RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy586
(472 letters)
>gnl|CDD|214604 smart00295, B41, Band 4.1 homologues. Also known as
ezrin/radixin/moesin (ERM) protein domains. Present in
myosins, ezrin, radixin, moesin, protein tyrosine
phosphatases. Plasma membrane-binding domain. These
proteins play structural and regulatory roles in the
assembly and stabilization of specialized plasmamembrane
domains. Some PDZ domain containing proteins bind one or
more of this family. Now includes JAKs.
Length = 201
Score = 167 bits (426), Expect = 1e-49
Identities = 66/187 (35%), Positives = 108/187 (57%), Gaps = 7/187 (3%)
Query: 2 RATGRDLFDLVCRTVGLRETWYFGLQYED-NKGFIAWLKLDKKVQDQGISNQCTTPFMFL 60
T +L + VCR +G+RE+ YFGLQ+ED ++ WL K + DQ F
Sbjct: 19 STTAEELLETVCRKLGIRESEYFGLQFEDPDEDLRHWLDPAKTLLDQ-DVKSEPLTLYFR 77
Query: 61 AKFYAEDVAEELVQEVTQH-LFFLQVKQAILSMDIYCPPEASVLLASYAVQAKYGDYDDS 119
KFY D +L ++ T+ L +LQV+ IL + CP E ++LLA+ A+QA++GDYD+
Sbjct: 78 VKFYPPDP-NQLKEDPTRLNLLYLQVRNDILEGRLPCPEEEALLLAALALQAEFGDYDEE 136
Query: 120 TY-KPGMLASEDLLPQRVIDQYQMTPEMWEDRIKIWYADHRGMSRDEAEMEYLKIAQDLD 178
+ G L+ + LP++++D + W +RI + + G+S +EA+++YL++A+ L
Sbjct: 137 LHDLRGELSLKRFLPKQLLDS--RKLKEWRERIVELHKELIGLSPEEAKLKYLELARKLP 194
Query: 179 MYGVNYF 185
YGV F
Sbjct: 195 TYGVELF 201
Score = 71.9 bits (177), Expect = 2e-14
Identities = 24/74 (32%), Positives = 45/74 (60%), Gaps = 3/74 (4%)
Query: 282 YGDYDDSTY-KPGMLASEDLLPQRVIDQYQMTPEMWEDRIKIWYADHRGMSRDEAEMEYL 340
+GDYD+ + G L+ + LP++++D + W +RI + + G+S +EA+++YL
Sbjct: 130 FGDYDEELHDLRGELSLKRFLPKQLLDS--RKLKEWRERIVELHKELIGLSPEEAKLKYL 187
Query: 341 KIAQDLDMYGVNYF 354
++A+ L YGV F
Sbjct: 188 ELARKLPTYGVELF 201
>gnl|CDD|241348 cd13194, FERM_C_ERM, ERM family FERM domain C-lobe/F3. The ERM
family includes ezrin, radixin, moesin and merlin. They
are composed of a N-terminal FERM (ERM) domain (also
called N-ERMAD (N-terminal ERM association domain)), a
coiled coil region (CRR), and a C-terminal domain CERMAD
(C-terminal ERM association domain) which has an
F-actin-binding site (ABD). Two actin-binding sites have
been identified in the middle and N-terminal domains.
Merlin is structurally similar to the ERM proteins, but
instead of an actin-binding domain (ABD), it contains a
C-terminal domain (CTD), just like the proteins from the
4.1 family. Activated ezrin, radixin and moesin are
thought to be involved in the linking of actin filaments
to CD43, CD44, ICAM1-3 cell adhesion molecules, various
membrane channels and receptors, such as the Na+/H+
exchanger-3 (NHE3), cystic fibrosis transmembrane
conductance regulator (CFTR), and the beta2-adrenergic
receptor. The ERM proteins exist in two states, a
dormant state in which the FERM domain binds to its own
C-terminal tail and thereby precludes binding of some
partner proteins, and an activated state, in which the
FERM domain binds to one of many membrane binding
proteins and the C-terminal tail binds to F-actin. The
FERM domain has a cloverleaf tripart structure (FERM_N,
FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe,
C-lobe/F1, F2, F3). The C-lobe/F3 within the FERM domain
of ERM is part of the PH domain family. The FERM domain
is found in the cytoskeletal-associated proteins such as
ezrin, moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 97
Score = 163 bits (414), Expect = 3e-49
Identities = 59/80 (73%), Positives = 70/80 (87%)
Query: 179 MYGVNYFPISNKKDTDLWLGVTALGLNIYEKENKLTPKTTFPWSEIRHISFDDKKFIIKP 238
MYGVNYF I NKK TDLWLGV ALGLNIYE ENKLTPK FPWSEIR+ISF+DKKF+IKP
Sbjct: 1 MYGVNYFEIKNKKGTDLWLGVDALGLNIYELENKLTPKIGFPWSEIRNISFNDKKFVIKP 60
Query: 239 VDKSSPNFIFFSLKVRMNKL 258
+DK +P+F+F+S ++R+NK
Sbjct: 61 IDKKAPDFVFYSPRLRINKR 80
Score = 45.7 bits (109), Expect = 2e-06
Identities = 14/18 (77%), Positives = 17/18 (94%)
Query: 357 SILDLCIGNHDLFMRRRK 374
ILDLC+GNH+L+MRRRK
Sbjct: 80 RILDLCMGNHELYMRRRK 97
Score = 27.2 bits (61), Expect = 7.2
Identities = 8/9 (88%), Positives = 8/9 (88%)
Query: 348 MYGVNYFPI 356
MYGVNYF I
Sbjct: 1 MYGVNYFEI 9
>gnl|CDD|215882 pfam00373, FERM_M, FERM central domain. This domain is the central
structural domain of the FERM domain.
Length = 113
Score = 111 bits (279), Expect = 2e-29
Identities = 44/115 (38%), Positives = 70/115 (60%), Gaps = 3/115 (2%)
Query: 72 LVQEVTQHLFFLQVKQAILSMDIYCPPEASVLLASYAVQAKYGDYDDSTYKPGMLASED- 130
L EVT+ L +LQ+K+ IL + C E ++LLA+ A+QA++GDY+ + L +
Sbjct: 1 LQDEVTRELLYLQLKRDILEGRLPCSEEEALLLAALALQAEFGDYNPEKHSSSYLKELEY 60
Query: 131 LLPQRVIDQYQMTPEMWEDRIKIWYADHRGMSRDEAEMEYLKIAQDLDMYGVNYF 185
LP R+I + + + E RI + + RG+S EA+++YL+IAQ L YGV +F
Sbjct: 61 FLPSRLIKKEKS--KELEKRILEAHKNLRGLSPAEAKLKYLQIAQSLPTYGVTFF 113
Score = 64.2 bits (157), Expect = 9e-13
Identities = 26/74 (35%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 282 YGDYDDSTYKPGMLASED-LLPQRVIDQYQMTPEMWEDRIKIWYADHRGMSRDEAEMEYL 340
+GDY+ + L + LP R+I + + + E RI + + RG+S EA+++YL
Sbjct: 42 FGDYNPEKHSSSYLKELEYFLPSRLIKKEKS--KELEKRILEAHKNLRGLSPAEAKLKYL 99
Query: 341 KIAQDLDMYGVNYF 354
+IAQ L YGV +F
Sbjct: 100 QIAQSLPTYGVTFF 113
>gnl|CDD|220216 pfam09380, FERM_C, FERM C-terminal PH-like domain.
Length = 90
Score = 85.8 bits (213), Expect = 1e-20
Identities = 35/72 (48%), Positives = 44/72 (61%), Gaps = 6/72 (8%)
Query: 189 NKKDTDLWLGVTALGLNIYEKENKLTPKTTFPWSEIRHISFDDKKFIIKPVDKSSP---N 245
+KK TDLWLGV+A G+ +YE NK+ TFPWSEIR ISF KKF+IK D+
Sbjct: 1 DKKGTDLWLGVSAKGILVYEDNNKIN---TFPWSEIRKISFKRKKFLIKLRDEDESKETT 57
Query: 246 FIFFSLKVRMNK 257
F++ R K
Sbjct: 58 LTFYTPSPRACK 69
Score = 38.0 bits (89), Expect = 0.001
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 357 SILDLCIGNHDLFMRRRKPDT 377
+ LC+ H F RR PDT
Sbjct: 70 YLWKLCVEQHAFFRLRRPPDT 90
>gnl|CDD|241341 cd13187, FERM_C_PTPH13, Protein tyrosine phosphatase non-receptor
13 (PTPH13) FERM domain C-lobe. There are many
functions of PTPN13 (also called PTPL1, PTP-BAS, hPTP1E,
FAP1, or PTPL1). Mice lacking PTPN13 activity have
abnormal regulation of signal transducer and activator
of transcription signaling in their T cells, mild
impairment of motor nerve repair, and a significant
reduction in the growth of retinal glia cultures. It
also plays a role in adipocyte differentiation. PTPN13
contains a kinase non-catalytic C-lobe domain (KIND), a
FERM domain with two potential phosphatidylinositol
4,5-biphosphate [PtdIns(4,5)P2]-binding motifs, 5 PDZ
domains, and a carboxy-terminal catalytic domain. There
is an nteraction between the FERM domain of PTPL1 and
PtdIns(4,5)P2 which is thought to regulate the membrane
localization of PTPN13. PDZ are protein/protein
interaction domains so there is the potential for
numerous partners that can actively participate in the
regulation of its phosphatase activity or can permit
direct or indirect recruitment of tyrosine
phosphorylated PTPL1 substrates. The FERM domain has a
cloverleaf tripart structure (FERM_N, FERM_M, FERM_C/N,
alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3).
The C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs), the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 124
Score = 82.7 bits (205), Expect = 3e-19
Identities = 39/94 (41%), Positives = 55/94 (58%), Gaps = 4/94 (4%)
Query: 160 GMSRDEAEMEYLKIAQDLDMYGVNYFPISNKK---DTDLWLGVTALGLNIYEKENKL-TP 215
G+S +EAE+E+LK+ Q L YGV++ + +K +WLG+ + G+ IYE N TP
Sbjct: 1 GLSEEEAELEFLKVCQKLPEYGVHFHRVYREKKSSTGGIWLGICSRGIIIYEVHNGARTP 60
Query: 216 KTTFPWSEIRHISFDDKKFIIKPVDKSSPNFIFF 249
FPW E + ISFD KKFII+ S F+
Sbjct: 61 VLRFPWRETKKISFDRKKFIIENRGGSGIKHTFY 94
Score = 37.3 bits (87), Expect = 0.004
Identities = 13/25 (52%), Positives = 20/25 (80%)
Query: 329 GMSRDEAEMEYLKIAQDLDMYGVNY 353
G+S +EAE+E+LK+ Q L YGV++
Sbjct: 1 GLSEEEAELEFLKVCQKLPEYGVHF 25
>gnl|CDD|241343 cd13189, FERM_C_PTPN4_PTPN3_like, Protein tyrosine phosphatase
non-receptor proteins 3 and 4 (PTPN4 and PTPN3) FERM
domain C-lobe. PTPN4 (also called PTPMEG, protein
tyrosine phosphatase, megakaryocyte) is a cytoplasmic
protein-tyrosine phosphatase (PTP) thought to play a
role in cerebellar function. PTPMEG-knockout mice have
impaired memory formation and cerebellar long-term
depression. PTPN3/PTPH1 is a membrane-associated PTP
that is implicated in regulating tyrosine
phosphorylation of growth factor receptors, p97 VCP
(valosin-containing protein, or Cdc48 in Saccharomyces
cerevisiae), and HBV (Hepatitis B Virus) gene
expression; it is mutated in a subset of colon cancers.
