RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16205
(109 letters)
>gnl|CDD|175974 cd00275, C2_PLC_like, C2 domain present in
Phosphoinositide-specific phospholipases C (PLC). PLCs
are involved in the hydrolysis of
phosphatidylinositol-4,5-bisphosphate (PIP2) to
d-myo-inositol-1,4,5-trisphosphate (1,4,5-IP3) and
sn-1,2-diacylglycerol (DAG). 1,4,5-IP3 and DAG are
second messengers in eukaryotic signal transduction
cascades. PLC is composed of a N-terminal PH domain
followed by a series of EF hands, a catalytic TIM barrel
and a C-terminal C2 domain. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. Members here have a type-II
topology.
Length = 128
Score = 110 bits (277), Expect = 9e-33
Identities = 44/99 (44%), Positives = 61/99 (61%), Gaps = 6/99 (6%)
Query: 1 MYGLPTDTIRKEFRTRLCPSNGLNPVYNEEPFLFRKVVLPDLAVLRFGVYDENG---KLL 57
++GLP D +F+T++ +NG NPV+NE F F V +P+LA LRF VYDE+ L
Sbjct: 33 IHGLPADD-SAKFKTKVVKNNGFNPVWNET-FEF-DVTVPELAFLRFVVYDEDSGDDDFL 89
Query: 58 GQRILPLDGLQAGYRHISLRTEANFPMSLPMLFCNIELK 96
GQ LPLD L+ GYRH+ L P+ L LF +I++
Sbjct: 90 GQACLPLDSLRQGYRHVPLLDSKGEPLELSTLFVHIDIT 128
>gnl|CDD|214577 smart00239, C2, Protein kinase C conserved region 2 (CalB).
Ca2+-binding motif present in phospholipases, protein
kinases C, and synaptotagmins (among others). Some do
not appear to contain Ca2+-binding sites. Particular C2s
appear to bind phospholipids, inositol polyphosphates,
and intracellular proteins. Unusual occurrence in
perforin. Synaptotagmin and PLC C2s are permuted in
sequence with respect to N- and C-terminal beta strands.
SMART detects C2 domains using one or both of two
profiles.
Length = 101
Score = 49.4 bits (118), Expect = 4e-09
Identities = 26/71 (36%), Positives = 40/71 (56%), Gaps = 7/71 (9%)
Query: 10 RKEFRTRLCPSNGLNPVYNEEPFLFRKVVLPDLAVLRFGVYDENG----KLLGQRILPLD 65
+++ +T++ + LNPV+NE F F +V P+LA L VYD++ +GQ +PL
Sbjct: 34 KEKKKTKVVKNT-LNPVWNET-FEF-EVPPPELAELEIEVYDKDRFGRDDFIGQVTIPLS 90
Query: 66 GLQAGYRHISL 76
L G RH L
Sbjct: 91 DLLLGGRHEKL 101
>gnl|CDD|215765 pfam00168, C2, C2 domain.
Length = 85
Score = 44.2 bits (105), Expect = 3e-07
Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 7/54 (12%)
Query: 10 RKEFRTRLCPSNGLNPVYNEEPFLFRKVVLPDLAVLRFGVYDENG----KLLGQ 59
+ +T++ + LNPV+NE F F V LP+LA LR VYD + +G+
Sbjct: 33 KDTKKTKVVKNT-LNPVWNET-FTFE-VTLPELAELRIEVYDYDRFGKDDFIGE 83
>gnl|CDD|175973 cd00030, C2, C2 domain. The C2 domain was first identified in
PKC. C2 domains fold into an 8-standed beta-sandwich
that can adopt 2 structural arrangements: Type I and
Type II, distinguished by a circular permutation
involving their N- and C-terminal beta strands. Many C2
domains are Ca2+-dependent membrane-targeting modules
that bind a wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a
single C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin
which only have a single C2 domain. C2 domains with a
calcium binding region have negatively charged
residues, primarily aspartates, that serve as ligands
for calcium ions.
Length = 102
Score = 37.0 bits (86), Expect = 2e-04
Identities = 18/54 (33%), Positives = 31/54 (57%), Gaps = 7/54 (12%)
Query: 10 RKEFRTRLCPSNGLNPVYNEEPFLFRKVVLPDLAVLRFGVYDENG----KLLGQ 59
+++F+T++ N LNPV+NE F F V+ P+ L V+D++ LG+
Sbjct: 31 KQKFKTKVVK-NTLNPVWNET-FEF-PVLDPESDTLTVEVWDKDRFSKDDFLGE 81
>gnl|CDD|177873 PLN02228, PLN02228, Phosphoinositide phospholipase C.
