RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780468|ref|YP_003064881.1| sensory box/GGDEF family protein [Candidatus Liberibacter asiaticus str. psy62] (963 letters) >gnl|CDD|34606 COG5001, COG5001, Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]. Length = 663 Score = 209 bits (534), Expect = 2e-54 Identities = 119/414 (28%), Positives = 216/414 (52%), Gaps = 12/414 (2%) Query: 536 DNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVLVSL 595 D+LTG+PNR+ F L L +A R + VID+D +K +ND G A GD +L+ + Sbjct: 231 DSLTGLPNRRRFFAELDARLA-AARQSGRRLVLGVIDLDGFKPVNDAFGHATGDRLLIEV 289 Query: 596 TRRIGELLKFPDILARLSGNRFGIIL-ISENNSLKIADFAIAMRKSIAMPINLLEREITV 654 RR+ P + ARL G+ F +I+ E+++L++A A A+ +S+ P +L + V Sbjct: 290 GRRLKAFDGAPILAARLGGDEFALIIPALEDDALRVAG-ARALCESLQAPYDLRGVRVQV 348 Query: 655 TASIGFASWTSSKITSSEMLKNAELAMYHAKHRGGNHVESF--RVSSFRSDRVMIKEDLC 712 ASIG A + S TS ++ + A+ A+YHAK G F R + D ++++ L Sbjct: 349 GASIGIAPFPSGADTSEQLFERADYALYHAKQNGKGAAVLFDARHEAAIRDMAVVEQALR 408 Query: 713 LAVENSELYLVYHPIIRLMDEEIVGLEALIQWDHPKWGNISSSEFMLIAEELCMIKAINL 772 A EL + + PI+ ++ + + LEAL +W P+ G + F+ IAE I + Sbjct: 409 SADLEQELSVHFQPIVDIVSGKTIALEALARWHSPEIGPVPPDVFIGIAERSGQIVELTR 468 Query: 773 FMLERIARDIISWRDQANMPPIFILINIASKDLLDNELCEGMQALISKTLYSPSRIKLSF 832 +L + R+ +W + IN++++DL E + A++S++ +P R+ Sbjct: 469 LLLAKALREARAWPMDVRVS-----INLSARDLASMENVRRLLAIVSESCIAPHRLDFEI 523 Query: 833 SESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDTVKFNGSLMTGST 892 +E+ ++ + +++R L L ++G+ LDDFGT S LS+L +P D +K + S ++ Sbjct: 524 TETAIVCDFDQARDALAALHELGVRTALDDFGTGYSSLSHLRALPLDKIKIDRSFVSDLE 583 Query: 893 EKRIA--ILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQDSHVASPL 944 E + I+R+++ + +N+ + + + E + +G +Q H A P+ Sbjct: 584 ENPTSEDIVRTVLQLGRNLRMECVVEGVETEAQRDRVAALGATVMQGYHYARPM 637 >gnl|CDD|30163 cd01948, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.. Length = 240 Score = 181 bits (461), Expect = 8e-46 Identities = 80/238 (33%), Positives = 135/238 (56%), Gaps = 4/238 (1%) Query: 709 EDLCLAVENSELYLVYHPIIRLMDEEIVGLEALIQWDHPKWGNISSSEFMLIAEELCMIK 768 DL A+E E L Y PI+ L IVG EAL++W HP+ G IS +EF+ +AEE +I Sbjct: 1 ADLRRALERGEFELYYQPIVDLRTGRIVGYEALLRWRHPEGGLISPAEFIPLAEETGLIV 60 Query: 769 AINLFMLERIARDIISWRDQANMPPIFILINIASKDLLDNELCEGMQALISKTLYSPSRI 828 + ++LE R + W+ P + + +N++++ L D + + + L+++T P R+ Sbjct: 61 ELGRWVLEEACRQLARWQAGG--PDLRLSVNLSARQLRDPDFLDRLLELLAETGLPPRRL 118 Query: 829 KLSFSESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDTVKFNGSLM 888 L +ES ++ + E + L RLR +G+ + LDDFGT S LSYL +P D +K + S + Sbjct: 119 VLEITESALIDDLEEALATLRRLRALGVRIALDDFGTGYSSLSYLKRLPVDYLKIDRSFV 178 Query: 889 TGSTE--KRIAILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQDSHVASPL 944 + AI+R+II +A ++ ++A+ + E ++ L +GCDY+Q + PL Sbjct: 179 RDIETDPEDRAIVRAIIALAHSLGLKVVAEGVETEEQLELLRELGCDYVQGYLFSRPL 236 >gnl|CDD|32382 COG2200, Rtn, FOG: EAL domain [Signal transduction mechanisms]. Length = 256 Score = 175 bits (445), Expect = 6e-44 Identities = 82/258 (31%), Positives = 141/258 (54%), Gaps = 5/258 (1%) Query: 704 RVMIKEDLCLAVENSELYLVYHPIIRLMDEEIVGLEALIQWDHPKWGNISSSEFMLIAEE 763 R+ ++ DL A+EN E L Y PI+ L IVG EAL++W HP G IS EF+ +AEE Sbjct: 1 RLQLERDLRQALENGEFSLYYQPIVDLATGRIVGYEALLRWRHPDGGLISPGEFIPLAEE 