RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7515
(106 letters)
>gnl|CDD|238219 cd00371, HMA, Heavy-metal-associated domain (HMA) is a conserved
domain of approximately 30 amino acid residues found in
a number of proteins that transport or detoxify heavy
metals, for example, the CPx-type heavy metal ATPases
and copper chaperones. HMA domain contains two cysteine
residues that are important in binding and transfer of
metal ions, such as copper, cadmium, cobalt and zinc. In
the case of copper, stoichiometry of binding is one Cu+
ion per binding domain. Repeats of the HMA domain in
copper chaperone has been associated with Menkes/Wilson
disease due to binding of multiple copper ions.
Length = 63
Score = 52.6 bits (127), Expect = 8e-11
Identities = 23/59 (38%), Positives = 32/59 (54%), Gaps = 4/59 (6%)
Query: 44 MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSGKTCS 100
MTC GC S I + L+++ GVESVE L V+ + P+ LLEAI+ +G
Sbjct: 7 MTCAGCVSKIEKALEKL--PGVESVEVDLETGKATVEYDPEVSPEELLEAIEDAGYKAR 63
>gnl|CDD|215516 PLN02957, PLN02957, copper, zinc superoxide dismutase.
Length = 238
Score = 50.5 bits (121), Expect = 8e-09
Identities = 20/66 (30%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 40 FKAEMTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSGKTC 99
F +M C+GC +A+ L+ ++ GV++VE L +Q V+V + + A++++G+
Sbjct: 10 FMVDMKCEGCVAAVKNKLETLE--GVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKA 67
Query: 100 SYIGEG 105
IG+G
Sbjct: 68 RLIGQG 73
>gnl|CDD|215902 pfam00403, HMA, Heavy-metal-associated domain.
Length = 62
Score = 46.1 bits (110), Expect = 3e-08
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 39 VFKAEMTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDP---DVLLEAIKKS 95
+ MTC GC+ + + L ++ GV SV L V V DP + L +AI+K+
Sbjct: 2 LRVPGMTCAGCAKKVEKALSKL--PGVSSVSVDLETGKVTVTGDPDPLKLEKLKKAIEKA 59
Query: 96 GKT 98
G
Sbjct: 60 GYE 62
>gnl|CDD|225328 COG2608, CopZ, Copper chaperone [Inorganic ion transport and
metabolism].
Length = 71
Score = 45.1 bits (107), Expect = 1e-07
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 5/66 (7%)
Query: 34 MAKVHVFKAEMTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK---STLDPDVLLE 90
M K + MTC C + + L+ + GV SV+ L T V + +D + ++E
Sbjct: 1 MMKTTLKVEGMTCGHCVKTVEKALEEV--DGVASVDVDLEKGTATVTFDSNKVDIEAIIE 58
Query: 91 AIKKSG 96
AI+ +G
Sbjct: 59 AIEDAG 64
>gnl|CDD|184298 PRK13748, PRK13748, putative mercuric reductase; Provisional.
Length = 561
Score = 34.7 bits (80), Expect = 0.004
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 4/55 (7%)
Query: 44 MTCDGCSSAITRILDRMKDKGVESVECSLPDQT--VKVKSTLDPDVLLEAIKKSG 96
MTCD C++ + L+++ GV+S + S P + + ++ PD L A+ G
Sbjct: 9 MTCDSCAAHVKDALEKV--PGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLG 61
>gnl|CDD|182635 PRK10671, copA, copper exporting ATPase; Provisional.
Length = 834
Score = 31.2 bits (71), Expect = 0.066
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 44 MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSG 96
M+C C S + L + GV +L ++T V + P L++A++K+G
Sbjct: 108 MSCASCVSRVQNALQSVP--GVTQARVNLAERTALVMGSASPQDLVQAVEKAG 158
>gnl|CDD|107272 cd06277, PBP1_LacI_like_1, Ligand-binding domain of uncharacterized
DNA-binding regulatory proteins that are members of the
LacI-GalR family of bacterial transcription repressors.
This group includes the ligand-binding domain of
uncharacterized DNA-binding regulatory proteins that are
members of the LacI-GalR family of bacterial
transcription repressors. The LacI-GalR family
repressors are composed of two functional domains: an
N-terminal HTH (helix-turn-helix) domain, which is
responsible for the DNA-binding specificity, and a
C-terminal ligand-binding domain, which is homologous to
the sugar-binding domain of ABC-type transport systems
that contain the type I periplasmic binding protein-like
fold. As also observed in the periplasmic binding
proteins, the C-terminal domain of the bacterial
transcription repressor undergoes a conformational
change upon ligand binding which in turn changes the DNA
binding affinity of the repressor.
