RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780546|ref|YP_003064959.1| hypothetical protein
CLIBASIA_02165 [Candidatus Liberibacter asiaticus str. psy62]
(423 letters)
>gnl|CDD|30179 cd01992, PP-ATPase, N-terminal domain of predicted ATPase of the
PP-loop faimly implicated in cell cycle control [Cell
division and chromosome partitioning]. This is a
subfamily of Adenine nucleotide alpha hydrolases
superfamily.Adeninosine nucleotide alpha hydrolases
superfamily includes N type ATP PPases and ATP
sulphurylases. It forms a apha/beta/apha fold which
binds to Adenosine group. This domain has a strongly
conserved motif SGGXD at the N terminus..
Length = 185
Score = 175 bits (446), Expect = 1e-44
Identities = 76/189 (40%), Positives = 104/189 (55%), Gaps = 7/189 (3%)
Query: 21 HILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVDHCLRETAKDEVRYVSDVCSRL 80
ILVAVSGG DSM LL L + + ++ A+ VDH LR + +E +V+D+C++L
Sbjct: 1 KILVAVSGGPDSMALLHLLSEL---KPRLGLRLVAVHVDHGLRPESDEEAAFVADLCAKL 57
Query: 81 RIAHSV-VSWKNSKPQTGLMAAAREARYALISEHAKTINATLIMTAHTFDDQLETVYMRS 139
I + V KP L AAAREARY +E AK A +++TAH DDQ ETV MR
Sbjct: 58 GIPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADDQAETVLMRL 117
Query: 140 QRDYAEKGMGLSGMCDTILYDLNLWISRPFLRCRREDIRSFLLQRNISWCEDPSNTDDRF 199
R GL+GM I + + RP L R +I ++L + + W EDPSN D R+
Sbjct: 118 LR--GSGLRGLAGMPARIPFG-GGRLIRPLLGITRAEIEAYLRENGLPWWEDPSNEDPRY 174
Query: 200 ERVRVRRFV 208
R R+R +
Sbjct: 175 TRNRIRHEL 183
>gnl|CDD|144677 pfam01171, ATP_bind_3, PP-loop family. This family of proteins
belongs to the PP-loop superfamily.
Length = 182
Score = 167 bits (424), Expect = 7e-42
Identities = 72/187 (38%), Positives = 94/187 (50%), Gaps = 7/187 (3%)
Query: 21 HILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVDHCLRETAKDEVRYVSDVCSRL 80
ILVAVSGG DSM LL L + + I +A VDH LRE + E ++V ++C +L
Sbjct: 1 KILVAVSGGPDSMALLYLLKKL---KPKFGIDLTAAHVDHGLREESDREAQFVKELCRQL 57
Query: 81 RIAHSVVSWK-NSKPQTGLMAAAREARYALISEHAKTINATLIMTAHTFDDQLETVYMRS 139
I V+ K L AAREARY E AK A +++TAH DDQ ET MR
Sbjct: 58 NIPLEVLRVDVAKKSGLNLEEAAREARYDFFEEIAKKNGAEVLLTAHHADDQAETFLMRL 117
Query: 140 QRDYAEKGMGLSGMCDTILYDLNLWISRPFLRCRREDIRSFLLQRNISWCEDPSNTDDRF 199
R GL+G+ I RP L+ + +I +L + I W ED SN D R+
Sbjct: 118 LRG--SGLAGLAGIAPVRPLA-GGRIVRPLLKVTKSEIEEYLKEHGIPWVEDESNADLRY 174
Query: 200 ERVRVRR 206
R R+R
Sbjct: 175 TRNRIRH 181
>gnl|CDD|30386 COG0037, MesJ, Predicted ATPase of the PP-loop superfamily
implicated in cell cycle control [Cell division and
chromosome partitioning].