60 Query: 764 LCMIKAINLFMLERIARDIISWRDQANMPPIFILINIASKDLLDNELCEGMQALISKTLY 823 +I + ++LE R + +W P+ + +N++ L L + + L+++ Sbjct: 61 TGLIVELGRWVLEEACRQLRTWPRA---GPLRLAVNLSPVQLRSPGLVDLLLRLLARLGL 117 Query: 824 SPSRIKLSFSESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDTVKF 883 P R+ L +ES ++ + + + LL +LR++G+ + LDDFGT S LSYL +P D +K Sbjct: 118 PPHRLVLEITESALIDDLDTALALLRQLRELGVRIALDDFGTGYSSLSYLKRLPPDILKI 177 Query: 884 NGSLMT--GSTEKRIAILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQDSHVA 941 + S + + + AI+R+I+ +A + T++A+ + E + L +GCDY+Q + Sbjct: 178 DRSFVRDLETDARDQAIVRAIVALAHKLGLTVVAEGVETEEQLDLLRELGCDYLQGYLFS 237 Query: 942 SPLGFNSILKLLKERFPL 959 PL +++ LL Sbjct: 238 RPLPADALDALLSSSQSR 255 >gnl|CDD|144230 pfam00563, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues. The EAL domain is a good candidate for a diguanylate phosphodiesterase function. The domain contains many conserved acidic residues that could participate in metal binding and might form the phosphodiesterase active site. Length = 233 Score = 156 bits (397), Expect = 2e-38 Identities = 80/232 (34%), Positives = 128/232 (55%), Gaps = 4/232 (1%) Query: 714 AVENSELYLVYHPIIRLMDEEIVGLEALIQWDHPKWGNISSSEFMLIAEELCMIKAINLF 773 A+EN E L + PI+ L +++G EAL++W HP G IS EF+ +AE L +I ++ + Sbjct: 4 ALENGEFSLYFQPIVDLRTGKVIGYEALLRWQHPDGGLISPEEFLPLAERLGLIAELDRW 63 Query: 774 MLERIARDIISWRDQANMPPIFIL-INIASKDLLDNELCEGMQALISKTLYSPSRIKLSF 832 +LE+ + WR+ A +PP L +N++ LLD E + AL PSR+ L Sbjct: 64 VLEQALAQLAEWRENALLPPDLPLSVNLSPASLLDPSFLEALLALKQ-GGLPPSRLVLEI 122 Query: 833 SESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDTVKFNGSLMTG-S 891 +ES + + L RLR +G L LDDFGT S LSYL +P D +K + S + S Sbjct: 123 TESALDEDLRLLE-ALARLRSLGFRLALDDFGTGYSSLSYLSRLPPDYIKIDRSFIKDLS 181 Query: 892 TEKRIAILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQDSHVASP 943 + A+LR++I +A+ + ++A+ + E ++ L +G DY+Q + P Sbjct: 182 DPESRALLRALIALARELGIKVVAEGVETEEQLELLKELGIDYVQGYLFSKP 233 >gnl|CDD|143635 cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria. Length = 158 Score = 147 bits (374), Expect = 1e-35 Identities = 59/162 (36%), Positives = 93/162 (57%), Gaps = 6/162 (3%) Query: 534 FQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVLV 593 + D LTG+PNR++F +RL +L A +++IDID +K+IND G A GD+VL Sbjct: 1 YTDPLTGLPNRRAFEERLERLLAR-ARRSGRPLALLLIDIDHFKQINDTYGHAAGDEVLK 59 Query: 594 SLTRRIGELLKFPDILARLSGNRFGIIL--ISENNSLKIADFAIAMRKSIAMPINLLERE 651 + R+ L+ D++ARL G+ F I+L + +A+ +R++I P + +E Sbjct: 60 EVAERLRSSLRESDLVARLGGDEFAILLPGTDLEEAEALAE---RLREAIEEPFFIDGQE 116 Query: 652 ITVTASIGFASWTSSKITSSEMLKNAELAMYHAKHRGGNHVE 693 I VTASIG A++ + E+L+ A+ A+Y AK G N V Sbjct: 117 IRVTASIGIATYPEDGEDAEELLRRADEALYRAKRSGRNRVV 158 >gnl|CDD|32381 COG2199, COG2199, FOG: GGDEF domain [Signal transduction mechanisms]. Length = 181 Score = 135 bits (340), Expect = 6e-32 Identities = 62/183 (33%), Positives = 99/183 (54%), Gaps = 3/183 (1%) Query: 514 GIANDITEQKKSLEGILCNAFQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDI 573 + +T +K+ E + A D LTG+PNR++F +RL L A ++++D+ Sbjct: 1 ALLRLLTRLRKAEERLERLALHDPLTGLPNRRAFEERLERALA-RARRHGEPLALLLLDL 59 Query: 574 DKYKKINDVLGIAVGDDVLVSLTRRIGELLKFPDILARLSGNRFGIILISENNSLKIADF 633 D +K+IND