PTPMEG and PTPN3/PTPH1 contains a N-terminal FERM
domain, a middle PDZ domain, and a C-terminal
phosphatase domain. PTP1/Tyrosine-protein phosphatase 1
from nematodes and a FERM_C repeat 1 from Tetraodon
nigroviridis also included in this cd. The FERM domain
has a cloverleaf tripart structure (FERM_N, FERM_M,
FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1,
F2, F3). The C-lobe within the FERM domain is part of
the PH domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 123
Score = 78.1 bits (193), Expect = 2e-17
Identities = 28/77 (36%), Positives = 45/77 (58%), Gaps = 3/77 (3%)
Query: 160 GMSRDEAEMEYLKIAQDLDMYGVNYFPISNKKDTDLWLGVTALGLNIYEKENKLTPKTTF 219
G S EAE +L A+ L++YGV + + +L +GVT+ G+ +++ ++ TF
Sbjct: 1 GQSPAEAEFNFLNTARTLELYGVELHSARDASNLELQVGVTSGGILVFQNGIRI---NTF 57
Query: 220 PWSEIRHISFDDKKFII 236
PWS+I ISF K+F I
Sbjct: 58 PWSKIVKISFKRKQFFI 74
Score = 36.9 bits (86), Expect = 0.005
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 329 GMSRDEAEMEYLKIAQDLDMYGVNYFPI---SILDLCIG 364
G S EAE +L A+ L++YGV S L+L +G
Sbjct: 1 GQSPAEAEFNFLNTARTLELYGVELHSARDASNLELQVG 39
>gnl|CDD|220215 pfam09379, FERM_N, FERM N-terminal domain. This domain is the
N-terminal ubiquitin-like structural domain of the FERM
domain.
Length = 79
Score = 67.6 bits (166), Expect = 3e-14
Identities = 30/64 (46%), Positives = 37/64 (57%)
Query: 2 RATGRDLFDLVCRTVGLRETWYFGLQYEDNKGFIAWLKLDKKVQDQGISNQCTTPFMFLA 61
ATG++L D VC+ +GLRE YFGLQ+ D K WL LDKK++ QG F
Sbjct: 16 SATGQELLDQVCQRLGLREKDYFGLQFNDKKNERIWLDLDKKLRKQGKDGDPPFTLFFRV 75
Query: 62 KFYA 65
KFY
Sbjct: 76 KFYP 79
>gnl|CDD|241233 cd00836, FERM_C-lobe, FERM domain C-lobe. The FERM domain has a
cloverleaf tripart structure (FERM_N, FERM_M, FERM_C/N,
alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3).
The C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs), the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 91
Score = 65.5 bits (160), Expect = 2e-13
Identities = 26/78 (33%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 181 GVNYFPISNKKD-TDLWLGVTALGLNIYEKENKLTPKTTFPWSEIRHISFDDKKFIIKPV 239
GV +F + +K ++L LGV+ G+++ +N P T F W EIR ISF K F I+
Sbjct: 1 GVEFFDVKDKSGGSELILGVSLEGISVL-DDNTGNPLTLFRWPEIRKISFSKKTFTIEIR 59
Query: 240 DKSSPNFIFFSLKVRMNK 257
F + R K
Sbjct: 60 GDKEEKLAFQTSSPREAK 77
>gnl|CDD|241338 cd13184, FERM_C_4_1_family, Protein 4.1 family FERM domain C-lobe.
The protein 4.1 family includes four well-defined
members: erythroid protein 4.1 (4.1R), the bestknown and
characterized member, 4.1G (general), 4.1N (neuronal),
and 4.1 B (brain). The less well understood 4.1O/FRMD3
is not a true member of this family and is not included
in this hierarchy. Besides three highly conserved
domains, FERM, SAB (spectrin and actin binding domain)
and CTD (C-terminal domain), the proteins from this
family contain several unique domains: U1, U2 and U3.
FERM domains like other members of the FERM domain
superfamily have a cloverleaf architecture with three
distinct lobes (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3). The C-lobe/F3
within the FERM domain is part of the PH domain family.
The brain is a particularly rich source of protein 4.1
isoforms. The various 4.1R, 4.1G, 4.1N, and 4.1B mRNAs
are all expressed in distinct patterns within the brain.
It is likely that 4.1 proteins play important functional
roles in the brain including motor coordination and
spatial learning, postmitotic differentiation, and
synaptic architecture and function. In addition they are
found in nonerythroid, nonneuronal cells where they may
play a general structural role in nuclear architecture
and/or may interact with splicing factors. The FERM C
domain is the third structural domain within the FERM
domain. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 113
Score = 65.0 bits (159), Expect = 6e-13
Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 160 GMSRDEAEMEYLKIAQDLDMYGVNYFPISNKKDTDLWLGVTALGLNIYEKENKLTPKTTF 219
G + EAE+ +L+ A+ L +YGV+ P + + D+ LGV A G+ +Y ++ F
Sbjct: 1 GQTPAEAELHFLENAKKLALYGVDLHPAKDSEGVDIMLGVCAGGILVYRDRLRI---NRF 57
Query: 220 PWSEIRHISFDDKKFIIK 237
W +I IS+ F IK
Sbjct: 58 AWPKILKISYKRNNFYIK 75
Score = 32.2 bits (74), Expect = 0.15
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 329 GMSRDEAEMEYLKIAQDLDMYGVNYFP 355
G + EAE+ +L+ A+ L +YGV+ P
Sbjct: 1 GQTPAEAELHFLENAKKLALYGVDLHP 27
>gnl|CDD|241347 cd13193, FERM_C_FARP1-like, FERM, RhoGEF and pleckstrin
domain-containing protein 1 and related proteins FERM
domain. Members here include FARP1 (also called
Chondrocyte-derived ezrin-like protein; PH
domain-containing family C member 2), FARP2 (also called
FIR/FERM domain including RhoGEF; FGD1-related
Cdc42-GEF/FRG), and FRMD7(FERM domain containing 7).
FARP1 and FARP2 are members of the Dbl family guanine
nucleotide exchange factors (GEFs) which are upstream
positive regulators of Rho GTPases. FARP1 has increased
expression in differentiated chondrocytes. FARP2 is
thought to regulate neurite remodeling by mediating the
signaling pathways from membrane proteins to Rac. It is
found in brain, lung, and testis, as well as embryonic
hippocampal and cortical neurons. These members are
composed of a N-terminal FERM domain, a proline-rich
(PR) domain, Dbl-homology (DH), and two C-terminal PH
domains. Other members in this family do not contain
the DH domains such as the Human FERM domain containing
protein 7 and Caenorhabditis elegans CFRM3, both of
which have unknown functions. They contain an N-terminal
FERM domain, a PH domain, followed by a FA (FERM
adjacent) domain. The FERM domain has a cloverleaf
tripart structure (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3). The C-lobe/F3
within the FERM domain is part of the PH domain family.
The FERM domain is found in the cytoskeletal-associated
proteins such as ezrin, moesin, radixin, 4.1R, and
merlin. These proteins provide a link between the
membrane and cytoskeleton and are involved in signal
transduction pathways. The FERM domain is also found in
protein tyrosine phosphatases (PTPs) , the tyrosine
kinases FAK and JAK, in addition to other proteins
involved in signaling. This domain is structurally
similar to the PH and PTB domains and consequently is
capable of binding to both peptides and phospholipids at
different sites.
Length = 122
Score = 58.5 bits (142), Expect = 1e-10
Identities = 22/65 (33%), Positives = 40/65 (61%), Gaps = 3/65 (4%)
Query: 173 IAQDLDMYGVNYFPISNKKDTDLWLGVTALGLNIYEKENKLTPKTTFPWSEIRHISFDDK 232
IA+ ++YG+ P +++ DL L V +G+ +++ K+ TF W++IR +SF K
Sbjct: 2 IARRCELYGIRLHPAKDREGVDLNLAVAHMGILVFQGFTKIN---TFSWAKIRKLSFKRK 58
Query: 233 KFIIK 237
+F+IK
Sbjct: 59 RFLIK 63
>gnl|CDD|241340 cd13186, FERM_C_NBL4_NBL5, Novel band 4.1-like protein 4 and 5 FERM
(NBL4 and 5) domain C-lobe. NBL4 (also called
Erythrocyte protein band 4.1-like 4; Epb4 1l4) plays a
role the beta-catenin/Tcf signaling pathway and is
thought to be involved in establishing the cell polarity
or proliferation. NBL4 may be also involved in adhesion,
in cell motility and/or in cell-to-cell communication.
No role for NBL5 has been proposed to date. Both NBL4
and NBL5 contain a N-terminal FERM domain which has a
cloverleaf tripart structure (FERM_N, FERM_M, FERM_C/N,
alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3).
A single FERM_C repeat 2 from Tetraodon nigroviridis
also included in this cdThe C-lobe is a member of the PH
superfamily. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 111
Score = 56.5 bits (137), Expect = 4e-10
Identities = 27/77 (35%), Positives = 44/77 (57%), Gaps = 3/77 (3%)
Query: 165 EAEMEYLKIAQDLDMYGVNYFPISNKKDTDLWLGVTALGLNIYEKENKLTPKTTFPWSEI 224
EAE+ YL A+ L+MYGV+ P+ + + +LG+T G+ +YE + K+ F W +I
Sbjct: 4 EAELNYLNKAKWLEMYGVDLHPVKGEDGNEYFLGLTPTGILVYENKTKI---GLFFWPKI 60
Query: 225 RHISFDDKKFIIKPVDK 241
+ F KK + V+K
Sbjct: 61 TKLDFKGKKLKLVVVEK 77
Score = 33.0 bits (76), Expect = 0.079
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 334 EAEMEYLKIAQDLDMYGVNYFPI 356
EAE+ YL A+ L+MYGV+ P+
Sbjct: 4 EAELNYLNKAKWLEMYGVDLHPV 26
>gnl|CDD|241346 cd13192, FERM_C_FRMD3_FRMD5, FERM domain-containing protein 3 and 5
FERM (FRMD3 and 5) domain C-lobe. FRMD3 (also called
Band 4.1-like protein 4O/4.1O though it is not a true
member of that family) is a novel putative tumor
suppressor gene that is implicated in the origin and
progression of lung cancer. In humans there are 5
isoforms that are produced by alternative splicing. Less
is known about FRMD5, though there are 2 isoforms of the
human protein are produced by alternative splicing. Both
FRMD3 and FRMD5 contain a N-terminal FERM domain,
followed by a FERM adjacent (FA) domain, and 4.1 protein
C-terminal domain (CTD). The FERM domain has a
cloverleaf tripart structure (FERM_N, FERM_M, FERM_C/N,
alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3).
The C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 105
Score = 55.8 bits (135), Expect = 6e-10
Identities = 22/71 (30%), Positives = 39/71 (54%), Gaps = 3/71 (4%)
Query: 166 AEMEYLKIAQDLDMYGVNYFPISNKKDTDLWLGVTALGLNIYEKENKLTPKTTFPWSEIR 225
AE+ +L+ A L+ YGV+ P+ + T L+LG T G+ ++ + K F W +I
Sbjct: 1 AELNFLRKAHTLETYGVDPHPVKDHYGTQLYLGFTHTGVVVF-QGGKRV--HHFKWDDIS 57
Query: 226 HISFDDKKFII 236
+++ K FI+
Sbjct: 58 KFNYEGKTFIL 68
Score = 28.1 bits (63), Expect = 3.3
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 335 AEMEYLKIAQDLDMYGVNYFPI 356
AE+ +L+ A L+ YGV+ P+
Sbjct: 1 AELNFLRKAHTLETYGVDPHPV 22
>gnl|CDD|241345 cd13191, FERM_C_FRMD4A_FRMD4B, FERM domain-containing protein 4A
and 4B (FRMD4A and 4B) FERM domain C-lobe. FRMD4A is
part of the Par-3/FRMD4A/cytohesin-1 complex that
activates Arf6, a central player in actin cytoskeleton
dynamics and membrane trafficking, during junctional
remodeling and epithelial polarization. The
Par-3/Par-6/aPKC/Cdc42 complex regulates the conversion
of primordial adherens junctions (AJs) into belt-like
AJs and the formation of linear actin cables. When
primordial AJs are formed, Par-3 recruits scaffolding
protein FRMD4A which connects Par-3 and the Arf6
guanine-nucleotide exchange factor (GEF), cytohesin-1.