Length = 298
Score = 144 bits (363), Expect = 5e-35
Identities = 66/219 (30%), Positives = 95/219 (43%), Gaps = 14/219 (6%)
Query: 1 MFLSPIES--VRFFVRSLVYPAHILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISV 58
+E R + ILVAVSGG DS+ LL L +I+ A+ V
Sbjct: 1 CLREKLERKVKRAIREFNLIEYKILVAVSGGKDSLALLHLLK-----ELGRRIEVEAVHV 55
Query: 59 DHCLRETAKDEVRYVSDVCSRLRIAHSVVSW-----KNSKPQTGLMAAAREARYALISEH 113
DH LR + E V +C +L I V + + + AA R R L+ +
Sbjct: 56 DHGLRGYSDQEAELVEKLCEKLGIPLIVERVTDDLGRETLDGKSICAACRRLRRGLLYKI 115
Query: 114 AKTINATLIMTAHTFDDQLETVYMRSQRDYAEKGMGLSGMCDTILYDLNLWISRPFLRCR 173
AK + A I T H DDQ ET M R GL GM ++ L I RP L R
Sbjct: 116 AKELGADKIATGHHLDDQAETFLMNLLRG--SGLRGLRGMPPKRPFEGGLLIIRPLLYVR 173
Query: 174 REDIRSFLLQRNISWCEDPSNTDDRFERVRVRRFVRDID 212
++I + ++ + + ED SN D R+ R R+R + ++
Sbjct: 174 EKEIELYAKEKGLPYIEDESNYDLRYTRNRIREELLPLE 212
>gnl|CDD|30180 cd01993, Alpha_ANH_like_II, This is a subfamily of Adenine
nucleotide alpha hydrolases superfamily.Adeninosine
nucleotide alpha hydrolases superfamily includes N type
ATP PPases and ATP sulphurylases. It forms a
apha/beta/apha fold which binds to Adenosine group.
This subfamily of proteins is predicted to bind ATP.
This domainhas a strongly conserved motif SGGKD at the
N terminus..
Length = 185
Score = 75.3 bits (185), Expect = 3e-14
Identities = 42/174 (24%), Positives = 69/174 (39%), Gaps = 12/174 (6%)
Query: 22 ILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVDHCLRETAKDEVRYVSDVCSRLR 81
ILVA+SGG DS+ LL L L R + A++VD + + + V + L
Sbjct: 2 ILVALSGGKDSLVLLHVLKK-LQRRYPYGFELEALTVDEGIPGYRDESLEVVERLAEELG 60
Query: 82 IAHSVVSWKNSKPQTGLMAAARE---------ARYALISEHAKTINATLIMTAHTFDDQL 132
I +VS+K + R L+++ AK + A + T H DD+
Sbjct: 61 IELEIVSFKEEYTDDIEVKKRGGKSPCSLCGVLRRGLLNKIAKELGADKLATGHNLDDEA 120
Query: 133 ETVYMRSQRDYAEKGMGLSGMCDTILYDLNLWISRPFLRCRREDIRSFLLQRNI 186
ET+ M R + M + D + RP + R ++I + +
Sbjct: 121 ETLLMNLLRGGILRLMRPGPILYLDEGD--VTRIRPLVYVREKEIVLYAELNGL 172
>gnl|CDD|31794 COG1606, COG1606, ATP-utilizing enzymes of the PP-loop superfamily
[General function prediction only].
Length = 269
Score = 34.5 bits (79), Expect = 0.058
Identities = 52/310 (16%), Positives = 102/310 (32%), Gaps = 58/310 (18%)
Query: 1 MFLSPIESVRFFVRSLVYPAHILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVDH 60
M LS +E ++ ++ ++VA SGG DS L L D ++V
Sbjct: 2 MLLSKLERLKKAIKEK---KKVVVAFSGGVDSSLLAKLAKEALGDN--------VVAVTV 50
Query: 61 CLRETAKDEVRYVSDVCSRLRIAHSVVSWKNSKPQTGLMAAAR-----EARYALISEHAK 115
+ E+ ++ + I H + P+ R A Y+ + E A+
Sbjct: 51 DSPYIPRREIEEAKNIAKEIGIRHEFIKMNRMDPEFKENPENRCYLCKRAVYSTLVEEAE 110
Query: 116 TINATLIMTAHTFDDQLETVYMRSQRDYAEKGMGLSGMCDTILYDLNLWISRPFLRCR-- 173
++ D + R GL L +L + P
Sbjct: 111 KRGYDVVADGTNASD------LFDYRP------GLR-----ALKELGIR--SPLAEFGIT 151
Query: 174 REDIRSFLLQRNISWCEDPSNT--DDRF---ERVRVRRFVRDIDLHALYLKMKKFQDLRV 228
+++IR + + PS R E + V + ++ +L+ + +RV
Sbjct: 152 KKEIREIAKSLGLPTWDKPSMACLASRIPYGEEITVEDLKK-VEEAEEFLRELGVRQIRV 210
Query: 229 K--VNNAVAMLIPKYLTVHMRSIIAISQDILNIDSTLLFYLLRVSAAICGGQISLPGYRS 286
+ N AV + P+ + + I + + +V+ + L GYRS
Sbjct: 211 RSEDNLAVIEVGPEEPEKLLNEVEEIDDKLKKVGF------RKVT-------LDLEGYRS 257
Query: 287 MERVMLFLKS 296
+ ++
Sbjct: 258 GKLNKTIKEA 267
>gnl|CDD|30865 COG0519, GuaA, GMP synthase, PP-ATPase domain/subunit [Nucleotide
transport and metabolism].