Length = 268
Score = 29.2 bits (66), Expect = 0.28
Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 32 PTMAKVHVFKAEMTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKS 81
P + V V K EM A+ R+L++++ L + +K +S
Sbjct: 223 PPLTTVRVDKEEMGK----LAVKRLLEKLEGPNESPERILLFTKLIKRES 268
>gnl|CDD|235274 PRK04302, PRK04302, triosephosphate isomerase; Provisional.
Length = 223
Score = 27.1 bits (61), Expect = 1.5
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 53 ITRILDRMKDKGVESVECSLPDQTVKVKSTLDPD-VLLE 90
I +++R K G+ESV C +T + L PD V +E
Sbjct: 103 IEAVVERAKKLGLESVVCVNNPETSAAAAALGPDYVAVE 141
>gnl|CDD|218962 pfam06258, Mito_fiss_Elm1, Mitochondrial fission ELM1. In plants,
this family is involved in mitochondrial fission. It
binds to dynamin-related proteins and plays a role in
their relocation from the cytosol to mitochondrial
fission sites. Its function in bacteria is unknown.
Length = 308
Score = 26.5 bits (59), Expect = 2.4
Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 4/33 (12%)
Query: 33 TMAKVHVFKAEMTCDGCSSAITRILDRMKDKGV 65
T A V V E G R D ++++G
Sbjct: 245 TGAPVGVLPLE----GKRGKFARFHDSLEERGR 273
>gnl|CDD|234572 PRK00012, gatA, aspartyl/glutamyl-tRNA amidotransferase subunit A;
Reviewed.
Length = 459
Score = 25.8 bits (58), Expect = 4.6
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 47 DGCSSAITRILDRMKDKGVESVECSLPD 74
A+ + +++D G E VE SLP
Sbjct: 259 PEVKEAVEAAIKKLEDLGAEIVEVSLPH 286
>gnl|CDD|216414 pfam01288, HPPK,
7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase
(HPPK).
Length = 127
Score = 25.5 bits (57), Expect = 4.9
Identities = 6/18 (33%), Positives = 13/18 (72%)
Query: 77 VKVKSTLDPDVLLEAIKK 94
V++++TL P+ LL ++
Sbjct: 55 VELETTLSPEELLALLQA 72
>gnl|CDD|201571 pfam01047, MarR, MarR family. The Mar proteins are involved in
the multiple antibiotic resistance, a non-specific
resistance system. The expression of the mar operon is
controlled by a repressor, MarR. A large number of
compounds induce transcription of the mar operon. This
is thought to be due to the compound binding to MarR,
and the resulting complex stops MarR binding to the
DNA. With the MarR repression lost, transcription of
the operon proceeds. The structure of MarR is known and
shows MarR as a dimer with each subunit containing a
winged-helix DNA binding motif.
Length = 59
Score = 24.4 bits (54), Expect = 5.0
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 50 SSAITRILDRMKDKG 64
S +TR+LDR++ KG
Sbjct: 31 RSTVTRVLDRLEKKG 45
>gnl|CDD|217055 pfam02470, MCE, mce related protein. This family of proteins
contains the mce (mammalian cell entry) proteins from
Mycobacterium tuberculosis. The archetype (Rv0169), was
isolated as being necessary for colonisation of, and
survival within, the macrophage. This family contains
proteins of unknown function from other bacteria.
Length = 80
Score = 24.9 bits (55), Expect = 5.1
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 65 VESVECSLPDQTVKVKSTLDPDVLL 89
V S++ V+V +DPDV++
Sbjct: 31 VTSIDLDPDGGGVRVTLRIDPDVVV 55
>gnl|CDD|225789 COG3250, LacZ, Beta-galactosidase/beta-glucuronidase [Carbohydrate
transport and metabolism].
Length = 808
Score = 25.8 bits (57), Expect = 5.7
Identities = 13/64 (20%), Positives = 20/64 (31%), Gaps = 1/64 (1%)
Query: 6 SKQWDNYLKARPGASKSPEGTGLDNEPTMAKVHVFKAEMTCDGCSSAITRILDRMKDKGV 65
S +W PGAS S L + + E+T ++A +
Sbjct: 596 SLEWQLN-DVPPGASWSSLDEALRPKALYLTRRFTQPELTAWSEAAADGQFTLSEVSAAP 654
Query: 66 ESVE 69
VE
Sbjct: 655 LLVE 658
>gnl|CDD|197670 smart00347, HTH_MARR, helix_turn_helix multiple antibiotic
resistance protein.
