RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy18222
(130 letters)
>gnl|CDD|197710 smart00413, ETS, erythroblast transformation specific domain.
variation of the helix-turn-helix motif.
Length = 87
Score = 147 bits (374), Expect = 1e-47
Identities = 55/87 (63%), Positives = 66/87 (75%), Gaps = 1/87 (1%)
Query: 18 QVQLWQFLLELLGEPSNGGVIVWEG-SQGEFRLVDPDEVARRWGLRKSKPNMNYDKLSRA 76
+QLWQFLL+LL +P N +I W +GEF+LVDP+EVAR WG RK+KPNMNY+KLSRA
Sbjct: 1 GIQLWQFLLDLLLDPENSDIIKWTDRDEGEFKLVDPEEVARLWGQRKNKPNMNYEKLSRA 60
Query: 77 LRYYYDKNIMTKVHGKRYAYRFDFQGL 103
LRYYY KNI+ KV GKR Y+F L
Sbjct: 61 LRYYYKKNILEKVPGKRLVYKFVKNPL 87
>gnl|CDD|143944 pfam00178, Ets, Ets-domain.
Length = 85
Score = 142 bits (359), Expect = 2e-45
Identities = 56/84 (66%), Positives = 65/84 (77%), Gaps = 1/84 (1%)
Query: 18 QVQLWQFLLELLGEPSNGGVIVWEG-SQGEFRLVDPDEVARRWGLRKSKPNMNYDKLSRA 76
Q+QLWQFLLELL + N I W G +GEF+LVDP+EVAR WG+RK+KPNMNYDKLSRA
Sbjct: 1 QIQLWQFLLELLTDQDNRDFIRWTGRDKGEFKLVDPEEVARLWGIRKNKPNMNYDKLSRA 60
Query: 77 LRYYYDKNIMTKVHGKRYAYRFDF 100
LRYYY K I+ KV GKR Y+F
Sbjct: 61 LRYYYKKGIIRKVKGKRLVYKFVS 84
>gnl|CDD|216804 pfam01949, DUF99, Protein of unknown function DUF99. The function
of this archaebacterial protein family is unknown.
Length = 185
Score = 30.3 bits (69), Expect = 0.17
Identities = 15/84 (17%), Positives = 34/84 (40%), Gaps = 13/84 (15%)
Query: 45 GEFRLVDPDEVARRWGL------RKSKPNMNYDKLSRALRYYYD----KNIMTKVHGKRY 94
G F ++D +E+ GL RK +P++ + + ALR ++ + + + G
Sbjct: 75 GGFNIIDIEELYEETGLPVIVVMRK-EPDL--EGIESALRKHFPDDEERLKIIRKLGPIE 131
Query: 95 AYRFDFQGLMLACQASNTSDAYKL 118
+ + + +A +L
Sbjct: 132 PLPTRGGPVYIQAAGIDPEEAKEL 155
>gnl|CDD|233245 TIGR01042, V-ATPase_V1_A, V-type (H+)-ATPase V1, A subunit. This
models eukaryotic vacuolar (H+)-ATPase that is
responsible for acidifying cellular compartments. This
enzyme shares extensive sequence similarity with
archaeal ATP synthase [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 591
Score = 28.6 bits (64), Expect = 0.92
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 10/36 (27%)
Query: 59 WGL------RKSKPNMN----YDKLSRALRYYYDKN 84
WGL RK P++N Y K RAL +Y+K
Sbjct: 416 WGLDKKLAQRKHFPSVNWLISYSKYMRALEEFYEKF 451
>gnl|CDD|223255 COG0177, Nth, Predicted EndoIII-related endonuclease [DNA
replication, recombination, and repair].
Length = 211
Score = 28.3 bits (64), Expect = 1.1
Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 9/46 (19%)
Query: 55 VARRWGLRKSKPNMNYDKLSRALR------YYYDKNIMTKVHGKRY 94
V+ R GL K +++ AL + D + +HG+
Sbjct: 144 VSNRLGLVPGK---TPEEVEEALMKLIPKELWTDLHHWLILHGRYI 186
>gnl|CDD|132354 TIGR03311, Se_dep_Molyb_1, selenium-dependent molybdenum
hydroxylase 1. Members of this protein family show full
length homology to the molybdenum-containing aldehyde
oxido-reductase of Desulfovibrio gigas. Members,
however, are found only within species that have, and
near those genes that encode, a set of predicted
accessory proteins for selenium-dependent molybdenum
hydroxylases. The best known examples of such enzymes
are forms of xanthine dehydrogenase and purine
hydroxylase; this family appears to be another such
enzyme.
Length = 848
Score = 27.9 bits (62), Expect = 1.9
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 29 LGEPSNGGVIVWEGSQGEFRLVDPDEVARRWGLRKSK 65
L P GVI++ +QG + + E+A GL K K
Sbjct: 348 LAVPEGDGVIIYTSTQGVYD--EQRELASLLGLPKEK 382
>gnl|CDD|236490 PRK09376, rho, transcription termination factor Rho; Provisional.
