RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781156|ref|YP_003065569.1| hypothetical protein
CLIBASIA_05315 [Candidatus Liberibacter asiaticus str. psy62]
(154 letters)
>gnl|CDD|147015 pfam04652, DUF605, Vta1 like. Vta1 (VPS20-associated protein 1) is
a positive regulator of Vps4. Vps4 is an ATPase that is
required in the multivesicular body (MVB) sorting
pathway to dissociate the endosomal sorting complex
required for transport (ESCRT). Vta1 promotes correct
assembly of Vps4 and stimulates its ATPase activity
through its conserved Vta1/SBP1/LIP5 region.
Length = 312
Score = 28.5 bits (64), Expect = 0.76
Identities = 25/100 (25%), Positives = 34/100 (34%), Gaps = 6/100 (6%)
Query: 47 PFTKSSPYNNSVSNTVNNTPRVPD--VSEMNSSRGSAPQSHVNVSSPHYKHEYSSSSASS 104
P + S S S + P P+ S +SS AP S +V P S+ S
Sbjct: 179 PASASPSDPPSSSPGEPSFPSPPEDPPSPADSSLPPAPSSFQSVPPPPSPESPSNPSPPP 238
Query: 105 STHASPPPHFEQKHIS----RTRIDSSPPPGHIDPHPDHI 140
S A P + + + P G I P D I
Sbjct: 239 SPFAPSSPPVPSSPTAKPTPPSAPATPAPAGGITPDDDAI 278
>gnl|CDD|48222 cd00883, beta_CA_cladeA, Carbonic anhydrases (CA) are
zinc-containing enzymes that catalyze the reversible
hydration of carbon dioxide in a two-step mechanism in
which the nucleophilic attack of a zinc-bound hydroxide
ion on carbon dioxide is followed by the regeneration of
an active site by ionization of the zinc-bound water
molecule and removal of a proton from the active site.
CAs are ubiquitous enzymes involved in fundamental
processes like photosynthesis, respiration, pH
homeostasis and ion transport. There are three
evolutionarily distinct families of CAs (the alpha-,
beta-, and gamma-CAs) which show no significant sequence
identity or structural similarity. Within the beta-CA
family there are four evolutionarily distinct clades (A
through D). The beta-CAs are multimeric enzymes (forming
dimers,tetramers,hexamers and octamers) which are
present in higher plants, algae, fungi, archaea and
prokaryotes..
Length = 182
Score = 28.6 bits (64), Expect = 0.83
Identities = 7/28 (25%), Positives = 11/28 (39%)
Query: 126 SSPPPGHIDPHPDHIRNTLALHRKMLEQ 153
+ G +D IR+ LH L+
Sbjct: 99 TGKRLGLLDNWLRPIRDVYRLHAAELDA 126
>gnl|CDD|146567 pfam03999, MAP65_ASE1, Microtubule associated protein (MAP65/ASE1
family).
Length = 619
Score = 27.5 bits (61), Expect = 1.6
Identities = 15/75 (20%), Positives = 26/75 (34%), Gaps = 1/75 (1%)
Query: 56 NSVSNTVNNTPRVPDVSEMNSSRGSA-PQSHVNVSSPHYKHEYSSSSASSSTHASPPPHF 114
S + + + S SS GS +S + + ++++ S P
Sbjct: 533 RSSKGNLIRSGANGNASSDLSSPGSINSKSPEHSVPLVRVFDIHLRASTTKGRHSTPSTN 592
Query: 115 EQKHISRTRIDSSPP 129
E+K R SPP
Sbjct: 593 EKKKRLLKRSPLSPP 607
>gnl|CDD|145999 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit.
Transcription initiation factor IIA (TFIIA) is a
heterotrimer, the three subunits being known as alpha,
beta, and gamma, in order of molecular weight. The N and
C-terminal domains of the gamma subunit are represented
in pfam02268 and pfam02751, respectively. This family
represents the precursor that yields both the alpha and
beta subunits. The TFIIA heterotrimer is an essential
general transcription initiation factor for the
expression of genes transcribed by RNA polymerase II.
Together with TFIID, TFIIA binds to the promoter region;
this is the first step in the formation of a
pre-initiation complex (PIC). Binding of the rest of the
transcription machinery follows this step. After
initiation, the PIC does not completely dissociate from
the promoter. Some components, including TFIIA, remain
attached and re-initiate a subsequent round of
transcription.