FRMD4B (also called GRP1-binding protein, GRSP1) is a
novel member of GRP1 signaling complexes that are
recruited to plasma membrane ruffles in response to
insulin receptor signaling. The GRSP1/FRMD4B protein
contains a FERM protein domain as well as two coiled
coil domains and may function as a scaffolding protein.
GRP1 and GRSP1 interact through the coiled coil domains
in the two proteins. The FERM domain has a cloverleaf
tripart structure (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3). The C-lobe/F3
within the FERM domain is part of the PH domain family.
The FERM domain is found in the cytoskeletal-associated
proteins such as ezrin, moesin, radixin, 4.1R, and
merlin. These proteins provide a link between the
membrane and cytoskeleton and are involved in signal
transduction pathways. The FERM domain is also found in
protein tyrosine phosphatases (PTPs) , the tyrosine
kinases FAK and JAK, in addition to other proteins
involved in signaling. This domain is structurally
similar to the PH and PTB domains and consequently is
capable of binding to both peptides and phospholipids at
different sites.
Length = 115
Score = 55.0 bits (133), Expect = 2e-09
Identities = 19/58 (32%), Positives = 36/58 (62%)
Query: 179 MYGVNYFPISNKKDTDLWLGVTALGLNIYEKENKLTPKTTFPWSEIRHISFDDKKFII 236
YGV+Y+ + +K WLG++ G+ Y+ ++K+ P+ F W ++ ++ F D+KF I
Sbjct: 2 TYGVHYYEVKDKNGIPWWLGLSYKGIGQYDLQDKVKPRKLFQWKQLENLYFRDRKFSI 59
>gnl|CDD|241342 cd13188, FERM_C_PTPN14_PTPN21, Protein tyrosine phosphatase
non-receptor proteins 14 and 21 (PTPN14 and 21) FERM
domain. This CD contains PTP members: pez/PTPN14 and
PTPN21. A number of mutations in Pez have been shown to
be associated with breast and colorectal cancer. The
PTPN protein family belong to larger family of PTPs.
PTPs are known to be signaling molecules that regulate a
variety of cellular processes including cell growth,
differentiation, mitotic cycle, and oncogenic
transformation. The members are composed of a N-terminal
FERM domain and a C-terminal PTP catalytic domain. The
FERM domain has a cloverleaf tripart structure (FERM_N,
FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe,
C-lobe/F1, F2, F3). The C-lobe/F3 within the FERM domain
is part of the PH domain family. Like most other ERM
members they have a phosphoinositide-binding site in
their FERM domain. The FERM C domain is the third
structural domain within the FERM domain. The FERM
domain is found in the cytoskeletal-associated proteins
such as ezrin, moesin, radixin, 4.1R, and merlin. These
proteins provide a link between the membrane and
cytoskeleton and are involved in signal transduction
pathways. The FERM domain is also found in protein
tyrosine phosphatases (PTPs) , the tyrosine kinases FAK
and JAK, in addition to other proteins involved in
signaling. This domain is structurally similar to the PH
and PTB domains and consequently is capable of binding
to both peptides and phospholipids at different sites.
Length = 111
Score = 54.6 bits (132), Expect = 2e-09
Identities = 27/100 (27%), Positives = 50/100 (50%), Gaps = 4/100 (4%)
Query: 160 GMSRDEAEMEYLKIAQDLDMYGVNYFPISNKKDTDLWLGVTALGLNIYEKENKLTPKTTF 219
G+S EAE+ Y++ + LD YG +P + + D+++G + G I+ K P F
Sbjct: 1 GLSPAEAELLYIQEVEQLDGYGEESYPAKDNQGNDIFIGASFEG--IFVKHKNGRPPVVF 58
Query: 220 PWSEIRHISFDDKKFIIKPVDKSSPNFIFFSLKVRMNKLY 259
W++I +IS + F ++ ++K I F ++ Y
Sbjct: 59 KWNDIGNISHNKSFFSVELINKEET--IQFQMEDAETAKY 96
Score = 35.0 bits (81), Expect = 0.015
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 329 GMSRDEAEMEYLKIAQDLDMYGVNYFP 355
G+S EAE+ Y++ + LD YG +P
Sbjct: 1 GLSPAEAELLYIQEVEQLDGYGEESYP 27
>gnl|CDD|241339 cd13185, FERM_C_FRMD1_FRMD6, FERM domain containing 1 and 6
proteins FERM domain C-lobe. FRMD6 (also called willin
and hEx/human expanded) is localized throughout the
cytoplasm or along the plasma membrane The Drosophilla
protein Ex is a regulator of the Hippo/SWH (Sav/Wts/Hpo)
signaling pathway, a signaling pathway that plays a
pivotal role in organ size control and is tumor
suppression by restricting proliferation and promoting
apoptosis. Surprisingly, hEx is thought to function
independently of the Hippo pathway. Instead it is
hypothesized that hEx inhibits progression through the S
phase of the cell cycle by upregulating p21(Cip1) and
downregulating Cyclin A. It is also implicated in the
progression of Alzheimer disease. Not much is known
about FRMD1 to date. Both FRMD1 and FRMD6 contains a
single FERM domain which has a cloverleaf tripart
structure (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3). The C-lobe is
a member of the PH superfamily. The FERM domain is found
in the cytoskeletal-associated proteins such as ezrin,
moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 109
Score = 51.1 bits (123), Expect = 3e-08
Identities = 26/59 (44%), Positives = 35/59 (59%), Gaps = 3/59 (5%)
Query: 188 SNKKDTD--LWLGVTALGLNIY-EKENKLTPKTTFPWSEIRHISFDDKKFIIKPVDKSS 243
+KK+T + LG+TA G+ IY E + + TFPWS I +SFD KKF I+P S
Sbjct: 12 KSKKETTGSVLLGITAKGIQIYQESDGEKQLLRTFPWSNIGKLSFDRKKFEIRPEGLPS 70
>gnl|CDD|241353 cd13199, FERM_C2_MyoVII, Myosin VII (MyoVII, Myo7) FERM domain
C-lobe, repeat 2. MyoVII, a MyTH-FERM myosin, is an
actin-based motor protein essential for a variety of
biological processes in the actin cytoskeleton function.
Mutations in MyoVII leads to problems in sensory
perception: deafness and blindness in humans (Usher
Syndrome), retinal defects and deafness in mice (shaker
1), and aberrant auditory and vestibular function in
zebrafish. Myosin VIIAs have plus (barbed) end-directed
motor activity on actin filaments and a characteristic
actin-activated ATPase activity. MyoVII consists of a
conserved spectrin-like, SH3 subdomain N-terminal
region, a motor/head region, a neck made of 4-5 IQ
motifs, and a tail consisting of a coiled-coil domain,
followed by a tandem repeat of myosin tail homology 4
(MyTH4) domains and partial FERM domains that are
separated by an SH3 subdomain and are thought to mediate
dimerization and binding to other proteins or cargo.
Members include: MyoVIIa, MyoVIIb, and MyoVII members
that do not have distinct myosin VIIA and myosin VIIB
genes. The FERM domain has a cloverleaf tripart
structure (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3). The C-lobe/F3
within the FERM domain is part of the PH domain family.
The FERM domain is found in the cytoskeletal-associated
proteins such as ezrin, moesin, radixin, 4.1R, and
merlin. These proteins provide a link between the
membrane and cytoskeleton and are involved in signal
transduction pathways. The FERM domain is also found in
protein tyrosine phosphatases (PTPs) , the tyrosine
kinases FAK and JAK, in addition to other proteins
involved in signaling. This domain is structurally
similar to the PH and PTB domains and consequently is
capable of binding to both peptides and phospholipids at
different sites.
Length = 176
Score = 50.3 bits (121), Expect = 2e-07
Identities = 37/135 (27%), Positives = 71/135 (52%), Gaps = 16/135 (11%)
Query: 98 PEASVLLASYAVQAKYGDYDDSTYK--PGMLASEDLLPQRVIDQYQMTPEMWEDRIKIWY 155
E ++ LA+ + ++GD D S ++ P ML ++L+P +I +P+ W+ I Y
Sbjct: 1 KEDAIQLAALIYRVRFGD-DKSQFQSIPKML--KELIPADLIKL--QSPDEWKKLIIAAY 55
Query: 156 ADHRGMSRDEAEMEYLKIAQDLDMYGVNYFPISNKKDTD------LWLGVTALGLNIYEK 209
H GMS +EA++ +LKI +G +F + K+ TD L + + G+++ +
Sbjct: 56 NKHAGMSSEEAKLAFLKIIYRWPTFGSAFFEV--KQTTDPNLPEILLIAINKNGVSLIDP 113
Query: 210 ENKLTPKTTFPWSEI 224
+ K T+P+++I
Sbjct: 114 KTKEI-LVTYPFTKI 127
Score = 42.6 bits (101), Expect = 1e-04
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 292 PGMLASEDLLPQRVIDQYQMTPEMWEDRIKIWYADHRGMSRDEAEMEYLKIAQDLDMYGV 351
P ML ++L+P +I +P+ W+ I Y H GMS +EA++ +LKI +G
Sbjct: 27 PKML--KELIPADLIKL--QSPDEWKKLIIAAYNKHAGMSSEEAKLAFLKIIYRWPTFGS 82
Query: 352 NYFPI 356
+F +
Sbjct: 83 AFFEV 87
>gnl|CDD|241349 cd13195, FERM_C_MYLIP_IDOL, The E3 ubiquitin ligase myosin
regulatory light chain-interacting protein (MYLIP; also
called inducible degrader of the LDL receptor, IDOL)
FERM domain C-lobe. MYLIP/IDOL is a regulator of the
LDL receptor (LDLR) pathway via the nuclear receptor
liver X receptor (LXR). In response to cellular
cholesterol loading, the activation of LXR leads to the
induction of MYLIP expression. MYLIP stimulates
ubiquitination of the LDLR on its cytoplasmic tail,
directing its degradation. The LXR-MYLIP-LDLR pathway
provides a complementary pathway to sterol regulatory
element-binding proteins for the feedback inhibition of
cholesterol uptake. MYLIP has an N-terminal FERM domain
and in some cases a C-terminal RING domain. The FERM
domain has a cloverleaf tripart structure (FERM_N,
FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe,
C-lobe/F1, F2, F3). The C-lobe/F3 within the FERM domain
is part of the PH domain family. The FERM domain is
found in the cytoskeletal-associated proteins such as
ezrin, moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 131
Score = 46.4 bits (111), Expect = 2e-06
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 2/75 (2%)
Query: 160 GMSRDEAEMEYLKIAQDLDMYGVNYFPISNKKDTDLWLGVTALGLNIYEKENKLTPKTTF 219
GMS AE +LK +L+ YGV F + + L +GV G+ I +
Sbjct: 1 GMSPSTAEYLFLKEVSELENYGVETFHVRTIEGQKLVIGVGPDGIRICNDDG--ELIQRI 58
Query: 220 PWSEIRHISFDDKKF 234
P++ I+ + K F
Sbjct: 59 PYTAIQMATSSGKVF 73
Score = 34.1 bits (79), Expect = 0.044
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 329 GMSRDEAEMEYLKIAQDLDMYGVNYFPI-----SILDLCIGNHDL 368
GMS AE +LK +L+ YGV F + L + +G +
Sbjct: 1 GMSPSTAEYLFLKEVSELENYGVETFHVRTIEGQKLVIGVGPDGI 45
>gnl|CDD|241356 cd13202, FERM_C_MyoX, Myosin X (MyoX, Myo10) FERM domain C-lobe.
