RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6405
(548 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 = 83.4 bits (207), Expect = 8e-20
Identities = 37/83 (44%), Positives = 52/83 (62%), Gaps = 4/83 (4%)
Query: 53 VVVLHRDLPGNSVGITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMK 112
V L +D PG +G +L GG D I V +V G PA+R G L+ GDRIL +NG S++
Sbjct: 3 TVTLRKD-PGGGLGFSLRGGKDSGGG-IFVSRVEPGGPAER-GGLRVGDRILEVNGVSVE 59
Query: 113 GLTHKESLAILKR-GPPVEITLI 134
GLTH+E++ +LK G V +T+
Sbjct: 60 GLTHEEAVELLKNSGDEVTLTVR 82
Score = 71.4 bits (176), Expect = 1e-15
Identities = 35/76 (46%), Positives = 44/76 (57%), Gaps = 5/76 (6%)
Query: 128 PVEITLIKD-GAGLGFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEILTINNV 186
+TL KD G GLGFSL GGKDS + V ++ GG AE+ G L+ GD IL +N V
Sbjct: 1 VRTVTLRKDPGGGLGFSLRGGKDS---GGGIFVSRVEPGGPAERGG-LRVGDRILEVNGV 56
Query: 187 PVTEMSRIEAWSLLKK 202
V ++ EA LLK
Sbjct: 57 SVEGLTHEEAVELLKN 72
>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 = 76.6 bits (189), Expect = 2e-17
Identities = 35/89 (39%), Positives = 55/89 (61%), Gaps = 5/89 (5%)
Query: 50 EVSVVVLHRDLPGNSVGITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRILSINGK 109
E +V L + G +G +L GG D E + V V+ G+PA + G L+ GD IL +NG
Sbjct: 1 EPRLVELEKG--GGGLGFSLVGGKD-EGGGVVVSSVVPGSPAAKAG-LRVGDVILEVNGT 56
Query: 110 SMKGLTHKESLAILKR-GPPVEITLIKDG 137
S++GLTH E++ +LK+ G V +T+++ G
Sbjct: 57 SVEGLTHLEAVDLLKKAGGKVTLTVLRGG 85
Score = 68.2 bits (167), Expect = 2e-14
Identities = 32/78 (41%), Positives = 40/78 (51%), Gaps = 4/78 (5%)
Query: 128 PVEITLIKDGAGLGFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEILTINNVP 187
P + L K G GLGFSL GGKD + V + G A K G L+ GD IL +N
Sbjct: 2 PRLVELEKGGGGLGFSLVGGKDE---GGGVVVSSVVPGSPAAKAG-LRVGDVILEVNGTS 57
Query: 188 VTEMSRIEAWSLLKKLND 205
V ++ +EA LLKK
Sbjct: 58 VEGLTHLEAVDLLKKAGG 75
>gnl|CDD|201332 pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ
domains are found in diverse signaling proteins.
Length = 80
Score = 63.0 bits (154), Expect = 1e-12
Identities = 32/80 (40%), Positives = 48/80 (60%), Gaps = 4/80 (5%)
Query: 54 VVLHRDLPGNSVGITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMKG 113
V L + G +G +L GGSD + I V +V+ G A+ G LQ+GDRILSING+ ++
Sbjct: 2 VTLEKSGRG-GLGFSLVGGSDGD-PGIFVSEVLPGGAAEAGG-LQEGDRILSINGQDLEN 58
Query: 114 LTHKESLAILKRGPPVEITL 133
L+H + + +G E+TL
Sbjct: 59 LSH-DEAVLALKGSGGEVTL 77
Score = 53.0 bits (128), Expect = 5e-09
Identities = 34/77 (44%), Positives = 42/77 (54%), Gaps = 5/77 (6%)
Query: 130 EITLIKDG-AGLGFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEILTINNVPV 188
E+TL K G GLGFSL GG D GD + V ++ GG AE G L+ GD IL+IN +
Sbjct: 1 EVTLEKSGRGGLGFSLVGGSD---GDPGIFVSEVLPGGAAEAGG-LQEGDRILSINGQDL 56
Query: 189 TEMSRIEAWSLLKKLND 205
+S EA LK
Sbjct: 57 ENLSHDEAVLALKGSGG 73
>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 = 59.6 bits (145), Expect = 2e-11
Identities = 25/72 (34%), Positives = 40/72 (55%), Gaps = 4/72 (5%)
Query: 63 NSVGITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTHKESLAI 122
+G ++ GG + V V G+PA+R G LQ GD IL++NG +K LT ++ +
Sbjct: 1 GGLGFSIRGG---TEGGVVVLSVEPGSPAERAG-LQAGDVILAVNGTDVKNLTLEDVAEL 56
Query: 123 LKRGPPVEITLI 134
LK+ ++TL
Sbjct: 57 LKKEVGEKVTLT 68
