RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780689|ref|YP_003065102.1| flagellar motor switch protein
G [Candidatus Liberibacter asiaticus str. psy62]
(345 letters)
>gnl|CDD|31725 COG1536, FliG, Flagellar motor switch protein [Cell motility and
secretion].
Length = 339
Score = 186 bits (474), Expect = 7e-48
Identities = 85/325 (26%), Positives = 163/325 (50%), Gaps = 4/325 (1%)
Query: 21 SLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQ 80
LT +KA +LLA+ ++++ ++L+H + E++ + L +SPEE E +++EFE
Sbjct: 10 PLTGTEKAAILLLALGEEIAAEVLKHLSPEEIQRLSTEMATLKTVSPEEKEQVLEEFEEL 69
Query: 81 FIAGIGLTENSKNIESILEEGLEQNELEKLLNKSDISQENNNSIWDHLKETDPGVIADFL 140
F G+ + + L E E + L + S +D L++ DP +AD +
Sbjct: 70 FTEQAGINKGADEYARELLEKALGEEKAESLLERITGSAIQTSPFDLLRKLDPSQLADLI 129
Query: 141 SKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKRTVNLPKISPYIQKTIEKCI--- 197
EHPQT A +LS +PP A +L P ++ AD++KR L +SP +E +
Sbjct: 130 KNEHPQTIALILSYLPPDQAAEILSTLPEELRADVVKRIATLEGVSPEALAELENVLEKK 189
Query: 198 VEMLPQSNSNTSTGPEKVANLINELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDLIT 257
++ L + + G + A ++N L++ +L SL+E E ++++ K+F+F+D++
Sbjct: 190 LQSLVNEDYSKLGGIKAAAEILNLLDRGTEKTILESLEEEDPELAEEIKEKMFVFEDIVL 249
Query: 258 LSSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKIIEENIVLNDSSIAPRE 317
L + + + E L AL G S E + IL +S R ++++E + + +
Sbjct: 250 LDDRSIQRLLREVDKEDLAIALKGASEELREKILSNMSKRAAEMLKEELE-FLGPVRLSD 308
Query: 318 VAMARRSIVQEAISLLKTNKIELSN 342
V A+++I+ L ++ +I +
Sbjct: 309 VETAQKAILNIVRRLAESGEIVIKR 333
>gnl|CDD|145059 pfam01706, FliG_C, FliG C-terminal domain. FliG is a component of
the flageller rotor, present in about 25 copies per
flagellum. This domain functions specifically in motor
rotation.
Length = 110
Score = 71.4 bits (176), Expect = 4e-13
Identities = 31/110 (28%), Positives = 55/110 (50%), Gaps = 1/110 (0%)
Query: 231 LTSLQEVSKEAFDKVRPKVFLFDDLITLSSHDLSIVFNNISLEVLGKALHGTSIETQNAI 290
L +L+E E +++R +F F+DL+ L D+ + + +VL AL G S E + I
Sbjct: 1 LEALEERDPELAEEIRKLMFTFEDLVRLDDRDIQRLLREVDKDVLALALKGASEELREKI 60
Query: 291 LHCLSNRQRKIIEENIVLNDSSIAPREVAMARRSIVQEAISLLKTNKIEL 340
L +S R +++ E + + +V A++ IV L + +IEL
Sbjct: 61 LSNMSKRAAEMLREELEALG-PVRLSDVEAAQKEIVAIVRELAEEGEIEL 109
>gnl|CDD|32420 COG2239, MgtE, Mg/Co/Ni transporter MgtE (contains CBS domain)
[Inorganic ion transport and metabolism].
