RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780853|ref|YP_003065266.1| NADH dehydrogenase subunit B [Candidatus Liberibacter asiaticus str. psy62] (185 letters) >gnl|CDD|30726 COG0377, NuoB, NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]. Length = 194 Score = 274 bits (703), Expect = 7e-75 Identities = 108/161 (67%), Positives = 124/161 (77%) Query: 21 KVDADFSRISSEITHKGFLVTSVDQLVTWARTGSLMWMTFGLACCAVEMMQASMPRYDLE 80 + + KG L+T VD+L+ W R SL +TFGLACCAVEMM RYDLE Sbjct: 4 EEQDPMGDPVEALLSKGVLLTKVDKLINWGRKNSLWPVTFGLACCAVEMMATFASRYDLE 63 Query: 81 RFGFAPRASPRQSDVMIVAGTLTNKMASALRRVYDQMPEPRYVISMGSCANGGGYYHYSY 140 RFG PRASPRQ+D+MIVAGTLTNKMA ALRRVYDQMPEP++VISMGSCAN GG Y SY Sbjct: 64 RFGEVPRASPRQADLMIVAGTLTNKMAPALRRVYDQMPEPKWVISMGSCANSGGMYWNSY 123 Query: 141 SVVRGCDRIVPVDIYVPGCPPTAEALIYGILLLQKKIRRVG 181 SVV+G DR+VPVD+Y+PGCPP EAL+YGILLLQ+KIRR G Sbjct: 124 SVVQGVDRVVPVDVYIPGCPPRPEALLYGILLLQEKIRREG 164 >gnl|CDD|36900 KOG1687, KOG1687, KOG1687, NADH-ubiquinone oxidoreductase, NUFS7/PSST/20 kDa subunit [Energy production and conversion]. Length = 168 Score = 254 bits (649), Expect = 1e-68 Identities = 109/143 (76%), Positives = 128/143 (89%) Query: 38 FLVTSVDQLVTWARTGSLMWMTFGLACCAVEMMQASMPRYDLERFGFAPRASPRQSDVMI 97 +++ +D L+ WAR GSL +TFGLACCAVEMM + PRYD++R+G RASPRQ+D++I Sbjct: 17 YVLARLDDLLNWARRGSLWPLTFGLACCAVEMMHLAAPRYDMDRYGVVFRASPRQADLII 76 Query: 98 VAGTLTNKMASALRRVYDQMPEPRYVISMGSCANGGGYYHYSYSVVRGCDRIVPVDIYVP 157 VAGTLTNKMA ALR+VYDQMPEPR+VISMGSCANGGGYYHYSYSVVRGCDRI+PVDIYVP Sbjct: 77 VAGTLTNKMAPALRKVYDQMPEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVP 136 Query: 158 GCPPTAEALIYGILLLQKKIRRV 180 GCPPTAEAL+YGIL LQKKI+R+ Sbjct: 137 GCPPTAEALLYGILQLQKKIKRI 159 >gnl|CDD|176965 CHL00023, ndhK, NADH dehydrogenase subunit K. Length = 225 Score = 166 bits (421), Expect = 4e-42 Identities = 71/142 (50%), Positives = 103/142 (72%), Gaps = 5/142 (3%) Query: 41 TSVDQLVTWARTGSLMWMTFGLACCAVEMMQASM--PRYDLERFGFAPRASPRQSDVMIV 98 T+++ L W+R SL + +G +CC +E AS+ R+D +R+G PR+SPRQ+D+++ Sbjct: 20 TTLNDLSNWSRLSSLWPLLYGTSCCFIEF--ASLIGSRFDFDRYGLVPRSSPRQADLILT 77 Query: 99 AGTLTNKMASALRRVYDQMPEPRYVISMGSCANGGGYYHY-SYSVVRGCDRIVPVDIYVP 157 AGT+T KMA +L R+Y+QMPEP+YVI+MG+C GG + SYS VRG D+++PVD+Y+P Sbjct: 78 AGTVTMKMAPSLVRLYEQMPEPKYVIAMGACTITGGMFSTDSYSTVRGVDKLIPVDVYLP 137 Query: 158 GCPPTAEALIYGILLLQKKIRR 179 GCPP EA+I I L+KKI R Sbjct: 138 GCPPKPEAVIDAITKLRKKISR 159 >gnl|CDD|33071 COG3260, COG3260, Ni,Fe-hydrogenase III small subunit [Energy production and conversion]. Length = 148 Score = 139 bits (351), Expect = 5e-34 Identities = 49/115 (42%), Positives = 77/115 (66%) Query: 65 CAVEMMQASMPRYDLERFGFAPRASPRQSDVMIVAGTLTNKMASALRRVYDQMPEPRYVI 124 C +E++ A PRYD ERFG SPR +D+++V G +T +M L++ Y+ MPEP+ VI Sbjct: 22 CDIEILAALSPRYDAERFGIKVVNSPRHADILLVTGAVTRQMREPLKKAYEAMPEPKIVI 81 Query: 125 SMGSCANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALIYGILLLQKKIRR 179 ++G+CA GG + SYSV D+++PVD+ +PGCPP EA++ G++ K+ + Sbjct: 82 AVGACALSGGIFKDSYSVWGPVDKVIPVDVEIPGCPPRPEAILAGLVAALGKLEK 136 >gnl|CDD|144593 pfam01058, Oxidored_q6, NADH ubiquinone oxidoreductase, 20 Kd subunit. Length = 124 Score = 121 bits (306), Expect = 1e-28 Identities = 44/122 (36%), Positives = 65/122 (53%), Gaps = 14/122 (11%) Query: 65 CAVEMMQASMPRYDL-----ERFGFAPRASPR----QSDVMIVAGTLTNKMASALRRVYD 115 C++ ++ P DL R+ A PR +DV++V G +T K AL R+Y+ Sbjct: 4 CSISLLALHPPLLDLLDLISLRYHIPLMADPREIPEGADVLLVEGAVTRKPKEALERLYE 63 Query: 116 QMPEPRYVISMGSCANGGGYYH----YSYSVVRGCDRIVPVDIYVPGCPPTAEALIYGIL 171 P+ +YVI++G+CA GG SY VR +VPVDI +PGCPP E ++ +L Sbjct: 64 LAPKAKYVIAVGTCAAFGGIPAAGNNPSYG-VRPVLGVVPVDINIPGCPPHPEWILGTLL 122 Query: 172 LL 173 L Sbjct: 123 AL 124 >gnl|CDD|32124 COG1941, FrhG, Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]. Length = 247 Score = 41.1 bits (96), Expect = 2e-04 Identities = 24/100 (24%), Positives = 41/100 (41%), Gaps = 22/100 (22%) Query: 94 DVMIVAGTLTNKMASALRRVYDQMPEPRYVISMGSCANGGG--------------YYHYS 139 DV +V G++ + L V + + + V+++GSCA GG + Sbjct: 53 DVALVEGSVCD--EEELELVKELREKAKIVVALGSCAVTGGVQGLRNKSGEELLRPVYGD 110 Query: 140 YSVVRGCDRIVP------VDIYVPGCPPTAEALIYGILLL 173 + +VP VD +PGCPP+ E + + L Sbjct: 111 AKSTFNEESVVPLGEVIDVDYAIPGCPPSPEEIARALTAL 150 >gnl|CDD|40042 KOG4845, KOG4845, KOG4845, NADH dehydrogenase, subunit 4 [Energy production and conversion]. Length = 452 Score = 29.5 bits (66), Expect = 0.50 Identities = 18/77 (23%), Positives = 28/77 (36%), Gaps = 6/77 (7%) Query: 15 SSCSLEKVDADFSRISSEITHKGFLVTSVDQLVTWARTGSLMWM------TFGLACCAVE 68 SS L + D S ++H GF++ + + W GS++ M + L C A Sbjct: 266 SSTCLRQTDLKKLIAYSSVSHMGFVLIGILSITMWGLIGSILLMIAHGLTSSALFCLAGV 325 Query: 69 MMQASMPRYDLERFGFA 85 S R G Sbjct: 326 SYDRSGSRMMYFMGGLF 342 >gnl|CDD|30961 COG0616, SppA, Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]. Length = 317 Score = 29.7 bits (66), Expect = 0.55 Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 8/46 (17%) Query: 105 KMASALRRVYDQMPEPRYVISMGSCANGGGYYHYSYSVVRGCDRIV 150 +A AL+R+ + P V+S+G A GGYY + D+IV Sbjct: 117 LIARALKRLRAKKP---VVVSVGGYAASGGYY-----IALAADKIV 154 >gnl|CDD|144579 pfam01039, Carboxyl_trans, Carboxyl transferase domain. All of the members in this family are biotin dependent carboxylases. The carboxyl transferase domain carries out the following reaction; transcarboxylation from biotin to an acceptor molecule. There are two recognized types of carboxyl transferase. One of them uses acyl-CoA and the other uses 