Score = 44.6 bits (106), Expect = 3e-06
Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 6/71 (8%)
Query: 139 GLGFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEILTINNVPVTEMSRIEAWS 198
GLGFS+ GG + + V + G AE+ G L+AGD IL +N V ++ +
Sbjct: 2 GLGFSIRGG-----TEGGVVVLSVEPGSPAERAG-LQAGDVILAVNGTDVKNLTLEDVAE 55
Query: 199 LLKKLNDGTIQ 209
LLKK +
Sbjct: 56 LLKKEVGEKVT 66
>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 = 52.6 bits (127), Expect = 6e-09
Identities = 21/78 (26%), Positives = 43/78 (55%), Gaps = 9/78 (11%)
Query: 65 VGITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTHKESLAILK 124
+G+ L Y+ + + V+ G+PA + G ++ GD I++I+G+ + GL+ ++ + +L
Sbjct: 4 IGLEL----KYDDGGLVITSVLPGSPAAKAG-IKAGDIIVAIDGEPVDGLSLEDVVKLL- 57
Query: 125 RGPP---VEITLIKDGAG 139
RG V +TL +
Sbjct: 58 RGKAGTKVRLTLKRGDGE 75
Score = 42.2 bits (100), Expect = 3e-05
Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 9/65 (13%)
Query: 137 GAGLGFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEILTINNVPVTEMSRIEA 196
G GL + G L + + G A K G +KAGD I+ I+ PV +S +
Sbjct: 3 GIGLELKYDDGG--------LVITSVLPGSPAAKAG-IKAGDIIVAIDGEPVDGLSLEDV 53
Query: 197 WSLLK 201
LL+
Sbjct: 54 VKLLR 58
>gnl|CDD|233695 TIGR02037, degP_htrA_DO, periplasmic serine protease, Do/DeqQ
family. This family consists of a set proteins various
designated DegP, heat shock protein HtrA, and protease
DO. The ortholog in Pseudomonas aeruginosa is designated
MucD and is found in an operon that controls mucoid
phenotype. This family also includes the DegQ (HhoA)
paralog in E. coli which can rescue a DegP mutant, but
not the smaller DegS paralog, which cannot. Members of
this family are located in the periplasm and have
separable functions as both protease and chaperone.
Members have a trypsin domain and two copies of a PDZ
domain. This protein protects bacteria from thermal and
other stresses and may be important for the survival of
bacterial pathogens.// The chaperone function is
dominant at low temperatures, whereas the proteolytic
activity is turned on at elevated temperatures [Protein
fate, Protein folding and stabilization, Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 428
Score = 52.2 bits (126), Expect = 4e-07
Identities = 43/167 (25%), Positives = 70/167 (41%), Gaps = 41/167 (24%)
Query: 82 VHKVISGTPADRDGRLQKGDRILSINGK---SMKGLTH---------KESLAILKRGPPV 129
V +V+ G+PA++ G L+ GD I S+NGK S L K +L IL++G
Sbjct: 261 VAQVLPGSPAEKAG-LKAGDVITSVNGKPISSFADLRRAIGTLKPGKKVTLGILRKGKEK 319
Query: 130 EITLI----KDGAG------LGFSLE-------GGKDSPFGDQPLTVKKIFTGGCAEKNG 172
IT+ + LG ++ + + V K+ +G A + G
Sbjct: 320 TITVTLGASPEEQASSSNPFLGLTVANLSPEIRKELRLKGDVKGVVVTKVVSGSPAARAG 379
Query: 173 QLKAGDEILTINNVPVT---EMSRI-------EAWSLLKKLNDGTIQ 209
L+ GD IL++N PV+ E+ ++ +LL TI
Sbjct: 380 -LQPGDVILSVNQQPVSSVAELRKVLARAKKGGRVALLILRGGATIF 425
Score = 36.8 bits (86), Expect = 0.028
Identities = 25/64 (39%), Positives = 40/64 (62%), Gaps = 2/64 (3%)
Query: 76 ESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTH-KESLAILKRGPPVEITLI 134
+ K + V KV+SG+PA R G LQ GD ILS+N + + + ++ LA K+G V + ++
Sbjct: 360 DVKGVVVTKVVSGSPAARAG-LQPGDVILSVNQQPVSSVAELRKVLARAKKGGRVALLIL 418
Query: 135 KDGA 138
+ GA
Sbjct: 419 RGGA 422
>gnl|CDD|221961 pfam13180, PDZ_2, PDZ domain.