Length = 451
Score = 33.3 bits (76), Expect = 0.11
Identities = 24/127 (18%), Positives = 52/127 (40%), Gaps = 11/127 (8%)
Query: 117 SQENNNSIWDHLKETDPGVIADFLSKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADIM 176
+ ++ D L++ D V+ L++ HP A +L +P V P + A++
Sbjct: 5 QLLDIENLIDLLEDKDLSVLRKLLARLHPADVAEILEELPGRERVVVWRLLPKEDAAEV- 63
Query: 177 KRTVNLPKISPYIQKTIEKCIVEMLPQSNSNTSTG--PEKVANLINELEKPQVDKLLTSL 234
L ++ +++ I I + + + + A+L++EL D+LL+ L
Sbjct: 64 -----LGELDDEVREEI---IEALSDEELAAAIEELDIDDAADLLDELPDEVRDELLSLL 115
Query: 235 QEVSKEA 241
+
Sbjct: 116 DPEERAR 122
>gnl|CDD|36330 KOG1114, KOG1114, KOG1114, Tripeptidyl peptidase II
[Posttranslational modification, protein turnover,
chaperones].
Length = 1304
Score = 32.6 bits (74), Expect = 0.18
Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 5/71 (7%)
Query: 68 EELEDIIDEFESQFIAGIGLTENSKNIESILEE-----GLEQNELEKLLNKSDISQENNN 122
EE + I + + +++ + E K + L + L KL+ KSD +E N
Sbjct: 1072 EECAEAIRDLQVSWLSKLADEEAEKIYNYLKSSYPDYLPLLEVRLAKLMQKSDAVKETNK 1131
Query: 123 SIWDHLKETDP 133
I + L D
Sbjct: 1132 KIEEILSAADS 1142
>gnl|CDD|37150 KOG1939, KOG1939, KOG1939, Oxoprolinase [Amino acid transport and
metabolism].
Length = 1247
Score = 30.3 bits (68), Expect = 0.74
Identities = 37/155 (23%), Positives = 67/155 (43%), Gaps = 24/155 (15%)
Query: 191 KTIEKCIVEMLPQSNSNTSTGPEKVANLINELEKPQVDKLLTSLQEVSKEAFDKVRPKVF 250
+ + I ++ Q +N G + V +LI E V + +Q ++ A ++ KV
Sbjct: 906 RNLSDNISDLKAQIAANHK-GIQLVTSLIEEYGLDVVQAYMKHIQNNAELAVREMLKKVG 964
Query: 251 LFDDLITLSSHDLSIVFNNISLEVL-----GKAL---HGTSIE-----------TQNAIL 291
TLS+ D + I L+V G+A+ GT E T +A++
Sbjct: 965 RRVLEKTLSAEDFMDDGSPIKLKVTIDPEKGEAIFDFTGTGPEVYGNCNAPEAVTYSAVI 1024
Query: 292 HCLSNRQRKIIEENIVLNDSSIAPREVAMARRSIV 326
+CL R ++ E+I LN +AP ++ + S +
Sbjct: 1025 YCL----RCLVNEDIPLNQGCLAPIQIKIPAGSFL 1055
>gnl|CDD|146204 pfam03448, MgtE_N, MgtE intracellular N domain. This domain is
found at the N-terminus of eubacterial magnesium
transporters of the MgtE family pfam01769. This domain
is an intracellular domain that has an alpha-helical
structure. The crystal structure of the MgtE transporter
shows two of 5 magnesium ions are in the interface
between the N domain and the CBS domains. In the absence
of magnesium there is a large shift between the N and
CBS domains.
Length = 102
Score = 29.4 bits (67), Expect = 1.6
Identities = 23/105 (21%), Positives = 45/105 (42%), Gaps = 13/105 (12%)
Query: 144 HPQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKRTVNLPKISPYIQKTIEKCIVEMLPQ 203
HP A +L +PP ++L P + A++ L ++ +Q + +E LP
Sbjct: 2 HPADIAELLEELPPEERLALLRLLPPERAAEV------LEELDEDVQAEL----LEALPP 51
Query: 204 SNSNTSTG---PEKVANLINELEKPQVDKLLTSLQEVSKEAFDKV 245
P+ A+L+ EL + ++LL+ L +E ++
Sbjct: 52 EELAELLEELDPDDAADLLEELPEEVREELLSLLDPEEREEIREL 96
Score = 28.3 bits (64), Expect = 3.6
Identities = 12/54 (22%), Positives = 27/54 (50%), Gaps = 6/54 (11%)
Query: 25 KDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFE 78
++A +L +++ V +LL EL E++ E+ P++ D+++E
Sbjct: 27 PERAAEVLEELDEDVQAELLEALPPEELAELLE------ELDPDDAADLLEELP 74
>gnl|CDD|33843 COG4086, COG4086, Predicted secreted protein [Function unknown].