MyoX, a MyTH-FERM myosin, is a molecular motor that has
crucial functions in the transport and/or tethering of
integrins in the actin-based extensions known as
filopodia, microtubule binding, and in netrin-mediated
axon guidance. It functions as a dimer. MyoX walks on
bundles of actin, rather than single filaments, unlike
the other unconventional myosins. MyoX is present in
organisms ranging from humans to choanoflagellates, but
not in Drosophila and Caenorhabditis elegans.MyoX
consists of a N-terminal motor/head region, a neck made
of 3 IQ motifs, and a tail consisting of a coiled-coil
domain, a PEST region, 3 PH domains, a myosin tail
homology 4 (MyTH4), and a FERM domain at its very
C-terminus. The MyoX FERM domain binds to the NPXY motif
of several beta-integrins, a key family of cell surface
receptors that are involved in cell adhesion and
migration. In addition the FERM domain binds to the
cytoplasmic domains of the netrin receptors DCC (deleted
in colorectal cancer) and neogenin. The FERM domain also
forms a supramodule with its MyTH4 domain which binds to
the negatively charged E-hook region in the tails of
alpha- and beta-tubulin forming a proposed motorized
link between actin filaments and microtubules. The FERM
domain has a cloverleaf tripart structure (FERM_N,
FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe,
C-lobe/F1, F2, F3). The C-lobe/F3 within the FERM domain
is part of the PH domain family. The FERM domain is
found in the cytoskeletal-associated proteins such as
ezrin, moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 111
Score = 45.8 bits (109), Expect = 2e-06
Identities = 24/73 (32%), Positives = 43/73 (58%), Gaps = 7/73 (9%)
Query: 161 MSRDEAEMEYLKIAQDLDMYGVNYFPISNKKDT----DLWLGVTALGLNIYEKENKLTPK 216
MS+++A +Y+ I ++ YG F + K+ +LWLGV+A G+++Y K + P
Sbjct: 1 MSQEDAMAKYMAIIREWPGYGSTLFEVECNKEGGFPQELWLGVSAKGVSLY-KRGEPEPL 59
Query: 217 TTFPWSEIRHISF 229
+FP+ +I +SF
Sbjct: 60 ESFPYEKI--LSF 70
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB [Transport and binding proteins, Other,
Cellular processes, Pathogenesis].
Length = 346
Score = 40.2 bits (94), Expect = 0.002
Identities = 24/93 (25%), Positives = 45/93 (48%), Gaps = 2/93 (2%)
Query: 381 QQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVK 440
QQ K AK+E+ R Q + + A E + + AAE+ + ++ ++ + A +A K +
Sbjct: 57 QQKKPAAKKEQER-QKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAE 115
Query: 441 VSEREAAE-REKCAMEQRLVQYQEEIRLANEAL 472
+++A E + K A E + E + A E
Sbjct: 116 EKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEA 148
Score = 32.1 bits (73), Expect = 0.52
Identities = 15/102 (14%), Positives = 44/102 (43%), Gaps = 6/102 (5%)
Query: 371 RRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIR 430
++ + +++Q +A+++++ Q + +L + +AA++ + A +Q + ++
Sbjct: 64 KKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEE 123
Query: 431 LANEALKCVKVSEREAAER------EKCAMEQRLVQYQEEIR 466
+ K AE+ +K A E+ + E +
Sbjct: 124 AKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAK 165
Score = 32.1 bits (73), Expect = 0.56
Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 13/108 (12%)
Query: 372 RRKPDTMEIQQMKSQAKEEKSRRQIE---RNKLAREKQL-----REAAEREKCAMEQRLV 423
+R + ++++ +A EK+ +Q E + ++KQ ++AAE + A +
Sbjct: 83 QRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEK 142
Query: 424 QYQEEIRLANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEA 471
+ +EE + E K AAE +K A E + + + E + EA
Sbjct: 143 KAKEEAKKQAEEEAKAK----AAAEAKKKAAEAK-KKAEAEAKAKAEA 185
Score = 32.1 bits (73), Expect = 0.62
Identities = 21/92 (22%), Positives = 43/92 (46%), Gaps = 7/92 (7%)
Query: 373 RKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLA 432
K + ++++ QA+E + +R E+ + +Q A + K A + Q +E+ + A
Sbjct: 63 AKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAK-QAEEKQKQA 121
Query: 433 NEALKCVKVSEREAAEREKCAMEQRLVQYQEE 464
EA ++AAE + A + + +EE
Sbjct: 122 EEA------KAKQAAEAKAKAEAEAEKKAKEE 147
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 39.9 bits (93), Expect = 0.002
Identities = 26/102 (25%), Positives = 51/102 (50%), Gaps = 1/102 (0%)
Query: 371 RRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIR 430
R++K + + + QA E++ +Q+E+ +L ++Q ++A E EK A ++ Q ++ +
Sbjct: 81 RKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQARK 140
Query: 431 LANEALKCVKVSEREA-AEREKCAMEQRLVQYQEEIRLANEA 471
A E K + ++ +A AE K + EE A E
Sbjct: 141 AAAEQKKKAEAAKAKAAAEAAKLKAAAEAKKKAEEAAKAAEE 182
Score = 36.9 bits (85), Expect = 0.023
Identities = 23/91 (25%), Positives = 46/91 (50%)
Query: 381 QQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVK 440
QQ ++ S ++ E+ + +E+Q+ E + ++ A ++RL Q ++E A E K +
Sbjct: 62 QQYGRIQSQQSSAKKGEQQRKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAE 121
Query: 441 VSEREAAEREKCAMEQRLVQYQEEIRLANEA 471
+E++A +K EQ E+ + A A
Sbjct: 122 EAEKQAQLEQKQQEEQARKAAAEQKKKAEAA 152
Score = 31.8 bits (72), Expect = 0.68
Identities = 20/100 (20%), Positives = 40/100 (40%), Gaps = 7/100 (7%)
Query: 378 MEIQQMKSQ----AKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRL-- 431
+E +++K+Q EE ++ K E+ + AAE++K A + E +L
Sbjct: 106 LEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQARKAAAEQKKKAEAAKAKAAAEAAKLKA 165
Query: 432 -ANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANE 470
A K + ++ + K + + E + A E
Sbjct: 166 AAEAKKKAEEAAKAAEEAKAKAEAAAAKKKAEAEAKAAAE 205
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein
TolA; Provisional.
Length = 387
Score = 39.8 bits (93), Expect = 0.002
Identities = 27/93 (29%), Positives = 47/93 (50%), Gaps = 3/93 (3%)
Query: 381 QQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKC-AMEQRLVQYQEEIRLANEALKCV 439
QQ KS + E+ +R+ + + A E Q ++AAE+E+ +E+ + QE+ + A EA K
Sbjct: 69 QQQKSAKRAEE-QRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQA 127
Query: 440 KVSEREAAEREKCAMEQ-RLVQYQEEIRLANEA 471
+ +++A E A + E R A A
Sbjct: 128 ALKQKQAEEAAAKAAAAAKAKAEAEAKRAAAAA 160
Score = 39.0 bits (91), Expect = 0.004
Identities = 25/93 (26%), Positives = 45/93 (48%), Gaps = 9/93 (9%)
Query: 380 IQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKC-AMEQRLVQYQEEIRLANEALKC 438
QQ + AK + +R+ + + A E Q ++AAE+E+ +E+ + QE+ + A EA
Sbjct: 67 QQQQQKSAKRAEEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEA--- 123
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEIRLANEA 471
++AA ++K A E + EA
Sbjct: 124 ----AKQAALKQKQAEEAAAKA-AAAAKAKAEA 151
Score = 38.6 bits (90), Expect = 0.005
Identities = 27/104 (25%), Positives = 46/104 (44%), Gaps = 6/104 (5%)
Query: 371 RRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIR 430
R++K + + QA E++ +Q+E+ +LA ++Q ++A E K A + Q Q E
Sbjct: 81 RKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALK---QKQAEEA 137
Query: 431 LANEALKCVKVSEREA---AEREKCAMEQRLVQYQEEIRLANEA 471
A A +E EA A K A + + + E A
Sbjct: 138 AAKAAAAAKAKAEAEAKRAAAAAKKAAAEAKKKAEAEAAKKAAA 181
>gnl|CDD|192773 pfam11559, ADIP, Afadin- and alpha -actinin-Binding. This family
is found in mammals where it is localised at cell-cell
adherens junctions, and in Sch. pombe and other fungi
where it anchors spindle-pole bodies to spindle
microtubules. It is a coiled-coil structure, and in
pombe, it is required for anchoring the minus end of
spindle microtubules to the centrosome equivalent, the
spindle-pole body. The name ADIP derives from the family
being composed of Afadin- and alpha -Actinin-Binding
Proteins Localised at Cell-Cell Adherens Junctions.
Length = 149
Score = 36.9 bits (86), Expect = 0.007
Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 13/105 (12%)
Query: 366 HDLFMRRRKP----DTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQR 421
+ L +R + +++E K +A E R Q N + R K E ERE ++ +
Sbjct: 39 YSLLQQRDRDLEFRESLEETLRKLEA--EIERLQ---NTIERLKTQLEDLERELALLQAK 93
Query: 422 LVQYQEEIRLANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIR 466
Q +++++ + LK +E+E +R K ++QR QY E++
Sbjct: 94 ERQLEKKLKTLEQKLK----NEKEEVQRLKNIIQQRKTQYNHELK 134
>gnl|CDD|216108 pfam00769, ERM, Ezrin/radixin/moesin family. This family of
proteins contain a band 4.1 domain (pfam00373), at their
amino terminus. This family represents the rest of these
proteins.
