RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13714
(125 letters)
>gnl|CDD|216741 pfam01853, MOZ_SAS, MOZ/SAS family. This region of these
proteins has been suggested to be homologous to
acetyltransferases.
Length = 189
Score = 142 bits (360), Expect = 2e-44
Identities = 54/69 (78%), Positives = 59/69 (85%)
Query: 12 LKHPPGNEIYRKDSISFFEIDGRKNKNYAQNLCLLAKLFLDHKTLHYDTDPFLFYIMTEQ 71
L+HPPGNEIYRK +IS FE+DGRK K Y QNLCLLAKLFLDHKTL+YD DPFLFYI+TE
Sbjct: 1 LRHPPGNEIYRKGNISVFEVDGRKQKLYCQNLCLLAKLFLDHKTLYYDVDPFLFYILTET 60
Query: 72 DSRGFHIVG 80
D G HIVG
Sbjct: 61 DETGCHIVG 69
>gnl|CDD|215056 PLN00104, PLN00104, MYST -like histone acetyltransferase;
Provisional.
Length = 450
Score = 146 bits (371), Expect = 3e-43
Identities = 58/109 (53%), Positives = 71/109 (65%), Gaps = 14/109 (12%)
Query: 7 MIKCNLKHPPGNEIYRK----DSISFFEIDGRKNKNYAQNLCLLAKLFLDHKTLHYDTDP 62
M KC+LKHPPG+EIYR + +S FE+DG+KNK Y QNLC LAKLFLDHKTL+YD D
Sbjct: 218 MKKCDLKHPPGDEIYRHPTRQEGLSMFEVDGKKNKVYCQNLCYLAKLFLDHKTLYYDVDL 277
Query: 63 FLFYIMTEQDSRGFHIVGIRKNDKTLAAQLLLLWSSSESVYIAWIVRLP 111
FLFY++ E D RG H+VG +K S E +A I+ LP
Sbjct: 278 FLFYVLCECDDRGCHMVGYFSKEK----------HSEEDYNLACILTLP 316
>gnl|CDD|227360 COG5027, SAS2, Histone acetyltransferase (MYST family) [Chromatin
structure and dynamics].
Length = 395
Score = 127 bits (321), Expect = 2e-36
Identities = 52/78 (66%), Positives = 63/78 (80%)
Query: 9 KCNLKHPPGNEIYRKDSISFFEIDGRKNKNYAQNLCLLAKLFLDHKTLHYDTDPFLFYIM 68
KC+L+HPPGNEIYR ISFFEIDGRK + Y +NLCLL+KLFLDHKTL+YD DPFLFY++
Sbjct: 180 KCSLQHPPGNEIYRDKYISFFEIDGRKQRLYCRNLCLLSKLFLDHKTLYYDVDPFLFYVL 239
Query: 69 TEQDSRGFHIVGIRKNDK 86
TE+ G H+VG +K
Sbjct: 240 TERGDTGCHLVGYFSKEK 257
>gnl|CDD|215642 PLN03238, PLN03238, probable histone acetyltransferase MYST;
Provisional.
Length = 290
Score = 122 bits (308), Expect = 2e-35
Identities = 55/109 (50%), Positives = 69/109 (63%), Gaps = 13/109 (11%)
Query: 8 IKCNLKHPPGNEIYR---KDSISFFEIDGRKNKNYAQNLCLLAKLFLDHKTLHYDTDPFL 64
KC+++ PPG IY + +S FE+DG+K K Y QNLCLLAKLFLDHKTL+YD DPFL
Sbjct: 69 AKCDIRQPPGGGIYGAVTEGPLSVFEVDGKKAKVYCQNLCLLAKLFLDHKTLYYDVDPFL 128
Query: 65 FYIMTEQDSRGFHIVGIRKNDKTLAAQLLLLWSSSESVYIAWIVRLPWF 113
FY+MTE D G HIVG +K S+E +A I+ LP +
Sbjct: 129 FYVMTEVDDHGSHIVGYFSKEK----------VSAEDYNLACILTLPPY 167
>gnl|CDD|173359 PTZ00064, PTZ00064, histone acetyltransferase; Provisional.