Length = 334
Score = 27.4 bits (61), Expect = 1.7
Identities = 11/81 (13%), Positives = 18/81 (22%), Gaps = 4/81 (4%)
Query: 63 NNTPRVPDVSEMNSSRGSAPQSHVNVSSPHYKHEY----SSSSASSSTHASPPPHFEQKH 118
VP + N + Q ++ + Y S S A +
Sbjct: 119 LYQVTVPVMVTQNPANSERDQPAQQRAAQQLQQRYGAPASGQLPSQQQSAQKNDESPLQQ 178
Query: 119 ISRTRIDSSPPPGHIDPHPDH 139
I G D +
Sbjct: 179 QPNGLIQPQQTDGAGDDEEEA 199
>gnl|CDD|35720 KOG0499, KOG0499, KOG0499, Cyclic nucleotide-gated cation channel
CNCG4 [Inorganic ion transport and metabolism, Signal
transduction mechanisms].
Length = 815
Score = 27.3 bits (60), Expect = 2.0
Identities = 12/79 (15%), Positives = 20/79 (25%), Gaps = 7/79 (8%)
Query: 69 PDVSEMNSSRGSAPQSHVNVSSPH------YKHEYSSSSASSSTHASPPPHFEQKHISRT 122
+VS + + S P +S ++ST P P +
Sbjct: 22 SEVSRQKAEEPTELSEKEWKSPPQEESPDLEAPANASKEPAASTRPLPYPEDRPPEVVIQ 81
Query: 123 RIDSSPPP-GHIDPHPDHI 140
+ P D H
Sbjct: 82 IDEVESPITVLPDEQDAHE 100
>gnl|CDD|35384 KOG0162, KOG0162, KOG0162, Myosin class I heavy chain
[Cytoskeleton].
Length = 1106
Score = 26.5 bits (58), Expect = 3.2
Identities = 12/77 (15%), Positives = 24/77 (31%), Gaps = 3/77 (3%)
Query: 71 VSEMNSSRGSAPQSHVNVSSPHYKHEYSS---SSASSSTHASPPPHFEQKHISRTRIDSS 127
++ G P S + P YSS ++++ + A ++ S
Sbjct: 914 SLTVSVGTGLPPNSKPSRKKPRKATGYSSGRDAASTPTRRAPQNKQAYGQNGVSPAAKGS 973
Query: 128 PPPGHIDPHPDHIRNTL 144
P P + + R
Sbjct: 974 PLPAQKPVNTYNQRPPP 990
Score = 25.3 bits (55), Expect = 8.0
Identities = 16/111 (14%), Positives = 27/111 (24%), Gaps = 3/111 (2%)
Query: 24 SGSSFGCCGEFKKKASSPRIHMRPF--TKSSPYNNSVSNTVNNTPRVPDVSEMNSSRGSA 81
G F K S + + S P + S
Sbjct: 898 FGIDFEDLKVLKDIYKSLTVSVGTGLPPNSKPSRKKPRKATGYSSGRDAASTPTRRAPQN 957
Query: 82 PQSHV-NVSSPHYKHEYSSSSASSSTHASPPPHFEQKHISRTRIDSSPPPG 131
Q++ N SP K + +T+ PP + + + P
Sbjct: 958 KQAYGQNGVSPAAKGSPLPAQKPVNTYNQRPPPVSTSTTTSQQPSARPSSK 1008
>gnl|CDD|36433 KOG1219, KOG1219, KOG1219, Uncharacterized conserved protein,
contains laminin, cadherin and EGF domains [Signal
transduction mechanisms].
Length = 4289
Score = 26.1 bits (57), Expect = 4.0
Identities = 18/116 (15%), Positives = 34/116 (29%), Gaps = 7/116 (6%)
Query: 34 FKKKASSPRIHMRPFTKSSPYNNSVSNTVNNTPRVPDVS-------EMNSSRGSAPQSHV 86
+KK S + N +V V + S + N S+ + +
Sbjct: 4015 CRKKNSRKKYGAHCPVDLLRRNTNVYVPVVPQVPLRPRSYTSRNNLDSNFISTSSVPTEL 4074
Query: 87 NVSSPHYKHEYSSSSASSSTHASPPPHFEQKHISRTRIDSSPPPGHIDPHPDHIRN 142
P + S + + P + I + DS G +D + R+
Sbjct: 4075 VTFRPESQVRPVVCSVAPNLPPPSPCGSDSDSIRKDPWDSDYDFGRVDETANRSRH 4130
>gnl|CDD|34211 COG4573, GatZ, Predicted tagatose 6-phosphate kinase [Carbohydrate
transport and metabolism].