Length = 244
Score = 36.6 bits (85), Expect = 0.016
Identities = 15/77 (19%), Positives = 33/77 (42%), Gaps = 3/77 (3%)
Query: 378 MEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALK 437
E+++ + +EE + + ER +L E + A E +E+ + + E R + L+
Sbjct: 57 DELEEENRRLEEEAAASEEERERLEAE---VDEATAEVAKLEEEREKKEAETRQLQQELR 113
Query: 438 CVKVSEREAAEREKCAM 454
+ + A + A
Sbjct: 114 EAQEAHERARQELLEAA 130
Score = 33.6 bits (77), Expect = 0.15
Identities = 24/117 (20%), Positives = 47/117 (40%), Gaps = 14/117 (11%)
Query: 370 MRRRKPDTME-IQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEE 428
R + + E ++QM+ + + + ++ + E E +E++ + +EE
Sbjct: 3 AEREQQELEERMEQMEEDMRRAQKELEEYEETALELEEKLKQEEEEAQLLEKKADELEEE 62
Query: 429 I-RLANEALKCVK-----VSEREAAEREKCAMEQRL-------VQYQEEIRLANEAL 472
RL EA + +E + A E +E+ Q Q+E+R A EA
Sbjct: 63 NRRLEEEAAASEEERERLEAEVDEATAEVAKLEEEREKKEAETRQLQQELREAQEAH 119
Score = 30.9 bits (70), Expect = 1.2
Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 8/56 (14%)
Query: 409 EAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSEREAAEREKCAMEQRLVQYQEE 464
E AERE+ +E+R+ Q +E++R A + L E E +E++L Q +EE
Sbjct: 1 EEAEREQQELEERMEQMEEDMRRAQKEL--------EEYEETALELEEKLKQEEEE 48
Score = 28.2 bits (63), Expect = 9.5
Identities = 12/28 (42%), Positives = 20/28 (71%)
Query: 445 EAAEREKCAMEQRLVQYQEEIRLANEAL 472
E AERE+ +E+R+ Q +E++R A + L
Sbjct: 1 EEAEREQQELEERMEQMEEDMRRAQKEL 28
>gnl|CDD|218684 pfam05672, MAP7, MAP7 (E-MAP-115) family. The organisation of
microtubules varies with the cell type and is presumably
controlled by tissue-specific microtubule-associated
proteins (MAPs). The 115-kDa epithelial MAP
(E-MAP-115/MAP7) has been identified as a
microtubule-stabilising protein predominantly expressed
in cell lines of epithelial origin. The binding of this
microtubule associated protein is nucleotide
independent.
Length = 171
Score = 35.5 bits (81), Expect = 0.023
Identities = 27/89 (30%), Positives = 46/89 (51%), Gaps = 1/89 (1%)
Query: 376 DTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEA 435
D +E +++K +A EE+ RR+ E + E++ RE E+ K E+ Q QEE +
Sbjct: 53 DRLEREELKRRAAEERLRREEEARRQ-EEERAREKEEKAKRKAEEEEKQEQEEQERIQKQ 111
Query: 436 LKCVKVSEREAAEREKCAMEQRLVQYQEE 464
+ + RE AER + E+ Q ++E
Sbjct: 112 KEEAEARAREEAERMRLEREKHFQQIEQE 140
Score = 28.9 bits (64), Expect = 4.4
Identities = 23/80 (28%), Positives = 46/80 (57%), Gaps = 3/80 (3%)
Query: 372 RRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRL 431
RR+ + ++ +++ KEEK++R+ E + +E++ +E +++K E R + E +RL
Sbjct: 70 RREEEARRQEEERAREKEEKAKRKAEEEEK-QEQEEQERIQKQKEEAEARAREEAERMRL 128
Query: 432 ANEALKCVKVSEREAAEREK 451
E K + E+E ER+K
Sbjct: 129 ERE--KHFQQIEQERLERKK 146
Score = 28.5 bits (63), Expect = 5.3
Identities = 22/100 (22%), Positives = 47/100 (47%)
Query: 371 RRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIR 430
RR+ + E ++ + + +EE+ R + E K ++ E + E+R + +E+ +
Sbjct: 32 RRQAREQREQEEQERREQEEQDRLEREELKRRAAEERLRREEEARRQEEERAREKEEKAK 91
Query: 431 LANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANE 470
E + + E+E +++K E R + E +RL E
Sbjct: 92 RKAEEEEKQEQEEQERIQKQKEEAEARAREEAERMRLERE 131
Score = 28.1 bits (62), Expect = 7.4
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 7/84 (8%)
Query: 388 KEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQ-------YQEEIRLANEALKCVK 440
EE +R E+ + ARE++ +E ER + + RL + +E +R EA + +
Sbjct: 21 AEEATRLLAEKRRQAREQREQEEQERREQEEQDRLEREELKRRAAEERLRREEEARRQEE 80
Query: 441 VSEREAAEREKCAMEQRLVQYQEE 464
RE E+ K E+ Q QEE
Sbjct: 81 ERAREKEEKAKRKAEEEEKQEQEE 104
>gnl|CDD|241235 cd00900, PH-like, Pleckstrin homology-like domain. The PH-like
family includes the PH domain, both the Shc-like and
IRS-like PTB domains, the ran-binding domain, the EVH1
domain, a domain in neurobeachin and the third domain of
FERM. All of these domains have a PH fold, but lack
significant sequence similarity. They are generally
involved in targeting to protein to the appropriate
cellular location or interacting with a binding partner.
This domain family possesses multiple functions
including the ability to bind inositol phosphates and to
other proteins.
Length = 88
Score = 33.9 bits (78), Expect = 0.024
Identities = 15/68 (22%), Positives = 25/68 (36%), Gaps = 8/68 (11%)
Query: 190 KKDTDLWLGVTALGLNIYEKENKLTPKTTFPWSEIRHISFD-----DKKFIIKPVDKSSP 244
KK L +T+ L I + K P S+I ++ D+ ++ K
Sbjct: 13 KKRGRGTLFITSNRL-ILRDKQDDRLKLKIPISDIVKVNPSRASDSDRALVL--RLKDKR 69
Query: 245 NFIFFSLK 252
+ FS K
Sbjct: 70 ESLGFSFK 77
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 36.5 bits (85), Expect = 0.032
Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 5/84 (5%)
Query: 379 EIQQMKSQAKEEKSR---RQ--IERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLAN 433
I+Q K +A+E K+R RQ +ER K ARE + ++AAE + + ++
Sbjct: 440 AIEQEKKKAEEAKARFEARQARLEREKAAREARHKKAAEARAAKDKDAVAAALARVKAKK 499
Query: 434 EALKCVKVSEREAAEREKCAMEQR 457
A V + A + R
Sbjct: 500 AAATQPIVIKAGARPDNSAVIAAR 523
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 35.8 bits (83), Expect = 0.051
Identities = 20/101 (19%), Positives = 48/101 (47%), Gaps = 6/101 (5%)
Query: 378 MEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALK 437
EI++++ + + + + +L ++ +A ERE ++EQR + ++EI E ++
Sbjct: 779 EEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIE 838
Query: 438 CVK------VSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
++ E E E+E +++ L + + E + L
Sbjct: 839 ELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDEL 879
Score = 33.1 bits (76), Expect = 0.37
Identities = 18/94 (19%), Positives = 44/94 (46%), Gaps = 1/94 (1%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
E++++K + + + R + +L K+ + E E ++ L + EE+ E L+
Sbjct: 398 ELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEELNEELEELEEQLEE 457
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
++ + ERE +++ L + ++E+ L
Sbjct: 458 LR-DRLKELERELAELQEELQRLEKELSSLEARL 490
Score = 32.0 bits (73), Expect = 0.76
Identities = 21/94 (22%), Positives = 42/94 (44%), Gaps = 8/94 (8%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
EI++++ + +E + + +L ++ E + E L + + E + LK
Sbjct: 829 EIEELEEEIEELEEKLDELEEELEELEKELEELKEE-------LEELEAEKEELEDELKE 881
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
++ E+E E E +E L + +EEI E L
Sbjct: 882 LE-EEKEELEEELRELESELAELKEEIEKLRERL 914
Score = 29.7 bits (67), Expect = 4.0
Identities = 22/95 (23%), Positives = 39/95 (41%), Gaps = 2/95 (2%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLA-REKQLREAAEREKCAMEQRLVQYQEEIRLANEALK 437
E++ S +E + E +L R ++L+E E K +E+R +E +L E L+
Sbjct: 299 ELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAE-LE 357
Query: 438 CVKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
K E +E+ +EE+ L
Sbjct: 358 EAKEELEEKLSALLEELEELFEALREELAELEAEL 392
Score = 29.7 bits (67), Expect = 4.3
Identities = 18/96 (18%), Positives = 41/96 (42%), Gaps = 15/96 (15%)
Query: 377 TMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEAL 436
E++++K + +E ++ ++ ++L ++ +E E E +E L + +EEI
Sbjct: 855 EKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEI------- 907
Query: 437 KCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
E +E +L + + E+ E L
Sbjct: 908 --------EKLRERLEELEAKLERLEVELPELEEEL 935
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 35.4 bits (82), Expect = 0.069
Identities = 25/115 (21%), Positives = 47/115 (40%), Gaps = 10/115 (8%)
Query: 368 LFMRRRKPDTMEIQQMKSQAKEEKSRRQIERNKLARE----KQLREAAEREKCAMEQRLV 423
LF R + +++ K E S Q E ++ Q A R+ +E+ +
Sbjct: 667 LFSRSEPAELQRLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIE 726
Query: 424 QYQEEIRLANEALKCVKV------SEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
Q ++E E L+ ++ E E + E +E R+ + +E++ EAL
Sbjct: 727 QLEQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEAL 781
Score = 30.4 bits (69), Expect = 2.7
Identities = 23/95 (24%), Positives = 43/95 (45%), Gaps = 8/95 (8%)
Query: 379 EIQQMKSQAKEEKSRRQIE--RNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEAL 436
EI+Q+ + +EEK + ++E L+ +Q E + E +E R+ + +E++ EAL
Sbjct: 724 EIEQL--EQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEAL 781
Query: 437 KCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEA 471
++ + E Q + EE EA
Sbjct: 782 NDLEARLSHSRIPEI----QAELSKLEEEVSRIEA 812
Score = 30.0 bits (68), Expect = 3.8
Identities = 24/110 (21%), Positives = 46/110 (41%), Gaps = 10/110 (9%)
Query: 371 RRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKC--AMEQRLVQYQEE 428
R EI ++ ++ E+ R+IE + R+K E AE ++ + L + +E
Sbjct: 322 ERLAKLEAEIDKLLAEI--EELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKE 379
Query: 429 IRLANEALKCVKV------SEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
+ LK + E +RE +++ L + EE+ N A+
Sbjct: 380 FAETRDELKDYREKLEKLKREINELKRELDRLQEELQRLSEELADLNAAI 429
Score = 29.7 bits (67), Expect = 4.7
Identities = 19/84 (22%), Positives = 35/84 (41%), Gaps = 3/84 (3%)
Query: 384 KSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIR-LANEALKCVKVS 442
+ K + ++E+ E+ L E ++ K E+ ++ +E+I L E
Sbjct: 251 EELEKLTEEISELEKRLEEIEQLLEELNKKIKDLGEEEQLRVKEKIGELEAEIASL--ER 308
Query: 443 EREAAEREKCAMEQRLVQYQEEIR 466
ERE E+RL + + EI
Sbjct: 309 SIAEKERELEDAEERLAKLEAEID 332
>gnl|CDD|220365 pfam09726, Macoilin, Transmembrane protein. This entry is a highly
conserved protein present in eukaryotes.
Length = 680
Score = 35.3 bits (81), Expect = 0.079
Identities = 30/110 (27%), Positives = 49/110 (44%), Gaps = 22/110 (20%)
Query: 370 MRRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAE-------------REKC 416
+ ++ D +Q M+ + K E R +LA EK+ ++ E RE+C
Sbjct: 468 VSAKQKDKQSMQSMEKRLKSEADSRVNAEKQLAEEKKRKKEEEETAARAAAQAAASREEC 527
Query: 417 A--MEQRLVQYQEEI-RLANEALKCVKVSEREAAEREKCAMEQRLVQYQE 463
A ++Q + EI +L ++ +K+ E E EK A E R YQE
Sbjct: 528 AESLKQAKQDLEMEIKKLEHD----LKLKEEECRMLEKEAQELRK--YQE 571
>gnl|CDD|226654 COG4191, COG4191, Signal transduction histidine kinase regulating
C4-dicarboxylate transport system [Signal transduction
mechanisms].
