RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6472
(72 letters)
>gnl|CDD|114855 pfam06160, EzrA, Septation ring formation regulator, EzrA. During
the bacterial cell cycle, the tubulin-like cell-division
protein FtsZ polymerises into a ring structure that
establishes the location of the nascent division site.
EzrA modulates the frequency and position of FtsZ ring
formation.
Length = 559
Score = 31.4 bits (72), Expect = 0.023
Identities = 15/57 (26%), Positives = 26/57 (45%)
Query: 4 VDGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLRE 60
V L ++E + E D+ L AK + +E L EE+I + ++ L+E
Sbjct: 73 VTNSLPDIEELLFEAEELNDKFRFLKAKKAIKEIEELLDTIEEDIEQILEELNELKE 129
>gnl|CDD|130870 TIGR01811, sdhA_Bsu, succinate dehydrogenase or fumarate reductase,
flavoprotein subunit, Bacillus subtilis subgroup. This
model represents the succinate dehydrogenase
flavoprotein subunit as found in the low-GC
Gram-positive bacteria and a few other lineages. This
enzyme may act in a complete or partial TCA cycle, or
act in the opposite direction as fumarate reductase. In
some but not all species, succinate dehydrogenase and
fumarate reductase may be encoded as separate isozymes
[Energy metabolism, TCA cycle].
Length = 603
Score = 30.6 bits (69), Expect = 0.039
Identities = 10/39 (25%), Positives = 16/39 (41%)
Query: 3 RVDGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDL 41
+ E ++ + EE R DRL + N L +L
Sbjct: 434 DMPEDAPEFQAALAEEQERFDRLLKMRGDENPYYLHREL 472
>gnl|CDD|185339 PRK15442, PRK15442, beta-lactamase TEM; Provisional.
Length = 284
Score = 29.1 bits (65), Expect = 0.15
Identities = 12/35 (34%), Positives = 16/35 (45%)
Query: 1 MKRVDGRLEELESRINEEARRLDRLHPLDAKHNVD 35
+ RVD E+L RI+ L P+ KH D
Sbjct: 77 LSRVDAGQEQLGRRIHYSQNDLVEYSPVTEKHLTD 111
>gnl|CDD|179877 PRK04778, PRK04778, septation ring formation regulator EzrA;
Provisional.
Length = 569
Score = 29.0 bits (66), Expect = 0.15
Identities = 16/57 (28%), Positives = 28/57 (49%)
Query: 4 VDGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLRE 60
V L ++E ++ E D+ AKH ++ +E L EE+I + ++Q L E
Sbjct: 77 VTNSLPDIEEQLFEAEELNDKFRFRKAKHEINEIESLLDLIEEDIEQILEELQELLE 133
>gnl|CDD|204553 pfam10779, XhlA, Haemolysin XhlA. XhlA is a cell-surface
associated haemolysin that lyses the two most prevalent
types of insect immune cells (granulocytes and
plasmatocytes) as well as rabbit and horse
erythrocytes. This family has had DUF1267, pfam06895,
merged into it.
Length = 71
Score = 27.6 bits (62), Expect = 0.17
Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 1 MKRVDGRLEELESRINEEARRLDRLHPLDAKHNVDV--LEHDLRQAEENI 48
++ ++ RL +E+++ E + L DA + D+ L L + E+N
Sbjct: 1 IQDIEERLNRIETKLKEIEEDIRNLEKRDAANEKDIKNLNKRLEKIEDNT 50
>gnl|CDD|215960 pfam00509, Hemagglutinin, Haemagglutinin. Hemagglutinin from
influenza virus causes membrane fusion of the viral
membrane with the host membrane. Fusion occurs after the
host cell internalises the virus by endocytosis. The
drop of pH causes release of a hydrophobic fusion
peptide and a large conformational change leading to
membrane fusion.
Length = 550
Score = 28.5 bits (64), Expect = 0.22
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 16/70 (22%)
Query: 2 KRVDGRLEELESRINEEARRLDRLHPLDAK-----HNVDVL-----EHDLRQAEENINTL 51
+ ++ ELE RIN +++D D +N ++L +H L + N+N L
Sbjct: 392 EAIEKEFSELERRINNLNKKVD-----DGITDIWSYNAELLVLLENQHTLDLHDSNVNNL 446
Query: 52 FSDVQT-LRE 60
+ V+ LRE
Sbjct: 447 YEKVRRQLRE 456
>gnl|CDD|223571 COG0497, RecN, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 557
Score = 27.9 bits (63), Expect = 0.30
Identities = 18/82 (21%), Positives = 31/82 (37%), Gaps = 12/82 (14%)
Query: 1 MKRVDGRLEELESRINEEARRLDRLHPLDAKHNVDVLE------------HDLRQAEENI 48
++ LE +R+ E RL L L K+ V + + L +EE++
Sbjct: 285 LRAYLDELEFDPNRLEEVEERLFALKSLARKYGVTIEDLLEYLDKIKEELAQLDNSEESL 344
Query: 49 NTLFSDVQTLREGRYPQASDLH 70
L +V+ L+ A L
Sbjct: 345 EALEKEVKKLKAELLEAAEALS 366
>gnl|CDD|201337 pfam00607, Gag_p24, gag gene protein p24 (core nucleocapsid
protein). p24 forms inner protein layer of the
nucleocapsid. ELISA tests for p24 is the most commonly
used method to demonstrate virus replication both in
vivo and in vitro.
