RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3208
(144 letters)
>gnl|CDD|238492 cd00992, PDZ_signaling, PDZ domain found in a variety of
Eumetazoan signaling molecules, often in tandem
arrangements. May be responsible for specific
protein-protein interactions, as most PDZ domains bind
C-terminal polypeptides, and binding to internal
(non-C-terminal) polypeptides and even to lipids has
been demonstrated. In this subfamily of PDZ domains an
N-terminal beta-strand forms the peptide-binding groove
base, a circular permutation with respect to PDZ
domains found in proteases.
Length = 82
Score = 54.5 bits (132), Expect = 8e-11
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 8 IVIRSLVPGGVAQLDARLIPGDRLLSVNETDLNNASLDQAVQALKGAPRGIV 59
I + + PGG A+ L GDR+L VN + + ++AV+ LK + +
Sbjct: 28 IFVSRVEPGGPAER-GGLRVGDRILEVNGVSVEGLTHEEAVELLKNSGDEVT 78
>gnl|CDD|214570 smart00228, PDZ, Domain present in PSD-95, Dlg, and ZO-1/2. Also
called DHR (Dlg homologous region) or GLGF (relatively
well conserved tetrapeptide in these domains). Some
PDZs have been shown to bind C-terminal polypeptides;
others appear to bind internal (non-C-terminal)
polypeptides. Different PDZs possess different binding
specificities.
Length = 85
Score = 48.9 bits (117), Expect = 1e-08
Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 1 MNPNETVIVIRSLVPGGVAQLDARLIPGDRLLSVNETDLNNASLDQAVQALKGAPRGIVK 60
+V+ S+VPG A A L GD +L VN T + + +AV LK A G V
Sbjct: 21 GKDEGGGVVVSSVVPGSPAAK-AGLRVGDVILEVNGTSVEGLTHLEAVDLLKKAG-GKVT 78
Query: 61 IGVAKP 66
+ V +
Sbjct: 79 LTVLRG 84
>gnl|CDD|238080 cd00136, PDZ, PDZ domain, also called DHR (Dlg homologous region)
or GLGF (after a conserved sequence motif). Many PDZ
domains bind C-terminal polypeptides, though binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. Heterodimerization
through PDZ-PDZ domain interactions adds to the
domain's versatility, and PDZ domain-mediated
interactions may be modulated dynamically through
target phosphorylation. Some PDZ domains play a role in
scaffolding supramolecular complexes. PDZ domains are
found in diverse signaling proteins in bacteria,
archebacteria, and eurkayotes. This CD contains two
distinct structural subgroups with either a N- or
C-terminal beta-strand forming the peptide-binding
groove base. The circular permutation placing the
strand on the N-terminus appears to be found in
Eumetazoa only, while the C-terminal variant is found
in all three kingdoms of life, and seems to co-occur
with protease domains. PDZ domains have been named
after PSD95(post synaptic density protein), DlgA
(Drosophila disc large tumor suppressor), and ZO1, a
mammalian tight junction protein.
Length = 70
Score = 48.5 bits (116), Expect = 1e-08
Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 4 NETVIVIRSLVPGGVAQLDARLIPGDRLLSVNETDLNNASLDQAVQALKGAPRGIVKIGV 63
E +V+ S+ PG A+ A L GD +L+VN TD+ N +L+ + LK V + V
Sbjct: 11 TEGGVVVLSVEPGSPAER-AGLQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEKVTLTV 69
>gnl|CDD|201332 pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ
domains are found in diverse signaling proteins.
Length = 80
Score = 46.1 bits (110), Expect = 1e-07
Identities = 25/64 (39%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 1 MNPNETVIVIRSLVPGGVAQLDARLIPGDRLLSVNETDLNNASLDQAVQALKGAPRGIVK 60
+ + I + ++PGG A+ L GDR+LS+N DL N S D+AV ALKG G V
Sbjct: 19 GSDGDPGIFVSEVLPGGAAEAGG-LQEGDRILSINGQDLENLSHDEAVLALKG-SGGEVT 76
Query: 61 IGVA 64
+ +
Sbjct: 77 LTIL 80
>gnl|CDD|232883 TIGR00225, prc, C-terminal peptidase (prc). A C-terminal peptidase
with different substrates in different species including
processing of D1 protein of the photosystem II reaction
center in higher plants and cleavage of a peptide of 11
residues from the precursor form of penicillin-binding
protein in E.coli E.coli and H influenza have the most
distal branch of the tree and their proteins have an
N-terminal 200 amino acids that show no homology to
other proteins in the database [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Protein fate, Protein modification and repair].