Length = 603
Score = 35.0 bits (81), Expect = 0.079
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 8/69 (11%)
Query: 392 SRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSEREAAEREK 451
RR+ R +LA ++ R ER +E+R ++ AN L+ +++ERE AE
Sbjct: 317 RRRRRARLRLAELQEARAELERR---VEERT----ADLTRANARLQ-AEIAEREQAEAAL 368
Query: 452 CAMEQRLVQ 460
+ LVQ
Sbjct: 369 RRAQDELVQ 377
>gnl|CDD|189476 pfam00261, Tropomyosin, Tropomyosin.
Length = 237
Score = 34.1 bits (79), Expect = 0.094
Identities = 24/69 (34%), Positives = 39/69 (56%), Gaps = 9/69 (13%)
Query: 404 EKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSEREAAEREKCAMEQRLVQYQE 463
E L A ER + A E ++V+ +EE+++ LK ++VSE +A++RE Y+E
Sbjct: 126 EGDLERAEERAEAA-ESKIVELEEELKVVGNNLKSLEVSEEKASQRED--------SYEE 176
Query: 464 EIRLANEAL 472
+IR E L
Sbjct: 177 KIRDLTEKL 185
Score = 32.2 bits (74), Expect = 0.38
Identities = 23/99 (23%), Positives = 48/99 (48%), Gaps = 6/99 (6%)
Query: 380 IQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEAL--K 437
I+Q++ + + + R + + KL ++ E AE E ++ +R+ +E++ + E L
Sbjct: 3 IKQLEEELDKAEERLEEAQEKLEEAEKRAEKAEAEVASLNRRIQLLEEDLERSEERLATA 62
Query: 438 CVKVSEREAA----EREKCAMEQRLVQYQEEIRLANEAL 472
K+ E E A ER + +E R ++ E++ L
Sbjct: 63 LEKLEEAEKAADESERGRKVLENRSLKDDEKMEQLEAQL 101
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 35.1 bits (80), Expect = 0.10
Identities = 24/92 (26%), Positives = 45/92 (48%), Gaps = 3/92 (3%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
E + +A+ E+ + E K + ++ ++A E K E+ ++ EE + E LK
Sbjct: 1584 EEAKKAEEARIEEVMKLYEEEKKMKAEEAKKA-EEAKIKAEE--LKKAEEEKKKVEQLKK 1640
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEIRLANE 470
+ E++ AE K A E+ ++ EE + A E
Sbjct: 1641 KEAEEKKKAEELKKAEEENKIKAAEEAKKAEE 1672
Score = 34.0 bits (77), Expect = 0.21
Identities = 24/108 (22%), Positives = 48/108 (44%), Gaps = 5/108 (4%)
Query: 368 LFMRRRKPDTMEIQQMKSQAKEEKSR----RQIERNKLAREKQLREAAEREKCAMEQRLV 423
+K +T + ++ +A+E K + R+ E + A + + E A + + A +
Sbjct: 1099 KAEEAKKTETGKAEE-ARKAEEAKKKAEDARKAEEARKAEDARKAEEARKAEDAKRVEIA 1157
Query: 424 QYQEEIRLANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEA 471
+ E+ R A EA K + EAA + + + ++ E+ R A A
Sbjct: 1158 RKAEDARKAEEARKAEDAKKAEAARKAEEVRKAEELRKAEDARKAEAA 1205
Score = 32.0 bits (72), Expect = 0.89
Identities = 25/105 (23%), Positives = 46/105 (43%), Gaps = 14/105 (13%)
Query: 381 QQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQR----------LVQYQEEIR 430
K +A+E K + + + EAAE + A E++ + EE +
Sbjct: 1332 DAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKK 1391
Query: 431 LANEALKCVKVSEREAAEREKCAMEQR----LVQYQEEIRLANEA 471
A+EA K + +++A E +K A ++ + EE + A+EA
Sbjct: 1392 KADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEA 1436
Score = 32.0 bits (72), Expect = 0.90
Identities = 28/94 (29%), Positives = 47/94 (50%), Gaps = 6/94 (6%)
Query: 381 QQMKSQAKEEKSRRQIERNKLAREK----QLREAAEREKCAMEQRLVQYQEEIRLANEAL 436
+++K +E K + E K +K + ++A E EK A E L + EE + A E L
Sbjct: 1650 EELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEA-LKKEAEEAKKA-EEL 1707
Query: 437 KCVKVSEREAAEREKCAMEQRLVQYQEEIRLANE 470
K + E++ AE K A E+ ++ +E + A E
Sbjct: 1708 KKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEE 1741
Score = 32.0 bits (72), Expect = 0.91
Identities = 28/111 (25%), Positives = 55/111 (49%), Gaps = 12/111 (10%)
Query: 370 MRRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREK----QLREAAEREKCAMEQRLVQY 425
++ + ++ +++K +A+EEK + + + K A EK +L++A E K + +
Sbjct: 1612 AKKAEEAKIKAEELK-KAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKA 1670
Query: 426 QEEIRLANEALKCVKVSEREAAER------EKCAMEQRLVQYQEEIRLANE 470
+E+ + A EA K + E++AAE E E+ + EE + A E
Sbjct: 1671 EEDKKKAEEAKK-AEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEE 1720
Score = 32.0 bits (72), Expect = 0.96
Identities = 22/100 (22%), Positives = 45/100 (45%), Gaps = 3/100 (3%)
Query: 372 RRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRL 431
++ + +I+ + K E+ +++ E K A E + + A +K A E + EE++
Sbjct: 1653 KKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKA---EELKK 1709
Query: 432 ANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEA 471
K ++A E K E+ + +E+ + A EA
Sbjct: 1710 KEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEA 1749
Score = 30.9 bits (69), Expect = 1.8
Identities = 24/101 (23%), Positives = 54/101 (53%), Gaps = 2/101 (1%)
Query: 373 RKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLA 432
+K + E + ++ KE + ++ E K ++ ++A E +K A E+ ++ +E + A
Sbjct: 1681 KKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKK-AEEENKIKAEEAKKEA 1739
Query: 433 NEALKCVKVSEREAAEREKCA-MEQRLVQYQEEIRLANEAL 472
E K + ++++ E++K A +++ + EEIR EA+
Sbjct: 1740 EEDKKKAEEAKKDEEEKKKIAHLKKEEEKKAEEIRKEKEAV 1780
Score = 30.5 bits (68), Expect = 2.4
Identities = 28/102 (27%), Positives = 51/102 (50%), Gaps = 11/102 (10%)
Query: 372 RRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRL 431
+K D + + +++ +E ++ E K A E ++AAE +K A E + EE +
Sbjct: 1469 AKKADEAKKKAEEAKKADEAKKKAEEAKKKADE--AKKAAEAKKKADEAK---KAEEAKK 1523
Query: 432 ANEALKCVKVSEREAAEREKCAMEQRL---VQYQEEIRLANE 470
A+EA K E + A+ K A E++ ++ EE++ A E
Sbjct: 1524 ADEAK---KAEEAKKADEAKKAEEKKKADELKKAEELKKAEE 1562
Score = 30.5 bits (68), Expect = 2.9
Identities = 25/92 (27%), Positives = 49/92 (53%), Gaps = 9/92 (9%)
Query: 384 KSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQR----LVQYQEEIRLANEALKCV 439
+++ K E++++ E K A E ++A E +K A E + + EE + A+EA K
Sbjct: 1435 EAKKKAEEAKKADEAKKKAEEA--KKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKA 1492
Query: 440 KVSEREAAEREKCAMEQRLVQYQEEIRLANEA 471
+ ++++A E +K A ++ +E + A EA
Sbjct: 1493 EEAKKKADEAKKAAEAKK---KADEAKKAEEA 1521
Score = 29.7 bits (66), Expect = 4.1
Identities = 19/98 (19%), Positives = 39/98 (39%)
Query: 374 KPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLAN 433
K D + + + + ++ E K ++ EA ++ + A + + E+ R A
Sbjct: 1084 KEDNRADEATEEAFGKAEEAKKTETGKAEEARKAEEAKKKAEDARKAEEARKAEDARKAE 1143
Query: 434 EALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEA 471
EA K E A + + A + + E+ + A A
Sbjct: 1144 EARKAEDAKRVEIARKAEDARKAEEARKAEDAKKAEAA 1181
Score = 29.3 bits (65), Expect = 5.5
Identities = 28/105 (26%), Positives = 48/105 (45%), Gaps = 8/105 (7%)
Query: 372 RRKPDTMEIQQMK--SQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEI 429
R+ D + ++ + AK + R+ E + A E + E A++ + A + V+ EE+
Sbjct: 1134 RKAEDARKAEEARKAEDAKRVEIARKAEDARKAEEARKAEDAKKAEAARKAEEVRKAEEL 1193
Query: 430 RLANEALKCVKVSEREAAEREKCAMEQRLVQYQ---EEIRLANEA 471
R A +A K AE E+ A E R + E ++ A EA
Sbjct: 1194 RKAEDAR---KAEAARKAEEERKAEEARKAEDAKKAEAVKKAEEA 1235
Score = 29.3 bits (65), Expect = 5.6
Identities = 23/93 (24%), Positives = 46/93 (49%), Gaps = 1/93 (1%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
++ + + K E++R+ + K K+ EA + + A + + EEIR EA +
Sbjct: 1204 AARKAEEERKAEEARKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEIRKFEEA-RM 1262
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEIRLANEA 471
+ R+AA + + A + ++ EE + A+EA
Sbjct: 1263 AHFARRQAAIKAEEARKADELKKAEEKKKADEA 1295
Score = 29.0 bits (64), Expect = 8.2
Identities = 26/94 (27%), Positives = 43/94 (45%), Gaps = 1/94 (1%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
E + AK+ ++ R+ E + A E + E A + + A + + EE R A +A K
Sbjct: 1167 EEARKAEDAKKAEAARKAEEVRKAEELRKAEDARKAEAARKAEEERKAEEARKAEDAKKA 1226
Query: 439 VKVSE-REAAEREKCAMEQRLVQYQEEIRLANEA 471
V + EA + + A + + EEIR EA
Sbjct: 1227 EAVKKAEEAKKDAEEAKKAEEERNNEEIRKFEEA 1260
>gnl|CDD|212684 cd11734, Ssq1_like_NBD, Nucleotide-binding domain of Saccharomyces
cerevisiae Ssq1 and similar proteins. Ssq1p (also
called Stress-seventy subfamily Q protein 1, Ssc2p,
Ssh1p, mtHSP70 homolog) belongs to the heat shock
protein 70 (HSP70) family of chaperones that assist in
protein folding and assembly, and can direct incompetent
"client" proteins towards degradation. Typically, HSP70s
have a nucleotide-binding domain (NBD) and a
substrate-binding domain (SBD). The nucleotide sits in a
deep cleft formed between the two lobes of the NBD. The
two subdomains of each lobe change conformation between
ATP-bound, ADP-bound, and nucleotide-free states. ATP
binding opens up the substrate-binding site;
substrate-binding increases the rate of ATP hydrolysis.
Hsp70 chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs). S. cerevisiae Ssq1p is a mitochondrial
chaperone that is involved in iron-sulfur (Fe/S) center
biogenesis. Ssq1p plays a role in the maturation of
Yfh1p, a nucleus-encoded mitochondrial protein involved
in iron homeostasis (and a homolog of human frataxin,
implicated in the neurodegenerative disease,
Friedreich's ataxia).