G A GD+VL + RR+ L+ D++ARL G+ F ++L + + A Sbjct: 60 DHFKQINDTYGHAAGDEVLREVARRLRSNLREGDLVARLGGDEFAVLLPGTSLE-EAARL 118 Query: 634 AIAMRKSIAMPINLLEREITVTASIGFASWTSSKITSSEML-KNAELAMYHAKHRGGNHV 692 A +R ++ P L E+ VT SIG A + +E+L + A+LA+Y AK G N V Sbjct: 119 AERIRAALEEPFFLGGEELRVTVSIGVALYPEDGSDDAELLLRRADLALYRAKRAGRNRV 178 Query: 693 ESF 695 F Sbjct: 179 VVF 181 >gnl|CDD|144545 pfam00990, GGDEF, GGDEF domain. This domain is found linked to a wide range of non-homologous domains in a variety of bacteria. It has been shown to be homologous to the adenylyl cyclase catalytic domain and has diguanylate cyclase activity. This observation correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Length = 159 Score = 134 bits (340), Expect = 1e-31 Identities = 54/161 (33%), Positives = 93/161 (57%), Gaps = 4/161 (2%) Query: 533 AFQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVL 592 A D LTG+PNR+ F + L L + L ++++D+D +K+IND G AVGD+VL Sbjct: 1 AAHDPLTGLPNRRYFEEELEQELQRARRQSPL--ALLLLDLDNFKRINDTYGHAVGDEVL 58 Query: 593 VSLTRRIGELLKFPDILARLSGNRFGIIL--ISENNSLKIADFAIAMRKSIAMPINLLER 650 + +R+ L+ D++ARL G+ F I+L S + ++A+ + ++ +P L Sbjct: 59 QEVAQRLSSSLRRSDLVARLGGDEFAILLPDTSLEGAQELAERIRRLLAALKIPHTLSGL 118 Query: 651 EITVTASIGFASWTSSKITSSEMLKNAELAMYHAKHRGGNH 691 + VT SIG A++ + + ++LK A+ A+Y AK++G N Sbjct: 119 PLYVTISIGIAAYPNDGEDAEDLLKRADQALYQAKNQGRNR 159 >gnl|CDD|34551 COG4943, COG4943, Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]. Length = 524 Score = 128 bits (322), Expect = 9e-30 Identities = 67/245 (27%), Positives = 118/245 (48%), Gaps = 5/245 (2%) Query: 714 AVENSELYLVYHPIIRLMDEEIVGLEALIQWDHPKWGNISSSEFMLIAEELCMIKAINLF 773 A+E EL + Y PI+ L + VG EAL +W +S F+ +AEE MI+ I + Sbjct: 276 AIERRELCVHYQPIVDLATGKCVGAEALARWPQEDGTVVSPDVFIPLAEESGMIEQITDY 335 Query: 774 MLERIARDIISWRDQANMPPIFILINIASKDLLDNELCEGMQALISKTLYSPSRIKLSFS 833 ++ + RD+ + + IN+++ DL L + + +++ P +I L + Sbjct: 336 VIRNVFRDLGDL--LRQHRDLHVSINLSASDLASPRLIDRLNRKLAQYQVRPQQIALELT 393 Query: 834 ESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDTVKFNGSLMT--GS 891 E +P++ ++ RLR+ G + +DDFGT S L YL +P D +K + S + G+ Sbjct: 394 ERTFA-DPKKMTPIILRLREAGHEIYIDDFGTGYSNLHYLQSLPVDALKIDKSFVDTLGT 452 Query: 892 TEKRIAILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQDSHVASPLGFNSILK 951 I II MAK++ I+A+ + E + L + G Y Q + L + L Sbjct: 453 DSASHLIAPHIIEMAKSLGLKIVAEGVETEEQVDWLRKRGVHYGQGWLFSKALPAQAFLD 512 Query: 952 LLKER 956 +++ Sbjct: 513 WAEQQ 517 >gnl|CDD|33501 COG3706, PleD, Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]. Length = 435 Score = 105 bits (262), Expect = 1e-22 Identities = 55/176 (31%), Positives = 90/176 (51%), Gaps = 3/176 (1%) Query: 523 KKSLEGILCNAFQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDV 582 ++SLE + A D LTG+ NR+ F + L + A + +++++DID +K+IND Sbjct: 260 RESLERLQELALVDGLTGLFNRRYFDEHLADLWK-RALREGRPLSLLMLDIDDFKEINDT 318 Query: 583 LGIAVGDDVLVSLTRRIGELLKFPDILARLSGNRFGIIL--ISENNSLKIADFAIAMRKS 640 G VGD+VL + RR+ + ++ D++AR G F ++L ++ IA+ Sbjct: 319 YGHDVGDEVLRQVARRLRQTVRGLDLVARYGGEEFAVVLPDTDLEAAIAIAERIRQKINE 378 Query: 641 IAMPINLLEREITVTASIGFASWTSSKITSSEMLKNAELAMYHAKHRGGNHVESFR 696 + L + VT SIG A + + E+LK A+ A+Y AK G N V R Sbjct: 379 LPFVHELSREPLEVTISIGVAEGKPGEDSIEELLKRADKALYKAKASGRNRVVVKR 