RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780170|ref|YP_003064583.1| cationic amino acid ABC transporter, periplasmic binding protein [Candidatus Liberibacter asiaticus str. psy62] (342 letters) >gnl|CDD|162200 TIGR01096, 3A0103s03R, lysine-arginine-ornithine-binding periplasmic protein. Length = 250 Score = 157 bits (400), Expect = 3e-39 Identities = 58/284 (20%), Positives = 100/284 (35%), Gaps = 56/284 (19%) Query: 32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLA 91 K G ++ G TG F ANG GFDVD +AL + +K +++ N + Sbjct: 22 KEGSVRIGTETGYPPFESKDANGKLVGFDVDLAKALCKRMK---AKCKFVEQNFDGLIPS 78 Query: 92 LQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGI-SSVSQLSGASICV 150 L++K++D + ++ + + F Y GQGF++ K + ++ L G ++ V Sbjct: 79 LKAKKVDAIMAT--MSITPKRQKQIDFSDPYYATGQGFVVKKGSDLAKTLEDLDGKTVGV 136 Query: 151 QAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDR 210 Q+GTT E L DYFK + ++ + + +A R DA D S L L Sbjct: 137 QSGTTHEQYLKDYFKP---GVDIVEYDSYDNANMDLKAGRIDAVFTDASVLAEGFLKPPN 193 Query: 211 PSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTN 270 + + ++ GD GI + + Sbjct: 194 GKDFKFVGPSVTDEKY-----FGD------------------GYGIGLRKGDT------- 223 Query: 271 PDVQRFLGIDKSSNIGEALGLTKDWTYRIIRHMGNYGEMFDRNL 314 L + IR G Y ++ + Sbjct: 224 -----------------ELKAAFNKALAAIRADGTYQKISKKWF 250 >gnl|CDD|128376 smart00062, PBPb, Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe. Length = 219 Score = 140 bits (356), Expect = 4e-34 Identities = 56/227 (24%), Positives = 97/227 (42%), Gaps = 10/227 (4%) Query: 36 LKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSK 95 L+ G N F+ +G+ GFDVD +A++ + K++++ ++ AL+S Sbjct: 2 LRVGTNGDYPPFSFADEDGELTGFDVDLAKAIAKELG---LKVEFVEVSFDNLLTALKSG 58 Query: 96 QIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTT 155 +ID+++ T R + F Y GQ ++ K I S+ L G + V AGTT Sbjct: 59 KIDVVAAGMTITPERAKQV--DFSDPYYKSGQVILVRKDSPIKSLEDLKGKKVAVVAGTT 116 Query: 156 TELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHV 215 E L + + ++ E AA +A R DA D AL AL + P + Sbjct: 117 GEELLKKL----YPEAKIVSYDSQAEALAALKAGRADAAVADAPALAALVKQHGLPELKI 172 Query: 216 ILPDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEEL-GITQKNI 261 + + + A A+ +GD E + ++ + L I +K Sbjct: 173 VGDPLDTPEGYAFAVRKGDPELLDKINKALKELKADGTLKKIYEKWF 219 >gnl|CDD|183381 PRK11917, PRK11917, bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed. Length = 259 Score = 73.8 bits (181), Expect = 6e-14 Identities = 61/216 (28%), Positives = 98/216 (45%), Gaps = 12/216 (5%) Query: 9 ILCLIILFFTSFSTNA----SILGDIKKRGFLKCGINTGLVGFAEV-KANGDWKGFDVDF 63 L + L +NA L IK +G L G+ + +A + +A G+ KGF++D Sbjct: 9 KLAVFALGACVAFSNANAAEGKLESIKSKGQLIVGVKNDVPHYALLDQATGEIKGFEIDV 68 Query: 64 CRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITY 123 + L+ +I D KI+ + +NAK R L + +D + +T+ E F Y Sbjct: 69 AKLLAKSILGDDKKIKLVAVNAKTRGPLLDNGSVDAVI--ATFTITPERKRIYNFSEPYY 126 Query: 124 FDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEID 183 D G ++ K+K S++ + GA+I V TT+ + + K + F I Sbjct: 127 QDAIGLLVLKEKNYKSLADMKGANIGVAQAATTKKAIGEAAKKIGIDVKFSEFPDYPSIK 186 Query: 184 AAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPD 219 AA A R DA++ D S L L +D+ ILPD Sbjct: 187 AALDAKRVDAFSVDKSIL--LGYVDDKS---EILPD 217 >gnl|CDD|184969 PRK15007, PRK15007, putative ABC transporter arginine-biding