Length = 315
Score = 32.4 bits (74), Expect = 0.22
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 7/60 (11%)
Query: 13 VRSLVYPAHILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVDH-CLRETAKDEVR 71
+R V +++A+SGG DS + H + D+ + + VDH LR+ ++V
Sbjct: 15 IREQVGDGKVILALSGGVDSSVAAVLAHRAIGDQ------LTCVFVDHGLLRKGEAEQVV 68
>gnl|CDD|30185 cd01998, tRNA_Me_trans, tRNA methyl transferase. This family
represents
tRNA(5-methylaminomethyl-2-thiouridine)-
methyltransferase which is involved in the biosynthesis
of the modified nucleoside
5-methylaminomethyl-2-thiouridine present in the wobble
position of some tRNAs. This family of enzyme only
presents in bacteria and eukaryote. The archaeal
counterpart of this enzyme performs same function, but
is completely unrelated in sequence..
Length = 349
Score = 31.7 bits (72), Expect = 0.38
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 9/75 (12%)
Query: 21 HILVAVSGGSDS---MGLLIAL-HSVLSDRSFGKIKFSAISVDHCLRETAKDEVRYVSDV 76
++VA+SGG DS LL + V+ F K C ++++++ V
Sbjct: 1 KVVVAMSGGVDSSVAAALLKEQGYEVIG--VFMKNWDEDDGKGGC---CSEEDLKDARRV 55
Query: 77 CSRLRIAHSVVSWKN 91
+L I H VV+++
Sbjct: 56 ADQLGIPHYVVNFEK 70
>gnl|CDD|30177 cd01990, Alpha_ANH_like_I, This is a subfamily of Adenine
nucleotide alpha hydrolases superfamily. Adenine
nucleotide alpha hydrolases superfamily includes N
type ATP PPases and ATP sulphurylases. It forms a
apha/beta/apha fold which binds to Adenosine group.
This subfamily of proteins probably binds ATP. This
domain is about 200 amino acids long with a strongly
conserved motif SGGKD at the N terminus..
Length = 202
Score = 31.7 bits (72), Expect = 0.39
Identities = 19/67 (28%), Positives = 27/67 (40%), Gaps = 8/67 (11%)
Query: 22 ILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVDHCLRETAKDEVRYVSDVCSRLR 81
+ VA SGG DS LL A L DR A++ L + E+ + +
Sbjct: 1 VAVAFSGGVDSTLLLKAAVDALGDRVL------AVTATSPL--FPRRELEEAKRLAKEIG 52
Query: 82 IAHSVVS 88
I H V+
Sbjct: 53 IRHEVIE 59
>gnl|CDD|30184 cd01997, GMP_synthase_C, The C-terminal domain of GMP synthetase.
It contains two subdomains; the ATP pyrophosphatase
domain which closes to the N-termial and the
dimerization domain at C-terminal end. The ATP-PPase is
a twisted, five-stranded parallel beta-sheet sandwiched
between helical layers. It has a signature
nucleotide-binding motif, or P-loop, at the end of the
first-beta strand.The dimerization domain formed by the
C-terminal 115 amino acid for prokaryotic proteins. It
is adjacent to teh ATP-binding site of the ATP-PPase
subdomain. The largest difference between the primary
sequence of prokaryotic and eukaryotic GMP synthetase
map to the dimerization domain.Eukaryotic GMP
synthetase has several large insertions relative to
prokaryotes..
Length = 295
Score = 30.9 bits (70), Expect = 0.62
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 21 HILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVDHCLRETAKDEVRYVSDVCSRL 80
+++A+SGG DS + LH + DR + + VD+ L K+E V ++ S+L
Sbjct: 1 KVILALSGGVDSTVAAVLLHKAIGDR------LTCVFVDNGLLR--KNEAERVEELFSKL 52
>gnl|CDD|35262 KOG0039, KOG0039, KOG0039, Ferric reductase, NADH/NADPH oxidase and
related proteins [Inorganic ion transport and
metabolism, Secondary metabolites biosynthesis,
transport and catabolism].