Length = 81
Score = 46.9 bits (112), Expect = 6e-07
Identities = 27/73 (36%), Positives = 40/73 (54%), Gaps = 5/73 (6%)
Query: 66 GITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTH-KESLAILK 124
G+ + E +TV V G+PA + G L+ GD ILSI+GK + LT E + K
Sbjct: 4 GVRV---VQNEGTGVTVVSVKEGSPAAKAG-LKPGDIILSIDGKKVNSLTELIEVILNGK 59
Query: 125 RGPPVEITLIKDG 137
G V++T+ +DG
Sbjct: 60 PGDTVKLTVYRDG 72
Score = 30.7 bits (70), Expect = 0.35
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 6/52 (11%)
Query: 138 AGLGFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEILTINNVPVT 189
+G + + + G ++VK+ G A K G LK GD IL+I+ V
Sbjct: 1 GDIGVRVVQNEGT--GVTVVSVKE---GSPAAKAG-LKPGDIILSIDGKKVN 46
>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 = 43.0 bits (102), Expect = 2e-05
Identities = 23/57 (40%), Positives = 36/57 (63%), Gaps = 2/57 (3%)
Query: 82 VHKVISGTPADRDGRLQKGDRILSINGKSMKGLTH-KESLAILKRGPPVEITLIKDG 137
V V G+PA + G L+ GD IL++NGK +K + + +LA LK G V +T+++ G
Sbjct: 28 VASVDPGSPAAKAG-LKPGDVILAVNGKPVKSVADLRRALAELKPGDKVTLTVLRGG 83
Score = 28.4 bits (64), Expect = 2.4
Identities = 14/31 (45%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 159 VKKIFTGGCAEKNGQLKAGDEILTINNVPVT 189
V + G A K G LK GD IL +N PV
Sbjct: 28 VASVDPGSPAAKAG-LKPGDVILAVNGKPVK 57
>gnl|CDD|234386 TIGR03900, prc_long_Delta, putative carboxyl-terminal-processing
protease, deltaproteobacterial. This model describes a
multidomain protein of about 1070 residues, restricted
to the order Myxococcales in the Deltaproteobacteria.
Members contain a PDZ domain (pfam00595), an S41 family
peptidase domain (pfam03572), and an SH3 domain
(pfam06347). A core region of this family, including PDZ
and S41 regions, is described by TIGR00225, C-terminal
processing peptidase, which recognizes the Prc protease.
The species distribution of this family approximates
that of largely Deltaproteobacterial C-terminal putative
protein-sorting domain, TIGR03901, analogous to LPXTG
and PEP-CTERM, but the co-occurrence may reflect shared
restriction to the Myxococcales rather than a
substrate/target relationship.
Length = 973
Score = 46.3 bits (110), Expect = 4e-05
Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 5/62 (8%)
Query: 79 EITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTHKESLAILKRGPP---VEITLIK 135
+TV +VI GTPA R G LQ+ D I+ I+ +S +T +++ L RGPP V I + +
Sbjct: 152 NLTVVRVIPGTPAARAG-LQRNDVIVKIDDESTVNMTLNDAVGRL-RGPPDTKVTIWVRR 209
Query: 136 DG 137
+G
Sbjct: 210 EG 211
Score = 30.1 bits (68), Expect = 3.6
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 154 DQPLTVKKIFTGGCAEKNGQLKAGDEILTINNVPVTEMSRIEAWSLLK 201
D+ LTV ++ G A + G L+ D I+ I++ M+ +A L+
Sbjct: 150 DRNLTVVRVIPGTPAARAG-LQRNDVIVKIDDESTVNMTLNDAVGRLR 196
>gnl|CDD|223864 COG0793, Prc, Periplasmic protease [Cell envelope biogenesis, outer
membrane].