Length = 299
Score = 29.2 bits (65), Expect = 1.9
Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 50 AELKEIVASAKLLPEISPEELEDIIDEFESQFIAGIGLTENSKNI 94
AE+KE VA K+ P ++ ++D+ + + + LT+ N
Sbjct: 198 AEVKEEVAKQKVD---DPADIRKVVDDVANNY--NVNLTDTQVNQ 237
>gnl|CDD|119333 cd06563, GH20_chitobiase-like, The chitobiase of Serratia
marcescens is a beta-N-1,4-acetylhexosaminidase with a
glycosyl hydrolase family 20 (GH20) domain that
hydrolyzes the beta-1,4-glycosidic linkages in oligomers
derived from chitin. Chitin is degraded by a two step
process: i) a chitinase hydrolyzes the chitin to
oligosaccharides and disaccharides such as
di-N-acetyl-D-glucosamine and chitobiose, ii) chitobiase
then further degrades these oligomers into monomers.
This GH20 domain family includes an
N-acetylglucosamidase (GlcNAcase A) from
Pseudoalteromonas piscicida and an
N-acetylhexosaminidase (SpHex) from Streptomyces
plicatus. SpHex lacks the C-terminal PKD (polycystic
kidney disease I)-like domain found in the chitobiases.
The GH20 hexosaminidases are thought to act via a
catalytic mechanism in which the catalytic nucleophile
is not provided by solvent or the enzyme, but by the
substrate itself..
Length = 357
Score = 29.1 bits (66), Expect = 2.1
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 5/25 (20%)
Query: 46 HFTHAELKEIVASAK-----LLPEI 65
+T E++EIVA A ++PEI
Sbjct: 82 FYTQEEIREIVAYAAERGITVIPEI 106
>gnl|CDD|133299 cd01899, Ygr210, Ygr210 subfamily. Ygr210 is a member of Obg-like
family and present in archaea and fungi. They are
characterized by a distinct glycine-rich motif
immediately following the Walker B motif. The Ygr210
and YyaF/YchF subfamilies appear to form one major
branch of the Obg-like family. Among eukaryotes, the
Ygr210 subfamily is represented only in fungi. These
fungal proteins form a tight cluster with their archaeal
orthologs, which suggests the possibility of horizontal
transfer from archaea to fungi.
Length = 318
Score = 28.3 bits (64), Expect = 3.2
Identities = 22/85 (25%), Positives = 32/85 (37%), Gaps = 24/85 (28%)
Query: 74 IDEFESQFIAGIGLTENSKNIESILEEGLE--------QNELEKL--------------L 111
I E S+ ++G G+ E K++ LEE +L +L
Sbjct: 164 IVEALSEQLSGFGVNE--KDVIEALEELELPEDLSKWTDEDLLRLARALRKRSKPMVIAA 221
Query: 112 NKSDISQENNNSIWDHLKETDPGVI 136
NK+DI NN LK D V+
Sbjct: 222 NKADIPDAENNISKLRLKYPDEIVV 246
>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 = 27.9 bits (63), Expect = 4.2
Identities = 14/45 (31%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQ 80
EK++S LL +AEL + L P+ + E+L I +++S+
Sbjct: 175 EKRLSNFLLWQSAYAEL---YFTDTLWPDFTKEDLLRAIRDYQSR 216
>gnl|CDD|73400 cd04738, DHOD_2_like, Dihydroorotate dehydrogenase (DHOD) class 2.