protein; Provisional. Length = 243 Score = 39.6 bits (92), Expect = 0.001 Identities = 33/121 (27%), Positives = 54/121 (44%), Gaps = 16/121 (13%) Query: 47 FAEVKANGDWKGFDVDFCRALSSAI-----FDDPSKIQYLPLNAKERFLALQSKQIDILS 101 F + AN GFDVD +AL I F + + +P +L+ ++++ + Sbjct: 34 FESIDANNQIVGFDVDLAQALCKEIDATCTFSNQAFDSLIP--------SLKFRRVEAVM 85 Query: 102 RNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLA 161 D T RE + L P Y+D + ++ +SV QL G + VQ GTT + + Sbjct: 86 AGMDITPEREKQV-LFTTP--YYDNSALFVGQQGKYTSVDQLKGKKVGVQNGTTHQKFIM 142 Query: 162 D 162 D Sbjct: 143 D 143 >gnl|CDD|181908 PRK09495, glnH, glutamine ABC transporter periplasmic protein; Reviewed. Length = 247 Score = 35.9 bits (83), Expect = 0.016 Identities = 47/174 (27%), Positives = 65/174 (37%), Gaps = 47/174 (27%) Query: 39 GINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYL--PLNAKERFLALQSKQ 96 +T V F E K + GFD+D L +AI + K+ Y P++ ALQ+K Sbjct: 30 ATDTAFVPF-EFKQGDKYVGFDID----LWAAIAKEL-KLDYTLKPMDFSGIIPALQTKN 83 Query: 97 IDILSRNTDWTLLREISLGLAFRPIT------------YFDGQGFIMHKKKG--ISSVSQ 142 +D L LA IT Y+ +M K I SV Sbjct: 84 VD---------------LALAGITITDERKKAIDFSDGYYKSGLLVMVKANNNDIKSVKD 128 Query: 143 LSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAY---RAHRCDA 193 L G + V++GT + DY KA+ + ID AY R DA Sbjct: 129 LDGKVVAVKSGTGS----VDYAKAN---IKTKDLRQFPNIDNAYLELGTGRADA 175 >gnl|CDD|182740 PRK10797, PRK10797, glutamate and aspartate transporter subunit; Provisional. Length = 302 Score = 34.8 bits (80), Expect = 0.031 Identities = 34/140 (24%), Positives = 59/140 (42%), Gaps = 6/140 (4%) Query: 25 SILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAI---FDDPS-KIQY 80 S L I K G + G V F+ G+ D+ A+ A+ + P +++ Sbjct: 31 STLDKIAKNGVIVVGHRESSVPFSYYDNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKL 90 Query: 81 LPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGISSV 140 +P+ ++ R LQ+ D +T L R+ AF + G + K I Sbjct: 91 IPITSQNRIPLLQNGTFDFECGSTTNNLERQKQA--AFSDTIFVVGTRLLTKKGGDIKDF 148 Query: 141 SQLSGASICVQAGTTTELTL 160 + L G ++ V +GTT+E+ L Sbjct: 149 ADLKGKAVVVTSGTTSEVLL 168 >gnl|CDD|183061 PRK11260, PRK11260, cystine transporter subunit; Provisional. Length = 266 Score = 34.3 bits (79), Expect = 0.045 Identities = 33/135 (24%), Positives = 55/135 (40%), Gaps = 5/135 (3%) Query: 24 ASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPL 83 +L +K+RG L G+ F+ +G GF+V+F AL+ + K P Sbjct: 31 EGLLNKVKERGTLLVGLEGTYPPFSFQGEDGKLTGFEVEFAEALAKHL---GVKASLKPT 87 Query: 84 NAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKG-ISSVSQ 142 +L SK+ID++ + R+ + P T Q + +G I + + Sbjct: 88 KWDGMLASLDSKRIDVVINQVTISDERKKKYDFS-TPYTVSGIQALVKKGNEGTIKTAAD 146 Query: 143 LSGASICVQAGTTTE 157 L G + V GT E Sbjct: 147 LKGKKVGVGLGTNYE 161 >gnl|CDD|150404 pfam09724, DUF2036, Uncharacterized conserved protein (DUF2036). This family of proteins includes members ranging in size from approximately 300 to 460 residues. There are a number of well-conserved domains along the length. Length = 325 Score = 28.8 bits (65), Expect = 2.0 Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 7/42 (16%) Query: 58 GFDVDFCRALSSAIFDDP--SKIQY-----LPLNAKERFLAL 92 G D+D + A+ D P IQY LP + KERF L Sbjct: 267 GMDLDLDQLRGYALLDRPAEETIQYLSEEDLPTDPKERFKEL 308 >gnl|CDD|184972 PRK15010, PRK15010, ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional. Length = 260 Score = 27.7 bits (61), Expect = 4.6 Identities = 37/151 (24%), Positives = 62/151 (41%), Gaps = 10/151 (6%) Query: 8 SILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRAL 67 SIL L +L S AS + + + G +T F+ A GD+ GFD+D + Sbjct: 4 SILALSLL--VGLSAAASSYAALPETV--RIGTDTTYAPFSSKDAKGDFVGFDIDLGNEM 59 Query: 68 SSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQ 127 + K ++ + +L++K+ID + + T R+ +AF Y Sbjct: 60 CKRM---QVKCTWVASDFDALIPSLKAKKIDAIISSLSITDKRQQE--IAFSDKLYAADS 114 Query: 128 GFIMHKKKGIS-SVSQLSGASICVQAGTTTE 157 I K I ++ L G + V G+T E Sbjct: 115 RLIAAKGSPIQPTLDSLKGKHVGVLQGSTQE 145 >gnl|CDD|180730 PRK06851, PRK06851, hypothetical protein; Provisional. Length = 367 Score = 27.6 bits (62), Expect = 5.3 Identities = 25/105 (23%), Positives = 40/105 (38%), Gaps = 21/105 (20%) Query: 15 LFFTSFSTNA------SILGDIKKRGFLKCGINTGLVGFAEVKAN-GDWKGFDVDF--C- 64 LF + + S+ +K R FLK TG + A + +GFDV+ C Sbjct: 192 LFLGAITPKGAVDFVPSLTEGVKNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCG 251 Query: 65 -----------RALSSAIFDDPSKIQYLPLNAKERFLALQSKQID 98 L+ AIFD + +Y P + + + + ID Sbjct: 252 FDPDSLDMVIIPELNFAIFDSTAPHEYFPSREGDEIIDMYDELID 296 >gnl|CDD|184492 PRK14081, PRK14081, triple tyrosine motif-containing protein; Provisional. Length = 667 Score = 27.3 bits (61), Expect = 6.0 Identities = 12/38 (31%), Positives = 23/38 (60%) Query: 75 PSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREI 112 P++I Y+ L KE +L +I+++ +NT L++ I Sbjct: 480 PAEIDYILLPVKEYYLVGDDIEIEVIIQNTKDVLIKYI 517 >gnl|CDD|184281 PRK13729, PRK13729, conjugal transfer pilus assembly protein TraB; Provisional. Length = 475 Score = 27.1 bits (60), Expect = 6.7 Identities = 17/69 (24%), Positives = 31/69 (44%), Gaps = 14/69 (20%) Query: 121 ITYFDGQGFIMHKKKGISSVSQLS---GASICVQAGTTTEL-----------TLADYFKA 166 + + G GF+ +G+ SQ + GA+ AG ++ TL+DY+ Sbjct: 323 LGWAWGAGFVDGIGQGMERASQPAVGLGATAAYGAGDVLKMGIGGGASKAAQTLSDYYIK 382 Query: 167 HNMKYHPIV 175 +YHP++ Sbjct: 383 RAEQYHPVI 391 >gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model. Length = 600 Score = 27.2 bits (60), Expect = 6.9 Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 4/37 (10%) Query: 22 TNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKG 58 T A+ DI R +CG+ ++GF +A WKG Sbjct: 411 TVAATCADILARTLERCGVKVEILGFT-TRA---WKG 443 >gnl|CDD|179119 PRK00772, PRK00772, 3-isopropylmalate dehydrogenase; Provisional. Length = 358 Score = 27.0 bits (61), Expect = 6.9 Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 6/33 (18%) Query: 201 LYALKLTNDRPSEHVILPDIISKSPLAPAIIQG 233 L+A N RP + P + SPL P I+ G Sbjct: 101 LFA----NLRP--AKLYPGLADASPLKPEIVAG 127 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.322 0.138 0.418 Gapped Lambda K H 0.267 0.0590 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 5,668,018 Number of extensions: 361042 Number of successful extensions: 696 Number of sequences better than 10.0: 1 Number of HSP's gapped: 688 Number of HSP's successfully gapped: 23 Length of query: 342 Length of database: 5,994,473 Length adjustment: 94 Effective length of query: 248 Effective length of database: 3,963,321 Effective search space: 982903608 Effective search space used: 982903608 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 57 (26.0 bits)