P FD DR DV+ RA +A V+K+I + +K ++L + Y + ++ +V Sbjct: 1 LIDTHCHLDFPQFDADRDDVLARAREAGVIKIIVVGTDLKSSKRALELAKKYDN-VYAAV 59 Query: 62 GTHPCHAHEENEVLVDELVCLASHPRVVAIGETGLDRYHNAHTIEEQKVVFLRHIEASRI 121 G HP A E + +D L LA++P+VVAIGE GLD Y + E QK VF +E ++ Sbjct: 60 GLHPHDADEHVDEDLDLLELLAANPKVVAIGEIGLDYYRDKSPREVQKEVFRAQLELAKE 119 Query: 122 TGIPLVIHSRSADDDMAAILQEEMKKGPFPFVIHCFSSSQKLADICLELGGYISFTGMIT 181 +P+VIHSR A +D+ IL+E P V HCFS S + A L+LG YIS +G++T Sbjct: 120 LNLPVVIHSRDAHEDVLEILKEYGP--PKRGVFHCFSGSAEEAKELLDLGFYISISGIVT 177 Query: 182 FPKYDALRAIARGIPMDRVLVETDSPYIVPVSCQGKRNEPAYVVNTAKALAKEKDVSYED 241 F + LR + + IP++R+L+ETDSPY+ PV +GKRNEPAYV + A+ +A+ K +S E+ Sbjct: 178 FKNANELREVVKEIPLERLLLETDSPYLAPVPFRGKRNEPAYVKHVAEKIAELKGISVEE 237 Query: 242 LMEETTKNALKLFS 255 + E TT+NA +LF Sbjct: 238 VAEVTTENAKRLFG 251 >gnl|CDD|30433 COG0084, TatD, Mg-dependent DNase [DNA replication, recombination, and repair]. Length = 256 Score = 264 bits (677), Expect = 1e-71 Identities = 117/258 (45%), Positives = 169/258 (65%), Gaps = 5/258 (1%) Query: 1 MLIDTHCHLLLPDFDEDRHDVIMRAHQANVLKMIAIAIKVKDFVPLIKLCQDYPSSIFCS 60 MLIDTHCHL +FDEDR +VI RA +A V KM+ + ++DF ++L + YP+ ++ + Sbjct: 2 MLIDTHCHLDFEEFDEDRDEVIARAREAGVKKMVVVGTDLEDFKRALELAEKYPN-VYAA 60 Query: 61 VGTHPCHAHEENEVLVDELV-CLASHPRVVAIGETGLDRYHNAH-TIEEQKVVFLRHIEA 118 VG HP A E +E ++EL HP+VVAIGE GLD Y + E Q+ VF +E Sbjct: 61 VGVHPLDADEHSEEDLEELEQLAEHHPKVVAIGEIGLDYYWDKEPDKERQEEVFEAQLEL 120 Query: 119 SRITGIPLVIHSRSADDDMAAILQEEMKKGPFPFVIHCFSSSQKLADICLELGGYISFTG 178 ++ +P++IH+R A +D IL+EE P V+HCFS S + A L+LG YIS +G Sbjct: 121 AKELNLPVIIHTRDAHEDTLEILKEE--GAPVGGVLHCFSGSAEEARKLLDLGFYISISG 178 Query: 179 MITFPKYDALRAIARGIPMDRVLVETDSPYIVPVSCQGKRNEPAYVVNTAKALAKEKDVS 238 ++TF + LR +AR +P+DR+L+ETD+PY+ PV +GKRNEPAYV + A+ LA+ K +S Sbjct: 179 IVTFKNAEKLREVARELPLDRLLLETDAPYLAPVPYRGKRNEPAYVRHVAEKLAELKGIS 238 Query: 239 YEDLMEETTKNALKLFSK 256 E++ E TT+NA +LF Sbjct: 239 AEEVAEITTENAKRLFGL 256 >gnl|CDD|144567 pfam01026, TatD_DNase, TatD related DNase. This family of proteins are related to a large superfamily of metalloenzymes. TatD, a member of this family has been shown experimentally to be a DNase enzyme. Length = 255 Score = 258 bits (662), Expect = 9e-70 Identities = 112/256 (43%), Positives = 165/256 (64%), Gaps = 4/256 (1%) Query: 3 IDTHCHLLLPDFDEDRHDVIMRAHQANVLKMIAIAIKVKDFVPLIKLCQDYPSSIFCSVG 62 ID HCHL FD DR +VI RA +A V ++ + +KDF ++L + YP ++ +VG Sbjct: 1 IDAHCHLDFKKFDGDRDEVIERAREAGVTAVVVVGTDLKDFERALELARKYPGKVYAAVG 60 Query: 63 THPCHAHEENEVLVDELV--CLASHPRVVAIGETGLDRYH-NAHTIEEQKVVFLRHIEAS 119 HP A E +E +++ L LA HP+VVAIGE GLD Y+ + E Q+ VF R +E + Sbjct: 61 VHPHEADEASEEVLEALEKLKLAEHPKVVAIGEIGLDYYYVDESPKEAQEEVFRRQLELA 120 Query: 120 RITGIPLVIHSRSADDDMAAILQEEMKKGPFPFVIHCFSSSQKLADICLELGGYISFTGM 