DHOD catalyzes the oxidation of (S)-dihydroorotate to
orotate. This is the fourth step and the only redox
reaction in the de novo biosynthesis of UMP, the
precursor of all pyrimidine nucleotides. DHOD requires
FMN as co-factor. DHOD divides into class 1 and class 2
based on their amino acid sequences, their cellular
location and their natural electron acceptor used to
reoxidize the flavin group. Members of class 1 are
cytosolic enzymes and multimers, while class 2 enzymes
are membrane associated, monomeric and use respiratory
quinones as their physiological electron acceptors..
Length = 327
Score = 27.8 bits (62), Expect = 4.9
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 60 KLLPEISPEELEDIIDEFESQFIAGIGLT 88
K+ P++S EELEDI D + GI T
Sbjct: 208 KIAPDLSDEELEDIADVALEHGVDGIIAT 236
>gnl|CDD|145673 pfam02637, GatB_Yqey, GatB domain. This domain is found in GatB.
It is about 140 amino acid residues long. This domain is
found at the C terminus of GatB, which transamidates
Glu-tRNA to Gln-tRNA.
Length = 148
Score = 27.5 bits (62), Expect = 5.4
Identities = 23/72 (31%), Positives = 38/72 (52%), Gaps = 14/72 (19%)
Query: 65 ISPEELEDIIDEFESQFIAG-------IGLTENSKNIESILEE-GLEQ----NELEKLLN 112
++PE L ++I + I+G L EN K+ E I+EE GL Q ELEK+++
Sbjct: 40 LTPEHLAELIKLIDEGTISGKIAKEVLEELLENGKSPEEIVEEKGLVQISDEEELEKIVD 99
Query: 113 KSDISQENNNSI 124
++ EN ++
Sbjct: 100 --EVIAENPKAV 109
>gnl|CDD|163687 cd08056, MPN_PRP8, Mpr1p, Pad1p N-terminal (MPN) domains without
isopeptidase activity found in splicing factor Prp8.
Members of this family are found in pre-mRNA-processing
factor 8 (Prp8) which is a critical splicing factor,
interacting with several other spliceosomal proteins,
snRNAs, and the pre-mRNA, thus organizing and
stabilizing the spliceosome catalytic core. Prp8 is one
of the largest and most highly conserved of nuclear
proteins, occupying a central position in the catalytic
core of the spliceosome. Its C-terminal domain exhibits
a JAB1/MPN-like core similar to deubiquitinating
enzymes, but does not show catalytic isopeptidase
activity, possibly because the putative isopeptidase
center is covered by insertions and terminal appendices
that are grafted onto this core, thus impairing the
metal binding site. It is proposed that this domain is a
protein interaction domain instead of a Zn(2+)-dependent
metalloenzyme as proposed for some MPN proteins. The
DEAD-box protein Brr2 and the GTPase Snu114 bind to the
Prp8 C-terminus, a region where mutations in human Prp8
(hPrp8) cause a severe form of the genetic disorder
retinitis pigmentosa, RP13, which leads to progressive
photoreceptor degeneration in the retina and eventual
blindness. At the N-terminus of Prp8, there are several
domains, including a highly variable nuclear
localization signal (NLS) motif rich in prolines, a
conserved RNA recognition motif (RRM), and U5 and U6
snRNA binding sites.
Length = 252
Score = 27.6 bits (62), Expect = 5.4
Identities = 29/137 (21%), Positives = 52/137 (37%), Gaps = 41/137 (29%)
Query: 76 EFESQFIAGIGLTENSKNI----ESILEEG----LEQNELEKLLNKSDI-SQENNNSIWD 126
++ + IA L +KNI + I E G L +N L+K ++ SD+ +Q
Sbjct: 6 DWRVRAIAATNLHLRTKNIYVSSDDIKETGYTYILPKNLLKKFISISDLRTQ-------- 57
Query: 127 HLKETDPGVIADFL----SKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHAD-------- 174
IA +L ++PQ ++ P +G + P ++
Sbjct: 58 ---------IAGYLYGKSPPDNPQVKEIRCIVLVPQLGTHQTVTLPQQLPQHEYLEDLEP 108
Query: 175 ---IMKRTVNLPKISPY 188
I + LP++SP
Sbjct: 109 LGWIHTQPNELPQLSPQ 125
>gnl|CDD|30898 COG0552, FtsY, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 340
Score = 27.5 bits (61), Expect = 5.4
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 68 EELEDIIDEFESQFIAGIGLTENSKNIESILEEGLEQNELEKLLNKSDISQENNNSIWDH 127
E L+ + + + F GI K E + E+ LE ELE+LL ++D+ E I +
Sbjct: 35 ERLKQGLSKTKKNFGKGIKGLFLKKIKEKLDEDLLE--ELEELLIEADVGVETAEEIIEE 92
Query: 128 LKE 130
L++
Sbjct: 93 LRK 95
>gnl|CDD|30955 COG0610, COG0610, Type I site-specific restriction-modification
system, R (restriction) subunit and related helicases
[Defense mechanisms].