Length = 552
Score = 123 bits (310), Expect = 4e-34
Identities = 53/78 (67%), Positives = 61/78 (78%)
Query: 9 KCNLKHPPGNEIYRKDSISFFEIDGRKNKNYAQNLCLLAKLFLDHKTLHYDTDPFLFYIM 68
+C L+HPPGNEIYRKD+IS FEIDG + YA+NLC LAKLFLDHKTL YD +PFLFYI+
Sbjct: 302 RCQLRHPPGNEIYRKDNISVFEIDGALTRGYAENLCYLAKLFLDHKTLQYDVEPFLFYIV 361
Query: 69 TEQDSRGFHIVGIRKNDK 86
TE D G HIVG +K
Sbjct: 362 TEVDEEGCHIVGYFSKEK 379
>gnl|CDD|178777 PLN03239, PLN03239, histone acetyltransferase; Provisional.
Length = 351
Score = 111 bits (278), Expect = 1e-30
Identities = 44/76 (57%), Positives = 56/76 (73%)
Query: 11 NLKHPPGNEIYRKDSISFFEIDGRKNKNYAQNLCLLAKLFLDHKTLHYDTDPFLFYIMTE 70
+HPPGNEIYR ++ FE+DG + + Y QNLC +AKLFLDHKTL++D DPFLFY++ E
Sbjct: 133 ERRHPPGNEIYRCGDLAMFEVDGFEERIYCQNLCYIAKLFLDHKTLYFDVDPFLFYVLCE 192
Query: 71 QDSRGFHIVGIRKNDK 86
D RGFH VG +K
Sbjct: 193 VDERGFHPVGYYSKEK 208
>gnl|CDD|173785 cd03365, TOPRIM_TopoIIA, TOPRIM_TopoIIA: topoisomerase-primase
(TOPRIM) nucleotidyl transferase/hydrolase domain of
the type found in proteins of the type IIA family of
DNA topoisomerases similar to Saccharomyces cerevisiae
Topoisomerase II. TopoIIA enzymes cut both strands of
the duplex DNA to remove (relax) both positive and
negative supercoils in DNA. These enzymes covalently
attach to the 5' ends of the cut DNA, separate the free
ends of the cleaved strands, pass another region of the
duplex through this gap, then rejoin the ends. These
proteins also catenate/ decatenate duplex rings. The
TOPRIM domain has two conserved motifs, one of which
centers at a conserved glutamate and the other one at
two conserved aspartates (DxD). This glutamate and two
aspartates, cluster together to form a highly acid
surface patch. The conserved glutamate may act as a
general base in strand joining and as a general acid in
strand cleavage by topisomerases. The DXD motif may
co-ordinate Mg2+, a cofactor required for full
catalytic function.
Length = 120
Score = 28.4 bits (64), Expect = 0.49
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 6/45 (13%)
Query: 41 QNLCLLAKLFLDHKTLHYDTDPFLFY----IMTEQDSRGFHIVGI 81
QN+ + L L H Y++ L Y IMT+QD G HI G+
Sbjct: 54 QNIKKI--LGLQHGKSDYESTKSLRYGRLMIMTDQDHDGSHIKGL 96
>gnl|CDD|128473 smart00176, RAN, Ran (Ras-related nuclear proteins) /TC4 subfamily
of small GTPases. Ran is involved in the active
transport of proteins through nuclear pores.
Length = 200
Score = 28.1 bits (62), Expect = 1.1
Identities = 10/44 (22%), Positives = 22/44 (50%)
Query: 21 YRKDSISFFEIDGRKNKNYAQNLCLLAKLFLDHKTLHYDTDPFL 64
+RK ++ +++I + N N+ + LA+ + L + P L
Sbjct: 124 HRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL 167
>gnl|CDD|215593 PLN03128, PLN03128, DNA topoisomerase 2; Provisional.