434 >gnl|CDD|32384 COG2202, AtoS, FOG: PAS/PAC domain [Signal transduction mechanisms]. Length = 232 Score = 44.2 bits (101), Expect = 2e-04 Identities = 30/121 (24%), Positives = 51/121 (42%), Gaps = 1/121 (0%) Query: 405 ERQSLAVLGSGDIVWDWDIVRDRVTTTPDIATILGLASGSMHGPIRNWLPYIHINDRDNF 464 ER + S D +W D + P +LG + G + L ++ Sbjct: 112 ERLRALLEASPDGIWVLDEDGRILYANPAAEELLGYSPEEELGRGLSDL-IHPEDEERRE 170 Query: 465 RTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQKK 524 + + R G L+ E+RVR D + I+ +G+I+ +GIA DITE+K+ Sbjct: 171 LELARALAEGRGGPLEIEYRVRRKDGERVRWILSRISPVRDDGEIVGVVGIARDITERKQ 230 Query: 525 S 525 + Sbjct: 231 A 231 >gnl|CDD|35676 KOG0455, KOG0455, KOG0455, Homoserine dehydrogenase [Amino acid transport and metabolism]. Length = 364 Score = 35.0 bits (80), Expect = 0.11 Identities = 23/101 (22%), Positives = 41/101 (40%), Gaps = 3/101 (2%) Query: 547 FLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVLVSLTRRIGELLKFP 606 L ++ + L A V V D + DVL + + L + G L Sbjct: 18 LLQQIVSCRSLHAKMTVHINVVGVCDSESLVASKDVLPENLNSEWKSELIKSTGSALSLD 77 Query: 607 DILARLSGNRFGIILISENNSLKIADF---AIAMRKSIAMP 644 ++A+L G+ +IL+ S++IA+ + + IA P Sbjct: 78 ALIAKLLGSPTPLILVDNTASMEIAEIYMKFVDLGICIATP 118 >gnl|CDD|143637 cd07556, Nucleotidyl_cyc_III, Class III nucleotidyl cyclases. Class III nucleotidyl cyclases are the largest, most diverse group of nucleotidyl cyclases (NC's) containing prokaryotic and eukaryotic proteins. They can be divided into two major groups; the mononucleotidyl cyclases (MNC's) and the diguanylate cyclases (DGC's). The MNC's, which include the adenylate cyclases (AC's) and the guanylate cyclases (GC's), have a conserved cyclase homology domain (CHD), while the DGC's have a conserved GGDEF domain, named after a conserved motif within this subgroup. Their products, cyclic guanylyl and adenylyl nucleotides, are second messengers that play important roles in eukaryotic signal transduction and prokaryotic sensory pathways. Length = 133 Score = 33.9 bits (78), Expect = 0.23 Identities = 23/97 (23%), Positives = 45/97 (46%), Gaps = 4/97 (4%) Query: 567 TVMVIDIDKYKKINDVLGIAVGDDVLVSLTRRIGELL-KFPDILARLSGNRFGIILISEN 625 T++ DI + + D LG GD++L L R L+ + D+ + G+ F +++ + Sbjct: 3 TILFADIVGFTSLADALGPDEGDELLNELAGRFDSLIRRSGDLKIKTIGDEF-MVVSGLD 61 Query: 626 NSLKIADFAIAMRKSIAMPINLLEREITVTASIGFAS 662 + FA MR++++ +N V IG + Sbjct: 62 HPAAAVAFAEDMREAVSA-LN-QSEGNPVRVRIGIHT 96 >gnl|CDD|31478 COG1287, COG1287, Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]. Length = 773 Score = 33.5 bits (76), Expect = 0.31 Identities = 17/90 (18%), Positives = 35/90 (38%), Gaps = 12/90 (13%) Query: 315 LASIVLYYTYFIIYHGMKGYERAVLLIPAWILIFIWFIGLWMAITKRLDNDIIQPAL--- 371 LA+++L + + G+ + L ++F L + K+L +I L Sbjct: 144 LAALLLALAPGYLSRTVAGFYDTDMFELLLPLFALFFFLLALKAAKKLKKPVIYALLAGL 203 Query: 372 ---------VGGLVLIVILIGFTVIQHVLA 392 G ++ IL+ + ++ VLA Sbjct: 204 ALGLLALAWGGYYYILAILLLYALVLLVLA 233 >gnl|CDD|31669 COG1480, COG1480, Predicted membrane-associated HD superfamily hydrolase [General function prediction only]. Length = 700 Score = 32.6 bits (74), Expect = 0.50 Identities = 29/180 (16%), Positives = 59/180 (32%), Gaps = 16/180 (8%) Query: 186 