Length = 406
Score = 45.8 bits (109), Expect = 4e-05
Identities = 23/77 (29%), Positives = 44/77 (57%), Gaps = 6/77 (7%)
Query: 65 VGITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTHKESLAILK 124
+GI L + + V I G+PA + G ++ GD I+ I+GKS+ G++ E++ +++
Sbjct: 102 IGIELQ---MEDIGGVKVVSPIDGSPAAKAG-IKPGDVIIKIDGKSVGGVSLDEAVKLIR 157
Query: 125 R--GPPVEITLIKDGAG 139
G V +T+++ G G
Sbjct: 158 GKPGTKVTLTILRAGGG 174
Score = 32.3 bits (74), Expect = 0.71
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 157 LTVKKIFTGGCAEKNGQLKAGDEILTINNVPVTEMSRIEAWSLLK 201
+ V G A K G +K GD I+ I+ V +S EA L++
Sbjct: 114 VKVVSPIDGSPAAKAG-IKPGDVIIKIDGKSVGGVSLDEAVKLIR 157
>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 = 41.8 bits (99), Expect = 4e-05
Identities = 20/61 (32%), Positives = 38/61 (62%), Gaps = 5/61 (8%)
Query: 79 EITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTHKESLAILKRGP--PVEITLIKD 136
E + +V+ G+PA + G L+ GDRIL+ING+ +K + + ++ P P+ +T+ ++
Sbjct: 13 EPVIGEVVPGSPAAKAG-LKAGDRILAINGQKIKSWE--DLVDAVQENPGKPLTLTVERN 69
Query: 137 G 137
G
Sbjct: 70 G 70
Score = 36.1 bits (84), Expect = 0.004
Identities = 19/57 (33%), Positives = 24/57 (42%), Gaps = 7/57 (12%)
Query: 138 AGLGFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEILTINNVPVTEMSRI 194
A LGF G P + ++ G A K G LKAGD IL IN + +
Sbjct: 1 AILGFVPGGPPIEP------VIGEVVPGSPAAKAG-LKAGDRILAINGQKIKSWEDL 50
>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 = 43.5 bits (103), Expect = 2e-04
Identities = 22/83 (26%), Positives = 47/83 (56%), Gaps = 7/83 (8%)
Query: 65 VGITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTHKESLAIL- 123
+GI + + EI + G+PA++ G ++ GD+I+ INGKS+ G++ +++A++
Sbjct: 53 IGIQV----GMDDGEIVIVSPFEGSPAEKAG-IKPGDKIIKINGKSVAGMSLDDAVALIR 107
Query: 124 -KRGPPVEITLIKDGAGLGFSLE 145
K+G V + +++ G +
Sbjct: 108 GKKGTKVSLEILRAGKSKPLTFT 130
Score = 33.9 bits (78), Expect = 0.17
Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 154 DQPLTVKKIFTGGCAEKNGQLKAGDEILTINNVPVTEMSRIEAWSLLK 201
D + + F G AEK G +K GD+I+ IN V MS +A +L++
Sbjct: 61 DGEIVIVSPFEGSPAEKAG-IKPGDKIIKINGKSVAGMSLDDAVALIR 107
>gnl|CDD|238491 cd00991, PDZ_archaeal_metalloprotease, PDZ domain of archaeal 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 = 39.7 bits (93), Expect = 2e-04
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 85 VISGTPADRDGRLQKGDRILSINGKSMKGLTH-KESLAILKRGPPVEITLIKDG 137
VI G+PA+ + L GD I SING + L E+L K G + +T++
Sbjct: 17 VIVGSPAE-NAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVTVLPST 69
>gnl|CDD|232801 TIGR00054, TIGR00054, RIP metalloprotease RseP. Members of this
nearly universal bacterial protein family are regulated
intramembrane proteolysis (RIP) proteases. Older and
synonymous gene symbols include yaeL in E. coli, mmpA in
Caulobacter crescentus, etc. This family includes a
region that hits the PDZ domain, found in a number of
proteins targeted to the membrane by binding to a
peptide ligand. The N-terminal region of this family
contains a perfectly conserved motif HEXGH as found in a
number of metalloproteinases, where the Glu is the
active site and the His residues coordinate the metal
cation [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 419
Score = 41.0 bits (96), Expect = 0.001
Identities = 40/191 (20%), Positives = 59/191 (30%), Gaps = 20/191 (10%)
Query: 73 SDYESKEITVHKVI---SGTPADRDGRLQKGDRILSINGKSMKGLTHKESLAILKRGPP- 128
S V VI + ++ GD ILS+NG + G G P
Sbjct: 118 SLIGVPGYEVGPVIELLDKNSIALEAGIEPGDEILSVNGNKIPGFKDVRQQIADIAGEPM 177
Query: 129 VEITLIKDGAGLGFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEILTINNVPV 188
VEI ++ E P + + + AEK G LK GD I +IN +
Sbjct: 178 VEILAERENWTFEVMKELIPRGPKIE--PVLSDVTPNSPAEKAG-LKEGDYIQSINGEKL 234
Query: 189 TEMSRIEAWSLLKKLN----------DGTIQDIKALGYDLNSLGYPRTQDLNALGYPKTR 238
+ S +K+ +G I +G + L L
Sbjct: 235 RSWTDFV--SAVKENPGKSMDIKVERNGETLSISLTPEAKGKIGIGISPSLAPLEVSYGI 292
Query: 239 DLNALEYIKTR 249
LNA +
Sbjct: 293 -LNAFAKGASA 302
>gnl|CDD|177681 PLN00049, PLN00049, carboxyl-terminal processing protease;
Provisional.
