RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9053
(168 letters)
>gnl|CDD|203338 pfam05856, ARPC4, ARP2/3 complex 20 kDa subunit (ARPC4). This
family consists of several eukaryotic ARP2/3 complex 20
kDa subunit (P20-ARC) proteins. The Arp2/3 protein
complex has been implicated in the control of actin
polymerisation in cells. The human complex consists of
seven subunits which include the actin related proteins
Arp2 and Arp3 it has been suggested that the complex
promotes actin assembly in lamellipodia and may
participate in lamellipodial protrusion.
Length = 168
Score = 295 bits (758), Expect = e-104
Identities = 124/168 (73%), Positives = 147/168 (87%)
Query: 1 MSSTLMPYLKVVRHTLNAAMCLENFSSQVVERHNKPEVEVRTSKELLLTPVLISRNEKEK 60
M++TL PYL VR TL AA+CL NF SQVVERHNKPEVEV +SKELLL P++ISR+EKE+
Sbjct: 1 MAATLRPYLDAVRRTLTAALCLRNFPSQVVERHNKPEVEVNSSKELLLNPLVISRSEKER 60
Query: 61 VLIEGSINSVRISIAVKQADEIEKILCHKFMRFMMMRAENFIVLRRKPIEGYDISFLITN 120
LIE SINSVR+SI +KQADEIE+IL KF RF+M RA+ F++LRRKP+EGYDISFLITN
Sbjct: 61 CLIEPSINSVRVSIKIKQADEIERILARKFTRFLMQRADAFVILRRKPVEGYDISFLITN 120
Query: 121 FHTEQMYKHKLVDFVLHFMEEIDKEISEMKLAVNARARICSEEFLKRF 168
HTEQM KHKLVDF++ FMEEIDKEISEMKL++N+RARI +EEFLK+F
Sbjct: 121 EHTEQMGKHKLVDFIITFMEEIDKEISEMKLSLNSRARIVAEEFLKQF 168
>gnl|CDD|240342 PTZ00278, PTZ00278, ARP2/3 complex subunit; Provisional.
Length = 174
Score = 242 bits (619), Expect = 4e-83
Identities = 105/172 (61%), Positives = 133/172 (77%), Gaps = 4/172 (2%)
Query: 1 MSSTLMPYLKVVRHTLNAAMCLENFSSQVVERHNKPEVEV----RTSKELLLTPVLISRN 56
M++T PY +R TL AA+CL NF SQ++ERHNKPEVE+ SKEL+L P+ I R+
Sbjct: 1 MATTYQPYYDCIRKTLEAALCLGNFPSQIIERHNKPEVELNGYEGKSKELVLNPIYIVRS 60
Query: 57 EKEKVLIEGSINSVRISIAVKQADEIEKILCHKFMRFMMMRAENFIVLRRKPIEGYDISF 116
EKEK LIE SINSVRIS + K++DE++ I+ KF+ F+ RAE F++LRRKPI GYDISF
Sbjct: 61 EKEKCLIEPSINSVRISFSFKKSDELDVIIARKFVSFLAQRAEQFVILRRKPIPGYDISF 120
Query: 117 LITNFHTEQMYKHKLVDFVLHFMEEIDKEISEMKLAVNARARICSEEFLKRF 168
LITNFHTE M+KHKL+DF++ FME+IDK+IS+MKL VN RARI + EF K
Sbjct: 121 LITNFHTENMFKHKLIDFIIDFMEDIDKDISDMKLNVNTRARIAAPEFFKAL 172
>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed.
Length = 390
Score = 28.3 bits (64), Expect = 1.8
Identities = 25/108 (23%), Positives = 39/108 (36%), Gaps = 15/108 (13%)
Query: 22 LENFSSQVVERHNKPEVEVRTSKELLLTPVLISRNEKEKVLIEG---SINSVRISIAVKQ 78
LE +S ++ E KP V +LL E+ K ++E IS A
Sbjct: 266 LEKYSPKLAE---KPRWLVFNKIDLLDEE---EAEERAKAIVEALGWEGPVYLISAASGL 319
Query: 79 ADEIEKILCHKFMRFMMMRAENFIVLRRKPIEGYDISFLITNFHTEQM 126
K LC M F+ P + + F+ ++H EQ+
Sbjct: 320 G---VKELCWDLMTFIEENPREEAEEAEAPEK---VEFMWDDYHREQL 361
>gnl|CDD|178115 PLN02499, PLN02499, glycerol-3-phosphate acyltransferase.
