RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780223|ref|YP_003064636.1| ABC transporter permease
[Candidatus Liberibacter asiaticus str. psy62]
(360 letters)
>gnl|CDD|30973 COG0628, PerM, Predicted permease [General function prediction
only].
Length = 355
Score = 103 bits (259), Expect = 6e-23
Identities = 66/346 (19%), Positives = 142/346 (41%), Gaps = 13/346 (3%)
Query: 14 WMIMFIILVSLYFLKGFFAPVLSALIIGFTSWPIYSSFISKKEESSTFLAVIATVSVMCL 73
+++ ++L LYF + P+L AL++ + P+ + LAV+ + ++ L
Sbjct: 20 LLLLLLLLAILYFFQPILLPLLLALVLAYLLNPLVRRLEKRG--IPRLLAVLLVLLLILL 77
Query: 74 FIVPLLFLFYYGMLEMKELVSKVVLANQHGIPVPRWLSDIPGGMWASELWTKHLSHPQSL 133
IV L L L+ ++ ++ + + + + + L + L
Sbjct: 78 LIVLLGLLVI------PSLIEQIQNLIKNLPGLDLLQARLAKLLESLPLLGERLPVSVDA 131
Query: 134 KILSETFLKTNGIDFIPRFASRFGMIFLDYCLSIIFMIIALFFFYRDGFSISQQLDSLGE 193
+ + + + + + S + + S++ +++ LFF DG + ++L L
Sbjct: 132 LLSALLSILQSILGSLLSLLSSLLSLIV----SLLLVLVLLFFLLLDGERLRRKLIKLLP 187
Query: 194 HLFPAYWKKISRIVPKVIRSTFLGMTIIAIGEGLVLGSAYWLAGVPSHVALGVITAIMAM 253
++I V + G ++A+ G++ G + GVP + LG++ ++++
Sbjct: 188 RKLRKRARRILSEVNATLSGYLRGQVLVALIVGILTGIGLLILGVPYALLLGLLAGLLSL 247
Query: 254 IP-GGAPISFTAVSIYLLIKGNIFNATCLFLWGAIELFIVDKTLRPFLVGGPIKLPFLPT 312
IP G I I L++G + A + + + I LRP L+G + L L
Sbjct: 248 IPYIGPVIGLIPAVIIALLQGGPWGALLVLIVFLVIQQIEGNILRPKLMGKRLGLHPLVI 307
Query: 313 FFGLVGGVRTMGLLGLFIGPVLMALIAVIWKESIMAIKENKEKISS 358
L+GG G +GL + P L A++ V+ + + +
Sbjct: 308 LLSLLGGGSLFGFVGLILAPPLAAVLKVLLRAWLEEELLAELLGDE 353
>gnl|CDD|110588 pfam01594, UPF0118, Domain of unknown function DUF20. This
transmembrane region is found in putative permeases and
predicted transmembrane proteins it has no known
function. It is not clear what source suggested that
these proteins may be permeases and this information
should be treated with caution.
Length = 327
Score = 85.7 bits (213), Expect = 2e-17
Identities = 72/329 (21%), Positives = 139/329 (42%), Gaps = 14/329 (4%)
Query: 15 MIMFIILVSLYFLKGFFAPVLSALIIGFTSWPIYSSFISKKEESSTFLAVIATVSVMCLF 74
+ + +IL ++F+ P+L AL++ + P+ + +A + V+ LF
Sbjct: 6 IFLLLILAFIWFINDLLVPLLIALVLAYLLNPVVRFLKRRG-----IPRSLAILLVLLLF 60
Query: 75 IVPLLFLFYYGMLEMKELVSKVV-LANQHGIPVPRWLSDIPGGMWASELWTKHLSHPQSL 133
+V L+ L + + +++++ Q+ + WL+++P + E
Sbjct: 61 LVALVLLGLLLIPLLIIQLTQLIKSLPQYIDSLLNWLNELPELLPELENV-------IQQ 113
Query: 134 KILSETFLKTNGIDFIPRFASRFGMIFLDYCLSIIFMIIALFFFYRDGFSISQQLDSLGE 193
S + + +N + I L +I +++ FFF DG + Q + S
Sbjct: 114 LNSSLSDILSNILSSILNSLLSLLASLPGLLLQLILVLVLTFFFLLDGERLRQGIISFLP 173
Query: 194 HLFPAYWKKISRIVPKVIRSTFLGMTIIAIGEGLVLGSAYWLAGVPSHVALGVITAIMAM 253
+ I R + + LG I+A+ G++ + GVP + L ++ + +
Sbjct: 174 KRYRERVDAILREINDTLGGYLLGQVIVALIIGVLTFIGLLILGVPYALLLALLVGLANL 233
Query: 254 IP-GGAPISFTAVSIYLLIKGNIFNATCLFLWGAIELFIVDKTLRPFLVGGPIKLPFLPT 312
IP G I ++IY L+ G I+ + + + I D LRP L+G + L L
Sbjct: 234 IPYIGPVIILIPIAIYALLTGGIWAGLIVLIGVLLIQQIEDNILRPKLMGKRLGLHPLVI 293
Query: 313 FFGLVGGVRTMGLLGLFIGPVLMALIAVI 341
L+GG GL+GL + P L A++ I
Sbjct: 294 LLSLIGGGSLFGLVGLILAPPLTAVLKAI 322
>gnl|CDD|34841 COG5244, NIP100, Dynactin complex subunit involved in mitotic
spindle partitioning in anaphase B [Cell division and
chromosome partitioning].
