RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7799
(83 letters)
>gnl|CDD|191096 pfam04799, Fzo_mitofusin, fzo-like conserved region. Family of
putative transmembrane GTPase. The fzo protein is a
mediator of mitochondrial fusion. This conserved region
is also found in the human mitofusin protein.
Length = 171
Score = 111 bits (280), Expect = 3e-33
Identities = 41/79 (51%), Positives = 59/79 (74%)
Query: 1 MIVDLTSSNCSHQVEQELSSTFARLCQLVDRATDDMHEDIKQLDSHLKQVEEASNNAKVL 60
+IV LTSSNCSHQV+QEL+STFARLCQ VD + D+ E+I +L ++++E + +K+L
Sbjct: 90 LIVSLTSSNCSHQVQQELASTFARLCQQVDVTSKDLEEEIAELTKEIQRLETIQSRSKLL 149
Query: 61 RNKAHYLIKELDMFQEAYL 79
RNKA+ L EL+ F + +L
Sbjct: 150 RNKANLLENELEDFTKTFL 168
>gnl|CDD|227512 COG5185, HEC1, Protein involved in chromosome segregation,
interacts with SMC proteins [Cell division and
chromosome partitioning].
Length = 622
Score = 30.0 bits (67), Expect = 0.093
Identities = 12/63 (19%), Positives = 26/63 (41%)
Query: 15 EQELSSTFARLCQLVDRATDDMHEDIKQLDSHLKQVEEASNNAKVLRNKAHYLIKELDMF 74
EQEL F + +++ ++ L +++ + S K LR K L + + +
Sbjct: 255 EQELKLGFEKFVHIINTDIANLKTQNDNLYEKIQEAMKISQKIKTLREKWRALKSDSNKY 314
Query: 75 QEA 77
+
Sbjct: 315 ENY 317
>gnl|CDD|182259 PRK10132, PRK10132, hypothetical protein; Provisional.
Length = 108
Score = 29.4 bits (66), Expect = 0.095
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 29 VDRATDDMHEDIKQLDSHLKQV-----EEASNNAKVLRNKAHYLIKE 70
VD D+ D+ QL L+ V +A A+ R KA L+KE
Sbjct: 10 VDDGVQDIQNDVNQLADSLESVLKSWGSDAKGEAEAARRKAQALLKE 56
>gnl|CDD|232967 TIGR00418, thrS, threonyl-tRNA synthetase. This model represents
the threonyl-tRNA synthetase found in most organisms.
This protein is a class II tRNA synthetase, and is
recognized by the pfam model tRNA-synt_2b. Note that B.
subtilis has closely related isozymes thrS and thrZ. The
N-terminal regions are quite dissimilar between archaeal
and eubacterial forms, while some eukaryotic forms are
missing sequence there altogether. [Protein synthesis,
tRNA aminoacylation].
Length = 563
Score = 27.7 bits (62), Expect = 0.57
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 38 EDIKQLDSHLKQVEEASNNAKVLRNKAHYLIKELDMF 74
D KQL ++L ++EEA L KEL++F
Sbjct: 152 ADKKQLAAYLLRLEEAKKRDHR------KLGKELELF 182
>gnl|CDD|234752 PRK00413, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 638
Score = 27.7 bits (63), Expect = 0.62
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 10/39 (25%)
Query: 41 KQLDSHLKQVEEASNNAKVLRNKAHYLI-KELD--MFQE 76
K+LD++L ++EEA K R+ H + KELD FQE
Sbjct: 226 KELDAYLHRLEEA---KK--RD--HRKLGKELDLFHFQE 257
>gnl|CDD|234252 TIGR03545, TIGR03545, TIGR03545 family protein. This model
represents a relatively rare but broadly distributed
uncharacterized protein family, distributed in 1-2
percent of bacterial genomes, all of which have outer
membranes. In many of these genomes, it is part of a
two-gene pair.