Length = 426
Score = 26.1 bits (57), Expect = 4.1
Identities = 9/19 (47%), Positives = 10/19 (52%)
Query: 136 HPDHIRNTLALHRKMLEQS 154
P+ RNTL HRK E
Sbjct: 192 TPEAARNTLRAHRKAFEAR 210
>gnl|CDD|38739 KOG3531, KOG3531, KOG3531, Rho guanine nucleotide exchange factor
CDEP [Signal transduction mechanisms].
Length = 1036
Score = 26.1 bits (57), Expect = 4.2
Identities = 25/99 (25%), Positives = 34/99 (34%), Gaps = 9/99 (9%)
Query: 34 FKKKASSPRIHMRPFTKSSPYNNSVSNTVNNTPRVPDVSEMNSSRGSAPQSHVNVSSPHY 93
F++K S R SSPY V R + E N + +V+ S PH
Sbjct: 361 FERKHSKSHSTRRG-LYSSPYGLVSD--VPEQHRNGSLYEANGTDSYNKHQNVHSSEPHI 417
Query: 94 KHEYSSSSASSSTHASPPPHFEQKHISRTRIDSSPPPGH 132
+ S T SP SRT ++ P H
Sbjct: 418 ASSQPADHPFSGTLDSPAGK------SRTGAPATSPTQH 450
>gnl|CDD|37513 KOG2302, KOG2302, KOG2302, T-type voltage-gated Ca2+ channel,
pore-forming alpha1I subunit [Inorganic ion transport
and metabolism, Signal transduction mechanisms].
Length = 1956
Score = 25.8 bits (56), Expect = 4.8
Identities = 11/60 (18%), Positives = 17/60 (28%)
Query: 80 SAPQSHVNVSSPHYKHEYSSSSASSSTHASPPPHFEQKHISRTRIDSSPPPGHIDPHPDH 139
+ QS H Y S S + P + R + H DP ++
Sbjct: 927 GSYQSRGISDYSSEYHSYDQDSHPSERSSGDHPWGTSYAWTSRRSSWNQSLKHQDPSGEY 986
>gnl|CDD|40019 KOG4822, KOG4822, KOG4822, Predicted nuclear membrane protein
involved in mRNA transport and sex determination via
splicing modulation [RNA processing and modification,
Signal transduction mechanisms].
Length = 1906
Score = 25.8 bits (56), Expect = 5.1
Identities = 17/102 (16%), Positives = 30/102 (29%), Gaps = 7/102 (6%)
Query: 40 SPRIHMRP-FTKSSPYNNSVSNTVNNTPRVPDVSEMNSSR--GSAPQSHVNVSSPHYKHE 96
P H+RP + VS + N ++P + +M + G P S ++ ++
Sbjct: 1778 QPPQHVRPPIQINRGSRQGVS--MQNRFQIP-MHQMQLMQRTGVQPSSWISQVQQQGQYH 1834
Query: 97 YSSSSASSSTHASPPPHFEQKHIS-RTRIDSSPPPGHIDPHP 137
+ T R I P P
Sbjct: 1835 AVQGQQGAGTSQQQESGMSSHDYFKSPRARQYRVRQLILPSP 1876
>gnl|CDD|31990 COG1805, NqrB, Na+-transporting NADH:ubiquinone oxidoreductase,
subunit NqrB [Energy production and conversion].
Length = 400
Score = 25.7 bits (56), Expect = 5.4
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 130 PGHIDPHPDHIRNTLALHRKML 151
PG + H+R+ + R M+
Sbjct: 35 PGTVTSKAPHVRDAVDSKRMMI 56
>gnl|CDD|36303 KOG1087, KOG1087, KOG1087, Cytosolic sorting protein GGA2/TOM1
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 470
Score = 25.8 bits (56), Expect = 5.7
Identities = 12/72 (16%), Positives = 20/72 (27%), Gaps = 3/72 (4%)
Query: 48 FTKSSPYNNSVSNTVNNTPRVPDVSEMNSSRGSAPQSHVNVSSPHYKHEYSSSSASSSTH 107
+ S S + +S P + + SSP S+ S+
Sbjct: 385 NSPGSSPQESFPPLPQIQKSSTSPPQSDSLMIEQPLTPASKSSPRSSSSASTGSSPQYDV 444
Query: 108 AS---PPPHFEQ 116
A P +Q
Sbjct: 445 AKSQLSPNSIQQ 456
>gnl|CDD|39506 KOG4305, KOG4305, KOG4305, RhoGEF GTPase [Signal transduction
mechanisms].