Length = 416
Score = 27.0 bits (61), Expect = 2.7
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 8/42 (19%)
Query: 42 GSQGEFRLVDPDEVARRWGLRKSKPNMN--------YDKLSR 75
G++ E L+ P+E+ + W LRK M+ DKL +
Sbjct: 362 GTRKEELLLSPEELQKVWILRKILSPMDEVEAMEFLLDKLKK 403
>gnl|CDD|193556 cd05681, M20_dipept_like_4, Uncharacterized M20 Dipeptidases.
Peptidase M20 family, unknown dipeptidase-like subfamily
3 (inferred by homology to be dipeptidases). M20
dipeptidases include a large variety of bacterial
enzymes including cytosolic nonspecific dipeptidase
(CNDP), Xaa-methyl-His dipeptidase (anserinase),and
canosinase. These dipeptidases have been shown to act on
a wide range of dipeptides, but not larger peptides. For
example, anserinase mainly catalyzes the hydrolysis of
N-alpha-acetylhistidine while carnosinase degrades
beta-alanyl-L-histidine.
Length = 430
Score = 27.2 bits (61), Expect = 2.7
Identities = 22/99 (22%), Positives = 32/99 (32%), Gaps = 40/99 (40%)
Query: 23 QFLLELLGEPS---NGGVIVWEGSQGE---------------FRLVDPDEVARRWGLRKS 64
L L+ EP+ NG ++ G GE FRLV
Sbjct: 269 DALEALVFEPTCNING---LYSGYTGEGSKTILPAEATAKLDFRLV-------------- 311
Query: 65 KPNMNYDKLSRALRYYYDKN----IMTKVHGKRYAYRFD 99
P+ + +++ LR + DKN I R D
Sbjct: 312 -PDQDPEEVLDLLRAHLDKNGFSDIEVTYLLGEPPARTD 349
>gnl|CDD|225648 COG3106, COG3106, Predicted ATPase [General function prediction
only].
Length = 467
Score = 27.0 bits (60), Expect = 3.4
Identities = 23/78 (29%), Positives = 30/78 (38%), Gaps = 5/78 (6%)
Query: 52 PDEVARRWGL--RKSKPNMNYDKLSRALRYYYDKNIMTKVHGKRYAYRFDFQGLMLAC-Q 108
PD A + K L R RY Y K + K + + RFD Q +++ C Q
Sbjct: 235 PDVDAWLESKLAQADKQGSYAAMLER--RYNYYKTKVVKGFYREHFARFDRQIVLVDCLQ 292
Query: 109 ASNTSDAYKLHQTLYLTQ 126
N L L LTQ
Sbjct: 293 PLNRGPQAFLDMRLALTQ 310
>gnl|CDD|132409 TIGR03366, HpnZ_proposed, putative phosphonate catabolism
associated alcohol dehydrogenase. This clade of
zinc-binding alcohol dehydrogenases (members of
pfam00107) are repeatedly associated with genes proposed
to be involved with the catabolism of phosphonate
compounds.
Length = 280
Score = 26.7 bits (59), Expect = 3.5
Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 12/47 (25%)
Query: 25 LLELLGEPSN----------GGVIVWEGS--QGEFRLVDPDEVARRW 59
LE G + GG V GS G +DP++V RRW
Sbjct: 191 ALEFSGATAAVRACLESLDVGGTAVLAGSVFPGGPVALDPEQVVRRW 237
>gnl|CDD|184642 PRK14353, glmU, bifunctional N-acetylglucosamine-1-phosphate
uridyltransferase/glucosamine-1-phosphate
acetyltransferase; Provisional.
Length = 446
Score = 26.7 bits (60), Expect = 4.0
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 25 LLELLGEPSNGGVIVWEGSQGEFRLVDPDEVARRWGLR 62
L LL N + ++GE+ L D +AR GLR
Sbjct: 184 ALALLDRVGN------DNAKGEYYLTDIVAIARAEGLR 215
>gnl|CDD|237852 PRK14896, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Provisional.
Length = 258
Score = 26.4 bits (59), Expect = 4.3
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 54 EVARRWGLRKSKPNM-NYDKLSRALRYYYDKNIMTKV 89
E A R +KP Y +LS ++YY D I+ KV
Sbjct: 126 EFAERMV---AKPGTKEYGRLSVMVQYYADVEIVEKV 159
>gnl|CDD|214658 smart00430, HOLI, Ligand binding domain of hormone receptors.
Length = 163
Score = 26.2 bits (58), Expect = 5.0
Identities = 9/29 (31%), Positives = 12/29 (41%), Gaps = 5/29 (17%)
Query: 70 YDKLSRALRYYYDKNIMTKVHGKRYAYRF 98
+K + AL YY K + Y RF
Sbjct: 127 QEKYANALHDYY-----LKNYPMNYPGRF 150
>gnl|CDD|183887 PRK13194, PRK13194, pyrrolidone-carboxylate peptidase; Provisional.
