RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7514
(347 letters)
>gnl|CDD|217925 pfam04145, Ctr, Ctr copper transporter family. The redox active
metal copper is an essential cofactor in critical
biological processes such as respiration, iron
transport, oxidative stress protection, hormone
production, and pigmentation. A widely conserved family
of high-affinity copper transport proteins (Ctr
proteins) mediates copper uptake at the plasma membrane.
A series of clustered methionine residues in the
hydrophilic extracellular domain, and an MXXXM motif in
the second transmembrane domain, are important for
copper uptake. These methionine probably coordinate
copper during the process of metal transport.
Length = 102
Score = 116 bits (294), Expect = 1e-32
Identities = 52/146 (35%), Positives = 65/146 (44%), Gaps = 45/146 (30%)
Query: 188 MSMAFHWGY-NEVILFNQWKISTPSGLIASMVGIFFLAALYEGVKYYREYLFWKTYNDLH 246
MSM F+WG + +LF+ W I+T S + IF LA LYEG+K R L
Sbjct: 1 MSMLFNWGTKDTCVLFSGWHITTAGMYAGSCIAIFLLAILYEGLKRVRRKLER------- 53
Query: 247 YRSIPAQQRISSVEENKDTAKVVPVCDVLQKQPPSMLMLSMPHFIQTLLHVLQITMSFLL 306
M H I+ LLH LQ+ +S+LL
Sbjct: 54 -------------------------------------MSLFQHLIRALLHFLQVGLSYLL 76
Query: 307 MLVFMTYNVALCIAVVAGAACGYFLF 332
ML+ MTYN L +AVV GAA GYFLF
Sbjct: 77 MLIVMTYNGGLFLAVVLGAALGYFLF 102
Score = 67.1 bits (165), Expect = 4e-14
Identities = 23/55 (41%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 52 MSMAFHWGY-NEVILFNQWKISTPSGLIASMVGIFFLAALYEGVKYYREYLFWKT 105
MSM F+WG + +LF+ W I+T S + IF LA LYEG+K R L +
Sbjct: 1 MSMLFNWGTKDTCVLFSGWHITTAGMYAGSCIAIFLLAILYEGLKRVRRKLERMS 55
>gnl|CDD|236810 PRK10965, PRK10965, multicopper oxidase; Provisional.
Length = 523
Score = 31.1 bits (71), Expect = 0.83
Identities = 8/27 (29%), Positives = 10/27 (37%)
Query: 136 GMDHSSMDHDMHSHHHHQEALSLESSN 162
M H +MDH H A +N
Sbjct: 388 HMGHGNMDHMNHGAADAGPAFDFHHAN 414
Score = 30.4 bits (69), Expect = 1.4
Identities = 8/26 (30%), Positives = 10/26 (38%)
Query: 1 MDHSSMDHDMHSHHHHQEALSLESSN 26
M H +MDH H A +N
Sbjct: 389 MGHGNMDHMNHGAADAGPAFDFHHAN 414
>gnl|CDD|101884 PRK05640, PRK05640, putative monovalent cation/H+ antiporter
subunit B; Reviewed.
Length = 151
Score = 29.0 bits (65), Expect = 2.0
Identities = 15/49 (30%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 290 FIQTLLHVLQITMSF-LLMLVFMTYNVALCIAVVAGAACGYFLFGWKKS 337
F+ +L+ ++ F LL ++F +VAL + VV G G F+F ++++
Sbjct: 23 FLASLISYSLASLLFALLAMLFRAPDVALSLIVVGGIVIGLFIFAYEET 71
>gnl|CDD|225803 COG3264, COG3264, Small-conductance mechanosensitive channel [Cell
envelope biogenesis, outer membrane].
Length = 835
Score = 29.7 bits (67), Expect = 2.7
Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 3/57 (5%)
Query: 279 PPSMLMLSMPHFIQTLLHVLQITMSFLLMLVFMTYNVAL--CIAVVA-GAACGYFLF 332
PS L + T+ +L + + + ++ AL +A +A G F
Sbjct: 266 SPSYLKRLLVALASTVGPLLADSQFLTPLAILLSILNALPLDLAWLALGLFLLLAFF 322
>gnl|CDD|219640 pfam07916, TraG_N, TraG-like protein, N-terminal region. The
bacterial sequences found in this family are similar to
the N-terminal region of the TraG protein. This is a
membrane-spanning protein, with three predicted
transmembrane segments and two periplasmic regions. TraG
protein is known to be essential for DNA transfer in the
process of conjugation, with the N-terminal portion
being required for F pilus assembly. The protein is
thought to interact with the periplasmic domain of TraN
to stabilise mating-cell interactions.