NSFTLYRGIIIGVASLLAIFLTIFYMVNRS------------SMLIPTFAMAWVVLGYIS 233 + G++I V L+ +F S+ I T ++ +V + Sbjct: 272 VNILPLLGLLILVIFLILLFALYERRTKSPLKLRNSLLLLYLSLAILTLSLLRIVGYFNY 331 Query: 234 IDFGFLSKLVNLPSGELLIWRACSEIALSSSLIIFLFMYLHWNRWHAKVGYITFSGIACI 293 G L P LLI IA+ SS +I + + + + + ++ Sbjct: 332 SASGLLVPPALGP--MLLILLVFLRIAIFSSSMIAIALLYLFGGSYN-SEIALIALLSSF 388 Query: 294 AILFCMSFYYPMVTASIARITLASI-VLYYTYFIIYHGMKGYERAVLLIPAWILIFIWFI 352 + L + + + LA + +L I + Y+ I A++ + I Sbjct: 389 SALVLLRKMSRRSDILKSGLFLALMNMLLLLSLIFAFTLSWYDALQDAIFAFLSGLLSGI 448 >gnl|CDD|35814 KOG0594, KOG0594, KOG0594, Protein kinase PCTAIRE and related kinases [General function prediction only]. Length = 323 Score = 31.0 bits (70), Expect = 1.7 Identities = 11/34 (32%), Positives = 21/34 (61%), Gaps = 2/34 (5%) Query: 620 ILISENNSLKIADFAIAMRKSIAMPINLLEREIT 653 +LIS + LK+ADF +A ++ ++P+ E+ Sbjct: 151 LLISSSGVLKLADFGLA--RAFSIPMRTYTPEVV 182 >gnl|CDD|35386 KOG0164, KOG0164, KOG0164, Myosin class I heavy chain [Cytoskeleton]. Length = 1001 Score = 30.3 bits (68), Expect = 2.3 Identities = 25/134 (18%), Positives = 45/134 (33%), Gaps = 11/134 (8%) Query: 25 MVSPSFAI--EPINISSSDRVLDLTSITRIYVNQGED-FQVFTAADIDGISRRIEVSASS 81 +++ +P + + L ++T I V+ G D V +D + ++ Sbjct: 875 LLTDRHVYKLDPKKQKVMKQTIPLANLTGISVSSGSDQLFVLHVSDNKDLVVCLDSVLQE 934 Query: 82 IRHRGDWAVFALANTSDSQLERLIVVPHYRLVGSHFFSPDLGSRRIISVTPSEGF-SLDR 140 G+ V LA + + L V V S G R ISV P+ D Sbjct: 935 -DRVGE-LVGKLAAHYNDEGRSLNV-----NVTSIISCRLPGKDRTISVEPAGNQEVPDF 987 Query: 141 IPNSDSDVFRITIN 154 + S + + Sbjct: 988 RKKNGSFILEVPRQ 1001 >gnl|CDD|144801 pfam01338, Bac_thur_toxin, Bacillus thuringiensis toxin. Length = 227 Score = 30.2 bits (68), Expect = 3.0 Identities = 30/113 (26%), Positives = 41/113 (36%), Gaps = 16/113 (14%) Query: 504 NSNGDILRYIGIANDITEQKKSLEGI-LCNAFQDNLTGIPNRQSFLDRLTTILDLSATDD 562 S+ DI + I I + + I L NAFQ L + L ++ T D Sbjct: 12 PSSADITNFNEI-FYIEDPNYIPQAIHLANAFQGALVPTDFGLTLRFDFEKALQIANTID 70 Query: 563 NLRPTVMVID-------------IDKYKKI-NDVLGIAVGDDVLVSLTRRIGE 601 V +D IDK +I VLG+ + V SLT I E Sbjct: 71 PEGAVVNYVDQTVIQTNNEVSVMIDKVIEILKSVLGVVLNSTVKQSLTAAITE 123 >gnl|CDD|173733 cd07829, STKc_CDK_like, Catalytic domain of Cyclin-Dependent protein Kinase-like Serine/Threonine Kinases. Serine/Threonine Kinases (STKs), Cyclin-Dependent protein Kinase (CDK)-like subfamily, catalytic (c) domain. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The CDK-like subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase. CDKs belong to a large family of STKs that are regulated by their cognate cyclins. Together, they are involved in the control of cell-cycle progression, transcription, and neuronal function. CDKs are partly regulated by their subcellular localization, which defines substrate phosphorylation and the resulting specific function. CDK1, CDK2, CDK4, and CDK6 have well-defined functions in the cell cycle, such as the regulation of the early G1 phase by CDK4 or CDK6, the G1/S phase transition by CDK2, or the entry of mitosis by CDK1. They also exhibit overlapping cyclin specificity and functions in certain conditions. Knockout mice with a single CDK deleted remain viable with specific phenotypes, showing that some CDKs can compensate for each other. For example, CDK4 