RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2593
(139 letters)
>gnl|CDD|240343 PTZ00280, PTZ00280, Actin-related protein 3; Provisional.
Length = 414
Score = 128 bits (323), Expect = 2e-36
Identities = 44/61 (72%), Positives = 52/61 (85%)
Query: 34 HSSGCFYFYPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTA 93
S YP++HG+VEDWDLME+F+EQCIFKYLR EPE+HYF+LTEPP+N PENREYTA
Sbjct: 63 ASKSYTLTYPMKHGIVEDWDLMEKFWEQCIFKYLRCEPEEHYFILTEPPMNPPENREYTA 122
Query: 94 E 94
E
Sbjct: 123 E 123
Score = 75.2 bits (185), Expect = 7e-17
Identities = 25/46 (54%), Positives = 30/46 (65%)
Query: 94 EREIGIPPEQSLETAKAIKERYSYICPDIAKEFAKYDADPGKWMRK 139
ER IP E L A+ IKE+Y Y+ PDIAKEF KYD+DP +K
Sbjct: 207 ERGEPIPAEDILLLAQRIKEKYCYVAPDIAKEFEKYDSDPKNHFKK 252
>gnl|CDD|214592 smart00268, ACTIN, Actin. ACTIN subfamily of
ACTIN/mreB/sugarkinase/Hsp70 superfamily.
Length = 373
Score = 89.6 bits (223), Expect = 4e-22
Identities = 28/62 (45%), Positives = 37/62 (59%)
Query: 34 HSSGCFYFYPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTA 93
G YP+ +G+VE+WD ME+ ++ F LR EPE+H LLTEPP+N NRE
Sbjct: 56 KRGGLELKYPIENGIVENWDDMEKIWDYTFFNELRVEPEEHPVLLTEPPMNPKSNREKIL 115
Query: 94 ER 95
E
Sbjct: 116 EI 117
Score = 35.3 bits (82), Expect = 0.005
Identities = 10/45 (22%), Positives = 14/45 (31%)
Query: 93 AEREIGIPPEQSLETAKAIKERYSYICPDIAKEFAKYDADPGKWM 137
+ER E + IKE+ Y+ D KE
Sbjct: 189 SERGYQFNSSAEFEIVREIKEKLCYVAEDFEKEMKLARESSESSK 233
>gnl|CDD|200935 pfam00022, Actin, Actin.
Length = 367
Score = 76.1 bits (188), Expect = 3e-17
Identities = 29/53 (54%), Positives = 37/53 (69%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAE 94
YP+ G+VE+WD ME+ +E F+ LR +PE+H LLTEPPLN P NRE E
Sbjct: 62 YPIEDGIVENWDAMEKIWEHTFFEELRVDPEEHPLLLTEPPLNPPANREKATE 114
>gnl|CDD|227602 COG5277, COG5277, Actin and related proteins [Cytoskeleton].
Length = 444
Score = 62.4 bits (152), Expect = 2e-12
Identities = 25/55 (45%), Positives = 34/55 (61%), Gaps = 2/55 (3%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFK--YLRAEPEDHYFLLTEPPLNTPENREYTAE 94
YP+ +G++ +WD ME+ ++ F L PE+H LLTEPPLN P NRE E
Sbjct: 73 YPIENGIILNWDAMEQIWDYTFFNKGDLLPSPEEHPLLLTEPPLNPPSNREKITE 127
>gnl|CDD|173506 PTZ00281, PTZ00281, actin; Provisional.
Length = 376
Score = 59.7 bits (144), Expect = 2e-11
Identities = 24/49 (48%), Positives = 31/49 (63%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENRE 90
YP+ HG+V +WD ME+ + + LR PE+H LLTE PLN NRE
Sbjct: 70 YPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANRE 118
>gnl|CDD|240225 PTZ00004, PTZ00004, actin-2; Provisional.
Length = 378
Score = 54.0 bits (130), Expect = 2e-09
Identities = 24/53 (45%), Positives = 32/53 (60%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAE 94
YP+ HG+V +WD ME+ + + LR PE+H LLTE PLN NRE +
Sbjct: 70 YPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQ 122
>gnl|CDD|240426 PTZ00466, PTZ00466, actin-like protein; Provisional.