179 + +P+VIH+R A++D+ IL+E G V+HCF+ S + A L+LG YIS +G+ Sbjct: 121 KELDLPVVIHTRDAEEDLLEILKEAGAPGL-RVVLHCFTGSLETAKEILDLGFYISISGI 179 Query: 180 ITFPKYDALRAIARGIPMDRVLVETDSPYIVPVSCQGKRNEPAYVVNTAKALAKEKDVSY 239 +TF + LR + IP+DR+LVETD+PY+ PV +GKRNEPAYV + A+ LA+ K +S Sbjct: 180 VTFKNAEELREVVAEIPLDRLLVETDAPYLAPVPYRGKRNEPAYVPHVAEKLAELKGISE 239 Query: 240 EDLMEETTKNALKLFS 255 E++ + TT+NA +LF Sbjct: 240 EEVAKITTENAKRLFG 255 >gnl|CDD|38230 KOG3020, KOG3020, KOG3020, TatD-related DNase [Replication, recombination and repair]. Length = 296 Score = 171 bits (435), Expect = 2e-43 Identities = 96/282 (34%), Positives = 143/282 (50%), Gaps = 30/282 (10%) Query: 1 MLIDTHCHLLLPDFDEDRHDVIMRAHQANVLKMIAIAIKVKDFVPLIKLCQDYPSSIFCS 60 ML D +CH+ D D V+ RA QA V K+I +KD ++L + YP S++ + Sbjct: 17 MLEDIYCHIQAHPSDSDASQVLERAVQAGVSKLIVTGTSLKDSKEALELAEKYPGSVYPT 76 Query: 61 VGTHPCHAHE-----ENEVLVDELVCLAS---HPRVVAIGETGLDRYHNAHTI--EEQKV 110 G HP + E E +D L+ + P+VVAIGE GLD Y EEQK Sbjct: 77 FGVHPHFSQEFSDQSRKEKFLDTLLSIIENGFLPKVVAIGECGLD-YDRLQFSDKEEQKT 135 Query: 111 VFLRHIEASRITGIPLVIHSRSADDDMAAILQEEMKKGPFPFVIHCFSSSQKLADICLEL 170 VF + ++ ++ +PL IH RSA +D+ IL+ + + V+H F+ S + A L+L Sbjct: 136 VFEKQLDLAKRLKLPLFIHCRSAHEDLLEILKRFLPECHKKVVVHSFTGSAEEAQKLLKL 195 Query: 171 GGYISFTGMITFPKYDALRAIARGIPMDRVLVETDSPYIVP-----------------VS 213 G YI FTG K + + R IP++R+L+ETDSPY P Sbjct: 196 GLYIGFTGCSL--KTEENLEVLRSIPLERLLLETDSPYCGPKPSSHAGPKYVKTLFSESY 253 Query: 214 CQGKRNEPAYVVNTAKALAKEKDVSYEDLMEETTKNALKLFS 255 RNEP V+ A+ +A+ KD+ E++ E T +N ++LF Sbjct: 254 PLKGRNEPCNVLQVAEVVAEAKDLDLEEVAEATYENTIRLFK 295 >gnl|CDD|31296 COG1099, COG1099, Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]. Length = 254 Score = 59.1 bits (143), Expect = 1e-09 Identities = 64/272 (23%), Positives = 114/272 (41%), Gaps = 39/272 (14%) Query: 1 MLIDTHCHLLLPDFDEDR-------HDVIMRAH----QANVLKMIAIAIKVKDFVPLIKL 49 M ID+H HL + F++ +VI AH + ++ P + Sbjct: 1 MYIDSHIHLDVRGFEDLEKMALSGIREVITLAHDPYPMKTAEVYLDHFRRLLGVEP--ER 58 Query: 50 CQDYPSSIFCSVGTHPCHAHEENEVLVDELVCLASHPRVVAIGETGLDRYHNAHTIEEQK 109 + + +VG HP E E +++EL L S+ VVAIGE GL+ +E+K Sbjct: 59 AEKAGLKLKVAVGVHPRAIPPELEEVLEELEELLSNEDVVAIGEIGLEE-----ATDEEK 113 Query: 110 VVFLRHIEASRITGIPLVIHSRSADDDMAA-----ILQEEMKKGPFPFVIHCFSSSQKLA 164 VF +E +R +P+++H+ + A IL E K + H +++ Sbjct: 114 EVFREQLELARELDVPVIVHTPRRNKKEATSKILDILIESGLKPSLVVIDHV---NEETV 170 Query: 165 DICLELGGYISFTGMITFPKYDALRA--IARGIPMDRVLVETDSPYIVPVSCQGKRNEPA 222 D L+ Y+ T + K A I R +R+++ +D+ ++P Sbjct: 171 DEVLDEEFYVGLT--VQPGKLTVEEAVEIVREYGAERIILNSDAGSAA--------SDPL 220 Query: 223 YVVNTAKALAKEKDVSYEDLMEETTKNALKLF 254 V TA + +E+ V E++ + +NAL + Sbjct: 221 AVPRTALEM-EERGVGEEEIEKVVRENALSFY 251 >gnl|CDD|30035 