can compensate for the loss of CDK6, however, double knockout mice with both CDK4 and CDK6 deleted die in utero. CDK8 and CDK9 are mainly involved in transcription while CDK5 is implicated in neuronal function. CDK7 plays essential roles in both the cell cycle as a CDK-Activating Kinase (CAK) and in transcription as a component of the general transcription factor TFIIH. Length = 282 Score = 30.1 bits (69), Expect = 3.1 Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 3/36 (8%) Query: 620 ILISENNSLKIADFAIAMRKSIAMPINLLEREITVT 655 ILI+ + LK+ADF +A ++ +P+ E+ VT Sbjct: 129 ILINRDGVLKLADFGLA--RAFGIPLRTYTHEV-VT 161 >gnl|CDD|143349 cd07844, STKc_PCTAIRE_like, Catalytic domain of PCTAIRE-like Serine/Threonine Kinases. Serine/Threonine Kinases (STKs), PCTAIRE-like subfamily, catalytic (c) domain. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The PCTAIRE-like subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase. Members of this subfamily share sequence similarity with Cyclin-Dependent Kinases (CDKs), which belong to a large family of STKs that are regulated by their cognate cyclins. Together, CDKs and cyclins are involved in the control of cell-cycle progression, transcription, and neuronal function. The association of PCTAIRE-like proteins with cyclins has not been widely studied, although PFTAIRE-1 has been shown to function as a CDK which is regulated by cyclin D3 as well as the membrane-associated cyclin Y. PCTAIRE-like proteins show unusual expression patterns with high levels in post-mitotic tissues, suggesting that they may be involved in regulating post-mitotic cellular events. Length = 291 Score = 30.0 bits (68), Expect = 3.1 Identities = 12/22 (54%), Positives = 16/22 (72%) Query: 620 ILISENNSLKIADFAIAMRKSI 641 +LISE LK+ADF +A KS+ Sbjct: 134 LLISERGELKLADFGLARAKSV 155 >gnl|CDD|30696 COG0348, NapH, Polyferredoxin [Energy production and conversion]. Length = 386 Score = 29.2 bits (65), Expect = 5.3 Identities = 16/109 (14%), Positives = 32/109 (29%), Gaps = 9/109 (8%) Query: 283 GYITFSGIACIAILFCMS------FYYPMVTASIARITLASIVLYYTYFIIYHGMKGYER 336 G G+ CI C+ + + IA T ++ + + Y Sbjct: 238 GIDIRDGLECIGCGRCIDACDDDMLKFNLPFGLIAYSTFMALPTIGMSACLRPRLCAYG- 296 Query: 337 AVLLIPAWILIFIWFIGLWMAITKRLDNDI--IQPALVGGLVLIVILIG 383 VL + + + +F + + + D D + I G Sbjct: 297 GVLQLVSPLGLFRLKVRDPLILLVCRDRDCLFACNVGINDYTGKFINKG 345 >gnl|CDD|34851 COG5254, ARV1, Predicted membrane protein [Function unknown]. Length = 239 Score = 29.2 bits (65), Expect = 5.7 Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 1/49 (2%) Query: 250 LLIWRACSEIALSSSLIIFLFMYLHWNRWHAKVGY-ITFSGIACIAILF 297 S + LSS +F+F+ W + I S +AC + + Sbjct: 140 AGFVCLSSALLLSSFYYLFMFIMTMWKYQCEESLLVIELSCVACNSPVI 188 >gnl|CDD|173626 cd05034, PTKc_Src_like, Catalytic domain of Src kinase-like Protein Tyrosine Kinases. Protein Tyrosine Kinase (PTK) family; Src kinase subfamily; catalytic (c) domain. Src subfamily members include Src, Lck, Hck, Blk, Lyn, Fgr, Fyn, Yrk, and Yes. The PTKc family is part of a larger superfamily that includes the catalytic domains of other kinases such as protein serine/threonine kinases, RIO kinases, and phosphoinositide 3-kinase (PI3K). PTKs catalyze the transfer of