2-oxoacid as the acceptor molecule of carbon dioxide. All of the members in this family utilize acyl-CoA as the acceptor molecule. Length = 487 Score = 28.4 bits (64), Expect = 1.1 Identities = 15/66 (22%), Positives = 24/66 (36%), Gaps = 13/66 (19%) Query: 105 KMASALRRVYDQMPEPRYVISMGSCANGGGYYHYSYSVVRGCDRIVPVD----IYVPGCP 160 + A R +P+ V G CA GG Y D I+ V +++ G P Sbjct: 118 LIFGANSRASGVIPQISLV--TGPCAGGGAY------SPALGDFIIMVKGTSPMFLTG-P 168 Query: 161 PTAEAL 166 + + Sbjct: 169 DVVKKV 174 >gnl|CDD|34025 COG4303, EutB, Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]. Length = 453 Score = 28.0 bits (62), Expect = 1.6 Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 13/91 (14%) Query: 53 GSLMWMTFGLACCAVEMMQASMPRYDLERFGFAPRAS--------PRQSDVMIVAGTLTN 104 G L ++ G CC +A + D E A+ P DVM+ T + Sbjct: 352 GKLSGISMGCDCCYTNHAKAD--QNDNENLMTLLAAAGCNYIMGIPLGDDVMLNYQTTSF 409 Query: 105 KMASALRRVYDQMPEP---RYVISMGSCANG 132 + +R++ P P R++ MG ANG Sbjct: 410 HDTATVRQLLGLRPIPEFERWLERMGIMANG 440 >gnl|CDD|34408 COG4799, COG4799, Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]. Length = 526 Score = 27.9 bits (62), Expect = 2.0 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 11/50 (22%) Query: 120 PRYVISMGSCANGGGYYHYSYSVVRGCDRIVPVD----IYVPGCPPTAEA 165 P+ + MG CA GG Y D ++ V +++ G PP +A Sbjct: 165 PQISVVMGPCAGGGAY------SPALTDFVIMVRDQSYMFLTG-PPVIKA 207 >gnl|CDD|48203 cd03328, MR_like_3, Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues, a Lys-X-Lys motif and a conserved histidine-aspartate dyad. This subgroup's function is unknown.. Length = 352 Score = 27.2 bits (60), Expect = 2.6 Identities = 20/73 (27%), Positives = 29/73 (39%), Gaps = 11/73 (15%) Query: 44 DQLVTWARTGSLMWMTFGLACCAVEMMQASMPRYDLERFGFAPRASPRQSDVMIVA-GTL 102 +QL W G V+M PR D +R A RA +++ + A G Sbjct: 144 EQLSGWVAQG----------IPRVKMKIGRDPRRDPDRVAAARRAIGPDAELFVDANGAY 193 Query: 103 TNKMASALRRVYD 115 + K A AL R + Sbjct: 194 SRKQALALARAFA 206 >gnl|CDD|31926 COG1740, HyaA, Ni,Fe-hydrogenase I small subunit [Energy production and conversion]. Length = 355 Score = 27.2 bits (60), Expect = 2.9 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 7/56 (12%) Query: 122 YVISMGSCANGGGYYHYSY--SVVRGCDRIV---PVDIYVPGCPPTAEALIYGILL 172 +I++G+CA+ GG + ++ PV I +PGCPP + I LL Sbjct: 150 AIIAVGTCASWGGIQAAKPNPTGAGPLSEVIKDKPV-INIPGCPPNPD-WIVATLL 203 >gnl|CDD|143861 pfam00079, Serpin, Serpin (serine protease inhibitor). Structure is a multi-domain fold containing a bundle of helices and a beta sandwich. Length = 368 Score = 26.0 bits (58), Expect = 6.5 Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 6/23 (26%) Query: 23 DADFSRIS------SEITHKGFL 39 ADFS IS S++ HK F+ Sbjct: 291 KADFSGISDEPLYVSKVVHKAFI 313 >gnl|CDD|30641 COG0293, FtsJ, 23S rRNA methylase [Translation, ribosomal structure and biogenesis]. Length = 205 Score = 26.0 bits (57), Expect = 7.2 Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 7/51 (13%) Query: 129 CANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALIYGILLLQKKIRR 179 A GG+ + + +IV VDI +P I G++ LQ I Sbjct: 53 GAAPGGWSQVAAKKLGAGGKIVAVDI-LPM------KPIPGVIFLQGDITD 96 >gnl|CDD|133216 cd05085, PTKc_Fer, Catalytic domain of the Protein Tyrosine Kinase, Fer. Protein Tyrosine Kinase (PTK) family; Fer kinase; catalytic (c) domain. 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. Fer kinase is a member of the Fes subfamily of proteins which are cytoplasmic (or nonreceptor) tyr kinases containing an N-terminal region with FCH (Fes/Fer/CIP4 homology) and coiled-coil domains, followed by a SH2 domain, and a C-terminal catalytic domain. Fer kinase is expressed in a wide variety of tissues, and is found to reside in both the cytoplasm and the nucleus. It plays important roles in neuronal polarization and neurite development, cytoskeletal reorganization, cell migration, growth factor signaling, and the regulation of cell-cell interactions mediated by adherens junctions and focal adhesions. Fer kinase also regulates cell cycle progression in malignant cells. Length = 250 Score = 25.7 bits (56), Expect = 8.1 Identities = 18/72 (25%), Positives = 28/72 (38%), Gaps = 17/72 (23%) Query: 53 GSLMWMTFGLACCAVEMMQASMPRYDLERFGF---APRASPRQSDVMIVAGTLTNKMASA 109 G L+W TF L C M R +E+ G+ P+ P + + Sbjct: 181 GILLWETFSLGVCPYPGMTNQQAREQVEK-GYRMSCPQKCP-------------DDVYKV 226 Query: 110 LRRVYDQMPEPR 121 ++R +D PE R Sbjct: 227 MQRCWDYKPENR 238 >gnl|CDD|38595 KOG3385, KOG3385, KOG3385, V-SNARE [Intracellular trafficking, secretion, and vesicular transport]. Length = 118 Score = 25.6 bits (56), Expect = 9.1 Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 9/47 (19%) Query: 19 LEKVDADFSRISSEITHKGFLVTSVDQLVTWARTGS---LMWMTFGL 62 L+ +D DF S GFL ++ +L T AR L WM Sbjct: 66 LDGMDDDFDSTS------GFLSGTMGRLKTMARRSGISLLCWMAVFS 106 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 0.136 0.417 Gapped Lambda K H 0.267 0.0787 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 2,250,143 Number of extensions: 114223 Number of successful extensions: 357 Number of sequences better than 10.0: 1 Number of HSP's gapped: 351 Number of HSP's successfully gapped: 17 Length of query: 185 Length of database: 6,263,737 Length adjustment: 88 Effective length of query: 97 Effective length of database: 4,362,145 Effective search space: 423128065 Effective search space used: 423128065 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: 40 (21.5 bits) S2: 54 (24.5 bits)