Length = 1135
Score = 27.8 bits (62), Expect = 1.8
Identities = 16/46 (34%), Positives = 20/46 (43%), Gaps = 7/46 (15%)
Query: 41 QNLCLLAKLFLDH-KTLHYDTDPFLFY----IMTEQDSRGFHIVGI 81
N+ L L KT + L Y IMT+QD G HI G+
Sbjct: 479 TNIK--QILGLQFGKTYDEENTKSLRYGHLMIMTDQDHDGSHIKGL 522
>gnl|CDD|176651 cd06139, DNA_polA_I_Ecoli_like_exo, DEDDy 3'-5' exonuclease domain
of Escherichia coli DNA polymerase I and similar
bacterial family-A DNA polymerases. Escherichia
coli-like Polymerase I (Pol I), a subgroup of family-A
DNA polymerases, contains a DEDDy-type DnaQ-like 3'-5'
exonuclease domain in the same polypeptide chain as the
polymerase domain. The exonuclease domain contains three
conserved sequence motifs termed ExoI, ExoII and ExoIII,
with a specific YX(3)D pattern at ExoIII. These motifs
are clustered around the active site and contain four
conserved acidic residues that serve as ligands for the
two metal ions required for catalysis. The 3'-5'
exonuclease domain of DNA polymerases has a fundamental
role in reducing polymerase errors and is involved in
proofreading activity. E. coli DNA Pol I is involved in
genome replication but is not the main replicating
enzyme. It is also implicated in DNA repair.
Length = 193
Score = 26.3 bits (59), Expect = 3.5
Identities = 17/78 (21%), Positives = 27/78 (34%), Gaps = 22/78 (28%)
Query: 42 NLCLLAKLFLDHKTLHYDTDPFLFYIMTEQDSRGFHIVGIRKNDKTLAAQLLLLWS--SS 99
L LA+ +L HKT+ ++ +VG K T L + ++
Sbjct: 111 GLDDLAERYLGHKTISFED-----------------LVGKGKKQITFDQVPLEKAAEYAA 153
Query: 100 ESVYIAWIVRL-PWFDPR 116
E I RL P+
Sbjct: 154 EDADITL--RLYELLKPK 169
>gnl|CDD|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional.
Length = 219
Score = 26.6 bits (59), Expect = 3.6
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 YRKDSISFFEIDGRKNKNYAQNLCLLAKLFLDHKTLHYDTDPFL 64
+RK ++ ++EI + N N+ + LA+ LH+ P L
Sbjct: 142 HRKKNLQYYEISAKSNYNFEKPFLYLARKLAGDPNLHFVESPAL 185
>gnl|CDD|233974 TIGR02682, cas_csx11, CRISPR-associated protein, Csx11 family.
Members of this uncommon, sporadically distributed
protein family are large (>900 amino acids) and strictly
associated, so far, with CRISPR-associated (Cas) gene
clusters. Nearby Cas genes always include members of the
RAMP superfamily and the six-gene CRISPR-associated RAMP
module. Species in which it is found, so far, include
three archaea (Methanosarcina mazei, M. barkeri and
Methanobacterium thermoautotrophicum) and two bacteria
(Thermodesulfovibrio yellowstonii DSM 11347 and
Sulfurihydrogenibium azorense) [Mobile and
extrachromosomal element functions, Other].
Length = 918
Score = 26.4 bits (58), Expect = 5.2
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 14 HPPGNEIYRKDSISFF---EIDGRKNKNYAQNLCLLAKLFLD 52
+P GNEIYR D+ +F E+D ++ N A + L KL +
Sbjct: 279 YPLGNEIYRDDTGIYFIVPELDKNEDNNLAVLVDDL-KLLEE 319
>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein. This family consists of
various cobalt transport proteins Most of which are
found in Cobalamin (Vitamin B12) biosynthesis operons.
In Salmonella the cbiN cbiQ (product CbiQ in this
family) and cbiO are likely to form an active cobalt
transport system.
Length = 217
Score = 25.8 bits (57), Expect = 5.9
Identities = 13/48 (27%), Positives = 17/48 (35%), Gaps = 5/48 (10%)
Query: 67 IMTEQDSRGFHIVGIRKND----KTLAAQLLL-LWSSSESVYIAWIVR 109
IM Q SRG G + L L + +E + IA R
Sbjct: 159 IMQAQKSRGGDSKGGIRRRWRSLGLLVIPLFIRALKRAERLAIAMEAR 206
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 26.2 bits (58), Expect = 7.2
Identities = 18/44 (40%), Positives = 21/44 (47%), Gaps = 7/44 (15%)
Query: 41 QNLCLLAKLFLDHKTLHYDTDPFLFY----IMTEQDSRGFHIVG 80
QNL + L LD + D L Y IMT+QD G HI G
Sbjct: 489 QNLFKI--LGLDIGKKYEDPKG-LRYGSLMIMTDQDHDGSHIKG 529
>gnl|CDD|235127 PRK03467, PRK03467, hypothetical protein; Provisional.