Length = 567
Score = 36.9 bits (85), Expect = 8e-04
Identities = 28/82 (34%), Positives = 44/82 (53%), Gaps = 8/82 (9%)
Query: 3 GLPTDTIRKEFRTRLCPSNGLNPVYNEEPFLFRKVVLPDLAVLRFGV--YDENGK--LLG 58
G+P DT+ +RT P++ + FLF ++ +P+LA+L F V YD + + G
Sbjct: 468 GVPRDTV--SYRTETAVDQWF-PIWGNDEFLF-QLRVPELALLWFKVQDYDNDTQNDFAG 523
Query: 59 QRILPLDGLQAGYRHISLRTEA 80
Q LPL L++G R + L A
Sbjct: 524 QTCLPLPELKSGVRAVRLHDRA 545
>gnl|CDD|165867 PLN02223, PLN02223, phosphoinositide phospholipase C.
Length = 537
Score = 31.5 bits (71), Expect = 0.057
Identities = 26/75 (34%), Positives = 33/75 (44%), Gaps = 6/75 (8%)
Query: 20 SNGLNPVYNEEPFLFRKVVLPDLAVLRFGVYDEN----GKLLGQRILPLDGLQAGYRHIS 75
+N P + EE F F + PDLA++ F VYD GQ LP+ L G R +
Sbjct: 459 NNEWKPTWGEE-FTF-PLTYPDLALISFEVYDYEVSTADAFCGQTCLPVSELIEGIRAVP 516
Query: 76 LRTEANFPMSLPMLF 90
L E S ML
Sbjct: 517 LYDERGKACSSTMLL 531
>gnl|CDD|176031 cd08385, C2A_Synaptotagmin-1-5-6-9-10, C2A domain first repeat
present in Synaptotagmins 1, 5, 6, 9, and 10.
Synaptotagmin is a membrane-trafficking protein
characterized by a N-terminal transmembrane region, a
linker, and 2 C-terminal C2 domains. Synaptotagmin 1, a
member of class 1 synaptotagmins, is located in the
brain and endocranium and localized to the synaptic
vesicles and secretory granules. It functions as a Ca2+
sensor for fast exocytosis as do synaptotagmins 5, 6,
and 10. It is distinguished from the other
synaptotagmins by having an N-glycosylated N-terminus.
Synaptotagmins 5, 6, and 10, members of class 3
synaptotagmins, are located primarily in the brain and
localized to the active zone and plasma membrane. They
is distinguished from the other synaptotagmins by having
disulfide bonds at its N-terminus. Synaptotagmin 6 also
regulates the acrosome reaction, a unique Ca2+-regulated
exocytosis, in sperm. Synaptotagmin 9, a class 5
synaptotagmins, is located in the brain and localized to
the synaptic vesicles. It is thought to be a
Ca2+-sensor for dense-core vesicle exocytosis.
Previously all synaptotagmins were thought to be calcium
sensors in the regulation of neurotransmitter release
and hormone secretion, but it has been shown that not
all of them bind calcium. Of the 17 identified
synaptotagmins only 8 bind calcium (1-3, 5-7, 9, 10).
The function of the two C2 domains that bind calcium
are: regulating the fusion step of synaptic vesicle
exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
C2 domains fold into an 8-standed beta-sandwich that can
adopt 2 structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the first C2
repeat, C2A, and has a type-I topology.
Length = 124
Score = 29.5 bits (67), Expect = 0.17
Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 11/70 (15%)
Query: 1 MYGLPTDTIRKEFRTRLCPSNGLNPVYNEEPFLFRKVVLPDLA--VLRFGVYDEN----G 54
+Y LP D +K+F T++ LNPV+NE F F KV +L L F VYD +
Sbjct: 43 VYLLP-DK-KKKFETKVHRKT-LNPVFNET-FTF-KVPYSELGNKTLVFSVYDFDRFSKH 97
Query: 55 KLLGQRILPL 64
L+G+ +PL
Sbjct: 98 DLIGEVRVPL 107
>gnl|CDD|176009 cd04044, C2A_Tricalbin-like, C2 domain first repeat present in
Tricalbin-like proteins. 5 to 6 copies of the C2
domain are present in Tricalbin, a yeast homolog of
Synaptotagmin, which is involved in membrane
trafficking and sorting. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of
piccolo/aczonin and intersectin which only have a
single C2 domain. C2 domains with a calcium binding
region have negatively charged residues, primarily
aspartates, that serve as ligands for calcium ions.