Length = 101
Score = 24.9 bits (55), Expect = 6.1
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 50 SSAITRILDRMKDKG 64
S +TR+LDR++ KG
Sbjct: 38 PSTVTRVLDRLEKKG 52
>gnl|CDD|222159 pfam13475, DUF4116, Domain of unknown function (DUF4116).
Length = 49
Score = 23.9 bits (53), Expect = 6.3
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 84 DPDVLLEAIKKSGKTCSYIGE 104
D +++LEA+K++G Y E
Sbjct: 26 DREIVLEAVKQNGNALEYASE 46
>gnl|CDD|216089 pfam00732, GMC_oxred_N, GMC oxidoreductase. This family of
proteins bind FAD as a cofactor.
Length = 218
Score = 25.3 bits (56), Expect = 6.6
Identities = 7/38 (18%), Positives = 14/38 (36%)
Query: 54 TRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEA 91
+I+ + VE +K T +V++ A
Sbjct: 151 EKIIILGRGGRAVGVEARDGGGGIKRLITAAKEVVVAA 188
>gnl|CDD|190389 pfam02679, ComA, (2R)-phospho-3-sulfolactate synthase (ComA). In
methanobacteria (2R)-phospho-3-sulfolactate synthase
(ComA) catalyzes the first step of the biosynthesis of
coenzyme M from phosphoenolpyruvate (P-enolpyruvate).
This novel enzyme catalyzes the stereospecific Michael
addition of sulfite to P-enolpyruvate, forming
L-2-phospho-3-sulfolactate (PSL). It is suggested that
the ComA-catalyzed reaction is analogous to those
reactions catalyzed by beta-elimination enzymes that
proceed through an enolate intermediate.
Length = 245
Score = 25.2 bits (56), Expect = 6.8
Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 57 LDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKK 94
L K+ G +++E S D T+ L + L I+K
Sbjct: 91 LRECKELGFDAIEIS--DGTI----ELPEEERLRLIRK 122
>gnl|CDD|132358 TIGR03315, Se_ygfK, putative selenate reductase, YgfK subunit.
Members of this protein family are YgfK, predicted to be
one subunit of a three-subunit, molybdopterin-containing
selenate reductase. This enzyme is found, typically, in
genomic regions associated with xanthine dehydrogenase
homologs predicted to belong to the selenium-dependent
molybdenum hydroxylases (SDMH). Therefore, the selenate
reductase is suggested to play a role in furnishing
selenide for SelD, the selenophosphate synthase.
Length = 1012
Score = 25.5 bits (56), Expect = 8.0
Identities = 25/117 (21%), Positives = 40/117 (34%), Gaps = 21/117 (17%)
Query: 7 KQWDNYL----KARPGASKSPEG------TGLDNEPTMAK----VHVFKAEMTCDGCSSA 52
K +D Y K + +S GL +A+ V VF+ + G
Sbjct: 519 KGYDEYKTRWHKPQGKSSAHKVAVIGAGPAGLSAGYFLARAGHPVTVFEKKEKPGGVVKN 578
Query: 53 IT---RILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSGKTCSYIGEGS 106
I RI K +E V+ V+ K PD+ + +K G + G+
Sbjct: 579 IIPEFRISAESIQKDIELVK----FHGVEFKYGCSPDLTVAELKNQGYKYVILAIGA 631
>gnl|CDD|215893 pfam00389, 2-Hacid_dh, D-isomer specific 2-hydroxyacid
dehydrogenase, catalytic domain. This family
represents the largest portion of the catalytic domain
of 2-hydroxyacid dehydrogenases as the NAD binding
domain is inserted within the structural domain.
Length = 312
Score = 24.9 bits (55), Expect = 9.9
Identities = 11/38 (28%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 56 ILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIK 93
I D ++ + +E ++ V+V L + LLEA K
Sbjct: 3 ITDPLRPEELELLK---EGGEVEVHDELLTEELLEAAK 37
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
0.312 0.129 0.379
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,041,014
Number of extensions: 388513
Number of successful extensions: 364
Number of sequences better than 10.0: 1
Number of HSP's gapped: 358
Number of HSP's successfully gapped: 31
Length of query: 106
Length of database: 10,937,602
Length adjustment: 71
Effective length of query: 35
Effective length of database: 7,788,468
Effective search space: 272596380
Effective search space used: 272596380
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 (21.8 bits)
S2: 53 (24.1 bits)