Length = 1029
Score = 25.7 bits (56), Expect = 5.7
Identities = 15/91 (16%), Positives = 32/91 (35%)
Query: 38 ASSPRIHMRPFTKSSPYNNSVSNTVNNTPRVPDVSEMNSSRGSAPQSHVNVSSPHYKHEY 97
S + +S S+ ++ + S +S + +S ++ +
Sbjct: 46 QHSASGSPSSSSSTSGSTMSLKSSFYSKESSSSSSSPFNSPHKPSFIGSSSNSHNHHSAH 105
Query: 98 SSSSASSSTHASPPPHFEQKHISRTRIDSSP 128
S ++ S TH S P +S + S+P
Sbjct: 106 SRYTSVSLTHLSRSPSPSNSALSLSPSKSTP 136
>gnl|CDD|99996 cd04300, GT1_Glycogen_Phosphorylase, This is a family of
oligosaccharide phosphorylases. It includes yeast and
mammalian glycogen phosphorylases, plant starch/glucan
phosphorylase, as well as the maltodextrin
phosphorylases of bacteria. The members of this family
catalyze the breakdown of oligosaccharides into
glucose-1-phosphate units. They are important allosteric
enzymes in carbohydrate metabolism. The allosteric
control mechanisms of yeast and mammalian members of
this family are different from that of bacterial
members. The members of this family belong to the GT-B
structural superfamily of glycoslytransferases, which
have characteristic N- and C-terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two
domains includes the catalytic center and permits a high
degree of flexibility..
Length = 797
Score = 25.5 bits (57), Expect = 5.8
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 56 NSVSNTVNNTPRVPD 70
N+V++ VNN P V D
Sbjct: 593 NAVADVVNNDPDVGD 607
>gnl|CDD|32303 COG2120, COG2120, Uncharacterized proteins, LmbE homologs [Function
unknown].
Length = 237
Score = 25.4 bits (55), Expect = 6.0
Identities = 10/25 (40%), Positives = 11/25 (44%), Gaps = 2/25 (8%)
Query: 119 ISRTRIDS--SPPPGHIDPHPDHIR 141
I R R D +P P HPDH
Sbjct: 105 IRRLRPDVVFTPYPDDGYGHPDHRA 129
>gnl|CDD|38944 KOG3740, KOG3740, KOG3740, Uncharacterized conserved protein
[Function unknown].
Length = 706
Score = 25.1 bits (54), Expect = 7.7
Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 1/71 (1%)
Query: 43 IHMRPFTKSSPYNNSVSNTVNNTPRVPDVSEMNSSRGSAPQSHVNVSSPHYKHEYSSSSA 102
I R + + VS T +P + V + SS+G+ + + + +PH S
Sbjct: 524 IEQRLAQQVARLLAEVSPTSAASPALSQVIK-ASSQGTQSRGTLALQAPHQFQMQGLSGL 582
Query: 103 SSSTHASPPPH 113
P H
Sbjct: 583 WRGVPRQPTRH 593
>gnl|CDD|177157 MTH00094, ND4, NADH dehydrogenase subunit 4; Provisional.
Length = 403
Score = 24.9 bits (55), Expect = 8.9
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 9 TSSLMFFFLSSGYALSGS 26
TS+LMF+ + Y +S S
Sbjct: 277 TSTLMFYLIGEFYHISKS 294
>gnl|CDD|35786 KOG0566, KOG0566, KOG0566, Inositol-1,4,5-triphosphate 5-phosphatase
(synaptojanin), INP51/INP52/INP53 family [Intracellular
trafficking, secretion, and vesicular transport].
Length = 1080
Score = 24.9 bits (54), Expect = 10.0
Identities = 12/92 (13%), Positives = 22/92 (23%), Gaps = 6/92 (6%)
Query: 46 RPFTKSSPYNNSVSNTVNNTPRVPDVSEMNSSRGSAPQSHVNVSSPHYKHEYSSSSASSS 105
+ S + N+ S +++ S P +S P S +
Sbjct: 991 SARSPSPSAKSPSPTEAPNSSSTSMPSPASAATLSGPWY--VISKPLA----PPQSNNGL 1044
Query: 106 THASPPPHFEQKHISRTRIDSSPPPGHIDPHP 137
+P P P + P
Sbjct: 1045 NQQAPAPLPPPAPPPPPVGAPLGPGPPLPNVP 1076
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
0.311 0.124 0.365
Gapped
Lambda K H
0.267 0.0635 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,852,471
Number of extensions: 83999
Number of successful extensions: 304
Number of sequences better than 10.0: 1
Number of HSP's gapped: 292
Number of HSP's successfully gapped: 74
Length of query: 154
Length of database: 6,263,737
Length adjustment: 86
Effective length of query: 68
Effective length of database: 4,405,363
Effective search space: 299564684
Effective search space used: 299564684
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: 53 (24.4 bits)