Length = 498
Score = 27.1 bits (60), Expect = 4.7
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 9/70 (12%)
Query: 103 VLRRK-PIEGYDISFL---ITNFHTEQMYKHKLVDFVLHFMEEIDKEISEMKLAVNARAR 158
VL R P Y IS L ++ T ++ + + VD E+I +E++ L V
Sbjct: 308 VLGRSIPAVTYSISRLSEILSPIPTVRLTRIRDVD-----AEKIKRELARGDLVVCPEGT 362
Query: 159 ICSEEFLKRF 168
C E FL RF
Sbjct: 363 TCREPFLLRF 372
>gnl|CDD|233397 TIGR01405, polC_Gram_pos, DNA polymerase III, alpha chain,
Gram-positive type. This model describes a polypeptide
chain of DNA polymerase III. Full-length homologs of
this protein are restricted to the Gram-positive
lineages, including the Mycoplasmas. This protein is
designated alpha chain and given the gene symbol polC,
but is not a full-length homolog of other polC genes.
The N-terminal region of about 200 amino acids is rich
in low-complexity sequence, poorly alignable, and not
included n this model [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1213
Score = 27.0 bits (60), Expect = 6.6
Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 9/81 (11%)
Query: 5 LMPYLKVVRHTLNAAMCLENFSSQVVERHNKPEVEVRTSKELLLTPVLISRNEKEKVLIE 64
+ P K+ R L A+ L N ++ PE+ RT+ E+L + + ++++E
Sbjct: 510 IEPEDKIYRKILVASQGLGNPLNRHFNPKEVPELHFRTTNEMLDEFSFLGEEKAYEIVVE 569
Query: 65 GSINSVRISIAVKQADEIEKI 85
N+ +I AD+IE+I
Sbjct: 570 ---NTNKI------ADQIEEI 581
>gnl|CDD|163665 cd07422, MPP_ApaH, Escherichia coli ApaH and related proteins,
metallophosphatase domain. ApaH (also known as
symmetrically cleaving Ap4A hydrolase and
bis(5'nucleosyl)-tetraphosphatase) is a bacterial member
of the PPP (phosphoprotein phosphatase) family of
serine/threonine phosphatases that hydrolyzes the
nucleotide-signaling molecule diadenosine tetraphosphate
(Ap(4)A) into two ADP and also hydrolyzes Ap(5)A,
Gp(4)G, and other extending compounds. Null mutations
in apaH result in high intracellular levels of Ap(4)A
which correlate with multiple phenotypes, including a
decreased expression of catabolite-repressible genes, a
reduction in the expression of flagellar operons, and an
increased sensitivity to UV and heat. Ap4A hydrolase
is important in responding to heat shock and oxidative
stress via regulating the concentration of Ap4A in
bacteria. Ap4A hydrolase is also thought to play a role
in siderophore production, but the mechanism by which
ApaH interacts with siderophore pathways in unknown.
The PPP (phosphoprotein phosphatase) family, to which
ApaH belongs, is one of two known protein phosphatase
families specific for serine and threonine. The PPP
family also includes: PP1, PP2A, PP2B (calcineurin),
PP4, PP5, PP6, PP7, Bsu1, RdgC, PrpE, and PrpA/PrpB. The
PPP catalytic domain is defined by three conserved
motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The PPP enzyme
family is ancient with members found in all eukaryotes,
and in most bacterial and archeal genomes.
Dephosphorylation of phosphoserines and
phosphothreonines on target proteins plays a central
role in the regulation of many cellular processes. PPPs
belong to the metallophosphatase (MPP) superfamily.
MPPs are functionally diverse, but all share a conserved
domain with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 257
Score = 26.3 bits (59), Expect = 8.2
Identities = 9/27 (33%), Positives = 14/27 (51%), Gaps = 4/27 (14%)
Query: 72 ISIAVKQADEIEKILC----HKFMRFM 94
I A+K A E+E L +F++ M
Sbjct: 127 IEQALKLAREVEAALRGPNYREFLKNM 153
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
0.325 0.136 0.375
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,566,648
Number of extensions: 807799
Number of successful extensions: 869
Number of sequences better than 10.0: 1
Number of HSP's gapped: 868
Number of HSP's successfully gapped: 29
Length of query: 168
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 78
Effective length of database: 6,945,742
Effective search space: 541767876
Effective search space used: 541767876
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.0 bits)