Length = 373
Score = 34.4 bits (79), Expect = 0.11
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 9/74 (12%)
Query: 354 FPISILDLCIG-------NHDLFMRRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQ 406
F ISIL++ G N D + D I Q + + K + + RNK A ++
Sbjct: 199 FDISILNIEDGVFEVKATNGDTMLGGEDFDNA-IVQYIIKEFKRKYKIDLTRNKKAIQR- 256
Query: 407 LREAAEREKCAMEQ 420
++EAAE+ K +
Sbjct: 257 IKEAAEKAKIELSS 270
>gnl|CDD|204935 pfam12474, PKK, Polo kinase kinase. This domain family is found in
eukaryotes, and is approximately 140 amino acids in
length. The family is found in association with
pfam00069. Polo-like kinase 1 (Plx1) is essential during
mitosis for the activation of Cdc25C, for spindle
assembly, and for cyclin B degradation. This family is
Polo kinase kinase (PKK) which phosphorylates Polo
kinase and Polo-like kinase to activate them. PKK is a
serine/threonine kinase.
Length = 142
Score = 33.1 bits (76), Expect = 0.13
Identities = 19/86 (22%), Positives = 43/86 (50%), Gaps = 5/86 (5%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
E++Q++ Q K R IE+ + + ++LR +R + + RL ++E +++ + LK
Sbjct: 27 ELEQLERQQK-----RTIEKLEQRQTQELRRLPKRIRAEQKTRLKMFKESLKIEKKELKQ 81
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEE 464
E+EK M+ + +++
Sbjct: 82 EVEKLPRFQEQEKKRMKAEKEEQEQK 107
>gnl|CDD|227594 COG5269, ZUO1, Ribosome-associated chaperone zuotin [Translation,
ribosomal structure and biogenesis / Posttranslational
modification, protein turnover, chaperones].
Length = 379
Score = 34.2 bits (78), Expect = 0.14
Identities = 22/81 (27%), Positives = 35/81 (43%), Gaps = 7/81 (8%)
Query: 380 IQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCV 439
I+ K Q KE K R+ ER AR K AA + K + + E A + V
Sbjct: 232 IKSFKEQEKEMKKIRKWEREAGARLK--ALAALKGKAEAKNK----AEIEAEALASATAV 285
Query: 440 KVSEREAAEREKCAMEQRLVQ 460
K +E ++ ME++ ++
Sbjct: 286 KKKAKEVMKKAL-KMEKKAIK 305
>gnl|CDD|202427 pfam02841, GBP_C, Guanylate-binding protein, C-terminal domain.
Transcription of the anti-viral guanylate-binding
protein (GBP) is induced by interferon-gamma during
macrophage induction. This family contains GBP1 and
GPB2, both GTPases capable of binding GTP, GDP and GMP.
Length = 297
Score = 33.8 bits (78), Expect = 0.15
Identities = 24/91 (26%), Positives = 39/91 (42%), Gaps = 12/91 (13%)
Query: 378 MEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALK 437
E +AK E + + E LRE + E+ ME + YQE ++ E ++
Sbjct: 202 KEKAIEAERAKAEAAEAEQEL--------LREKQKEEEQMMEAQERSYQEHVKQLIEKME 253
Query: 438 CVKVSEREAAEREKCAMEQRLVQYQEEIRLA 468
+ERE E+ M + +Q QEE+
Sbjct: 254 ----AEREKLLAEQERMLEHKLQEQEELLKE 280
Score = 29.6 bits (67), Expect = 3.4
Identities = 23/124 (18%), Positives = 43/124 (34%), Gaps = 34/124 (27%)
Query: 364 GNHDLFMRRR---------------KPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLR 408
G + LF+ R K + + + + S+ E++ Q ++ A+EK +
Sbjct: 148 GGYKLFLEERDKLEAKYNQVPRKGVKAEEVLQEFLNSKEAVEEAILQTDQALTAKEKAIE 207
Query: 409 EAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLA 468
+ E E L RE + E+ ME + YQE ++
Sbjct: 208 AERAKA------------EAAEAEQELL-------REKQKEEEQMMEAQERSYQEHVKQL 248
Query: 469 NEAL 472
E +
Sbjct: 249 IEKM 252
>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin. Trichoplein
or mitostatin, was first defined as a meiosis-specific
nuclear structural protein. It has since been linked
with mitochondrial movement. It is associated with the
mitochondrial outer membrane, and over-expression leads
to reduction in mitochondrial motility whereas lack of
it enhances mitochondrial movement. The activity appears
to be mediated through binding the mitochondria to the
actin intermediate filaments (IFs).
Length = 349
Score = 33.7 bits (78), Expect = 0.16
Identities = 25/86 (29%), Positives = 46/86 (53%), Gaps = 2/86 (2%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
E +++K++ KEE+ RR E + R K L E ERE+ E+R + + ++ E +
Sbjct: 28 EKKRIKAEEKEEE-RRIDEMMEEERLKALAEEEERERKRKEERR-EGRAVLQEQIEEREK 85
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEE 464
+ E E +E+ M++ + + QEE
Sbjct: 86 RRQEEYEERLQEREQMDEIIERIQEE 111
Score = 31.4 bits (72), Expect = 1.0
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 386 QAKEEKSRRQIE--RNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSE 443
Q + E R +++ R L +E+ R+ ++EK E+R Q ++E++ A E K
Sbjct: 191 QEEAEDEREELDELRADLYQEEYERKERQKEKEEAEKRRRQ-KQELQRAREEQIEEKEER 249
Query: 444 REAAEREKCAMEQRLVQYQEE 464
+ E+ A +R+++ Q E
Sbjct: 250 LQEERAEEEAERERMLEKQAE 270
Score = 30.3 bits (69), Expect = 2.5
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 5/87 (5%)
Query: 380 IQQMKSQAKEEKSRRQIER-NKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
I++ + + +EE R ER ++++E E E ++ + +EEI NE
Sbjct: 80 IEEREKRRQEEYEERLQEREQMDEIIERIQEEDEAEAQEKREKQKKLREEIDEFNEERIE 139
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEI 465
K E+E E E ++++YQ E
Sbjct: 140 RKEEEKEREREE----ELKILEYQREK 162
Score = 29.5 bits (67), Expect = 4.2
Identities = 16/89 (17%), Positives = 35/89 (39%), Gaps = 5/89 (5%)
Query: 378 MEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALK 437
E Q + +E + R +E+ E + A +R + ++++ E+ E +
Sbjct: 247 EERLQEERAEEEAERERMLEKQAEDEELEQENAEKRR-----MKRLEHRRELEQQIEEKE 301
Query: 438 CVKVSEREAAEREKCAMEQRLVQYQEEIR 466
+ +ERE E + + + Q I
Sbjct: 302 ERRAAEREEELEEGERLREEEAERQARIE 330
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 34.0 bits (79), Expect = 0.21
Identities = 23/97 (23%), Positives = 39/97 (40%), Gaps = 15/97 (15%)
Query: 389 EEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEI-----RLANEALKCVKVSE 443
EE R K + L + AE+ K +E++ + QEE EA + +K ++
Sbjct: 526 EELEREL--EQKAEEAEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKEAK 583
Query: 444 REAAE-----REKCAMEQRLV---QYQEEIRLANEAL 472
+EA E R+ V + E + N+A
Sbjct: 584 KEADEIIKELRQLQKGGYASVKAHELIEARKRLNKAN 620
Score = 33.6 bits (78), Expect = 0.22
Identities = 17/94 (18%), Positives = 45/94 (47%), Gaps = 2/94 (2%)
Query: 381 QQMKSQAKE-EKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCV 439
++++ +A+E E ++ E+ K E++ + E E +E+ + Q+ I+ A + +
Sbjct: 530 RELEQKAEEAEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADEI 589
Query: 440 KVSEREAAEREKCAM-EQRLVQYQEEIRLANEAL 472
R+ + ++ L++ ++ + ANE
Sbjct: 590 IKELRQLQKGGYASVKAHELIEARKRLNKANEKK 623
>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division
and chromosome partitioning].
Length = 420
Score = 33.2 bits (76), Expect = 0.27
Identities = 19/88 (21%), Positives = 31/88 (35%), Gaps = 2/88 (2%)
Query: 372 RRKPDTMEIQQMKSQAKEEKSR--RQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEI 429
+ + T+ +Q QAK + R+ +L E + E A E RL
Sbjct: 184 QAELTTLLSEQRAQQAKLAQLLEERKKTLAQLNSELSADQKKLEELRANESRLKNEIASA 243
Query: 430 RLANEALKCVKVSEREAAEREKCAMEQR 457
A + + AA R + A +R
Sbjct: 244 EAAAAKAREAAAAAEAAAARARAAEAKR 271
Score = 30.8 bits (70), Expect = 1.5
Identities = 20/97 (20%), Positives = 33/97 (34%), Gaps = 8/97 (8%)
Query: 377 TMEIQQMKSQAKEEKSRRQIERNKLARE--KQLREAAEREKCAMEQRLVQYQEEIRLANE 434
+ +Q + + R Q + E K+ E A +++L EE+R
Sbjct: 179 EIAAEQAELTTLLSEQRAQQAKLAQLLEERKKTLAQLNSELSADQKKL----EELRANES 234
Query: 435 ALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEA 471
LK S AA + + A + A EA
Sbjct: 235 RLKNEIASAEAAAAKAREAAAAA--EAAAARARAAEA 269
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 33.5 bits (77), Expect = 0.33
Identities = 28/103 (27%), Positives = 50/103 (48%), Gaps = 3/103 (2%)
Query: 372 RRKPDTMEIQQMKSQAKEEKSRRQI--ERNKLAREKQLREAAEREKCAMEQRLVQYQEEI 429
R++ + +E + + + + E+ RQI R LAR + E E + + L + + EI
Sbjct: 704 RKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEI 763
Query: 430 RLANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
E L+ + E AE E +E ++ Q +EE++ EAL
Sbjct: 764 EELEERLEEAE-EELAEAEAEIEELEAQIEQLKEELKALREAL 805
Score = 33.1 bits (76), Expect = 0.42
Identities = 23/93 (24%), Positives = 39/93 (41%), Gaps = 2/93 (2%)
Query: 381 QQMKSQAKE-EKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCV 439
Q+ S E E+ ++ER + RE+ +E E K E L + Q E+ E L+
Sbjct: 393 LQIASLNNEIERLEARLERLEDRRERLQQEIEELLKKLEEAELKELQAELEELEEELE-E 451
Query: 440 KVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
E E E + + L + ++ + A L
Sbjct: 452 LQEELERLEEALEELREELEEAEQALDAAEREL 484
Score = 32.7 bits (75), Expect = 0.54
Identities = 15/86 (17%), Positives = 37/86 (43%), Gaps = 5/86 (5%)
Query: 384 KSQAKEEKSRRQIERNKLAREKQLREAA----EREKCAMEQRLVQYQEEIRLANEALKCV 439
+ +EE + E +L E Q E E +E+ + + Q+E+ + +
Sbjct: 241 LEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEISRL 300
Query: 440 KVSEREAAEREKCAMEQRLVQYQEEI 465
+ ++ ER +E++L + + ++
Sbjct: 301 EQQKQILRERLA-NLERQLEELEAQL 325
Score = 32.0 bits (73), Expect = 0.96
Identities = 20/97 (20%), Positives = 42/97 (43%), Gaps = 7/97 (7%)
Query: 379 EIQQMKSQAKE-EKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALK 437
EI +++ Q + + +ER E QL E + + L + +E++ E +
Sbjct: 296 EISRLEQQKQILRERLANLERQLEELEAQLEELESKLDEL-AEELAELEEKL---EELKE 351
Query: 438 CVK--VSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