the gamma-phosphoryl group from ATP to tyrosine (tyr) residues in protein substrates. Src (or c-Src) proteins are cytoplasmic (or non-receptor) tyr kinases which are anchored to the plasma membrane. They contain an N-terminal SH4 domain with a myristoylation site, followed by SH3 and SH2 domains, a tyr kinase domain, and a regulatory C-terminal region containing a conserved tyr. They are activated by autophosphorylation at the tyr kinase domain, but are negatively regulated by phosphorylation at the C-terminal tyr by Csk (C-terminal Src Kinase). Src proteins are involved in signaling pathways that regulate cytokine and growth factor responses, cytoskeleton dynamics, cell proliferation, survival, and differentiation. They were identified as the first proto-oncogene products, and they regulate cell adhesion, invasion, and motility in cancer cells and tumor vasculature, contributing to cancer progression and metastasis. Src kinases are overexpressed in a variety of human cancers, making them attractive targets for therapy. They are also implicated in acute inflammatory responses and osteoclast function. Src, Fyn, Yes, and Yrk are widely expressed, while Blk, Lck, Hck, Fgr, and Lyn show a limited expression pattern. Length = 261 Score = 29.2 bits (66), Expect = 6.3 Identities = 10/17 (58%), Positives = 12/17 (70%) Query: 620 ILISENNSLKIADFAIA 636 IL+ EN KIADF +A Sbjct: 134 ILVGENLVCKIADFGLA 150 >gnl|CDD|32977 COG3164, COG3164, Predicted membrane protein [Function unknown]. Length = 1271 Score = 29.1 bits (65), Expect = 6.7 Identities = 17/66 (25%), Positives = 28/66 (42%), Gaps = 8/66 (12%) Query: 390 VLATGYFSQGIFS------DGERQSLAVLGSGDIVWDWDIVRDRVTTTPDIATILGLASG 443 + T G+ DG +A+ GS D+V + V TP+I+ +G+A+ Sbjct: 1160 IRGTATIKDGVARTDDLKVDGPAADIAMKGSVDLVTR--TIDMEVVVTPEISATVGVAAA 1217 Query: 444 SMHGPI 449 PI Sbjct: 1218 FAVNPI 1223 >gnl|CDD|176208 cd08246, crotonyl_coA_red, crotonyl-CoA reductase. Crotonyl-CoA reductase, a member of the medium chain dehydrogenase/reductase family, catalyzes the NADPH-dependent conversion of crotonyl-CoA to butyryl-CoA, a step in (2S)-methylmalonyl-CoA production for straight-chain fatty acid biosynthesis. Like enoyl reductase, another enzyme in fatty acid synthesis, crotonyl-CoA reductase is a member of the zinc-dependent alcohol dehydrogenase-like medium chain dehydrogenase/reductase family. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P) binding-Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. Length = 393 Score = 28.9 bits (65), Expect = 6.9 Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 7/56 (12%) Query: 111 RLVGSHFFS-------PDLGSRRIISVTPSEGFSLDRIPNSDSDVFRITINPGAVV 159 R+ GSHF + L + I S+ FSLD P++ + R + G + Sbjct: 335 RIQGSHFANDREAAEANRLVMKGRIDPCLSKVFSLDETPDAHQLMHRNQHHVGNMA 390 >gnl|CDD|35476 KOG0255, KOG0255, KOG0255, Synaptic vesicle transporter SVOP and related transporters (major facilitator superfamily) [General function prediction only]. Length = 521 Score = 29.0 bits (64), Expect = 7.1 Identities = 11/108 (10%), Positives = 29/108 (26%), Gaps = 12/108 (11%) Query: 221 TFAMAWVVLGYISIDFGFLSKLVNLPSGELLIWRACSEIALSSSLIIFLFMYLHWNRWHA 280 F++ + L G L SG + + + + + R Sbjct: 333 