Length = 334
Score = 41.2 bits (97), Expect = 5e-05
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 1 MNPNETVIVIRSLVPGGVAQLDARLIPGDRLLSVNETDLNNASLDQAVQALKGAPRGIVK 60
M+ E VIV S G A A + PGD+++ +N + SLD AV ++G V
Sbjct: 59 MDDGEIVIV--SPFEGSPA-EKAGIKPGDKIIKINGKSVAGMSLDDAVALIRGKKGTKVS 115
Query: 61 IGVAKP 66
+ + +
Sbjct: 116 LEILRA 121
>gnl|CDD|238488 cd00988, PDZ_CTP_protease, PDZ domain of C-terminal processing-,
tail-specific-, and tricorn proteases, which function
in posttranslational protein processing, maturation,
and disassembly or degradation, in Bacteria, Archaea,
and plant chloroplasts. May be responsible for
substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, and binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal
beta-strand forms the peptide-binding groove base, a
circular permutation with respect to PDZ domains found
in Eumetazoan signaling proteins.
Length = 85
Score = 38.0 bits (89), Expect = 1e-04
Identities = 16/63 (25%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 8 IVIRSLVPGGVAQLDARLIPGDRLLSVNETDLNNASLDQAVQALKGAPRGIVKIGVAKPL 67
+VI S++PG A A + GD +++++ ++ SL+ V+ L+G V++ + +
Sbjct: 15 LVITSVLPGSPA-AKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRGKAGTKVRLTLKRGD 73
Query: 68 PIP 70
P
Sbjct: 74 GEP 76
>gnl|CDD|236873 PRK11186, PRK11186, carboxy-terminal protease; Provisional.
Length = 667
Score = 38.3 bits (90), Expect = 6e-04
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 6/55 (10%)
Query: 8 IVIRSLVPGGVAQLDARLIPGDRLLSVNET-----DLNNASLDQAVQALKGAPRG 57
VI SLV GG A +L GD+++ V + D+ LD V +KG P+G
Sbjct: 257 TVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLDDVVALIKG-PKG 310
>gnl|CDD|223821 COG0750, COG0750, Predicted membrane-associated Zn-dependent
proteases 1 [Cell envelope biogenesis, outer membrane].
Length = 375
Score = 33.6 bits (77), Expect = 0.023
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 9 VIRSLVPGGVAQLDARLIPGDRLLSVNETDLNNA-SLDQAVQALKGAPRGIVKIGVA 64
V+ + P A L L PGDR+++V+ + + + + + A G ++ I V
Sbjct: 132 VVGEVAPKSAAALAG-LRPGDRIVAVDGEKVASWDDVRRLLVAAAGDVFNLLTILVI 187
>gnl|CDD|223864 COG0793, Prc, Periplasmic protease [Cell envelope biogenesis, outer
membrane].
Length = 406
Score = 33.1 bits (76), Expect = 0.036
Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 8 IVIRSLVPGGVAQLDARLIPGDRLLSVNETDLNNASLDQAVQALKGAPRGIVKIGV 63
+ + S + G A A + PGD ++ ++ + SLD+AV+ ++G P V + +
Sbjct: 114 VKVVSPIDGSPAAK-AGIKPGDVIIKIDGKSVGGVSLDEAVKLIRGKPGTKVTLTI 168
>gnl|CDD|238489 cd00989, PDZ_metalloprotease, PDZ domain of bacterial and plant
zinc metalloprotases, presumably membrane-associated or
integral membrane proteases, which may be involved in
signalling and regulatory mechanisms. May be
responsible for substrate recognition and/or binding,
as most PDZ domains bind C-terminal polypeptides, and
binding to internal (non-C-terminal) polypeptides and
even to lipids has been demonstrated. In this subfamily
of protease-associated PDZ domains a C-terminal
beta-strand forms the peptide-binding groove base, a
circular permutation with respect to PDZ domains found
in Eumetazoan signaling proteins.
