RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780775|ref|YP_003065188.1| undecaprenyl diphosphate
synthase [Candidatus Liberibacter asiaticus str. psy62]
(243 letters)
>gnl|CDD|144739 pfam01255, Prenyltransf, Putative undecaprenyl diphosphate
synthase. Previously known as uncharacterized protein
family UPF0015, a single member of this family has been
identified as an undecaprenyl diphosphate synthase.
Length = 222
Score = 304 bits (782), Expect = 1e-83
Identities = 111/222 (50%), Positives = 149/222 (67%)
Query: 17 IMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRRPVSEIS 76
IMDGN RWA RGLPR GHR G E EI+ E+GIK LT++AFS NW+RP E+
Sbjct: 1 IMDGNRRWAKKRGLPRTEGHRAGAEALREILEWCLELGIKYLTLYAFSTENWKRPKEEVD 60
Query: 77 ELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQTRLNTGLNLFIAF 136
L++L++ L++ L KN ++VRVIG+ L +D+ +++AE+ T+ NTGL L IA
Sbjct: 61 FLMELLEEKLRRLLEDLHKNGVRVRVIGDLSLLPEDLRKAIEDAEEATKNNTGLTLNIAL 120
Query: 137 NYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLIAKYLDTSDVPDPDLIIRTGGEKRLSD 196
NY RDEI A+K + +D++ G + D+D +I KYL TSD+PDPDL+IRT GEKRLS+
Sbjct: 121 NYGGRDEIVDAVKRLAEDVKDGKLSPEDIDEEVIEKYLYTSDLPDPDLLIRTSGEKRLSN 180
Query: 197 FLLWQVAYSEFVFIPEYWPDFSRELFFHALNQYNLRDRRFGG 238
FLLWQ AY+E F WPDF++E A+ Y R+RRFG
Sbjct: 181 FLLWQSAYAELYFTDTLWPDFTKEDLLRAIRDYQSRERRFGK 222
>gnl|CDD|30370 COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid
metabolism].
Length = 245
Score = 285 bits (730), Expect = 1e-77
Identities = 109/237 (45%), Positives = 155/237 (65%)
Query: 3 ASMMSSSPPDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFA 62
+ + P H+ IIMDGN RWA RGLPR GH+ G + EI+ E+GIK LT++A
Sbjct: 9 KRELPARLPRHVAIIMDGNRRWAKKRGLPRIEGHKAGAKALREILEWCLELGIKYLTLYA 68
Query: 63 FSINNWRRPVSEISELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDILCVLKEAED 122
FS NW+RP E+S L++L + L++ L KN +++R+IG+ L +++ +++AE+
Sbjct: 69 FSTENWKRPKEEVSFLMELFEKALREELKKLHKNGVRIRIIGDLSRLPEEVREAIEKAEE 128
Query: 123 QTRLNTGLNLFIAFNYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLIAKYLDTSDVPDP 182
+T+ NTGL L IA NY RDEI A++ I +D+ +G + D+D LI+ +L TS +PDP
Sbjct: 129 KTKNNTGLTLNIAVNYGGRDEIVDAVRKIAEDVAAGKLSPEDIDEELISSHLYTSGLPDP 188
Query: 183 DLIIRTGGEKRLSDFLLWQVAYSEFVFIPEYWPDFSRELFFHALNQYNLRDRRFGGL 239
DL+IRT GE+RLS+FLLWQ AYSE F WPDF RE A+ Y R+RRFG +
Sbjct: 189 DLLIRTSGEQRLSNFLLWQSAYSELYFTDVLWPDFRREDLLRAIRDYQKRERRFGRV 245
>gnl|CDD|29593 cd00475, CIS_IPPS, Cis (Z)-Isoprenyl Diphosphate Synthases
(cis-IPPS); homodimers which catalyze the successive
1'-4 condensation of the isopentenyl diphosphate (IPP)
molecule to trans,trans-farnesyl diphosphate (FPP) or to
cis,trans-FPP to form long-chain polyprenyl
diphosphates. A few can also catalyze the condensation
of IPP to trans-geranyl diphosphate to form the
short-chain cis,trans- FPP. In prokaryotes, the
cis-IPPS, undecaprenyl diphosphate synthase (UPP
synthase) catalyzes the formation of the carrier lipid
UPP in bacterial cell wall peptidooglycan biosynthesis.