VFSLVYYGLSLNVSGLGGNIYLNFTLSGLVELP----------AYFRNGLLLPEFGRRPP 382 Query: 281 KVGYITFSGIACIAILFCMSFYYPMVTASIARITLASIVLYYTYFIIY 328 + +GI + + + + + I + +I+ Sbjct: 383 LFLSLFLAGIGLLLFGWLPDDLGGWLHWILPLLGKFFIG--SAFNLIF 428 >gnl|CDD|34100 COG4393, COG4393, Predicted membrane protein [Function unknown]. Length = 405 Score = 28.7 bits (64), Expect = 7.5 Identities = 28/196 (14%), Positives = 66/196 (33%), Gaps = 45/196 (22%) Query: 157 AVVTFIMEISTPNLPQIYLWEPNFYKDTVNSFTLYR--GIIIGVASLLAIFLTIFYMVNR 214 +++F + +P ++ F D +N+ +L R I++ + +++ I L++ + + Sbjct: 90 LLLSFCAALHWGFMPNLF---AIFGTDVINTDSLLRLGAILLALLTIILIALSLQKVYFQ 146 Query: 215 S-SMLIPTFAMAWVVLGYISID---FGFLSKLVNLPSGELLIWRACSEIALSS------- 263 S L P A+ ++ L +L L + L+ S +A Sbjct: 147 LKSSLAPLLALLIYLILSFPFSARGVLALMRLRFLKLTKSLV----SFVAKFENKSTFYI 202 Query: 264 ---SLIIFLFMYLHWNRWHAKVGYITF----------------------SGIACIAILFC 298 I+ + L + K +T I ++F Sbjct: 203 YILFTILAIIFLLFLFKDSRKRHIVTQKNNAILKRKKAALKNNKHRLLSLAFFSILVVFS 262 Query: 299 MSFYYPMVTASIARIT 314 + Y+ V + ++ Sbjct: 263 IQLYWDKVASKPPALS 278 >gnl|CDD|35808 KOG0588, KOG0588, KOG0588, Serine/threonine protein kinase [Cell cycle control, cell division, chromosome partitioning]. Length = 786 Score = 28.5 bits (63), Expect = 8.5 Identities = 13/30 (43%), Positives = 20/30 (66%), Gaps = 3/30 (10%) Query: 620 ILISENNSLKIADFAIAMRKSIAMPINLLE 649 +L+ N++KIADF +A S+ +P LLE Sbjct: 143 LLLDVKNNIKIADFGMA---SLEVPGKLLE 169 >gnl|CDD|35427 KOG0206, KOG0206, KOG0206, P-type ATPase [General function prediction only]. Length = 1151 Score = 28.7 bits (64), Expect = 8.6 Identities = 18/110 (16%), Positives = 34/110 (30%), Gaps = 20/110 (18%) Query: 260 ALSSSLIIFLFMYLHWNRWHAKV-----GYITFSGIACIAILFCMSFYYPMVTASIARIT 314 SL+IF YL + Y T I+ ++ + T+ I Sbjct: 949 GFYQSLVIFFLPYLVFEEQAVTSNGLTADYWTLGTTVFTIIVIVVNLKIALETSYWTWIN 1008 Query: 315 ----LASIVLYYTYFIIYHGM-----------KGYERAVLLIPAWILIFI 349 SI+L++ + IY + E + W+ + + Sbjct: 1009 HIVIWGSILLWFVFLFIYSELTPAISTPDPFYGVAEHLLSSPSFWLTLLL 1058 >gnl|CDD|38815 KOG3609, KOG3609, KOG3609, Receptor-activated Ca2+-permeable cation channels (STRPC family) [Inorganic ion transport and metabolism, Signal transduction mechanisms]. Length = 822 Score = 28.8 bits (64), Expect = 8.6 Identities = 16/97 (16%), Positives = 31/97 (31%), Gaps = 14/97 (14%) Query: 272 YLHWNRWHAKVGYITFSGIACIAILFCMSFYYPMV--TASIARITLASIVLY---YTYF- 325 Y W R K + + + + + + + + R + + Y F Sbjct: 301 YSGWRRKGIKPKFDAWRFLRLCFPMPSLVYLLAPMSRKGTTMRKPFMKFIAHITSYLVFL 360 Query: 326 --------IIYHGMKGYERAVLLIPAWILIFIWFIGL 354 I ++ R V ILI++W +GL Sbjct: 361 ILLILASLIGFYFAWTDSRGVTPQALEILIYLWVMGL 397 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 0.326 0.141 0.420 Gapped Lambda K H 0.267 0.0746 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 12,033,017 Number of extensions: 695168 Number of successful extensions: 2701 Number of sequences better than 10.0: 1 Number of HSP's gapped: 2650 Number of HSP's successfully gapped: 176 Length of query: 963 Length of database: 6,263,737 Length adjustment: 103 Effective length of query: 860 Effective length of database: 4,038,010 Effective search space: 3472688600 Effective search space used: 3472688600 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 62 (27.6 bits)