Length = 389
Score = 40.1 bits (94), Expect = 0.003
Identities = 27/82 (32%), Positives = 41/82 (50%), Gaps = 5/82 (6%)
Query: 59 DLPGNSVGITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTHKE 118
+ G + + GSD + V G PA R G ++ GD IL+I+G S +GL+ E
Sbjct: 83 AVTGVGLEVGYPTGSDGPPAGLVVVAPAPGGPAARAG-IRPGDVILAIDGTSTEGLSLYE 141
Query: 119 SLAILKRGP---PVEITLIKDG 137
+ A +GP VE+TL +
Sbjct: 142 A-ADRLQGPEGSSVELTLRRGP 162
Score = 30.5 bits (69), Expect = 2.2
Identities = 22/84 (26%), Positives = 32/84 (38%), Gaps = 7/84 (8%)
Query: 118 ESLAILKRGPPVEITLIKDGAGLGFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAG 177
E L+ G +T G+G + S L V GG A + G ++ G
Sbjct: 71 EKFKSLRSGTKGAVT------GVGLEVGYPTGSDGPPAGLVVVAPAPGGPAARAG-IRPG 123
Query: 178 DEILTINNVPVTEMSRIEAWSLLK 201
D IL I+ +S EA L+
Sbjct: 124 DVILAIDGTSTEGLSLYEAADRLQ 147
>gnl|CDD|238486 cd00986, PDZ_LON_protease, PDZ domain of ATP-dependent LON serine
proteases. Most PDZ domains bind C-terminal
polypeptides, though binding to internal
(non-C-terminal) polypeptides and even to lipids has
been demonstrated. In this bacterial subfamily of
protease-associated PDZ domains a C-terminal beta-strand
is thought to form the peptide-binding groove base, a
circular permutation with respect to PDZ domains found
in Eumetazoan signaling proteins.
Length = 79
Score = 35.9 bits (83), Expect = 0.005
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 5/73 (6%)
Query: 74 DYESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTHK--ESLAILKRGPPVEI 131
DY + V V+ G PA G+L+ GD I++++GK K + + + K G V++
Sbjct: 4 DYTYHGVYVTSVVEGMPAA--GKLKAGDHIIAVDGKPFKE-AEELIDYIQSKKEGDTVKL 60
Query: 132 TLIKDGAGLGFSL 144
+ ++ L L
Sbjct: 61 KVKREEKELPEDL 73
>gnl|CDD|223343 COG0265, DegQ, Trypsin-like serine proteases, typically
periplasmic, contain C-terminal PDZ domain
[Posttranslational modification, protein turnover,
chaperones].
Length = 347
Score = 38.0 bits (88), Expect = 0.010
Identities = 24/92 (26%), Positives = 45/92 (48%), Gaps = 9/92 (9%)
Query: 61 PGNSVGITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRILSINGKSMKGLT-HKES 119
++G+ +A G V V+ G+PA + G ++ GD I ++NGK + L+ +
Sbjct: 260 ADIALGLPVAAG-------AVVLGVLPGSPAAKAG-IKAGDIITAVNGKPVASLSDLVAA 311
Query: 120 LAILKRGPPVEITLIKDGAGLGFSLEGGKDSP 151
+A + G V + L++ G ++ G SP
Sbjct: 312 VASNRPGDEVALKLLRGGKERELAVTLGDRSP 343
Score = 30.2 bits (68), Expect = 2.6
Identities = 19/68 (27%), Positives = 25/68 (36%), Gaps = 11/68 (16%)
Query: 123 LKRGPP-VEITLIKDGAGLGFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEIL 181
+ RG V + LG + G V + G A K G +KAGD I
Sbjct: 246 VVRGYLGVIGEPLTADIALGLPVAAG---------AVVLGVLPGSPAAKAG-IKAGDIIT 295
Query: 182 TINNVPVT 189
+N PV
Sbjct: 296 AVNGKPVA 303
>gnl|CDD|234035 TIGR02860, spore_IV_B, stage IV sporulation protein B. SpoIVB, the
stage IV sporulation protein B of endospore-forming
bacteria such as Bacillus subtilis, is a serine
proteinase, expressed in the spore (rather than mother
cell) compartment, that participates in a proteolytic
activation cascade for Sigma-K. It appears to be
universal among endospore-forming bacteria and occurs
nowhere else [Cellular processes, Sporulation and
germination].