Length = 669
Score = 29.7 bits (66), Expect = 1.2
Identities = 10/39 (25%), Positives = 16/39 (41%)
Query: 106 VPRWLSDIPGGMWASELWTKHLSHPQSLKILSETFLKTN 144
+ +++ P MW SE + S Q FL+ N
Sbjct: 358 LQCFVNIAPISMWLSEFLQRKFSSKQETAFSICQFLEDN 396
>gnl|CDD|185759 cd09220, GH64-GluB-like, glycoside hydrolase family 64:
beta-1,3-glucanase B (GluB)-like. This subfamily is
represented by GluB, beta-1,3-glucanase B , from
Lysobacter enzymogenes Strain N4-7 and related bacterial
and ascomycete proteins. GluB is a member of the
glycoside hydrolase family 64 (GH64) involved in the
cleavage of long-chain polysaccharide beta-1,3-glucans,
into specific pentasaccharide oligomers. Among bacteria,
many beta-1,3-glucanases are implicated in fungal cell
wall degradation. GluB possesses the conserved Glu and
Asp residues required to cleave substrate
beta-1,3-glucans. Recombinant GluB demonstrated higher
relative activity toward the branched-chain beta-1,3
glucan substrate zymosan A than toward linear beta-1,3
glucan substrates. Based on the structure of
laminaripentaose-producing, beta-1,3-glucanase (LPHase)
of Streptomyces matensis, which belongs to the same
family as GluB but to a different subfamily, this cd is
a two-domain model. Sometimes these two domains are
found associated with other domains such as in the
Catenulispora acidiphila DSM 44928 carbohydrate binding
family 6 protein in which they are positioned N-terminal
of a carbohydrate binding module, family 6 (CBM_6)
domain.
Length = 369
Score = 28.0 bits (63), Expect = 3.9
Identities = 29/76 (38%), Positives = 33/76 (43%), Gaps = 16/76 (21%)
Query: 230 GSAYWLAGVPSHVALGVITAIMAMIPGGAPISFTAVSIYLLIKGNIFNATCLFLWGAIEL 289
GS Y+ PS V + A A IP GAP S T V+I +L G I W
Sbjct: 35 GSTYYPPSSPSAV-PSPLGADCA-IPLGAPGSTTTVTIPILAGGRI--------W----- 79
Query: 290 FIVDKTLRPFL-VGGP 304
F VD L L GGP
Sbjct: 80 FSVDDKLTFLLNPGGP 95
>gnl|CDD|34401 COG4791, EscT, Type III secretory pathway, component EscT
[Intracellular trafficking and secretion].
Length = 259
Score = 27.9 bits (62), Expect = 4.9
Identities = 10/63 (15%), Positives = 25/63 (39%), Gaps = 1/63 (1%)
Query: 19 IILVSLYFLKGFFAPVLSALIIGFTSWPIYSSFISKKEESSTFLAVIATVSVMCL-FIVP 77
+ ++F G +L L + SWP+ + + + + L + ++ L P
Sbjct: 129 QFAIVIFFASGGILTLLGVLYESYESWPLGAFYPFELSQLVFLLNEWDQILLLALVLAAP 188
Query: 78 LLF 80
++
Sbjct: 189 VII 191
>gnl|CDD|32267 COG2084, MmsB, 3-hydroxyisobutyrate dehydrogenase and related
beta-hydroxyacid dehydrogenases [Lipid metabolism].
Length = 286
Score = 27.5 bits (61), Expect = 5.3
Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 3/41 (7%)
Query: 209 KVIRSTFLGMTIIAIGEGLVLGSAYWLAGVPSHVALGVITA 249
K+ + L I A+ E L L AG+ V L VI+
Sbjct: 171 KLANNILLAGNIAALAEALALAEK---AGLDPDVVLEVISG 208
>gnl|CDD|37576 KOG2365, KOG2365, KOG2365, Uncharacterized membrane protein
[Function unknown].