Length = 646
Score = 30.7 bits (69), Expect = 0.75
Identities = 23/136 (16%), Positives = 48/136 (35%), Gaps = 17/136 (12%)
Query: 251 AISQDILNIDSTLLFYLLRVSAAICGGQISLPGYRSMERVMLFLKSGKRGCVS--IGRVV 308
A SQD+ + +L + GG P ++ ++ + G+ + +
Sbjct: 458 APSQDVFKYEVLVL---------VGGGIGVTPFASILKDLLNKISLGRTKAPTSDYSDSL 508
Query: 309 IDRRANFLWITRAVRNLPTLILYPEETTVWDGRYQFQNLSDSLIQIGPQSYRKADVPSGI 368
++ F W+TR R+ E +D + L SY + D S +
Sbjct: 509 KLKKVYFYWVTREQRSFEWFKGLLTEVEEYD-----SSGVIELHNYVTSSYEEGDARSAL 563
Query: 369 PPIIAQRALSSMPSKE 384
++ Q+ L + +
Sbjct: 564 IQMV-QKLLHAKNGVD 578
>gnl|CDD|48196 cd03321, mandelate_racemase, Mandelate racemase (MR) catalyzes the
Mg2+-dependent 1,1-proton transfer reaction that
interconverts the enantiomers of mandelic acid. MR is
the first enzyme in the bacterial pathway that converts
mandelic acid to benzoic acid and allows this pathway to
utilize either enantiomer of mandelate. MR belongs to
the enolase superfamily of enzymes, characterized by the
presence of an enolate anion intermediate which is
generated by abstraction of the alpha-proton of the
carboxylate substrate by an active site residue and is
stabilized by coordination to the essential Mg2+ ion..
Length = 355
Score = 29.6 bits (66), Expect = 1.6
Identities = 23/83 (27%), Positives = 35/83 (42%), Gaps = 13/83 (15%)
Query: 127 TFDDQLETVYMRSQRDYAEKGMGLSGMCDTILYDLNLWISRPFLRCRREDIRSFLLQRNI 186
T D+ L V RS R G+GL M D Y+ +L + R + D Q +
Sbjct: 168 TADEDLAVV--RSIRQAVGDGVGL--MVD---YNQSLTVPEAIERGQALD------QEGL 214
Query: 187 SWCEDPSNTDDRFERVRVRRFVR 209
+W E+P+ D R+ +R
Sbjct: 215 TWIEEPTLQHDYEGHARIASALR 237
>gnl|CDD|146126 pfam03331, LpxC, UDP-3-O-acyl N-acetylglycosamine deacetylase. The
enzymes in this family catalyse the second step in the
biosynthetic pathway for lipid A.
Length = 276
Score = 29.2 bits (66), Expect = 2.2
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 122 IMTAHTFDDQLETVYMRSQRDYAEKGMGLSGMCD-TILYDLNLWISRPFLRCRREDIRSF 180
I A TF E Y+RS KG+ G + I++D + ++ P LR E +R
Sbjct: 183 IAPARTFGFMREIEYLRS------KGLIKGGSLENAIVFDDDKVLNPPGLRFEDEPVRHK 236
Query: 181 LL 182
+L
Sbjct: 237 IL 238
>gnl|CDD|30830 COG0482, TrmU, Predicted
tRNA(5-methylaminomethyl-2-thiouridylate)
methyltransferase, contains the PP-loop ATPase domain
[Translation, ribosomal structure and biogenesis].
Length = 356
Score = 28.7 bits (64), Expect = 3.4
Identities = 19/80 (23%), Positives = 29/80 (36%), Gaps = 22/80 (27%)
Query: 22 ILVAVSGGSDS---MGLL-------IALHSVLSDRSFGKIKFSAISVDHCLRETAKDEVR 71
+LV +SGG DS LL I L D G +++++R
Sbjct: 6 VLVGMSGGVDSSVAAYLLKEQGYEVIGLFMKNWDEDGGG------------GCCSEEDLR 53
Query: 72 YVSDVCSRLRIAHSVVSWKN 91
V +L I VV ++
Sbjct: 54 DAERVADQLGIPLYVVDFEK 73
>gnl|CDD|38051 KOG2840, KOG2840, KOG2840, Uncharacterized conserved protein with
similarity to predicted ATPase of the PP-loop
superfamily [General function prediction only].