Length = 555
Score = 27.4 bits (61), Expect = 0.81
Identities = 11/41 (26%), Positives = 20/41 (48%)
Query: 16 QELSSTFARLCQLVDRATDDMHEDIKQLDSHLKQVEEASNN 56
+L Q + A +D+ D KQL + L ++++A N
Sbjct: 222 DKLKKEGKADKQKIKSAKNDLQNDKKQLKADLAELKKAPQN 262
>gnl|CDD|213355 cd12821, EcCorA_ZntB-like, Escherichia coli CorA-Salmonella
typhimurium ZntB_like family. A family of the MIT
superfamily of essential membrane proteins involved in
transporting divalent cations (uptake or efflux) across
membranes. Members of this family are found in all three
kingdoms of life. It is a functionally diverse family,
including the Mg2+ transporters Escherichia coli and
Salmonella typhimurium CorAs (which can also transport
Co2+, and Ni2+ ), and the Zn2+ transporter Salmonella
typhimurium ZntB which mediates the efflux of Zn2+ (and
Cd2+). It also includes two Saccharomyces cerevisiae
members: the inner membrane Mg2+ transporters
Mfm1p/Lpe10p, and Mrs2p, and a family of Arabidopsis
thaliana members (AtMGTs) some of which are localized to
distinct tissues, and not all of which can transport
Mg2+. Structures of the intracellular domain of Vibrio
parahaemolyticus and Salmonella typhimurium ZntB form
funnel-shaped homopentamers, the tip of the funnel is
formed from two C-terminal transmembrane (TM) helices
from each monomer, and the large opening of the funnel
from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport through Salmonella typhimurium CorA, and
Mrs2p. Natural variants such as GVN and GIN, such as
occur in some ZntB family proteins, may be associated
with the transport of different divalent cations, such
as zinc and cadmium. The functional diversity of MIT
transporters may also be due to minor structural
differences regulating gating, substrate selection, and
transport.
Length = 285
Score = 26.9 bits (60), Expect = 0.99
Identities = 10/49 (20%), Positives = 20/49 (40%), Gaps = 2/49 (4%)
Query: 25 LCQLVDRATDDMHEDIKQLDSHLKQVEEA--SNNAKVLRNKAHYLIKEL 71
L L+ + I Q + L+++E N + ++ L +EL
Sbjct: 105 LFVLLGAIIKALLTGIDQFEEKLEELEWDLLEGNNAIKLDRILELRREL 153
>gnl|CDD|237050 PRK12305, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 575
Score = 27.1 bits (61), Expect = 1.1
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 6/37 (16%)
Query: 38 EDIKQLDSHLKQVEEASNNAKVLRNKAHYLIKELDMF 74
E ++L +LK++EEA + L KELD+F
Sbjct: 158 ETKEELKEYLKRLEEA------KKRDHRKLGKELDLF 188
>gnl|CDD|215969 pfam00521, DNA_topoisoIV, DNA gyrase/topoisomerase IV, subunit A.
Length = 427
Score = 26.7 bits (60), Expect = 1.3
Identities = 14/58 (24%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 28 LVDRATDDMH--EDIKQLDSHLKQVEEASNNAKVLRNKAHYLIKELDMFQEAYLVNMS 83
L+++ + +H E + + + + V E + L+ LI+EL Q YL++M
Sbjct: 328 LLEKLEERLHILEGLLKALNKIDFVIEVIRGSIDLKKAKKELIEELSEIQADYLLDMR 385
>gnl|CDD|237431 PRK13570, PRK13570, anthranilate synthase component I; Provisional.
Length = 455
Score = 25.7 bits (57), Expect = 2.8
Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 9/69 (13%)
Query: 11 SHQVEQELSSTFARLCQLVDRATDDMHEDIKQLDSHLKQVEEASNNAK----VLRNKAHY 66
S + E+EL + + + + + HE I L ++ SN K + KA
Sbjct: 152 SDRSEEELEKALNVVLEELKQPAEAEHELI-----ELSKLSFKSNITKEEFCGMVEKAKE 206
Query: 67 LIKELDMFQ 75
I+ D+FQ
Sbjct: 207 YIRAGDIFQ 215
>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 = 25.8 bits (57), Expect = 2.8
Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 15 EQELSSTFARLCQLVDRATDDMHEDIKQLDSHLKQVEEASNNAKVLRNKAHYLIKEL 71
E+EL A L L R D + ++ +L++ L+++E + K + EL
Sbjct: 867 EEELEELEAALRDLESRLGD-LKKERDELEAQLRELERKIEELEAQIEKKRKRLSEL 922
>gnl|CDD|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria
with the myosin-like domain [Function unknown].
Length = 499
Score = 25.8 bits (56), Expect = 3.2
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 34 DDMHEDIKQLDSHLKQVEEASNNAKVLRNKA 64
DD+ ++ L + L + A+ R A
Sbjct: 77 DDIRPQLRALRTELGTAQGEKRAAETEREAA 107
>gnl|CDD|113452 pfam04684, BAF1_ABF1, BAF1 / ABF1 chromatin reorganising factor.