Length = 144
Score = 25.4 bits (56), Expect = 7.6
Identities = 7/25 (28%), Positives = 14/25 (56%)
Query: 58 YDTDPFLFYIMTEQDSRGFHIVGIR 82
+D FY++TE+ +R ++G
Sbjct: 39 FDAQKVAFYLLTEEKTRHGQMMGPN 63
>gnl|CDD|151444 pfam10997, DUF2837, Protein of unknown function (DUF2837). This
bacterial family of proteins has no known function.
Length = 254
Score = 25.7 bits (57), Expect = 7.8
Identities = 8/23 (34%), Positives = 13/23 (56%), Gaps = 3/23 (13%)
Query: 87 TLAAQLLLLWSSSESVYIAWIVR 109
TL AQ L + + + IAW+ +
Sbjct: 235 TLLAQALFIPA---AYAIAWVAK 254
>gnl|CDD|132123 TIGR03079, CH4_NH3mon_ox_B, methane monooxygenase/ammonia
monooxygenase, subunit B. Both ammonia oxidizers such
as Nitrosomonas europaea and methanotrophs (obligate
methane oxidizers) such as Methylococcus capsulatus each
can grow only on their own characteristic substrate.
However, both groups have the ability to oxidize both
substrates, and so the relevant enzymes must be named
here according to their ability to oxidze both. The
protein family represented here reflects subunit B of
both the particulate methane monooxygenase of
methylotrophs and the ammonia monooxygenase of
nitrifying bacteria.
Length = 399
Score = 25.7 bits (56), Expect = 7.9
Identities = 10/26 (38%), Positives = 11/26 (42%)
Query: 94 LLWSSSESVYIAWIVRLPWFDPRPRV 119
L W +I W P F PR RV
Sbjct: 180 LSWMVLGIFWIGWFAARPMFLPRSRV 205
>gnl|CDD|239510 cd03418, GRX_GRXb_1_3_like, Glutaredoxin (GRX) family, GRX
bacterial class 1 and 3 (b_1_3)-like subfamily;
composed of bacterial GRXs, approximately 10 kDa in
size, and proteins containing a GRX or GRX-like domain.
GRX is a glutathione (GSH) dependent reductase,
catalyzing the disulfide reduction of target proteins
such as ribonucleotide reductase. It contains a redox
active CXXC motif in a TRX fold and uses a similar
dithiol mechanism employed by TRXs for intramolecular
disulfide bond reduction of protein substrates. Unlike
TRX, GRX has preference for mixed GSH disulfide
substrates, in which it uses a monothiol mechanism
where only the N-terminal cysteine is required. The
flow of reducing equivalents in the GRX system goes
from NADPH -> GSH reductase -> GSH -> GRX -> protein
substrates. By altering the redox state of target
proteins, GRX is involved in many cellular functions
including DNA synthesis, signal transduction and the
defense against oxidative stress. Different classes are
known including E. coli GRX1 and GRX3, which are
members of this subfamily.
Length = 75
Score = 24.5 bits (54), Expect = 8.4
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 44 CLLAKLFLDHKTLHY-----DTDPFLFYIMTEQ 71
C+ AK LD K + Y D DP L M +
Sbjct: 13 CVRAKALLDKKGVDYEEIDVDGDPALREEMINR 45
>gnl|CDD|227322 COG4989, COG4989, Predicted oxidoreductase [General function
prediction only].
Length = 298
Score = 25.4 bits (56), Expect = 8.9
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 98 SSESVYIAWIVRLP 111
S +V IAW++R P
Sbjct: 241 SITAVAIAWLLRHP 254
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
0.326 0.141 0.450
Gapped
Lambda K H
0.267 0.0803 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,473,707
Number of extensions: 556008
Number of successful extensions: 567
Number of sequences better than 10.0: 1
Number of HSP's gapped: 565
Number of HSP's successfully gapped: 31
Length of query: 125
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 40
Effective length of database: 7,167,512
Effective search space: 286700480
Effective search space used: 286700480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.1 bits)