cd01292, metallo-dependent_hydrolases, Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a conserved metal binding site, involving four histidines and one aspartic acid residue. In the common reaction mechanism, the metal ion (or ions) deprotonate a water molecule for a nucleophilic attack on the substrate. The family includes urease alpha, adenosine deaminase, phosphotriesterase dihydroorotases, allantoinases, hydantoinases, AMP-, adenine and cytosine deaminases, imidazolonepropionase, aryldialkylphosphatase, chlorohydrolases, formylmethanofuran dehydrogenases and others.. Length = 275 Score = 41.9 bits (97), Expect = 2e-04 Identities = 39/240 (16%), Positives = 65/240 (27%), Gaps = 34/240 (14%) Query: 2 LIDTHCHLLLPDFD--------------------EDRHDVIMRAHQANVLKMIAIA---- 37 IDTH HL ED + V ++ + Sbjct: 1 FIDTHVHLDGSALRGTRLNLELKEAEELSPEDLYEDTLRALEALLAGGVTTVVDMGSTPP 60 Query: 38 --IKVKDFVPLIKLCQDYPSSIFCSVGTHPCHAHEENEVLVDELVCLASHPRVVAIGETG 95 + + + P +E L L R + +G G Sbjct: 61 PTTTKAAIEAVAEAARASAGIRVVLGLGIPGVPAAVDEDAEALL--LELLRRGLELGAVG 118 Query: 96 LDRYHNAHTIEEQKVVFLRHIEASRITGIPLVIHSRSADDDMAAILQEEMKKGPFPFVI- 154 L R +E +R G+P+VIH+ D A+ V+ Sbjct: 119 LKLAGPYTATGLSDESLRRVLEEARKLGLPVVIHAGELPDPTRALEDLVALLRLGGRVVI 178 Query: 155 -HCFSSSQKLADICLELGGYISFTG---MITFPKYDALRAIARGI-PMDRVLVETDSPYI 209 H +L ++ E G + + + A+ R + RV + TD P Sbjct: 179 GHVSHLDPELLELLKEAGVSLEVCPLSNYLLGRDGEGAEALRRLLELGIRVTLGTDGPPH 238 >gnl|CDD|73064 cd02658, Peptidase_C19B, A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.. Length = 311 Score = 32.2 bits (73), Expect = 0.14 Identities = 17/83 (20%), Positives = 30/83 (36%), Gaps = 5/83 (6%) Query: 134 DDDMAAILQEEMKKGPFPFV--IHCFSSSQKLADICLELGGYISF---TGMITFPKYDAL 188 D+ + E+ P P + + + + + D C + TG TFP Y + Sbjct: 162 KDEATEKEEGELVYEPVPLEDCLKAYFAPETIEDFCSTCKEKTTATKTTGFKTFPDYLVI 221 Query: 189 RAIARGIPMDRVLVETDSPYIVP 211 + + V + D P VP Sbjct: 222 NMKRFQLLENWVPKKLDVPIDVP 244 >gnl|CDD|31921 COG1735, Php, Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]. Length = 316 Score = 30.2 bits (68), Expect = 0.60 Identities = 32/173 (18%), Positives = 58/173 (33%), Gaps = 21/173 (12%) Query: 101 NAHTIEEQKVVFLRHIEASRITGIPLVIHSRSAD--DDMAAILQEEMKKGPFPFVIHCFS 158 A T E+K A + TG P+ H+ + + IL EE + H Sbjct: 144 PAITPLEEKS-LRAAARAHKETGAPISTHTPAGTMGLEQLRILAEEGVDLRKVSIGHMDP 202 Query: 159 SSQKLA--DICLELGGYISF--TGMITFPKYDA-----LRAIARG------IPMDRVLVE 203 ++ + + G ++ F G + + L +ARG + D + + Sbjct: 203 NTDDVYYQKKLADRGAFLEFDRIGKDKYYPDEDRIAPLLELVARGYADLILLSHDDICLS 262 Query: 204 TDSP-YIVPVSCQGKRNEPAYVVNTAKALAKEKDVSYEDLMEETTKNALKLFS 255 D + + G Y++N K V E + N +LF+ Sbjct: 263 DDVFLKSMLKANGG--WGYGYILNDFIPRLKRHGVDEETIDTMLVDNPARLFT 313 >gnl|CDD|30050 cd01307, Met_dep_hydrolase_B, Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a