Similarly, in eukaryotes, the cis-IPPS, dehydrodolichyl
diphosphate (dedol-PP) synthase catalyzes the formation
of the polyisoprenoid glycosyl carrier lipid dolichyl
monophosphate. cis-IPPS are mechanistically and
structurally distinct from trans-IPPS, lacking the DDXXD
motifs, yet requiring Mg2+ for activity..
Length = 221
Score = 250 bits (641), Expect = 2e-67
Identities = 95/219 (43%), Positives = 139/219 (63%)
Query: 11 PDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRR 70
P H+ IMDGN RWA RG+ R GH+ G E +I+ E+G+K +T++AFS NW+R
Sbjct: 1 PKHVAFIMDGNRRWAKQRGMDRIEGHKAGAEKLRDILRWCLELGVKEVTLYAFSTENWKR 60
Query: 71 PVSEISELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQTRLNTGL 130
P E+ L++L + L++ L+K +++R+IG+ L + + +K+AE+ T+ NTG
Sbjct: 61 PKEEVDFLMELFRDVLRRILKELEKLGVRIRIIGDLSLLPESLQKEIKKAEEATKNNTGF 120
Query: 131 NLFIAFNYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLIAKYLDTSDVPDPDLIIRTGG 190
L +AFNY R EI A++ I + +++G + D+D S + K+L T D PDPDL+IRT G
Sbjct: 121 TLNVAFNYGGRQEIIHAVREIAEKVKAGKLTPEDIDESTLNKHLYTHDSPDPDLLIRTSG 180
Query: 191 EKRLSDFLLWQVAYSEFVFIPEYWPDFSRELFFHALNQY 229
E+RLS+FLLWQ AYSE F WPDF+ F AL Y
Sbjct: 181 EQRLSNFLLWQSAYSELYFSDVLWPDFTFWDFLRALLDY 219
>gnl|CDD|36815 KOG1602, KOG1602, KOG1602, Cis-prenyltransferase [Lipid transport
and metabolism].
Length = 271
Score = 215 bits (548), Expect = 1e-56
Identities = 91/234 (38%), Positives = 133/234 (56%), Gaps = 4/234 (1%)
Query: 11 PDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRR 70
P H+ IMDGN R+A RGL GH G E EI+ E+GIK +T+FAFSI N++R
Sbjct: 37 PRHVAFIMDGNRRYAKKRGLETSEGHEAGFEALKEILELCKELGIKEVTVFAFSIENFKR 96
Query: 71 PVSEISELVKLIKSFLKKGF---YSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQTRLN 127
E+ L+ L +++ L K +++RVIG+ L + + +K+ E+ T+ N
Sbjct: 97 SPEEVDGLMDLALEKIERLLEQGEKLDKYGVRIRVIGDLSLLPESLRKAIKKIEEATKNN 156
Query: 128 TGLNLFIAFNYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLIAKYLDTSDVPDPDLIIR 187
T L L + F Y+SRDEI A++ I + ++ G + D++ S I + L TSDVP PDL+IR
Sbjct: 157 TRLILNVCFAYTSRDEILHAVRGIVKRVKDGDIDV-DINLSDIEECLYTSDVPHPDLLIR 215
Query: 188 TGGEKRLSDFLLWQVAYSEFVFIPEYWPDFSRELFFHALNQYNLRDRRFGGLSK 241
T GE RLS+FLLWQ + +E F WP+F F A+ ++ G K
Sbjct: 216 TSGEDRLSNFLLWQTSETELFFADALWPEFGLWHLFWAILKFQRNQSYLGKRKK 269
>gnl|CDD|38029 KOG2818, KOG2818, KOG2818, Predicted undecaprenyl diphosphate
synthase [Lipid transport and metabolism].