This cd contains the first C2 repeat, C2A, and has a
type-II topology.
Length = 124
Score = 29.4 bits (67), Expect = 0.20
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 10/59 (16%)
Query: 14 RTRLCPSNGLNPVYNEEPFLFRKVVLPDLA-VLRFGVYDENG----KLLGQRILPLDGL 67
RT++ + NPV+NE + +++ L L VYD N KL+G L L
Sbjct: 40 RTKVK-KDTSNPVWNETKY----ILVNSLTEPLNLTVYDFNDKRKDKLIGTAEFDLSSL 93
>gnl|CDD|176004 cd04039, C2_PSD, C2 domain present in Phosphatidylserine
decarboxylase (PSD). PSD is involved in the
biosynthesis of aminophospholipid by converting
phosphatidylserine (PtdSer) to phosphatidylethanolamine
(PtdEtn). There is a single C2 domain present and it is
thought to confer PtdSer binding motif that is common
to PKC and synaptotagmin. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of
piccolo/aczonin and intersectin which only have a
single C2 domain. C2 domains with a calcium binding
region have negatively charged residues, primarily
aspartates, that serve as ligands for calcium ions.
Length = 108
Score = 29.1 bits (66), Expect = 0.22
Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 6/44 (13%)
Query: 10 RKEFRTRLCPSNGLNPVYNEEPFLFRKVVLPDLA--VLRFGVYD 51
R+ FRT LNPV+NE F V P ++F V D
Sbjct: 36 RRVFRTSWRRHT-LNPVFNER-LAFE--VYPHEKNFDIQFKVLD 75
>gnl|CDD|227371 COG5038, COG5038, Ca2+-dependent lipid-binding protein, contains C2
domain [General function prediction only].
Length = 1227
Score = 29.0 bits (65), Expect = 0.44
Identities = 26/93 (27%), Positives = 30/93 (32%), Gaps = 23/93 (24%)
Query: 11 KEFRTRLCPSNGLNPVYNEEPFLFRKVVLPDLA-VLRFGVYD----ENGKLLGQRI---- 61
K LNPV+NEE F VL + VL V D E LLG
Sbjct: 1072 KSVYKTKVVKKTLNPVWNEE---FTIEVLNRVKDVLTINVNDWDSGEKNDLLGTAEIDLS 1128
Query: 62 -----------LPLDGLQAGYRHISLRTEANFP 83
+PLDG +L NF
Sbjct: 1129 KLEPGGTTNSNIPLDGKTFIVLDGTLHPGFNFR 1161
>gnl|CDD|175986 cd04019, C2C_MCTP_PRT_plant, C2 domain third repeat found in
Multiple C2 domain and Transmembrane region Proteins
(MCTP); plant subset. MCTPs are involved in Ca2+
signaling at the membrane. Plant-MCTPs are composed of
a variable N-terminal sequence, four C2 domains, two
transmembrane regions (TMRs), and a short C-terminal
sequence. It is one of four protein classes that are
anchored to membranes via a transmembrane region; the
others being synaptotagmins, extended synaptotagmins,
and ferlins. MCTPs are the only membrane-bound C2
domain proteins that contain two functional TMRs. MCTPs
are unique in that they bind Ca2+ but not
phospholipids. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of
piccolo/aczonin and intersectin which only have a
single C2 domain. C2 domains with a calcium binding
region have negatively charged residues, primarily
aspartates, that serve as ligands for calcium ions.
This cd contains the third C2 repeat, C2C, and has a
type-II topology.