Length = 380
Score = 53.4 bits (128), Expect = 3e-09
Identities = 21/53 (39%), Positives = 34/53 (64%), Gaps = 1/53 (1%)
Query: 42 YPVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENREYTAE 94
YP+ HG++E+W+ ME + ++ ++ E+H LLTE PLN +N+E AE
Sbjct: 76 YPINHGIIENWNDMENIWIH-VYNSMKINSEEHPVLLTEAPLNPQKNKEKIAE 127
>gnl|CDD|212657 cd00012, NBD_sugar-kinase_HSP70_actin, Nucleotide-Binding Domain of
the sugar kinase/HSP70/actin superfamily. This
superfamily includes the actin family, the HSP70 family
of molecular chaperones and nucleotide exchange factors,
the ROK (repressor, ORF, kinase) family, the hexokinase
family, the FGGY family (which includes glycerol kinase
and similar carbohydrate kinases such as rhamnulokinase
and xylulokinase), the exopolyphosphatase/guanosine
pentaphosphate phosphohydrolase/nucleoside triphosphate
diphosphohydrolase family, propionate kinase/acetate
kinase family, glycerol dehydratase reactivase,
2-hydroxyglutaryl-CoA dehydratase component A,
N-acetylglucosamine kinase, butyrate kinase 2,
Escherichia coli YeaZ and similar glycoproteases, the
cell shape-determining protein MreB, the plasmid DNA
segregation factor ParM, cell cycle proteins FtsA, Pili
assembly protein PilM, ethanolamine utilization protein
EutJ, and similar proteins. The nucleotide-binding site
residues are conserved; the nucleotide sits in a deep
cleft formed between the two lobes of the
nucleotide-binding domain (NBD). Substrate binding to
superfamily members is associated with closure of this
catalytic site cleft. The functional activities of
several members of the superfamily, including
hexokinases, actin, and HSP70s, are modulated by
allosteric effectors, which may act on the cleft
closure.
Length = 185
Score = 39.9 bits (93), Expect = 9e-05
Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 2/64 (3%)
Query: 47 GLVEDWDLMERFFEQCIFKYLR-AEPEDHYFLLTEPPLNTPENREYT-AEREIGIPPEQS 104
G V D D +E + + + LR + E +TEP ENRE + IP +
Sbjct: 35 GAVTDLDELEEALRELLKEALRQLKSEIDAVGITEPGGVPKENREVIILPNLLLIPLALA 94
Query: 105 LETA 108
LE
Sbjct: 95 LEDL 98
>gnl|CDD|185631 PTZ00452, PTZ00452, actin; Provisional.
Length = 375
Score = 39.7 bits (92), Expect = 2e-04
Identities = 15/48 (31%), Positives = 27/48 (56%)
Query: 43 PVRHGLVEDWDLMERFFEQCIFKYLRAEPEDHYFLLTEPPLNTPENRE 90
P+++G++ WD +E + + L PED +T+ P+N+ NRE
Sbjct: 70 PIQNGIINSWDDIEIIWHHAFYNELCMSPEDQPVFMTDAPMNSKFNRE 117
>gnl|CDD|238624 cd01299, Met_dep_hydrolase_A, Metallo-dependent hydrolases,
subgroup A is part of the superfamily of
metallo-dependent hydrolases, a large group of proteins
that show conservation in their 3-dimensional fold (TIM
barrel) and in details of their active site. The vast
majority of the members have a conserved metal binding
site, involving four histidines and one aspartic acid
residue. In the common reaction mechanism, the metal ion
(or ions) deprotonate a water molecule for a
nucleophilic attack on the substrate. The function of
this subgroup is unknown.
Length = 342
Score = 29.2 bits (66), Expect = 0.68
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 106 ETAKAIKERYSYICPDIA--KEFAKYDADPG 134
ET + +KE+ ++ P +A + A A PG
Sbjct: 206 ETIELMKEKGIFLVPTLATYEALAAEGAAPG 236
>gnl|CDD|133065 cd06915, NTP_transferase_WcbM_like, WcbM_like is a subfamily of
nucleotidyl transferases. WcbM protein of Burkholderia
mallei is involved in the biosynthesis, export or
translocation of capsule. It is a subfamily of
nucleotidyl transferases that transfer nucleotides onto
phosphosugars.