Length = 263
Score = 48.4 bits (115), Expect = 2e-06
Identities = 47/195 (24%), Positives = 71/195 (36%), Gaps = 21/195 (10%)
Query: 45 EIVAAAAEVGIKNLTIFAFSINNWRRPVSEISELVKLIKSFLKKGFYSLKKNNIKVRVIG 104
IV A VGIK L+++ R + I S L F L + + V
Sbjct: 87 SIVFWAVTVGIKYLSLYDRVGIKKRNM----PVVRDEIISHLANYF-GLDEPTLAVT--- 138
Query: 105 NRLSLDDDILCVLKEAEDQTRLNTGLNLFIAFNYSSRDEISRAIKNIFQDIESGSVC--S 162
+LS D+ ED+ +L T R I + I + +
Sbjct: 139 IKLSNDEP------NQEDKCKLGTHAIS----LEDGRMIIIDLTRLIQELCYLYELYRSE 188
Query: 163 HDVDSSLIAKYLDTSDVPDPDLIIRTGGEKRLSDFLLWQVAYSEFVFIPEYWPDFSRELF 222
D+ + L P+PDL++ G L F W + +EF P + S E F
Sbjct: 189 TDITVETVDSELKEFVEPEPDLLLFFGPVLVLQGFPPWHIRLTEFTRKPSHLC-TSYETF 247
Query: 223 FHALNQYNLRDRRFG 237
F AL +Y ++R G
Sbjct: 248 FRALRKYADCEQRVG 262
>gnl|CDD|32865 COG3051, CitF, Citrate lyase, alpha subunit [Energy production and
conversion].
Length = 513
Score = 32.2 bits (73), Expect = 0.12
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 37 RKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRRPVSE 74
R G V N ++ A++G KNLT+ + S+++ P+ E
Sbjct: 75 RGGDLVVNMVMDVIAKMGFKNLTLASSSLSDCHAPLVE 112
>gnl|CDD|113013 pfam04223, CitF, Citrate lyase, alpha subunit (CitF). In
citrate-utilising prokaryotes, citrate lyase EC:4.1.3.6
cleaves intracellular citrate into acetate and
oxaloacetate, and is organized as a functional complex
consisting of alpha, beta, and gamma subunits. The
gamma subunit serves as an acyl carrier protein (ACP),
and has a 2'-(5''-phosphoribosyl)-3'-dephospho-CoA
prosthetic group. The citrate lyase is active only if
this prosthetic group is acetylated; this acetylation
is catalysed by an acetate:SH-citrate lyase ligase. The
alpha subunit substitutes citryl for the acetyl group
to form citryl-S-ACP. The beta subunit completes the
reaction by cleaving the citryl to yield oxaloacetate
and (regenerated) acetyl-S-ACP. This family represents
the alpha subunit EC:2.8.3.10.
Length = 466
Score = 30.9 bits (70), Expect = 0.31
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 37 RKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRRPVSE 74
R+G V N ++ A++G KNLTI S+ N P+ E
Sbjct: 30 REGDYVVNMVMEVIAKMGFKNLTIAPSSLTNVHEPLVE 67
>gnl|CDD|146124 pfam03328, HpcH_HpaI, HpcH/HpaI aldolase/citrate lyase family.
This family includes 2,4-dihydroxyhept-2-ene-1,7-dioic
acid aldolase and 4-hydroxy-2-oxovalerate aldolase.
Length = 221
Score = 28.1 bits (63), Expect = 2.0
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 14 IGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFAFSINN 67
G+ + G +A G R G + + I+AAA GI A I++
Sbjct: 145 DGVFL-GPEDLSADLGTLRSPGGPEVLFARTRILAAARAAGIAAFDTVASDIDD 197
>gnl|CDD|37375 KOG2164, KOG2164, KOG2164, Predicted E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 513
Score = 28.1 bits (62), Expect = 2.5
Identities = 23/119 (19%), Positives = 40/119 (33%), Gaps = 26/119 (21%)
Query: 70 RPVSEISELVKLIKSFLKKGF-----YSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQT 124
P + + +K SFL + S L DDD+L V +A
Sbjct: 323 LPRRMVPQAIKGRISFLDECTNDQLILSEMSRIDNEYNASRGLGRDDDLLSVSGDAYYFY 382
Query: 125 RLNTGLNLFI----------AFNYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLIAKY 173
+ G ++++ ++Y DEI I+N+ VD L ++
Sbjct: 383 QSVDGQHIYLHPLDVKILLACYSYDLFDEIEAQIENM-----------EQVDEELRRRF 430
>gnl|CDD|39545 KOG4344, KOG4344, KOG4344, Uncharacterized conserved protein
[Function unknown].