Length = 150
Score = 27.6 bits (62), Expect = 1.1
Identities = 9/22 (40%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 13 FRTRLCPSNGLNPVYNEEPFLF 34
RTR + NP +NEE +F
Sbjct: 34 LRTRPSQTRNGNPSWNEE-LMF 54
>gnl|CDD|176006 cd04041, C2A_fungal, C2 domain first repeat; fungal group. C2
domains were first identified in Protein Kinase C
(PKC). C2 domains fold into an 8-standed beta-sandwich
that can adopt 2 structural arrangements: Type I and
Type II, distinguished by a circular permutation
involving their N- and C-terminal beta strands. Many C2
domains are Ca2+-dependent membrane-targeting modules
that bind a wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a
single C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin
which only have a single C2 domain. C2 domains with a
calcium binding region have negatively charged
residues, primarily aspartates, that serve as ligands
for calcium ions.
Length = 111
Score = 26.8 bits (60), Expect = 1.6
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 8/44 (18%)
Query: 13 FRTRLCPSNGLNPVYNEEPFLFRKVVLPDLAV----LRFGVYDE 52
+ TR+ LNPV+ E F+ +V PD L ++D
Sbjct: 39 YSTRII-RKDLNPVWEETWFV---LVTPDEVKAGERLSCRLWDS 78
>gnl|CDD|111045 pfam02106, Fanconi_C, Fanconi anaemia group C protein.
Length = 559
Score = 27.1 bits (60), Expect = 1.8
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 18 CPSNGLNPVYNE---EPFLFRKVVLPDLAVL 45
P LNP + E E FL +K+ LP AV+
Sbjct: 211 EPQEILNPEFFEAVNEAFLSKKISLPTSAVV 241
>gnl|CDD|176003 cd04038, C2_ArfGAP, C2 domain present in Arf GTPase Activating
Proteins (GAP). ArfGAP is a GTPase activating protein
which regulates the ADP ribosylation factor Arf, a
member of the Ras superfamily of GTP-binding proteins.
The GTP-bound form of Arf is involved in Golgi
morphology and is involved in recruiting coat proteins.
ArfGAP is responsible for the GDP-bound form of Arf
which is necessary for uncoating the membrane and
allowing the Golgi to fuse with an acceptor
compartment. These proteins contain an N-terminal
ArfGAP domain containing the characteristic zinc finger
motif (Cys-x2-Cys-x(16,17)-x2-Cys) and C-terminal C2
domain. C2 domains were first identified in Protein
Kinase C (PKC). C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of
piccolo/aczonin and intersectin which only have a
single C2 domain. C2 domains with a calcium binding
region have negatively charged residues, primarily
aspartates, that serve as ligands for calcium ions.
Length = 145
Score = 26.9 bits (60), Expect = 1.9
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 6/40 (15%)
Query: 14 RTRLCPSNGLNPVYNEEPFLFRKVVLPDL-AVLRFGVYDE 52
+TR+ N LNPV+NEE L +P+ A L+ V+D+
Sbjct: 36 KTRVIKKN-LNPVWNEELTL----SVPNPMAPLKLEVFDK 70
>gnl|CDD|224034 COG1109, {ManB}, Phosphomannomutase [Carbohydrate transport and
metabolism].
Length = 464
Score = 26.9 bits (60), Expect = 2.4
Identities = 18/59 (30%), Positives = 21/59 (35%), Gaps = 15/59 (25%)
Query: 21 NGLNPVYNEEP-----FLFRKVVLPDLAVL---------RFGVYDENGKLL-GQRILPL 64
+GL P N P K V A L R V DE G + G +IL L
Sbjct: 213 DGLFPNINPNPGETELLDLAKAVKEHGADLGIAFDGDADRLIVVDERGNFVDGDQILAL 271
>gnl|CDD|176005 cd04040, C2D_Tricalbin-like, C2 domain fourth repeat present in
Tricalbin-like proteins. 5 to 6 copies of the C2
domain are present in Tricalbin, a yeast homolog of
Synaptotagmin, which is involved in membrane
trafficking and sorting. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of
piccolo/aczonin and intersectin which only have a
single C2 domain. C2 domains with a calcium binding
region have negatively charged residues, primarily
aspartates, that serve as ligands for calcium ions.
This cd contains the fifth C2 repeat, C2E, and has a
type-II topology.