Length = 79
Score = 30.7 bits (70), Expect = 0.063
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 9 VIRSLVPGGVAQLDARLIPGDRLLSVNETDLNNAS-LDQAVQALKGAP 55
VI +VPG A A L GDR+L++N + + L AVQ G P
Sbjct: 15 VIGEVVPGSPAAK-AGLKAGDRILAINGQKIKSWEDLVDAVQENPGKP 61
>gnl|CDD|218673 pfam05642, Sporozoite_P67, Sporozoite P67 surface antigen. This
family consists of several Theileria P67 surface
antigens. A stage specific surface antigen of Theileria
parva, p67, is the basis for the development of an
anti-sporozoite vaccine for the control of East Coast
fever (ECF) in cattle. The antigen has been shown to
contain five distinct linear peptide sequences
recognised by sporozoite-neutralising murine monoclonal
antibodies.
Length = 727
Score = 31.6 bits (71), Expect = 0.12
Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 1/55 (1%)
Query: 80 AGPGLGANGLGAAPGLGSNGLGSGLGSNGLGSGLGSGPGEYYNDTEEQEDTEHTS 134
A PG+G G +PG+G GLG G L S G+ +D E D
Sbjct: 207 ALPGVGVGRAGVSPGVGVGGLGGVPGVGILASNTSR-EGQTQDDQERDGDGRVIE 260
Score = 26.6 bits (58), Expect = 5.7
Identities = 19/55 (34%), Positives = 22/55 (40%), Gaps = 1/55 (1%)
Query: 82 PGLGANGLGAAPGLGSNGLGSGLGSNGLGSGLGSGPGEYYNDTEEQEDTEHTSSE 136
PGLG G+G PG G G G+G G G G G +TS E
Sbjct: 190 PGLGVPGVG-VPGGGGAGALPGVGVGRAGVSPGVGVGGLGGVPGVGILASNTSRE 243
>gnl|CDD|238487 cd00987, PDZ_serine_protease, PDZ domain of tryspin-like serine
proteases, such as DegP/HtrA, which are oligomeric
proteins involved in heat-shock response, chaperone
function, and apoptosis. May be responsible for
substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, though binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal
beta-strand forms the peptide-binding groove base, a
circular permutation with respect to PDZ domains found
in Eumetazoan signaling proteins.
Length = 90
Score = 29.9 bits (68), Expect = 0.15
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 8 IVIRSLVPGGVAQLDARLIPGDRLLSVNETDLNN-ASLDQAVQALKGAPRGIVKIGV 63
+++ S+ PG A A L PGD +L+VN + + A L +A+ LK P V + V
Sbjct: 26 VLVASVDPGSPAA-KAGLKPGDVILAVNGKPVKSVADLRRALAELK--PGDKVTLTV 79
>gnl|CDD|184887 PRK14893, PRK14893, V-type ATP synthase subunit K; Provisional.
Length = 161
Score = 29.1 bits (65), Expect = 0.63
Identities = 15/32 (46%), Positives = 19/32 (59%)
Query: 85 GANGLGAAPGLGSNGLGSGLGSNGLGSGLGSG 116
G GL GL + G G+ +G GLGSG+G G
Sbjct: 81 GGEGLSVTAGLVAIGAGAAIGFAGLGSGMGQG 112
>gnl|CDD|217255 pfam02862, DDHD, DDHD domain. The DDHD domain is 180 residues long
and contains four conserved residues that may form a
metal binding site. The domain is named after these four
residues. This pattern of conservation of metal binding
residues is often seen in phosphoesterase domains. This
domain is found in retinal degeneration B proteins, as
well as a family of probable phospholipases. It has been
shown that this domain is found in a longer C terminal
region that binds to PYK2 tyrosine kinase. These
proteins have been called N-terminal domain-interacting
receptor (Nir1, Nir2 and Nir3). This suggests that this
region is involved in functionally important
interactions in other members of this family.
Length = 219
Score = 28.5 bits (64), Expect = 1.1
Identities = 11/79 (13%), Positives = 22/79 (27%)
Query: 65 KPLPIPDSSCSQVSHAGPGLGANGLGAAPGLGSNGLGSGLGSNGLGSGLGSGPGEYYNDT 124
KP+ IP + S++ +G A G G+ S D
Sbjct: 75 KPVLIPHAKKSKLGALELLESLTNIGKAVKQSVGSTTWGAGNEIASGLRNSSASRSSTDE 134
Query: 125 EEQEDTEHTSSENLHKSDS 143
+ + + + +
Sbjct: 135 KSADSSTISRLSPSNVELE 153
>gnl|CDD|215598 PLN03138, PLN03138, Protein TOC75; Provisional.