Length = 208
Score = 26.9 bits (60), Expect = 0.68
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 11 LESRINEEARRLDRLHPLDAKHN 33
L+S INEEA DR+HP
Sbjct: 54 LKSEINEEAAEWDRVHPPPGPRP 76
>gnl|CDD|183089 PRK11337, PRK11337, DNA-binding transcriptional repressor RpiR;
Provisional.
Length = 292
Score = 26.6 bits (59), Expect = 1.1
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 19 ARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLREG 61
A R+ +L+ LDA V V + ++ QAE N+ + V R G
Sbjct: 251 AARIAQLNILDAFF-VSVAQLNIEQAEINLQKTGAAVDFFRPG 292
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 26.4 bits (59), Expect = 1.1
Identities = 15/64 (23%), Positives = 29/64 (45%), Gaps = 10/64 (15%)
Query: 2 KRVDGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAE--ENINTLFSDVQTLR 59
K V+ LE++E I E + + L+ + + LE ++ + E N + D+ L
Sbjct: 89 KDVEEELEKIEKEIKE---LEEEISELENE--IKELEQEIERLEPWGNFD---LDLSLLL 140
Query: 60 EGRY 63
+Y
Sbjct: 141 GFKY 144
Score = 24.5 bits (54), Expect = 6.3
Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 2 KRVDGRLEELES---RINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSD 54
+ + LEE+E + EE + L + + + + LE +L +AE L +D
Sbjct: 218 REIKEELEEIEKERESLLEELKELAKKYLEELLALYEYLEIELERAEALSKFLKTD 273
>gnl|CDD|235580 PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase
subunit alpha; Validated.
Length = 319
Score = 26.3 bits (59), Expect = 1.3
Identities = 16/58 (27%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 8 LEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLREGRYPQ 65
+ ELE++I EE R + +D ++ LE L + + I + + Q ++ R+PQ
Sbjct: 12 IAELEAKI-EELRAVAEDSDVDLSEEIERLEKKLEELTKKIYSNLTPWQKVQLARHPQ 68
>gnl|CDD|222222 pfam13561, adh_short_C2, Enoyl-(Acyl carrier protein) reductase.
Length = 239
Score = 26.0 bits (58), Expect = 1.5
Identities = 11/40 (27%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 19 ARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTL 58
A R+ + L + DV+ D+ ++E+I+ LF V+
Sbjct: 31 ALRMGAVDELAKELPADVIPLDV-TSDEDIDELFEKVKED 69
>gnl|CDD|184487 PRK14071, PRK14071, 6-phosphofructokinase; Provisional.
Length = 360
Score = 25.4 bits (56), Expect = 2.6
Identities = 11/18 (61%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 22 LDRLHPLDAKHN-VDVLE 38
LDRLH A HN V +LE
Sbjct: 165 LDRLHFTAASHNRVMILE 182
>gnl|CDD|240630 cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic
domains. Alanine dehydrogenase (L-AlaDH) catalyzes the
NAD-dependent conversion of pyruvate to L-alanine via
reductive amination. Like formate dehydrogenase and
related enzymes, L-AlaDH is comprised of 2 domains
connected by a long alpha helical stretch, each
resembling a Rossmann fold NAD-binding domain. The
NAD-binding domain is inserted within the linear
sequence of the more divergent catalytic domain. Ligand
binding and active site residues are found in the cleft
between the subdomains. L-AlaDH is typically hexameric
and is critical in carbon and nitrogen metabolism in
micro-organisms.
Length = 359
Score = 24.7 bits (55), Expect = 4.3
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 7/35 (20%)
Query: 33 NVDVLEHD---LRQAEE----NINTLFSDVQTLRE 60
V VL+ + LR ++ + TL+S+ L E
Sbjct: 193 EVTVLDINLERLRYLDDIFGGRVTTLYSNPANLEE 227
>gnl|CDD|217372 pfam03105, SPX, SPX domain. We have named this region the SPX
domain after (SYG1, Pho81 and XPR1). This 180 residue
length domain is found at the amino terminus of a
variety of proteins. In the yeast protein SYG1, the
N-terminus directly binds to the G- protein beta subunit
and inhibits transduction of the mating pheromone
signal. This finding suggests that all the members of
this family are involved in G-protein associated signal
transduction. The N-termini of several proteins involved
in the regulation of phosphate transport, including the
putative phosphate level sensors PHO81 from
Saccharomyces cerevisiae and NUC-2 from Neurospora
crassa, are also members of this family. The SPX domain
of S. cerevisiae low-affinity phosphate transporters
Pho87 and Pho90 auto-regulates uptake and prevents
efflux. This SPX dependent inhibition is mediated by the
physical interaction with Spl2 NUC-2 contains several
ankyrin repeats pfam00023. Several members of this
family are annotated as XPR1 proteins: the xenotropic
and polytropic retrovirus receptor confers
susceptibility to infection with murine leukaemia
viruses (MLV). The similarity between SYG1, phosphate
regulators and XPR1 sequences has been previously noted,
as has the additional similarity to several predicted
proteins, of unknown function, from Drosophila
melanogaster, Arabidopsis thaliana, Caenorhabditis
elegans, Schizosaccharomyces pombe, and Saccharomyces
cerevisiae. In addition, given the similarities between
XPR1 and SYG1 and phosphate regulatory proteins, it has
been proposed that XPR1 might be involved in G-protein
associated signal transduction and may itself function
as a phosphate sensor.