Length = 115
Score = 26.0 bits (58), Expect = 2.9
Identities = 23/65 (35%), Positives = 29/65 (44%), Gaps = 20/65 (30%)
Query: 6 TDTIRKEFRTRLCPSNGLNPVYNEEPFLFRKVVLPDL--AVLRFGVYD----ENGKLLGQ 59
T TI+K T LNPV+NE +V +P AVL+ VYD LLG
Sbjct: 36 TKTIKK---T-------LNPVWNES----FEVPVPSRVRAVLKVEVYDWDRGGKDDLLGS 81
Query: 60 RILPL 64
+ L
Sbjct: 82 AYIDL 86
>gnl|CDD|111042 pfam02101, Ocular_alb, Ocular albinism type 1 protein.
Length = 407
Score = 26.2 bits (57), Expect = 3.7
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 31 PFLFRKVVLPDLAVL--RFGVYDENGKLLGQRI 61
P LF K V ++L R G+Y EN +L+G I
Sbjct: 210 PILFHKTVTAVASLLKGRKGIYTENERLMGAVI 242
>gnl|CDD|236885 PRK11246, PRK11246, hypothetical protein; Provisional.
Length = 218
Score = 25.8 bits (57), Expect = 5.0
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 8/35 (22%)
Query: 44 VLRFGVYDENGKLL---GQRI-----LPLDGLQAG 70
+L VYDE G L+ G+ + L LDG +AG
Sbjct: 87 ILDASVYDEQGDLIARSGESVNVRDRLALDGKKAG 121
>gnl|CDD|226116 COG3588, COG3588, Fructose-1,6-bisphosphate aldolase [Carbohydrate
transport and metabolism].
Length = 332
Score = 25.9 bits (57), Expect = 5.0
Identities = 21/87 (24%), Positives = 32/87 (36%), Gaps = 23/87 (26%)
Query: 2 YGL-PTDTIRKEFRTRLCPSNGLNPVY------NEEPFLFRKV--------------VLP 40
YG+ T+ R++ R RL S Y EE +K ++P
Sbjct: 36 YGIEETEYSRRDMRERLFTSPDFMEDYILGAILFEETM-DQKADGGYPADYLWKEKGIVP 94
Query: 41 DLAVLRFGVYDENGKLLGQRILPLDGL 67
+ V + G+ G L + LDGL
Sbjct: 95 GIKVDK-GLKPLAGVQLEKPTEGLDGL 120
>gnl|CDD|220038 pfam08842, Mfa2, Fimbrillin-A associated anchor proteins Mfa1 and
Mfa2. This family of proteins may be lipoproteins
principally from bacilli. They are between 300 and 400
residues. Many Bacteroides-like bacterial species,
including Porphyromonas gingivalis, the causal agent of
periodontal infection, carry at least two types of
fimbriae, namely FimA and Mfa1 fimbriae, following the
names of their major subunit proteins. Normally, FimA
fimbriae are long filaments that are easily detached
from cells, whereas Mfa1 fimbriae are short filaments
that are tightly bound to cells; however, in the
absence of Mfa2 protein, the Mfa1 fimbriae are also
very long and are not attached. Mfa2 and Mfa1 are
associated with each other in whole P. gingivalis cells
to the extent that Mfa2 is located on the cell surface
and probably associated with Mfa1 fimbriae in such a
way that it anchors the Mfa1 fimbriae to the cell
surface and regulates Mfa1 filament length.
Length = 276
Score = 25.5 bits (56), Expect = 5.8
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 7/39 (17%)
Query: 49 VYDENGKLLGQRILPLDGLQAGYRHISLRTEANFPMSLP 87
V+DENGKL+ + + L G A + LP
Sbjct: 35 VFDENGKLVSTITVEGETLVGGK-------YAMLLLPLP 66
>gnl|CDD|217517 pfam03369, Herpes_UL3, Herpesvirus UL3 protein.
Length = 135
Score = 25.4 bits (56), Expect = 5.9
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 6 TDTIRKEFRTRLC 18
TDTIRK+ R L
Sbjct: 21 TDTIRKDLRHSLA 33
>gnl|CDD|226871 COG4465, CodY, Pleiotropic transcriptional repressor
[Transcription].