Length = 796
Score = 28.7 bits (64), Expect = 1.2
Identities = 16/51 (31%), Positives = 19/51 (37%)
Query: 68 PIPDSSCSQVSHAGPGLGANGLGAAPGLGSNGLGSGLGSNGLGSGLGSGPG 118
++ S S G A +A G G G G G G G G G G G
Sbjct: 51 ASSSATSSSASLVANGAVALLSASAISGGGGGGGGGFGGFGGGGGGGGGGG 101
>gnl|CDD|224202 COG1283, NptA, Na+/phosphate symporter [Inorganic ion transport and
metabolism].
Length = 533
Score = 28.0 bits (63), Expect = 1.9
Identities = 17/47 (36%), Positives = 26/47 (55%)
Query: 16 GGVAQLDARLIPGDRLLSVNETDLNNASLDQAVQALKGAPRGIVKIG 62
G +A+ RLIPGD + L+ +LD V AL A R ++++G
Sbjct: 298 GLLARFVTRLIPGDEDDEIEPKHLDETALDSPVVALANAAREVLRLG 344
>gnl|CDD|240274 PTZ00112, PTZ00112, origin recognition complex 1 protein;
Provisional.
Length = 1164
Score = 27.3 bits (60), Expect = 4.2
Identities = 17/75 (22%), Positives = 25/75 (33%), Gaps = 4/75 (5%)
Query: 71 DSSCSQ--VSHAGPGLGANGLGAAPGLGSNGLGSGLGSNGLGSGLGSG--PGEYYNDTEE 126
DS A G N + G ++ SN LGS S P Y
Sbjct: 296 DSYVYSNHQKKAKTGDPKNIIHRNNGSSNSNNDDTSSSNHLGSNRISNRNPSSPYKKQTT 355
Query: 127 QEDTEHTSSENLHKS 141
+ T +T + +K+
Sbjct: 356 TKHTNNTKNNKYNKT 370
>gnl|CDD|236705 PRK10517, PRK10517, magnesium-transporting ATPase MgtA;
Provisional.
Length = 902
Score = 27.0 bits (60), Expect = 4.8
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 IRSLVPGGVAQLDA-RLIPGD-RLLSVNETDLNNASL 44
I LVPG + +L A +IP D R+L + + ASL
Sbjct: 180 IDQLVPGDIIKLAAGDMIPADLRILQARDLFVAQASL 216
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 26.5 bits (58), Expect = 7.4
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 84 LGANGLGAAPGLGSNGLGSGLGSNGLGSGLGSGPGEYYNDTEEQEDTEHTSSE 136
+ NG +P L SG +G G G G G + N E +D E ++E
Sbjct: 3792 VANNGF-CSPDLPQEKSNSGELESGTGLGSGVGAEDITNTLNEDDDLEELANE 3843
>gnl|CDD|182988 PRK11133, serB, phosphoserine phosphatase; Provisional.
Length = 322
Score = 25.7 bits (57), Expect = 9.5
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 42 ASLDQAVQALKGAPRGIVK 60
ASL Q V LKGA I++
Sbjct: 156 ASLRQRVATLKGADANILQ 174
>gnl|CDD|204339 pfam09922, DUF2154, Cell wall-active antibiotics response protein
(DUF2154).
Length = 115
Score = 25.3 bits (56), Expect = 10.0
Identities = 22/66 (33%), Positives = 25/66 (37%), Gaps = 10/66 (15%)
Query: 5 ETVIVIRS-------LVPGGVA-QLDARLIPGD-RLLSVNETDLNNASLDQAVQALKGAP 55
E VIVIR LVP V LD I G E L N S+ + A
Sbjct: 40 ENVIVIRKVFGDVKILVPSDVEVSLDHSAIYGGVDFFDEEEYGLRNESIRYRSENYDEAE 99
Query: 56 RGIVKI 61
R +KI
Sbjct: 100 R-RLKI 104
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
0.308 0.133 0.377
Gapped
Lambda K H
0.267 0.0695 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,126,311
Number of extensions: 641471
Number of successful extensions: 539
Number of sequences better than 10.0: 1
Number of HSP's gapped: 517
Number of HSP's successfully gapped: 64
Length of query: 144
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 56
Effective length of database: 7,034,450
Effective search space: 393929200
Effective search space used: 393929200
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 54 (24.6 bits)