Length = 402
Score = 36.9 bits (86), Expect = 0.023
Identities = 26/95 (27%), Positives = 47/95 (49%), Gaps = 13/95 (13%)
Query: 44 LIPGTSEVSVVVLHRDLPGNSVGITLAGGSDYESKEITVHKVISGTPADRDGRLQKGDRI 103
+IPG + V + N+ G+ + G SD E+++ +H +P + +Q GDRI
Sbjct: 91 VIPGGQSIGVKL-------NTKGVLVVGFSDIETEKGKIH-----SPG-EEAGIQIGDRI 137
Query: 104 LSINGKSMKGLTHKESLAILKRGPPVEITLIKDGA 138
L ING+ +K + +L G + +T+ + G
Sbjct: 138 LKINGEKIKNMDDLANLINKAGGEKLTLTIERGGK 172
>gnl|CDD|236802 PRK10942, PRK10942, serine endoprotease; Provisional.
Length = 473
Score = 35.5 bits (82), Expect = 0.073
Identities = 34/129 (26%), Positives = 55/129 (42%), Gaps = 23/129 (17%)
Query: 82 VHKVISGTPADRDGRLQKGDRILSINGKSMKGLT------------HKESLAILKRGPPV 129
V +V+ + A + G ++ GD I S+NGK + K +L +L+ G PV
Sbjct: 315 VSQVLPNSSAAKAG-IKAGDVITSLNGKPISSFAALRAQVGTMPVGSKLTLGLLRDGKPV 373
Query: 130 EITLI--------KDGAGLGFSLEGGKDSPFGDQP-LTVKKIFTGGCAEKNGQLKAGDEI 180
+ + D + + +EG + S G + V + G A + G LK GD I
Sbjct: 374 NVNVELQQSSQNQVDSSNIFNGIEGAELSNKGGDKGVVVDNVKPGTPAAQIG-LKKGDVI 432
Query: 181 LTINNVPVT 189
+ N PV
Sbjct: 433 IGANQQPVK 441
>gnl|CDD|182723 PRK10779, PRK10779, zinc metallopeptidase RseP; Provisional.
Length = 449
Score = 33.1 bits (76), Expect = 0.36
Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 17/99 (17%)
Query: 79 EITVHKVISGTPADRDGRLQKGDRILSINGKSM-----------KGLTHKESLAILKRGP 127
E + +V + A + G LQ GDRI+ ++G+ + +L I ++G
Sbjct: 222 EPVLAEVQPNSAASKAG-LQAGDRIVKVDGQPLTQWQTFVTLVRDNPGKPLALEIERQGS 280
Query: 128 PVEITLIKD-----GAGLGFSLEGGKDSPFGDQPLTVKK 161
P+ +TL D G GF+ K P D+ TV++
Sbjct: 281 PLSLTLTPDSKPGNGKAEGFAGVVPKVIPLPDEYKTVRQ 319
>gnl|CDD|223821 COG0750, COG0750, Predicted membrane-associated Zn-dependent
proteases 1 [Cell envelope biogenesis, outer membrane].
Length = 375
Score = 32.5 bits (74), Expect = 0.51
Identities = 22/121 (18%), Positives = 40/121 (33%), Gaps = 17/121 (14%)
Query: 81 TVHKVISGTPADRDGRLQKGDRILSINGKSMKGLTHKESLAILKRGPPVEITLIKDGAGL 140
V +V + A G L+ GDRI++++G+ + L + G + I
Sbjct: 132 VVGEVAPKSAAALAG-LRPGDRIVAVDGEKVASWDDVRRLLVAAAGDVFNLLTI------ 184
Query: 141 GFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEIL-----TINNVPVTEMSRIE 195
G+ + + + LK GD+I+ I P E +
Sbjct: 185 LVIRLDGEAHAVAAEIIKSLGLTP-----VVIPLKPGDKIVAVDVGAIGLSPNGEPDVGK 239
Query: 196 A 196
Sbjct: 240 V 240
>gnl|CDD|143576 cd07467, CRD_TK_ROR1, Cysteine-rich domain of tyrosine kinase-like
orphan receptor 1. The cysteine-rich domain (CRD) is an
essential part of the tyrosine kinase-like orphan
receptor 1 (Ror1), a conserved family of tyrosine
kinases that function in various processes, including
neuronal and skeletal development, cell polarity, and
cell movement. Ror proteins are receptors of Wnt
proteins, which are key players in a number of
fundamental cellular processes in embryogenesis and
postnatal development. In different cellular contexts,
Ror proteins can either activate or repress
transcription of Wnt target genes, and can modulate Wnt
signaling by sequestering Wnt ligands. In addition, a
number of Wnt-independent functions have been proposed
for both Ror1 and Ror2.