Length = 962
Score = 27.3 bits (60), Expect = 6.9
Identities = 16/129 (12%), Positives = 43/129 (33%), Gaps = 1/129 (0%)
Query: 24 QKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEIS-PEELEDIIDEFESQFI 82
++ L + K K + + + + ++ + S +L+DI E E
Sbjct: 751 TLEEEIQYLEDLLKARLEKDYQSKYLDLIDNLNDAREIKDKESKAIDLDDIDFELELIGK 810
Query: 83 AGIGLTENSKNIESILEEGLEQNELEKLLNKSDISQENNNSIWDHLKETDPGVIADFLSK 142
I + + +++ ++ L++L+ + + L E I + +K
Sbjct: 811 QEINIDYILELLQTFNDKNGAYESLKELIERIIKEWIEDLRQKKKLIERLIEAINQYRAK 870
Query: 143 EHPQTTAYV 151
+
Sbjct: 871 KLDTAEKLE 879
>gnl|CDD|36947 KOG1736, KOG1736, KOG1736, Glia maturation factor beta
[Extracellular structures].
Length = 143
Score = 26.9 bits (59), Expect = 7.7
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 53 KEIVASAKLLPEISPEELEDIIDEFESQFI 82
EIV + L EISPEEL D + E + +F+
Sbjct: 42 YEIVLDEEELDEISPEELADELPERQPRFV 71
>gnl|CDD|153247 cd07985, LPLAT_GPAT, Lysophospholipid Acyltransferases (LPLATs) of
Glycerophospholipid Biosynthesis: GPAT.
Lysophospholipid acyltransferase (LPLAT) superfamily
member: glycerol-3-phosphate 1-acyltransferase (GPAT,
PlsB). LPLATs are acyltransferases of de novo and
remodeling pathways of glycerophospholipid biosynthesis
which catalyze the incorporation of an acyl group from
either acylCoAs or acyl-acyl carrier proteins (acylACPs)
into acceptors such as glycerol 3-phosphate,
dihydroxyacetone phosphate or lyso-phosphatidic acid.
This subgroup includes glycerol-3-phosphate
1-acyltransferase (GPAT, PlsB).
Length = 235
Score = 27.0 bits (60), Expect = 7.7
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 126 DHLKETDPGVIADFLSKEHPQ 146
+H E DP VI+ L K HP
Sbjct: 29 NHQTEADPAVISLLLEKTHPY 49
>gnl|CDD|111365 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein. This
protein is covalently attached to the terminii of
replicating DNA in vivo.
Length = 548
Score = 26.5 bits (59), Expect = 9.5
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 8/35 (22%)
Query: 64 EISPEELEDIIDEFESQFIAGIGLTENSKNIESIL 98
E+ EE E QF++ I ENS ++E IL
Sbjct: 471 ELDEEEQE--------QFLSDIAYRENSGDVEEIL 497
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
0.312 0.130 0.346
Gapped
Lambda K H
0.267 0.0732 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,819,403
Number of extensions: 197204
Number of successful extensions: 646
Number of sequences better than 10.0: 1
Number of HSP's gapped: 640
Number of HSP's successfully gapped: 41
Length of query: 345
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 250
Effective length of database: 4,210,882
Effective search space: 1052720500
Effective search space used: 1052720500
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.1 bits)