ABF1 is a sequence-specific DNA binding protein involved
in transcription activation, gene silencing and
initiation of DNA replication. ABF1 is known to remodel
chromatin, and it is proposed that it mediates its
effects on transcription and gene expression by
modifying local chromatin architecture. These functions
require a conserved stretch of 20 amino acids in the
C-terminal region of ABF1 (amino acids 639 to 662 S.
cerevisiae). The N-terminal two thirds of the protein
are necessary for DNA binding, and the N-terminus (amino
acids 9 to 91 in S. cerevisiae) is thought to contain a
novel zinc-finger motif which may stabilise the protein
structure.
Length = 508
Score = 25.5 bits (55), Expect = 3.6
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 34 DDMHEDIKQLDSHLKQVEEASN 55
DDM E ++ L SHLK+VE N
Sbjct: 464 DDMAEQLRLLSSHLKEVEAEEN 485
>gnl|CDD|221014 pfam11173, DUF2960, Protein of unknown function (DUF2960). This
family of proteins with unknown function appears to be
restricted to Gammaproteobacteria.
Length = 79
Score = 24.2 bits (53), Expect = 5.4
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 8/36 (22%)
Query: 35 DMHE--------DIKQLDSHLKQVEEASNNAKVLRN 62
D++E D+ + +QVE S K +RN
Sbjct: 25 DIYEAVAAAEGIDLTSFLAMEQQVEMTSKGKKAVRN 60
>gnl|CDD|225455 COG2902, COG2902, NAD-specific glutamate dehydrogenase [Amino acid
transport and metabolism].
Length = 1592
Score = 25.0 bits (55), Expect = 5.6
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 1/44 (2%)
Query: 31 RATDDMHEDI-KQLDSHLKQVEEASNNAKVLRNKAHYLIKELDM 73
+ + + L QV A N+ + K LI ELD
Sbjct: 156 LGDAKSLRTLEEAIREVLSQVRRAVNDWPAMLAKLEELIDELDA 199
>gnl|CDD|147526 pfam05388, Carbpep_Y_N, Carboxypeptidase Y pro-peptide. This
family is found at the N terminus of several
carboxypeptidase Y proteins and contains a signal
peptide and pro-peptide regions.
Length = 105
Score = 24.0 bits (52), Expect = 8.7
Identities = 5/23 (21%), Positives = 16/23 (69%)
Query: 28 LVDRATDDMHEDIKQLDSHLKQV 50
L+++A + + E + ++ ++KQ+
Sbjct: 36 LLEKAAEAVGEPLDEIPKNIKQI 58
>gnl|CDD|213367 cd12833, ZntB-like_1, Salmonella typhimurium Zn2+ transporter
ZntB-like subgroup. A bacterial subgroup belonging to
the Escherichia coli CorA-Salmonella typhimurium
ZntB_like family (EcCorA_ZntB-like) of the MIT
superfamily of essential membrane proteins involved in
transporting divalent cations (uptake or efflux) across
membranes. This subgroup includes the Zn2+ transporter
Salmonella typhimurium ZntB which mediates the efflux of
Zn2+ (and Cd2+). Structures of the intracellular domain
of Vibrio parahaemolyticus and Salmonella typhimurium
ZntB form funnel-shaped homopentamers, the tip of the
funnel is formed from two C-terminal transmembrane (TM)
helices from each monomer, and the large opening of the
funnel from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport through Salmonella typhimurium CorA, and
Mrs2p. Natural variants such as GVN and GIN, which occur
in proteins belonging to this subfamily, may be
associated with the transport of different divalent
cations, such as zinc and cadmium. The functional
diversity of MIT transporters may also be due to minor
structural differences regulating gating, substrate
selection, and transport.
Length = 290
Score = 24.4 bits (54), Expect = 9.1
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 25 LCQLVDRATDDMHEDIKQLDSHLKQVEEA--SNNAKVLRNK 63
L L +R TD M + I +L+ L ++EE + LR +
Sbjct: 109 LAALAERLTDRMEDVIDELEDRLDELEERVLEEEDEELRGE 149
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
0.316 0.126 0.342
Gapped
Lambda K H
0.267 0.0753 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,887,493
Number of extensions: 295332
Number of successful extensions: 470
Number of sequences better than 10.0: 1
Number of HSP's gapped: 470
Number of HSP's successfully gapped: 49
Length of query: 83
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 31
Effective length of database: 8,631,194
Effective search space: 267567014
Effective search space used: 267567014
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 (24.1 bits)