conserved metal binding site, involving four histidines and one aspartic acid residue. In the common reaction mechanism, the metal ion (or ions) deprotonate a water molecule for a nucleophilic attack on the substrate. The function of this subgroup is unknown.. Length = 338 Score = 29.4 bits (66), Expect = 0.95 Identities = 44/259 (16%), Positives = 92/259 (35%), Gaps = 53/259 (20%) Query: 13 DFDEDRHDVIMRAHQANVLKMIAIA---IKVKDFVPLIKLCQDYPSSIFCSVGTHPCHAH 69 + D R+ VI R+ V + I+ + +D +P ++ + +P Sbjct: 76 NIDGFRYTVIERS-ATRVYAFLNISRVGLVAQDELPDPDNID--EDAVVAAAREYP---- 128 Query: 70 EENEVLVDELVCLASHPRVVAIGETGLDRYHNAHTIEEQKVVFLRHIEASRITGIPLVIH 129 D +V L + +GE G+ A + ++ +PL++H Sbjct: 129 -------DVIVGLKARASKSVVGEWGIKPLELA-------------KKIAKEADLPLMVH 168 Query: 130 SRSADDDMAAILQEEMKKGPFPFVIHCFS---------SSQKLADICLELGGYISFT--- 177 S + ++ +++G + HCF+ + L + + F Sbjct: 169 IGSPPPILDEVV-PLLRRG--DVLTHCFNGKPNGIVDEEGEVLPLVRRARERGVIFDVGH 225 Query: 178 GMITFPKYDALRAIARGIPMDRVLVETDSPYIVPVSCQGKRNEPAYVVNTAKALAKEKDV 237 G +F A AIA G+ D + +D + + + N P Y + T + + Sbjct: 226 GTASFSFRVARAAIAAGLLPD--TISSD------IHGRNRTNGPVYALATTLSKLLALGM 277 Query: 238 SYEDLMEETTKNALKLFSK 256 E+++E T N ++ Sbjct: 278 PLEEVIEAVTANPARMLGL 296 >gnl|CDD|31577 COG1387, HIS2, Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]. Length = 237 Score = 28.8 bits (64), Expect = 1.6 Identities = 15/82 (18%), Positives = 25/82 (30%), Gaps = 1/82 (1%) Query: 73 EVLVDELVCLASHPRVVAIGETGLDRYHNAHTIEEQKVVFLRHIEASRITGIPLVIHSRS 132 E + L+ S+ V + G K IE + G L I+SR Sbjct: 111 EDYTERLIAAMSNGAVDILAHPGGRLLGRID-RGAYKEDIEELIELAEKNGKALEINSRP 169 Query: 133 ADDDMAAILQEEMKKGPFPFVI 154 D + + ++ I Sbjct: 170 GRLDPNSEILRLARELGVKLAI 191 >gnl|CDD|37584 KOG2373, KOG2373, KOG2373, Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]. Length = 514 Score = 28.5 bits (63), Expect = 1.9 Identities = 17/73 (23%), Positives = 27/73 (36%), Gaps = 10/73 (13%) Query: 64 HPCHAHEENEVLVDELVCLASHPRVVAIGETGLDRYHNAHTIEEQKVVFLRHIEASRITG 123 H + + V++D L + G LDR+H I + + R Sbjct: 368 HAIYVEDIQHVIIDNLQFMMGQ------GMMALDRFHLQDRI----IGYFRQFATQNNIH 417 Query: 124 IPLVIHSRSADDD 136 + LV+H R D D Sbjct: 418 VTLVVHPRKEDGD 430 >gnl|CDD|39084 KOG3881, KOG3881, KOG3881, Uncharacterized conserved protein [Function unknown]. Length = 412 Score = 28.4 bits (63), Expect = 2.2 Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 4/73 (5%) Query: 79 LVCLASHPRVVAIGETGLDRYHNAHTIEEQKVVFLRHIEASRITGIPLVIHSRSADDDMA 138 + C +HP V+A GLDRY H I+ +K++ +++ SR+T I L D + Sbjct: 296 IHCHPTHP-VLASC--GLDRYVRIHDIKTRKLLHKVYVK-SRLTFILLRDDVNIEDPLVP 351 Query: 139 AILQEEMKKGPFP 151 + E+ K P Sbjct: 352 SEKAEKAMKEKVP 364 >gnl|CDD|146083 pfam03272, Enhancin, Viral enhancin protein. Length = 775 Score = 28.1 bits (63), Expect = 2.6 Identities = 10/48 (20%), Positives = 16/48 (33%), Gaps = 9/48 (18%) Query: 42 DFVPLIKLCQDYPSSIFCSVGTHPCHAHEENEVLVDELVCLASHPRVV 89 D VP +L Q + + +E N LA ++V Sbjct: 369 DLVPYFRLVQVDITLFYVLEDNKVVGLYERN---------LALFKKIV 407 >gnl|CDD|144027 pfam00287, Na_K-ATPase, Sodium / potassium ATPase beta chain. Length = 289 Score = 28.1 bits (63), Expect = 2.7 Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 6/34 (17%) Query: 195 IPMDRVL------VETDSPYIVPVSCQGKRNEPA 222 I M+R++ + + P+ C GKR E Sbjct: 180 IKMNRIIGFKPEPPKNYNSTAPPIHCTGKRAEDK 213 >gnl|CDD|145658 pfam02622, DUF179, Uncharacterized ACR, COG1678. Length = 159 Score = 27.5 bits (62), Expect = 3.8 Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 7/51 (13%) Query: 152 FVIHCFSSSQKLADICLELGGYISFTGMITFPKYDALRAIARGIPMDRVLV 202 FV+H S LE+ + T D L AIARG + +LV Sbjct: 68 FVLH--SPPDDGEPSSLEVSDGLYLTT-----SLDILEAIARGEGPEDILV 111 >gnl|CDD|29971 cd01086, MetAP1, Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides.. Length = 238 Score = 27.4 bits (61), Expect = 4.2 Identities = 15/44 (34%), Positives = 19/44 (43%), Gaps = 3/44 (6%) Query: 165 DICLELGGYISFTGMITFPKYDAL---RAIARGIPMDRVLVETD 205 + E G Y + G FPK + GIP DRVL + D Sbjct: 37 EFIEEHGAYPAPLGYYGFPKSICTSVNEVVCHGIPDDRVLKDGD 80 >gnl|CDD|32512 COG2365, COG2365, Protein tyrosine/serine phosphatase [Signal transduction mechanisms]. Length = 249 Score = 27.3 bits (60), Expect = 4.3 Identities = 12/71 (16%), Positives = 19/71 (26%), Gaps = 9/71 (12%) Query: 94 TGLDRYHNAHTIEEQKVVFLRHIEASRITGIPLVIHSRSADDDMAA-----ILQEEMKKG 148 L N + I + I + + AA +LQ Sbjct: 80 INLRDESNTNVELYTD----HLINWDKAAIIMFESYRSFPTREDAAERLVELLQLLADAE 135 Query: 149 PFPFVIHCFSS 159 P +IHC + Sbjct: 136 NGPVLIHCTAG 146 >gnl|CDD|73254 cd01295, AdeC, Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source in bacteria and archea.. Length = 422 Score = 27.1 bits (60), Expect = 4.9 Identities = 26/109 (23%), Positives = 39/109 (35%), Gaps = 25/109 (22%) Query: 2 LIDTHCH---LLLPDFDEDRH-------DVIMRAHQ-ANVLKMIAIAIKVKDFVPLIKLC 50 ID H H +L + + VI H+ ANV + I ++D Sbjct: 11 FIDAHLHIESSMLTPSEFAKAVLPHGTTTVIADPHEIANVAGVDGIEFMLEDAKKT---- 66 Query: 51 QDYPSSIF-----CSVGTHPCHAHEENEVLVDELVCLASHPRVVAIGET 94 P IF C T + E+ +++ L HP VV +GE Sbjct: 67 ---PLDIFWMLPSCVPATPFETS--GAELTAEDIKELLEHPEVVGLGEV 110 >gnl|CDD|38822 KOG3616, KOG3616, KOG3616, Selective LIM binding factor [Transcription]. Length = 1636 Score = 27.0 bits (59), Expect = 5.2 Identities = 13/36 (36%), Positives = 19/36 (52%) Query: 226 NTAKALAKEKDVSYEDLMEETTKNALKLFSKISECV 261 AK +AKE D ED +++ K LK K+ E + Sbjct: 1256 AKAKQVAKELDPEMEDEIDKHYKEFLKNEGKLDELI 1291 >gnl|CDD|30584 COG0235, AraD, Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]. Length = 219 Score = 26.8 bits (59), Expect = 5.5 Identities = 22/101 (21%), Positives = 34/101 (33%), Gaps = 13/101 (12%) Query: 16 EDRHDV--IMRAHQANVLKMIAIAIKVKDFVPLIKLCQDY-PSSIFCSVGTHPC------ 66 R D ++ H A++ + PL Y I C Sbjct: 87 RARPDAGAVVHTHSPYA---TALSTLGEPLPPLGTEHLKYFGGGIPC-APYAGPGSVELA 142 Query: 67 HAHEENEVLVDELVCLASHPRVVAIGETGLDRYHNAHTIEE 107 A E L + ++ L + VVA G+T + H A +EE Sbjct: 143 EALAEAADLAEAVLKLLRNHGVVAWGKTLAEAVHLAEVLEE 183 >gnl|CDD|173865 cd08500, PBP2_NikA_DppA_OppA_like_4, The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. Besides transport proteins, the PBP2 superfamily includes the ligand-binding domains from ionotropic glutamate receptors, LysR-type transcriptional regulators, and unorthodox sensor proteins involved in signal transduction. Length = 499 Score = 26.8 bits (60), Expect = 5.7 Identities = 6/26 (23%), Positives = 12/26 (46%) Query: 128 IHSRSADDDMAAILQEEMKKGPFPFV 153 + R +D +L+E +KG + Sbjct: 210 LQGRHPEDLDYPLLKENEEKGGYTVY 235 >gnl|CDD|48344 cd00433, Peptidase_M17, Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and play a key role in protein degradation and in the metabolism of biologically active peptides. They do not contain HEXXH motif (which is used as one of the signature patterns to group the peptidase families) in the metal-binding site. The two associated zinc ions and the active site are entirely enclosed within the C-terminal catalytic domain in leucine aminopeptidase. The enzyme is a hexamer, with the catalytic domains clustered around the three-fold axis, and the two trimers related to one another by a two-fold rotation. The N-terminal domain is structurally similar to the ADP-ribose binding Macro domain. This family includes proteins from bacteria, archaea, animals and plants.. Length = 468 Score = 26.3 bits (58), Expect = 9.2 Identities = 20/61 (32%), Positives = 27/61 (44%), Gaps = 10/61 (16%) Query: 185 YDALRAIARGIPMDRVLVETDSPYIVPVSCQGKRNEPAYVVNTAKALAKEKDVSYEDLME 244 + AIA G+ + R LV T + + P Y+ AK LAKE V E L E Sbjct: 147 LERGEAIAEGVNLARDLVNTPANDLTP----------TYLAEEAKELAKELGVKVEVLDE 196 Query: 245 E 245 + Sbjct: 197 K 197 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.323 0.137 0.409 Gapped Lambda K H 0.267 0.0610 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 3,231,295 Number of extensions: 171709 Number of successful extensions: 554 Number of sequences better than 10.0: 1 Number of HSP's gapped: 537 Number of HSP's successfully gapped: 36 Length of query: 262 Length of database: 6,263,737 Length adjustment: 92 Effective length of query: 170 Effective length of database: 4,275,709 Effective search space: 726870530 Effective search space used: 726870530 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 56 (25.6 bits)