Length = 142
Score = 31.5 bits (71), Expect = 0.53
Identities = 21/63 (33%), Positives = 27/63 (42%), Gaps = 5/63 (7%)
Query: 233 GYPKTRDLNALE-YIKTRDLNALEYIKTRD----LNALRYPKTQDLNALEYPKTQDLNAL 287
G PK RDL E I L EYI R L L+ P +DL + P+ + +
Sbjct: 75 GMPKPRDLCRDECEILENVLCQTEYIFARSNPMILMRLKLPNCEDLAQPDSPEAANCIRI 134
Query: 288 GHP 290
G P
Sbjct: 135 GIP 137
>gnl|CDD|215829 pfam00266, Aminotran_5, Aminotransferase class-V. This domain is
found in amino transferases, and other enzymes including
cysteine desulphurase EC:4.4.1.-.
Length = 370
Score = 32.6 bits (75), Expect = 0.54
Identities = 26/88 (29%), Positives = 34/88 (38%), Gaps = 22/88 (25%)
Query: 162 IFTGGCAEKN--------GQLKAGDEILTINNVPVTEM---SRIEAWSLLKKLNDGTIQD 210
IFT G E LK GDEIL VTEM + + W L K T++
Sbjct: 65 IFTSGTTEAINLVAISLGRSLKPGDEIL------VTEMEHHANLVPWQELAKRTGATVRV 118
Query: 211 IKALGYDLNSLGYPRTQDLNALGYPKTR 238
I ++ G L L P+T+
Sbjct: 119 IP-----VDPNGLLDLDALEKLLTPRTK 141
>gnl|CDD|226483 COG3975, COG3975, Predicted protease with the C-terminal PDZ domain
[General function prediction only].
Length = 558
Score = 32.0 bits (73), Expect = 0.84
Identities = 23/105 (21%), Positives = 40/105 (38%), Gaps = 8/105 (7%)
Query: 37 EGGCPSLLIPGTSEVSVVVLHRDLPGNSVGITLAGGSDYESKEITVHKVISGTPADRDGR 96
EG P L P + + +G+ + E + V G PA + G
Sbjct: 425 EGTEPPPLNPLLERFGLTFTPKPREAYYLGLKV----KSEGGHEKITFVFPGGPAYKAG- 479
Query: 97 LQKGDRILSING--KSMKGLTHKESLAI-LKRGPPVEITLIKDGA 138
L GD+I++ING + + + + + R + L+K G
Sbjct: 480 LSPGDKIVAINGISDQLDRYKVNDKIQVHVFREGRLREFLVKLGG 524
>gnl|CDD|182262 PRK10139, PRK10139, serine endoprotease; Provisional.
Length = 455
Score = 31.5 bits (71), Expect = 1.3
Identities = 25/106 (23%), Positives = 48/106 (45%), Gaps = 3/106 (2%)
Query: 82 VHKVISGTPADRDGRLQKGDRILSINGKSMKGLTHKES-LAILKRGPPVEITLIKDGAGL 140
V +V+ + + + G ++ GD I S+NGK + S +A + G V++ L+++G L
Sbjct: 294 VSEVLPNSGSAKAG-VKAGDIITSLNGKPLNSFAELRSRIATTEPGTKVKLGLLRNGKPL 352
Query: 141 GFSLEGGKDSPFGDQPLTVKKIFTGGCAEKNGQLKAGDEILTINNV 186
+ + + G +GQLK G + + I+ V
Sbjct: 353 EVEVTLDTSTSSSASAEMITPALQGA-TLSDGQLKDGTKGIKIDEV 397
>gnl|CDD|130673 TIGR01612, 235kDa-fam, reticulocyte binding/rhoptry protein. This
model represents a group of paralogous families in
plasmodium species alternately annotated as reticulocyte
binding protein, 235-kDa family protein and rhoptry
protein. Rhoptry protein is localized on the cell surface
and is extremely large (although apparently lacking in
repeat structure) and is important for the process of
invasion of the RBCs by the parasite. These proteins are
found in P. falciparum, P. vivax and P. yoelii.