Length = 347
Score = 28.0 bits (62), Expect = 4.7
Identities = 28/147 (19%), Positives = 52/147 (35%), Gaps = 15/147 (10%)
Query: 14 RSLVYPAHILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVDHCLRETAKDEVRYV 73
+ + + SGG DS +L + L++R ++ +S+D +R D + V
Sbjct: 46 KLFARGERVAIGASGGKDST-VLAYVLDALNERHDYGLRLFLLSIDEGIRGYRDDSLEAV 104
Query: 74 SDVCSRLRIAHSVVSWK--------NSKPQTGLMAAAREA------RYALISEHAKTINA 119
+ + +VS+K + R + A + A
Sbjct: 105 KRNGVQYGLPLCIVSYKDLYGEWTMDEIVSEIGQEIRNNCTFCGVFRRQALDRGADVLGA 164
Query: 120 TLIMTAHTFDDQLETVYMRSQRDYAEK 146
++T H DD ETV M R + +
Sbjct: 165 AELVTGHNADDWAETVLMNLLRGDSAR 191
>gnl|CDD|144363 pfam00733, Asn_synthase, Asparagine synthase. This family is
always found associated with pfam00310. Members of this
family catalyse the conversion of aspartate to
asparagine.
Length = 195
Score = 28.0 bits (63), Expect = 5.1
Identities = 27/105 (25%), Positives = 41/105 (39%), Gaps = 15/105 (14%)
Query: 6 IESVRFFVRSLVYPAHILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVDHCLRET 65
++V+ R L + V +SGG DS LIA ++ + +S +K SV +
Sbjct: 7 RDAVK---RRLRADVPVGVLLSGGLDSS--LIA--ALAARQSSPPLK--TFSVG--FEGS 55
Query: 66 AKDEVRYVSDVCSRLRIAHSVVSWKNSKPQTGLMAAAREARYALI 110
DE Y V L H + + L+ A E Y L
Sbjct: 56 DYDEAPYAELVADHLGTDHHEI---IVTEEE-LLDALPEVIYHLE 96
>gnl|CDD|30168 cd01713, PAPS_reductase, This domain is found in phosphoadenosine
phosphosulphate (PAPS) reductase enzymes or PAPS
sulphotransferase. PAPS reductase is part of the
adenine nucleotide alpha hydrolases superfamily also
including N type ATP PPases and ATP sulphurylases. A
highly modified version of the P loop, the fingerprint
peptide of mononucleotide-binding proteins, is present
in the active site of the protein, which appears to be
a positively charged cleft containing a number of
conserved arginine and lysine residues. Although PAPS
reductase has no ATPase activity, it shows a striking
similarity to the structure of the ATP pyrophosphatase
(ATP PPase) domain of GMP synthetase, indicating that
both enzyme families have evolved from a common
ancestral nucleotide-binding fold. The enzyme uses
thioredoxin as an electron donor for the reduction of
PAPS to phospho-adenosine-phosphate (PAP) . It is also
found in NodP nodulation protein P from Rhizobium
meliloti which has ATP sulphurylase activity (sulphate
adenylate transferase) ..
Length = 173
Score = 27.7 bits (61), Expect = 6.3
Identities = 19/74 (25%), Positives = 28/74 (37%), Gaps = 10/74 (13%)
Query: 21 HILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVD--HCLRETAKDEVRYVSDVCS 78
+++V+ SGG DS LL L I +D + ET +V V
Sbjct: 1 NVVVSFSGGKDSTVLLHLALKAL----PELKPVPVIFLDTGYEFPET----YEFVDRVAE 52
Query: 79 RLRIAHSVVSWKNS 92
R + VV +S
Sbjct: 53 RYGLPLVVVRPPDS 66
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 0.139 0.415
Gapped
Lambda K H
0.267 0.0726 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,192,152
Number of extensions: 278054
Number of successful extensions: 745
Number of sequences better than 10.0: 1
Number of HSP's gapped: 734
Number of HSP's successfully gapped: 17
Length of query: 423
Length of database: 6,263,737
Length adjustment: 96
Effective length of query: 327
Effective length of database: 4,189,273
Effective search space: 1369892271
Effective search space used: 1369892271
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 (21.7 bits)
S2: 59 (26.5 bits)