RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13428
(67 letters)
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 77.5 bits (192), Expect = 8e-19
Identities = 23/36 (63%), Positives = 30/36 (83%), Gaps = 1/36 (2%)
Query: 6 PK-IYEYLNKHVVGQEHAKKVLSVAVYNHYKRIYNN 40
PK I +L+++V+GQE AKKVLSVAVYNHYKR+ +
Sbjct: 62 PKEIKAHLDQYVIGQERAKKVLSVAVYNHYKRLRHG 97
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 70.3 bits (173), Expect = 3e-16
Identities = 24/36 (66%), Positives = 30/36 (83%), Gaps = 1/36 (2%)
Query: 6 PK-IYEYLNKHVVGQEHAKKVLSVAVYNHYKRIYNN 40
PK I +L+++V+GQE AKKVLSVAVYNHYKR+ N
Sbjct: 52 PKEIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNNK 87
>gnl|CDD|232949 TIGR00382, clpX, endopeptidase Clp ATP-binding regulatory subunit
(clpX). A member of the ATP-dependent proteases, ClpX
has ATP-dependent chaperone activity and is required for
specific ATP-dependent proteolytic activities expressed
by ClpPX. The gene is also found to be involved in
stress tolerance in Bacillus subtilis and is essential
for the efficient acquisition of genes specifying type
IA and IB restriction [Protein fate, Protein folding and
stabilization, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 413
Score = 59.0 bits (143), Expect = 3e-12
Identities = 25/53 (47%), Positives = 35/53 (66%), Gaps = 1/53 (1%)
Query: 8 IYEYLNKHVVGQEHAKKVLSVAVYNHYKRIYNNISSSPSQSQASAKTQDISLM 60
I +L+++V+GQE AKKVLSVAVYNHYKR+ N + S + +I L+
Sbjct: 71 IKAHLDEYVIGQEQAKKVLSVAVYNHYKRL-NFEKNKKSDNGVELSKSNILLI 122
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 42.4 bits (101), Expect = 2e-06
Identities = 11/32 (34%), Positives = 24/32 (75%), Gaps = 1/32 (3%)
Query: 6 PK-IYEYLNKHVVGQEHAKKVLSVAVYNHYKR 36
P+ I L+K+++GQ+ AK+ +++A+ N ++R
Sbjct: 6 PREIVSELDKYIIGQDDAKRAVAIALRNRWRR 37
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase
subunit [Posttranslational modification, protein
turnover, chaperones].
Length = 444
Score = 40.3 bits (95), Expect = 1e-05
Identities = 12/37 (32%), Positives = 26/37 (70%), Gaps = 1/37 (2%)
Query: 1 MILVNPK-IYEYLNKHVVGQEHAKKVLSVAVYNHYKR 36
M + P+ I L+++++GQ+ AKK +++A+ N ++R
Sbjct: 1 MSEMTPREIVSELDRYIIGQDEAKKAVAIALRNRWRR 37
>gnl|CDD|213527 TIGR00390, hslU, ATP-dependent protease HslVU, ATPase subunit.
This model represents the ATPase subunit of HslVU,
while the proteasome-related peptidase subunit is HslV.
Residues 54-61 of the model contain a P-loop
ATP-binding motif. Cys-287 of E. coli (position 308 in
the seed alignment), studied in MEDLINE:98389714, is
Ser in other members of the seed alignment [Protein
fate, Protein folding and stabilization].
Length = 441
Score = 35.9 bits (83), Expect = 4e-04
Identities = 12/29 (41%), Positives = 22/29 (75%)
Query: 8 IYEYLNKHVVGQEHAKKVLSVAVYNHYKR 36
I L+K+++GQ+ AKK +++A+ N Y+R
Sbjct: 6 IVAELDKYIIGQDEAKKSVAIALRNRYRR 34
>gnl|CDD|184927 PRK14963, PRK14963, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 504
Score = 28.3 bits (63), Expect = 0.22
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 16 VVGQEHAKKVLSVAV 30
VVGQEH K+VL A+
Sbjct: 16 VVGQEHVKEVLLAAL 30
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyzes the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling
inter- mediates into the (bacterio)chlorophyll branch
in response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 28.2 bits (64), Expect = 0.22
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 16 VVGQEHAKKVLSVA 29
V GQE AK+ L +A
Sbjct: 5 VKGQEQAKRALEIA 18
>gnl|CDD|188314 TIGR03401, cyanamide_fam, HD domain protein, cyanamide hydratase
family. Members of this protein family are known, so
far, in the Ascomycota, a branch of the Fungi, and
contain an HD domain (pfam01966), found typically in
various metal-dependent phosphohydrolases. The only
characterized member of this family, from the soil
fungus Myrothecium verrucaria, is cyanamide hydratase
(EC 4.2.1.69), a zinc-containing homohexamer that adds
water to the fertilizer cyanamide (NCNH2), a nitrile
compound, to produce urea (NH2-CO-NH2). Homologs are
likely to be nitrile hydratases.
Length = 228
Score = 27.8 bits (62), Expect = 0.35
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 19 QEHAKKVLSVAVYNHYKRIY 38
QE+AK L YNH R+Y
Sbjct: 45 QEYAKARLPPETYNHSLRVY 64
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 27.2 bits (61), Expect = 0.57
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 12 LNKHVVGQEHAKKVLSVAV 30
L K V+GQ+ A + +S A+
Sbjct: 489 LKKRVIGQDEAVEAVSDAI 507
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 26.8 bits (60), Expect = 0.68
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 16 VVGQEHAKKVLSVA 29
V GQE AK+ L +A
Sbjct: 181 VKGQEQAKRALEIA 194
>gnl|CDD|181069 PRK07657, PRK07657, enoyl-CoA hydratase; Provisional.
Length = 260
Score = 25.9 bits (57), Expect = 1.3
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 4/42 (9%)
Query: 9 YEYLNKHVV----GQEHAKKVLSVAVYNHYKRIYNNISSSPS 46
+Y+ HVV + A LS+A+ + I I+ +
Sbjct: 7 VDYVTPHVVKITLNRPRAANALSLALLEELQNILTQINEEAN 48
>gnl|CDD|235947 PRK07152, nadD, putative nicotinate-nucleotide adenylyltransferase;
Validated.
Length = 342
Score = 25.3 bits (56), Expect = 2.3
Identities = 9/36 (25%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 2 ILVNPKIYEYLNKH-VVGQEHAKKVLSVAVYNHYKR 36
++PK+ +Y+N++ + ++ K L Y H R
Sbjct: 168 GKLDPKVNDYINENFLYLEDILKSFLDEYRYKHCLR 203
>gnl|CDD|237867 PRK14953, PRK14953, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 486
Score = 24.8 bits (54), Expect = 4.0
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 14 KHVVGQEHAKKVLSVAV 30
K V+GQE ++L AV
Sbjct: 16 KEVIGQEIVVRILKNAV 32
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
0.313 0.125 0.336
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,079,695
Number of extensions: 204486
Number of successful extensions: 186
Number of sequences better than 10.0: 1
Number of HSP's gapped: 186
Number of HSP's successfully gapped: 16
Length of query: 67
Length of database: 10,937,602
Length adjustment: 38
Effective length of query: 29
Effective length of database: 9,252,150
Effective search space: 268312350
Effective search space used: 268312350
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 (21.9 bits)
S2: 53 (24.2 bits)