Length = 2757
Score = 31.6 bits (71), Expect = 1.7
Identities = 36/114 (31%), Positives = 53/114 (46%), Gaps = 14/114 (12%)
Query: 338 ILNALEYPKSQDLNALGYPKTQDLNVLEYPKTRD-LNALR--YPKTQDLNALGHPKTQD- 393
IL++L+ K L + P+ + Y K RD + L + K+QDL H K QD
Sbjct: 1927 ILSSLDSEKEDTLKFIPSPEKEPEI---YTKIRDSYDTLLDIFKKSQDL----HKKEQDT 1979
Query: 394 ---LNDTRFEYPKIQDLNALGYDLNALGHPKTQDLNDTRFEYPKIQDLNALGYD 444
+ + + Y KIQ N L L+ L + K + LND + K +LN L D
Sbjct: 1980 LNIIFENQQLYEKIQASNELKDTLSDLKYKKEKILNDVKLLLHKFDELNKLSCD 2033
>gnl|CDD|182820 PRK10898, PRK10898, serine endoprotease; Provisional.
Length = 353
Score = 30.7 bits (70), Expect = 2.1
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 80 ITVHKVISGTPADRDGRLQKGDRILSINGK 109
I V++V PA + G +Q D I+S+N K
Sbjct: 281 IVVNEVSPDGPAAKAG-IQVNDLIISVNNK 309
>gnl|CDD|235672 PRK06012, flhA, flagellar biosynthesis protein FlhA; Validated.
Length = 697
Score = 29.7 bits (68), Expect = 5.4
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 18 LISQQELQQLID---ESNQSLDEGGCPSLLIPGT 48
L+ +QE+QQL+D + L E P +L GT
Sbjct: 503 LLGRQEVQQLLDRLAKEYPKLVEELVPKVLSLGT 536
>gnl|CDD|233085 TIGR00675, dcm, DNA-methyltransferase (dcm). All proteins in this
family for which functions are known are DNA-cytosine
methyltransferases. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 315
Score = 29.2 bits (66), Expect = 6.0
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 14/49 (28%)
Query: 296 NALGHPKTQDLNALIQDLNALGYDLNALGHPKTQDLNALGYKILNALEY 344
+ H K + +I+ L LGY + YK+LNA ++
Sbjct: 111 GLVSHDKGRTFKVIIETLEELGYKVY--------------YKVLNAKDF 145
>gnl|CDD|132850 cd07211, Pat_PNPLA8, Patatin-like phospholipase domain containing
protein 8. PNPLA8 is a Ca-independent myocardial
phospholipase which maintains mitochondrial integrity.
PNPLA8 is also known as iPLA2-gamma. In humans, it is
predominantly expressed in heart tissue. iPLA2-gamma can
catalyze both phospholipase A1 and A2 reactions (PLA1
and PLA2 respectively). This family includes PNPLA8
(iPLA2-gamma) from Homo sapiens and iPLA2-2 from Mus
musculus.
Length = 308
Score = 28.8 bits (65), Expect = 7.4
Identities = 11/27 (40%), Positives = 18/27 (66%), Gaps = 3/27 (11%)
Query: 99 KGDRILSINGKSMKGLTHKESLAILKR 125
+G RILSI+G +G+ +L IL++
Sbjct: 6 RGIRILSIDGGGTRGVV---ALEILRK 29
>gnl|CDD|130585 TIGR01522, ATPase-IIA2_Ca, golgi membrane calcium-translocating
P-type ATPase. This model describes the P-type ATPase
responsible for translocating calcium ions across the
golgi membrane of fungi and animals , and is of
particular importance in the sarcoplasmic reticulum of
skeletal and cardiac muscle in vertebrates. The calcium
P-type ATPases have been characterized as Type IIA based
on a phylogenetic analysis which distinguishes this
group from the Type IIB PMCA calcium pump modelled by
TIGR01517. A separate analysis divides Type IIA into
sub-types, SERCA and PMR1 the former of which is
modelled by TIGR01116.
Length = 884
Score = 29.0 bits (65), Expect = 8.5
Identities = 20/90 (22%), Positives = 34/90 (37%), Gaps = 25/90 (27%)
Query: 97 LQKGDRI-----------LSINGKSMKGLT---HKESLAILKRGPPVEI----------T 132
L GDR+ LSI+ ++ G T K + I ++ T
Sbjct: 143 LSVGDRVPADLRIVEAVDLSIDESNLTGETTPVSKVTAPIPA-ATNGDLAERSNIAFMGT 201
Query: 133 LIKDGAGLGFSLEGGKDSPFGDQPLTVKKI 162
L++ G G G + G ++ FG ++ I
Sbjct: 202 LVRCGHGKGIVVGTGSNTEFGAVFKMMQAI 231
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
0.313 0.135 0.390
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: 27,901,729
Number of extensions: 2777871
Number of successful extensions: 1835
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1817
Number of HSP's successfully gapped: 61
Length of query: 548
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 446
Effective length of database: 6,413,494
Effective search space: 2860418324
Effective search space used: 2860418324
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 61 (27.3 bits)