Length = 1121
Score = 27.5 bits (60), Expect = 3.2
Identities = 25/120 (20%), Positives = 46/120 (38%), Gaps = 4/120 (3%)
Query: 15 GIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRRPVSE 74
G + DG + AR R HR ++ +A A + +N + +
Sbjct: 511 GHLDDGAAEFIIARLKNRLVKHRDFQYAPHQKLATAEKF--ENEEKMCDIADASSGRAAG 568
Query: 75 ISELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQTRLNTGLNLFI 134
L + I F K+ ++ + +++GN +DD+ L EA D + LF+
Sbjct: 569 EDHLQEFIVEFCKEEDANIIMAGKRKQLLGNLQCAEDDLC--LAEAFDAEQSCPLYQLFL 626
>gnl|CDD|32142 COG1959, COG1959, Predicted transcriptional regulator
[Transcription].
Length = 150
Score = 27.2 bits (60), Expect = 3.7
Identities = 11/48 (22%), Positives = 20/48 (41%)
Query: 51 AEVGIKNLTIFAFSINNWRRPVSEISELVKLIKSFLKKGFYSLKKNNI 98
E ++ L A +EI+E + S+L+K L+K +
Sbjct: 7 GEYALRALLYLALLPGGGPVSSAEIAERQGISPSYLEKILSKLRKAGL 54
>gnl|CDD|31056 COG0712, AtpH, F0F1-type ATP synthase, delta subunit (mitochondrial
oligomycin sensitivity protein) [Energy production and
conversion].
Length = 178
Score = 26.4 bits (58), Expect = 8.1
Identities = 31/160 (19%), Positives = 63/160 (39%), Gaps = 32/160 (20%)
Query: 40 IEVFNEIVAAAAEVGIKNLTIFAFSINNWRRPVSEISELVKLIKSFLKKGFYSLKKNNIK 99
+E E + AE+ +KN +++ P + +L+ S KK L +N ++
Sbjct: 25 LEEVEEELTFLAEI-LKNSPKLKQLLSS---PAVSAEDKKELLISIFKKIGDPLLQNFLR 80
Query: 100 VRVIGNRLSLDDDILCVLKEAEDQTRLNTGLNLFIAFNYSS-------RDEISRAIKNIF 152
+ RL+L +IL + ++R + A S+ ++ ++ F
Sbjct: 81 LLAENKRLNLLPEILEEFLKLAAESR-----GIVEAEVTSAFELSDEQLTKLEAKLEKKF 135
Query: 153 -QDIESGSVCSHDVDSSLIAKYLDTSDVPDPDLIIRTGGE 191
+ ++ ++ +D SLI LII+ G E
Sbjct: 136 GKKVK----LNNKIDPSLIGG-----------LIIKVGDE 160
>gnl|CDD|29636 cd01424, MGS_CPS_II, Methylglyoxal synthase-like domain from type
II glutamine-dependent carbamoyl phosphate synthetase
(CSP). CSP, a CarA and CarB heterodimer, catalyzes the
production of carbamoyl phosphate which is subsequently
employed in the metabolic pathways responsible for the
synthesis of pyrimidine nucleotides or arginine. The
MGS-like domain is the C-terminal domain of CarB and
appears to play a regulatory role in CPS function by
binding allosteric effector molecules, including UMP and
ornithine..
Length = 110
Score = 26.2 bits (58), Expect = 9.4
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 9/61 (14%)
Query: 77 ELVKLIKSFLKKGF---------YSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQTRLN 127
E V++ K + GF L++ I V V+ +I+ ++K E Q +N
Sbjct: 14 EAVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVIN 73
Query: 128 T 128
T
Sbjct: 74 T 74
>gnl|CDD|30504 COG0155, CysI, Sulfite reductase, beta subunit (hemoprotein)
[Inorganic ion transport and metabolism].
Length = 510
Score = 26.0 bits (57), Expect = 9.9
Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 3/52 (5%)
Query: 9 SPPDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTI 60
DHIG + +G W +P G K + + A E+G + +
Sbjct: 292 GNGDHIGWVPQKDGLWHLGLAVP--NGRLKAEGLI-PLATEAEEIGFGEIRL 340
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
0.322 0.139 0.413
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,080,616
Number of extensions: 165520
Number of successful extensions: 426
Number of sequences better than 10.0: 1
Number of HSP's gapped: 424
Number of HSP's successfully gapped: 19
Length of query: 243
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 152
Effective length of database: 4,297,318
Effective search space: 653192336
Effective search space used: 653192336
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: 56 (25.5 bits)