Length = 261
Score = 25.4 bits (56), Expect = 7.5
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 2/53 (3%)
Query: 51 DENGKLLGQRILPLDGLQAGYRHISLRTEANFPMSLPMLFCNIELKIYVPDGF 103
D ++ R P + A T AN P+ + +E K P+G
Sbjct: 64 DRVKQMFEDRKFPDEYTSALLNV--YETSANLPVDSELTIFPVENKDLFPNGL 114
>gnl|CDD|143505 cd06836, PLPDE_III_ODC_DapDC_like_1, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzymes, Uncharacterized Proteins with
similarity to Ornithine and Diaminopimelate
Decarboxylases. This subfamily contains uncharacterized
proteins with similarity to ornithine decarboxylase
(ODC) and diaminopimelate decarboxylase (DapDC). ODC and
DapDC are fold type III PLP-dependent enzymes that
contain an N-terminal PLP-binding TIM-barrel domain and
a C-terminal beta-sandwich domain, similar to bacterial
alanine racemases. They exist as homodimers with active
sites that lie at the interface between the TIM barrel
domain of one subunit and the beta-sandwich domain of
the other subunit. ODC participates in the formation of
putrescine by catalyzing the decarboxylation of
ornithine, the first step in polyamine biosynthesis.
DapDC participates in the last step of lysine
biosynthesis, the conversion of
meso-2,6-diaminoheptanedioate to L-lysine. Proteins in
this subfamily may function as PLP-dependent
decarboxylases. Homodimer formation and the presence of
the PLP cofactor may be required for catalytic activity.
Length = 379
Score = 25.4 bits (56), Expect = 7.9
Identities = 9/24 (37%), Positives = 11/24 (45%)
Query: 32 FLFRKVVLPDLAVLRFGVYDENGK 55
R PD LR V+D NG+
Sbjct: 290 VATRTAYAPDDWPLRVTVFDANGE 313
>gnl|CDD|180341 PRK05990, PRK05990, precorrin-2 C(20)-methyltransferase; Reviewed.
Length = 241
Score = 25.3 bits (56), Expect = 8.0
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 34 FRKV--VLPDLAVLRFGVYDENGKLLGQRILPLD 65
KV VL L +L +Y E + QRI+PL
Sbjct: 186 LDKVRRVLAALGLLDRALYVERATMANQRIVPLA 219
>gnl|CDD|176070 cd08688, C2_KIAA0528-like, C2 domain found in the Human KIAA0528
cDNA clone. The members of this CD are named after the
Human KIAA0528 cDNA clone. All members here contain a
single C2 repeat. No other information on this protein
is currently known. The C2 domain was first identified
in PKC. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of
piccolo/aczonin and intersectin which only have a
single C2 domain. C2 domains with a calcium binding
region have negatively charged residues, primarily
aspartates, that serve as ligands for calcium ions.
Length = 110
Score = 24.6 bits (54), Expect = 8.4
Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 8/45 (17%)
Query: 11 KEFRTRLCPSNGLNPVYNEEPFLFRKVVLPDLA----VLRFGVYD 51
++T + + LNPV+N E F F + D L+ V D
Sbjct: 32 TTYKTDVVKKS-LNPVWNSEWFRFE---VDDEELQDEPLQIRVMD 72
>gnl|CDD|147381 pfam05167, DUF711, Uncharacterized ACR (DUF711). The proteins in
this family are functionally uncharacterized. The
proteins are around 450 amino acids long. It is likely
that this family represents a group of
glycerol-3-phosphate dehydrogenases.
Length = 390
Score = 25.3 bits (56), Expect = 8.5
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 53 NGKLLGQRILPLDGLQAG 70
N K G RI+P+ G + G
Sbjct: 366 NNKPTGVRIIPVPGKKPG 383
>gnl|CDD|219410 pfam07433, DUF1513, Protein of unknown function (DUF1513). This
family consists of several bacterial proteins of around
360 residues in length. The function of this family is
unknown.
Length = 304
Score = 24.9 bits (55), Expect = 9.9
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 52 ENGKLLGQRILPLDGLQAGYRHISLRT 78
G LL Q LP D Q RH+++
Sbjct: 146 RTGALLEQVELPPDLHQLSIRHLAVDG 172
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
0.324 0.147 0.452
Gapped
Lambda K H
0.267 0.0645 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,821,303
Number of extensions: 510063
Number of successful extensions: 467
Number of sequences better than 10.0: 1
Number of HSP's gapped: 461
Number of HSP's successfully gapped: 33
Length of query: 109
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 35
Effective length of database: 7,655,406
Effective search space: 267939210
Effective search space used: 267939210
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: 41 (22.0 bits)
S2: 53 (24.4 bits)