Length = 208
Score = 26.0 bits (57), Expect = 5.6
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 52 PDEVARRWGLRKSKPNMNYD 71
PD+V + G K+ P+M +
Sbjct: 171 PDQVIEKIGKGKNTPSMCLE 190
>gnl|CDD|233116 TIGR00757, RNaseEG, ribonuclease, Rne/Rng family. This model
describes ribonuclease G (formerly CafA, cytoplasmic
axial filament protein A), the N-terminal domain of
ribonuclease E in which ribonuclease activity resides,
and related proteins. In E. coli, both RNase E and RNase
G have been shown to play a role in the maturation of
the 5' end of 16S RNA. The C-terminal half of RNase E
(excluded from the seed alignment for this model) lacks
ribonuclease activity but participates in mRNA
degradation by organizing the degradosome
[Transcription, Degradation of RNA].
Length = 414
Score = 26.1 bits (58), Expect = 6.7
Identities = 21/91 (23%), Positives = 37/91 (40%), Gaps = 13/91 (14%)
Query: 7 AVSRGLSGSGGQVQLWQFLLELLGEPSNGGVIV---WEGSQGEFRLVDPDEVARRWGL-- 61
VSR + + +L + LL P G+I+ EG+ E + D + + R+W
Sbjct: 127 GVSRRIESEEERERLKK-LLRSEELPEGMGLIIRTAAEGASEEALIKDLEYLLRKWEKIK 185
Query: 62 -RKSKPNMNY------DKLSRALRYYYDKNI 85
+ K D + R +R Y D ++
Sbjct: 186 EKAQKRPAPCLLYGEPDIIKRVIRDYLDTDV 216
>gnl|CDD|238760 cd01483, E1_enzyme_family, Superfamily of activating enzymes (E1)
of the ubiquitin-like proteins. This family includes
classical ubiquitin-activating enzymes E1,
ubiquitin-like (ubl) activating enzymes and other
mechanistic homologes, like MoeB, Thif1 and others. The
common reaction mechanism catalyzed by MoeB, ThiF and
the E1 enzymes begins with a nucleophilic attack of the
C-terminal carboxylate of MoaD, ThiS and ubiquitin,
respectively, on the alpha-phosphate of an ATP molecule
bound at the active site of the activating enzymes,
leading to the formation of a high-energy acyladenylate
intermediate and subsequently to the formation of a
thiocarboxylate at the C termini of MoaD and ThiS.
Length = 143
Score = 25.3 bits (56), Expect = 7.6
Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 7/51 (13%)
Query: 45 GEFRLVDPDEV-----ARRWGLRKSKPNMNYDKLSRALRYYYDKNIMTKVH 90
G+ L+D D V R++ R++ K A R + N V
Sbjct: 24 GKITLIDFDTVELSNLNRQFLARQADIGKP--KAEVAARRLNELNPGVNVT 72
>gnl|CDD|184588 PRK14243, PRK14243, phosphate transporter ATP-binding protein;
Provisional.
Length = 264
Score = 25.9 bits (57), Expect = 7.7
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 50 VDPDEVARRWGLRKSKPN 67
VDP EV RR G+ KPN
Sbjct: 84 VDPVEVRRRIGMVFQKPN 101
>gnl|CDD|227260 COG4923, COG4923, Predicted nuclease (RNAse H fold) [General
function prediction only].
Length = 245
Score = 25.7 bits (56), Expect = 8.1
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 2 YELACAVSRGLSGSGGQVQLW 22
Y A V+R SG G +Q W
Sbjct: 102 YGRASEVNRATSGKGVSIQAW 122
>gnl|CDD|218552 pfam05316, VAR1, Mitochondrial ribosomal protein (VAR1). This
family consists of the yeast mitochondrial ribosomal
proteins VAR1. Mitochondria possess their own ribosomes
responsible for the synthesis of a small number of
proteins encoded by the mitochondrial genome. In yeast
the two ribosomal RNAs and a single ribosomal protein,
VAR1, are products of mitochondrial genes, and the
remaining approximately 80 ribosomal proteins are
encoded in the nucleus. VAR1 along with 15S rRNA are
necessary for the formation of mature 37S subunits.
Length = 350
Score = 25.7 bits (56), Expect = 9.7
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 67 NMNYDKLSRALRYYYDKNIMTKVHGKRYAY 96
N N + +S L YYY+K ++ + +Y Y
Sbjct: 154 NNNMNNISNILSYYYNKKVIIESIKLKYHY 183
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
0.320 0.137 0.420
Gapped
Lambda K H
0.267 0.0702 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,652,708
Number of extensions: 590677
Number of successful extensions: 554
Number of sequences better than 10.0: 1
Number of HSP's gapped: 552
Number of HSP's successfully gapped: 26
Length of query: 130
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 44
Effective length of database: 7,123,158
Effective search space: 313418952
Effective search space used: 313418952
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 (21.8 bits)
S2: 53 (24.2 bits)