Length = 808
Score = 27.3 bits (60), Expect = 6.8
Identities = 40/191 (20%), Positives = 72/191 (37%), Gaps = 10/191 (5%)
Query: 156 FGMIFLDYCLSIIFMIIALFFFY---RDGFSISQQLDSLGEHLFPAYWK-KISRIVPKVI 211
G L++ +I + L++ G + Q L A +I ++ I
Sbjct: 580 GGAELLNFISQLIIFLTVLYYLLSSSSGGVTPLQWAQVLNMLPINASSSNRIVEVLELAI 639
Query: 212 RSTFLGMTIIAIGEGLVLGSAYWLAGVPSHVALGVITAIMAMIPGGAP--ISFTAVSIYL 269
FL +A GL + L + V+ I A +P + A
Sbjct: 640 SGVFLASAKMAFFYGLYTWLLHRLFNINIVFMPSVLAFISAALPIFPYYFAAIPAALQLW 699
Query: 270 LIKGNIFNATCLFLWGAIELFIVDKTLRPFLVGGPIKLPFLPTFFGLVGGVRTMGLLGLF 329
L++G A L + + + D + + G P+L T ++GGV +GL+G
Sbjct: 700 LVEGRGIVAVILSVTHLVPMEFGDSEIYDDIPGSH---PYL-TGLAIIGGVYLLGLVGAI 755
Query: 330 IGPVLMALIAV 340
IGP+++ + V
Sbjct: 756 IGPIILCFVMV 766
>gnl|CDD|28760 cd03118, alpha_CA_V, Carbonic anhydrase alpha, CA isozyme V_like
subgroup. Carbonic anhydrases (CAs) are zinc-containing
enzymes that catalyze the reversible hydration of carbon
dioxide in a two-step mechanism: a nucleophilic attack
of a zinc-bound hydroxide ion on carbon dioxide,
followed by the regeneration of the active site by
ionization of the zinc-bound water molecule and removal
of a proton from the active site. They are ubiquitous
enzymes involved in fundamental processes like
photosynthesis, respiration, pH homeostasis and ion
transport. Most alpha CAs are monomeric enzymes. The
zinc ion is complexed by three histidines. This
vertebrate subgroup comprises isozyme V. CA V is the
mitochondrial isozyme, which may play a role in
gluconeogenesis and ureagenesis and possibly also in
lipogenesis..
Length = 236
Score = 27.3 bits (60), Expect = 6.9
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 278 ATCLFLWGAIELFIV---DKTLRPFLVGGPIKLPF 309
ATCL++W F V D T + + GGP++ +
Sbjct: 30 ATCLYIWNNGYSFQVEFDDSTDKSGISGGPLENHY 64
>gnl|CDD|38075 KOG2864, KOG2864, KOG2864, Nuclear division RFT1 protein [Cell
cycle control, cell division, chromosome partitioning].
Length = 530
Score = 27.2 bits (60), Expect = 7.9
Identities = 10/47 (21%), Positives = 24/47 (51%)
Query: 208 PKVIRSTFLGMTIIAIGEGLVLGSAYWLAGVPSHVALGVITAIMAMI 254
+ ++II G L+ + +WL+ + +H+A+GV+ + +
Sbjct: 457 RSLFLPFGPTLSIIFAGSSLLCCTTWWLSYLAAHIAIGVVCLLATLG 503
>gnl|CDD|35096 COG5537, IRR1, Cohesin [Cell division and chromosome partitioning].
Length = 740
Score = 26.9 bits (59), Expect = 8.8
Identities = 10/36 (27%), Positives = 13/36 (36%)
Query: 129 HPQSLKILSETFLKTNGIDFIPRFASRFGMIFLDYC 164
KIL + D I RF RF L++
Sbjct: 331 RLLVSKILLFLCSRIPHTDAIRRFVERFKDRILEFL 366
>gnl|CDD|176230 cd08269, Zn_ADH9, Alcohol dehydrogenases of the MDR family. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability.
Length = 312
Score = 26.9 bits (60), Expect = 9.7
Identities = 15/72 (20%), Positives = 24/72 (33%), Gaps = 6/72 (8%)
Query: 209 KVIRSTFLGMTIIAIGEGLVLGSAYWLAGVPSHVALGVITAIMAMIPGGAP------ISF 262
+V G + A +G G P H G + A+ + G A +S
Sbjct: 25 RVEGCGVCGSDLPAFNQGRPWFVYPAEPGGPGHEGWGRVVALGPGVRGLAVGDRVAGLSG 84
Query: 263 TAVSIYLLIKGN 274
A + Y L +
Sbjct: 85 GAFAEYDLADAD 96
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
0.331 0.145 0.454
Gapped
Lambda K H
0.267 0.0690 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,717,564
Number of extensions: 279494
Number of successful extensions: 1692
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1654
Number of HSP's successfully gapped: 225
Length of query: 360
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 265
Effective length of database: 4,210,882
Effective search space: 1115883730
Effective search space used: 1115883730
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 58 (26.2 bits)