Length = 462
Score = 29.6 bits (67), Expect = 2.9
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 281 SMLMLSMPHFIQTLLHVLQITMSFLLMLVFMTYNVALCIAVVAGAACGYFLFGW 334
++P Q L + I F L+LV +A++A GYFL W
Sbjct: 324 DAARQALPMV-QAFLEMA-IYALFPLVLVLSLLLGTGGLAILA----GYFLTFW 371
>gnl|CDD|217921 pfam04138, GtrA, GtrA-like protein. Members of this family are
predicted to be integral membrane proteins with three or
four transmembrane spans. They are involved in the
synthesis of cell surface polysaccharides. The GtrA
family are a subset of this family. GtrA is predicted to
be an integral membrane protein with 4 transmembrane
spans. It is involved is in O antigen modification by
Shigella flexneri bacteriophage X (SfX), but does not
determine the specificity of glucosylation. Its function
remains unknown, but it may play a role in translocation
of undecaprenyl phosphate linked glucose (UndP-Glc)
across the cytoplasmic membrane. Another member of this
family is a DTDP-glucose-4-keto-6-deoxy-D-glucose
reductase, which catalyzes the conversion of
dTDP-4-keto-6-deoxy-D-glucose to dTDP-D-fucose, which is
involved in the biosynthesis of the serotype-specific
polysaccharide antigen of Actinobacillus
actinomycetemcomitans Y4 (serotype b). This family also
includes the teichoic acid glycosylation protein, GtcA,
which is a serotype-specific protein in some Listeria
innocua and monocytogenes strains. Its exact function is
not known, but it is essential for decoration of cell
wall teichoic acids with glucose and galactose.
Length = 115
Score = 27.9 bits (63), Expect = 3.2
Identities = 8/35 (22%), Positives = 18/35 (51%)
Query: 297 VLQITMSFLLMLVFMTYNVALCIAVVAGAACGYFL 331
++ + + LL+ + ++Y +A IA + Y L
Sbjct: 11 LVDLGVFLLLLFLGLSYLLANAIAFLVAILFNYLL 45
>gnl|CDD|236821 PRK11017, codB, cytosine permease; Provisional.
Length = 404
Score = 28.3 bits (64), Expect = 6.1
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 310 FMTYNVALCIAVVAGAACGYFLFG 333
N A +AV GAA G+FL G
Sbjct: 351 LPRVNWAAILAVALGAAAGHFLPG 374
>gnl|CDD|225528 COG2981, CysZ, Uncharacterized protein involved in cysteine
biosynthesis [Amino acid transport and metabolism].
Length = 250
Score = 27.7 bits (62), Expect = 8.9
Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 5/51 (9%)
Query: 281 SMLMLSMPHFIQTLLHVLQITMSFLLMLVFMTYNVALCIAVVAGAACGYFL 331
LM +P ++ L ++L I LL+LVF A + VA F
Sbjct: 55 DTLMPGIPDWLGWLSYLLWILAVLLLLLVF-----AFLFSTVANLIAAPFN 100
>gnl|CDD|201386 pfam00676, E1_dh, Dehydrogenase E1 component. This family uses
thiamine pyrophosphate as a cofactor. This family
includes pyruvate dehydrogenase, 2-oxoglutarate
dehydrogenase and 2-oxoisovalerate dehydrogenase.
Length = 303
Score = 27.7 bits (62), Expect = 9.1
Identities = 17/77 (22%), Positives = 29/77 (37%), Gaps = 20/77 (25%)
Query: 43 SHEGMDHMGMSMAFHWGYNEVILF---NQWKISTPSGLIASMVGIFFLA----------- 88
+++G ++ A W VI NQ+ ISTP+ ++ A
Sbjct: 138 TNQGQFFEALNFAALWKLP-VIFVCENNQYAISTPAERSSASTTYADRARGYGIPGIRVD 196
Query: 89 -----ALYEGVKYYREY 100
A+Y+ VK+ E
Sbjct: 197 GMDPLAVYQAVKFAAER 213
Score = 27.7 bits (62), Expect = 9.1
Identities = 17/77 (22%), Positives = 29/77 (37%), Gaps = 20/77 (25%)
Query: 179 SHEGMDHMGMSMAFHWGYNEVILF---NQWKISTPSGLIASMVGIFFLA----------- 224
+++G ++ A W VI NQ+ ISTP+ ++ A
Sbjct: 138 TNQGQFFEALNFAALWKLP-VIFVCENNQYAISTPAERSSASTTYADRARGYGIPGIRVD 196
Query: 225 -----ALYEGVKYYREY 236
A+Y+ VK+ E
Sbjct: 197 GMDPLAVYQAVKFAAER 213
>gnl|CDD|238499 cd01017, AdcA, Metal binding protein AcdA. These proteins have
been shown to function in the ABC uptake of Zn2+ and
Mn2+ and in competence for genetic transformation and
adhesion. The AcdA proteins belong to the TroA
superfamily of helical backbone metal receptor proteins
that share a distinct fold and ligand binding mechanism.
They are comprised of two globular subdomains connected
by a long alpha helix and they bind their ligand in the
cleft between these domains. In addition, many of these
proteins have a low complexity region containing metal
binding histidine-rich motif (repetitive HDH sequence).
Length = 282
Score = 27.6 bits (62), Expect = 9.4
Identities = 7/28 (25%), Positives = 11/28 (39%)
Query: 128 DTAKVVPLGMDHSSMDHDMHSHHHHQEA 155
+ +K + L + HSH HH
Sbjct: 83 EASKGIKLLKAGGAEHDHDHSHSHHHGD 110
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
0.322 0.132 0.419
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,422,143
Number of extensions: 1637337
Number of successful extensions: 1902
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1889
Number of HSP's successfully gapped: 37
Length of query: 347
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 249
Effective length of database: 6,590,910
Effective search space: 1641136590
Effective search space used: 1641136590
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 59 (26.5 bits)