Length = 176
Score = 24.3 bits (53), Expect = 5.3
Identities = 13/53 (24%), Positives = 25/53 (47%)
Query: 7 RLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLR 59
RLEELE ++ E R D + + L + ++ + L+ ++Q L+
Sbjct: 90 RLEELEKQLEELEERRDETSSAKSSPSDKNLLKAFEELKKALLELYRELQLLK 142
>gnl|CDD|218602 pfam05478, Prominin, Prominin. The prominins are an emerging
family of proteins that among the multispan membrane
proteins display a novel topology. Mouse prominin and
human prominin (mouse)-like 1 (PROML1) are predicted to
contain five membrane spanning domains, with an
N-terminal domain exposed to the extracellular space
followed by four, alternating small cytoplasmic and
large extracellular, loops and a cytoplasmic C-terminal
domain. The exact function of prominin is unknown
although in humans defects in PROM1, the gene coding for
prominin, cause retinal degeneration.
Length = 807
Score = 24.2 bits (53), Expect = 6.4
Identities = 8/43 (18%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 21 RLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTL-REGR 62
+L+ + L+ ++ ++ Q E++ S + L E R
Sbjct: 551 QLNNSYDLNELLDIKQYTPEIDQELESLKVNLSTITLLTPEAR 593
>gnl|CDD|220716 pfam10359, Fmp27_WPPW, RNA pol II promoter Fmp27 protein domain.
Fmp27_WPPW is a conserved domain of a family of proteins
involved in RNA polymerase II transcription initiation.
It contains characteristic HQR and WPPW sequence motifs.
and is towards the C-terminal in members which contain
Fmp27_SW pfam10305.
Length = 470
Score = 24.2 bits (53), Expect = 6.6
Identities = 16/68 (23%), Positives = 27/68 (39%), Gaps = 6/68 (8%)
Query: 7 RLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAE------ENINTLFSDVQTLRE 60
RL++LE +I + +LD L D + LE + E + L D++ E
Sbjct: 169 RLKQLEEQIKKLEEKLDDLELNDTEELQSDLEELEEELSVLKERLEFLEKLLEDLERSEE 228
Query: 61 GRYPQASD 68
+S
Sbjct: 229 SSDRSSST 236
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 24.3 bits (53), Expect = 7.5
Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 7 RLEELESRINEEARRLDRLHPLDAKHNVDVLEH--DLRQAEENINTLFSDVQTLRE 60
+LE+L+ INE R LDRL + + ++ + + E IN L + +
Sbjct: 393 KLEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKAL 448
>gnl|CDD|227235 COG4898, COG4898, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 115
Score = 24.1 bits (52), Expect = 7.5
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 7 RLEELESRINEEARRLDRL 25
R+EE++ + +E R LD+L
Sbjct: 81 RVEEIDDPLMQEIRYLDKL 99
>gnl|CDD|178769 PLN03230, PLN03230, acetyl-coenzyme A carboxylase carboxyl
transferase; Provisional.
Length = 431
Score = 24.1 bits (52), Expect = 8.2
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 1/55 (1%)
Query: 10 ELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLREGRYP 64
+LE+RI +E R L +D + LE Q + + + VQ L R+P
Sbjct: 84 DLENRI-DEVRELANKTGVDFSAQIAELEERYDQVRRELYSRLTPVQRLSVARHP 137
>gnl|CDD|109900 pfam00862, Sucrose_synth, Sucrose synthase. Sucrose synthases
catalyze the synthesis of sucrose from UDP-glucose and
fructose. This family includes the bulk of the sucrose
synthase protein. However the carboxyl terminal region
of the sucrose synthases belongs to the glycosyl
transferase family pfam00534.
Length = 550
Score = 24.1 bits (52), Expect = 8.9
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 29 DAKHNVDVLEHDLRQAEENINTLFSD 54
D N+ L+ LR+AE+ ++TL D
Sbjct: 192 DRIQNISALQSALRKAEDYLSTLPPD 217
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.136 0.378
Gapped
Lambda K H
0.267 0.0634 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,862,571
Number of extensions: 311556
Number of successful extensions: 672
Number of sequences better than 10.0: 1
Number of HSP's gapped: 666
Number of HSP's successfully gapped: 89
Length of query: 72
Length of database: 10,937,602
Length adjustment: 42
Effective length of query: 30
Effective length of database: 9,074,734
Effective search space: 272242020
Effective search space used: 272242020
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.4 bits)