Length = 223
Score = 28.3 bits (64), Expect = 1.1
Identities = 12/74 (16%), Positives = 20/74 (27%), Gaps = 26/74 (35%)
Query: 41 FYPVRHGLVEDWDLMERFFEQCIFK------YLRAEPEDHYFLLTEPPLNTPENREYTAE 94
Y +R ++ + E + L D YF+
Sbjct: 169 VYLLRKEILAEIPADAFSLEADVLPALVKRGRLYGFEVDGYFI----------------- 211
Query: 95 REIGIPPEQSLETA 108
+IGIP + A
Sbjct: 212 -DIGIP--EDYARA 222
>gnl|CDD|218053 pfam04383, KilA-N, KilA-N domain. The amino-terminal module of the
D6R/N1R proteins defines a novel, conserved DNA-binding
domain (the KilA-N domain) that is found in a wide range
of proteins of large bacterial and eukaryotic DNA
viruses. The KilA-N domain family also includes the
previously defined APSES domain. The KilA-N and APSES
domains may also share a common fold with the nucleic
acid-binding modules of the LAGLIDADG nucleases and the
amino-terminal domains of the tRNA endonuclease.
Length = 106
Score = 27.3 bits (61), Expect = 1.6
Identities = 10/51 (19%), Positives = 16/51 (31%), Gaps = 4/51 (7%)
Query: 83 LNTPENREY--TAEREIGIPPEQSLETAKAIKERYS--YICPDIAKEFAKY 129
L +E + +E K R Y+ PD+A A +
Sbjct: 37 LRLESTKELIEELSKINNPDKLIVIEGRKGKNGRLQGTYVHPDLALAIASW 87
>gnl|CDD|202716 pfam03646, FlaG, FlaG protein. Although important for flagella the
exact function of this protein is unknown.
Length = 107
Score = 26.8 bits (60), Expect = 2.4
Identities = 7/19 (36%), Positives = 13/19 (68%), Gaps = 2/19 (10%)
Query: 95 REIGIPPEQSLETAKAIKE 113
R+I P E++L+ A ++E
Sbjct: 82 RQI--PSEEALDLAAKLRE 98
>gnl|CDD|232793 TIGR00039, 6PTHBS, 6-pyruvoyl tetrahydropterin synthase/QueD family
protein. This model has been downgraded from
hypothetical_equivalog to subfamily. The animal enzymes
are known to be 6-pyruvoyl tetrahydropterin synthase.
The function of the bacterial branch of the sequence
lineage had been thought to be the same, but many are
now taken to be QueD, and enzyme of queuosine
biosynthesis. Queuosine is a hypermodified base in the
wobble position of some tRNAs in most species. A new
model is built to be the QueD equivalog model [Protein
synthesis, tRNA and rRNA base modification].
Length = 124
Score = 25.4 bits (56), Expect = 8.2
Identities = 12/50 (24%), Positives = 18/50 (36%), Gaps = 6/50 (12%)
Query: 63 IFKYLRAEPEDHYFLLTEPPLNTPENRE------YTAEREIGIPPEQSLE 106
I K + EP DH L + E + +E IP E ++
Sbjct: 57 IVKEVIDEPLDHKLLNDDVNYLENPTSENVAVYIFDNLKEYLIPVENLVK 106
>gnl|CDD|227804 COG5517, COG5517, Small subunit of phenylpropionate dioxygenase
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 164
Score = 25.5 bits (56), Expect = 9.5
Identities = 8/40 (20%), Positives = 15/40 (37%), Gaps = 5/40 (12%)
Query: 39 FYFYPVRHGLVEDWDL---MERFFEQCIFKYLRAEPEDHY 75
F + L++D D + +F EQ + + E
Sbjct: 13 FLYREAE--LLDDRDWDAWLAQFDEQAEYWMPPWDDEQTL 50
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
0.321 0.137 0.460
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,338,060
Number of extensions: 653325
Number of successful extensions: 662
Number of sequences better than 10.0: 1
Number of HSP's gapped: 660
Number of HSP's successfully gapped: 24
Length of query: 139
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 52
Effective length of database: 7,078,804
Effective search space: 368097808
Effective search space used: 368097808
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: 54 (24.5 bits)