++ +E E E E +E RL + +E++ +
Sbjct: 352 ELESLEAELEELEAELEELESRLEELEEQLETLRSKV 388
Score = 31.6 bits (72), Expect = 1.1
Identities = 18/98 (18%), Positives = 43/98 (43%), Gaps = 4/98 (4%)
Query: 371 RRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIR 430
RR+ EI+++ + +E + + L ++ E + E +E+ L + +EE+
Sbjct: 414 DRRERLQQEIEELLKKLEEAELKELQAE--LEELEEELEELQEELERLEEALEELREELE 471
Query: 431 LANEALKCVKVSEREAAEREKC--AMEQRLVQYQEEIR 466
A +AL + + R +++ L + E ++
Sbjct: 472 EAEQALDAAERELAQLQARLDSLERLQENLEGFSEGVK 509
Score = 30.8 bits (70), Expect = 1.8
Identities = 20/104 (19%), Positives = 43/104 (41%), Gaps = 10/104 (9%)
Query: 379 EIQQMKSQAKEEKSRRQIE----RNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANE 434
E++ + EE + + + + +L + E E E +E RL + +E++
Sbjct: 327 ELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQLETLRS 386
Query: 435 ALKCVKV------SEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
+ +++ +E E E +E R + Q+EI + L
Sbjct: 387 KVAQLELQIASLNNEIERLEARLERLEDRRERLQQEIEELLKKL 430
Score = 30.8 bits (70), Expect = 1.8
Identities = 24/107 (22%), Positives = 45/107 (42%), Gaps = 13/107 (12%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
I Q+ + E ++ + +L ++ AE E +E ++ Q +EE++ EAL
Sbjct: 748 RIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDE 807
Query: 439 V-------------KVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
+ E+ ER A E+RL +E+I +E +
Sbjct: 808 LRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDI 854
Score = 30.4 bits (69), Expect = 2.5
Identities = 24/94 (25%), Positives = 48/94 (51%), Gaps = 6/94 (6%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAM-----EQRLVQYQEEIRLAN 433
EI++++++ + + RR+ + ++ + E AE ++ E+ L + QEE+
Sbjct: 401 EIERLEARLERLEDRRERLQQEIEELLKKLEEAELKELQAELEELEEELEELQEELERLE 460
Query: 434 EALKCVKVSEREAAEREKCAMEQRLVQYQEEIRL 467
EAL+ ++ E E AE+ A E+ L Q Q +
Sbjct: 461 EALEELR-EELEEAEQALDAAERELAQLQARLDS 493
Score = 30.0 bits (68), Expect = 3.2
Identities = 14/104 (13%), Positives = 38/104 (36%), Gaps = 1/104 (0%)
Query: 369 FMRRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEE 428
K + +++++ R +L ++ A ER +E+++ + E+
Sbjct: 794 LKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSED 853
Query: 429 IRLANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
I ++ ++ E + + +R +E + L L
Sbjct: 854 IESLAAEIEELEELIEELESELEALLNERASL-EEALALLRSEL 896
Score = 30.0 bits (68), Expect = 3.2
Identities = 26/113 (23%), Positives = 54/113 (47%), Gaps = 18/113 (15%)
Query: 378 MEIQQMKSQAKEEKSRRQIERNKLAR-EKQL------REAAEREKCAMEQRLVQYQEEIR 430
E+++++S+ +E + + + R+K+A+ E Q+ E E +E R + Q+EI
Sbjct: 365 AELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQQEIE 424
Query: 431 LANEALKCVKVSE-----------REAAEREKCAMEQRLVQYQEEIRLANEAL 472
+ L+ ++ E E + E +E+ L + +EE+ A +AL
Sbjct: 425 ELLKKLEEAELKELQAELEELEEELEELQEELERLEEALEELREELEEAEQAL 477
>gnl|CDD|115307 pfam06637, PV-1, PV-1 protein (PLVAP). This family consists of
several PV-1 (PLVAP) proteins which seem to be specific
to mammals. PV-1 is a novel protein component of the
endothelial fenestral and stomatal diaphragms. The
function of this family is unknown.
Length = 442
Score = 32.7 bits (74), Expect = 0.39
Identities = 25/103 (24%), Positives = 47/103 (45%), Gaps = 10/103 (9%)
Query: 370 MRRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEI 429
+ R + ++Q+ K +A++ Q + K +E Q REA + +CA + +L EE
Sbjct: 294 IERVARENADLQRQKLEAEQAAQAAQEAKAKAEKEAQAREAKLQAECARQTQLA--LEE- 350
Query: 430 RLANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
K +ER+ +E A ++ Q + E+ + AL
Sbjct: 351 -------KAALRAERDNLAKELEAKKREAEQLRMELAIRISAL 386
>gnl|CDD|177543 PHA03146, PHA03146, helicase-primase primase subunit; Provisional.
Length = 1075
Score = 32.6 bits (74), Expect = 0.52
Identities = 25/80 (31%), Positives = 36/80 (45%), Gaps = 18/80 (22%)
Query: 50 SNQCTTPFMFLAKFYAEDVAEELVQEVTQHLFF-----------LQ-VKQAILSMDIYCP 97
SN TTPF FL+KF + + LV +LF LQ VK + + ++ P
Sbjct: 213 SNNNTTPFWFLSKFGPGE--KTLVLATRYYLFQAIRSGDGGTYDLQAVKDFLATYNVPAP 270
Query: 98 PEASVL----LASYAVQAKY 113
P S L L S+A + +
Sbjct: 271 PNPSGLDLTHLTSFAALSAF 290
>gnl|CDD|223771 COG0699, COG0699, Predicted GTPases (dynamin-related) [General
function prediction only].
Length = 546
Score = 32.2 bits (73), Expect = 0.60
Identities = 14/92 (15%), Positives = 29/92 (31%), Gaps = 4/92 (4%)
Query: 381 QQMKSQAKEEKS-RRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEAL--K 437
++ + + KS + + +A +RL Q Q RL E L +
Sbjct: 456 ERKTLEKQLIKSLLESLLILAQKIRDSVLKAIFELLKNKRKRLAQKQRLKRLYLEQLEDE 515
Query: 438 CVKVSEREAAEREKCAMEQRLVQYQEEIRLAN 469
++ +E R + ++ N
Sbjct: 516 LLRTAEEILELRLLLE-QFLEALKLAARQVLN 546
>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis). This nucleolar
family of proteins are involved in 60S ribosomal
biogenesis. They are specifically involved in the
processing beyond the 27S stage of 25S rRNA maturation.
This family contains sequences that bear similarity to
the glioma tumour suppressor candidate region gene 2
protein (p60). This protein has been found to interact
with herpes simplex type 1 regulatory proteins.
Length = 387
Score = 32.0 bits (73), Expect = 0.62
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 384 KSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQ--YQEEI--RLANEALKCV 439
++ K + + +RNK R K+L A+ EK ++++L Q +EI +A +
Sbjct: 269 INKPVRPKRKTKAQRNKEKRRKELEREAKEEK-QLKKKLAQLARLKEIAKEVAQKEKARA 327
Query: 440 KVSEREAAEREKCAMEQR 457
+ E+ EK +++R
Sbjct: 328 RKKEQRKERGEKKKLKRR 345
>gnl|CDD|225177 COG2268, COG2268, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 548
Score = 31.7 bits (72), Expect = 0.80
Identities = 17/106 (16%), Positives = 38/106 (35%), Gaps = 9/106 (8%)
Query: 371 RRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIR 430
+ + E ++ A E +R +L E+Q + ++ L + + E+
Sbjct: 221 QDAEIAENEAEKETEIAIAEANRDAKLV-ELEVEQQPAGKTAEQTREVKIILAETEAEVA 279
Query: 431 LANEALKCVKVSEREAAER---EKCAMEQRLVQY-----QEEIRLA 468
+ AE+ E+ A ++ VQ+ E+R+
Sbjct: 280 AWKAETRREAEQAEILAEQAIQEEKAQAEQEVQHAKALEAREMRVG 325
>gnl|CDD|238646 cd01321, ADGF, Adenosine deaminase-related growth factors (ADGF), a
novel family of secreted growth-factors with sequence
similarty to adenosine deaminase.
Length = 345
Score = 31.5 bits (72), Expect = 0.88
Identities = 14/63 (22%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 115 DYDDSTYKPGMLASEDLLPQRVIDQYQMTPEMWEDRIKIWYADHRGMSRDEAEMEYLKIA 174
YD + + LL + V+++++ T + +KI YA R + E + E ++
Sbjct: 96 LYDLDGREYDYEETVQLL-EEVVEKFKKTHPDFIG-LKIIYATLRNFNDSEIK-ESMEQC 152
Query: 175 QDL 177
+L
Sbjct: 153 LNL 155
Score = 31.5 bits (72), Expect = 0.88
Identities = 14/63 (22%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 284 DYDDSTYKPGMLASEDLLPQRVIDQYQMTPEMWEDRIKIWYADHRGMSRDEAEMEYLKIA 343
YD + + LL + V+++++ T + +KI YA R + E + E ++
Sbjct: 96 LYDLDGREYDYEETVQLL-EEVVEKFKKTHPDFIG-LKIIYATLRNFNDSEIK-ESMEQC 152
Query: 344 QDL 346
+L
Sbjct: 153 LNL 155
>gnl|CDD|163679 cd07941, DRE_TIM_LeuA3, Desulfobacterium autotrophicum LeuA3 and
related proteins, N-terminal catalytic TIM barrel
domain. Desulfobacterium autotrophicum LeuA3 is
sequence-similar to alpha-isopropylmalate synthase
(LeuA) but its exact function is unknown. Members of
this family have an N-terminal TIM barrel domain that
belongs to the DRE-TIM metallolyase superfamily.
DRE-TIM metallolyases include 2-isopropylmalate synthase
(IPMS), alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 273
Score = 31.3 bits (72), Expect = 0.94
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 4/27 (14%)
Query: 171 LKIAQDLDMYGVNY----FPISNKKDT 193
L+IA+ LD GV+Y +P SN KDT
Sbjct: 23 LRIARKLDELGVDYIEGGWPGSNPKDT 49
>gnl|CDD|203446 pfam06428, Sec2p, GDP/GTP exchange factor Sec2p. In Saccharomyces
cerevisiae, Sec2p is a GDP/GTP exchange factor for
Sec4p, which is required for vesicular transport at the
post-Golgi stage of yeast secretion.
Length = 90
Score = 29.2 bits (66), Expect = 1.0
Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 11/70 (15%)
Query: 399 NKLAREKQLREAAEREKCAMEQRLVQYQEEI--RLANEALKCVKVSEREAAEREKCAMEQ 456
LA EK+ R AE+EK +EQ + E++ L +EA K V A RE+ A+E
Sbjct: 1 ADLAEEKKKRLRAEKEKKKLEQEV----EDLTASLFDEANKMV-----ADARREREAVEI 51
Query: 457 RLVQYQEEIR 466
+ + +E+++
Sbjct: 52 KNEKLEEQLK 61
>gnl|CDD|178635 PLN03086, PLN03086, PRLI-interacting factor K; Provisional.
Length = 567
Score = 31.4 bits (71), Expect = 1.1
Identities = 11/32 (34%), Positives = 23/32 (71%)
Query: 388 KEEKSRRQIERNKLAREKQLREAAEREKCAME 419
+E++ R+Q + KL RE++ +E A +++ A+E
Sbjct: 14 REQRERKQRAKLKLERERKAKEEAAKQREAIE 45
>gnl|CDD|241433 cd13279, PH_Cla4_Ste20, Pleckstrin homology (PH) domain. Budding
yeast contain two main p21-activated kinases (PAKs),
Cla4 and Ste20. The yeast Ste20 protein kinase is
involved in pheromone response, though the function of
Ste20 mammalian homologs is unknown. Cla4 is involved in
budding and cytokinesis and interacts with Cdc42, a
GTPase required for polarized cell growth as is Pak.
Cla4 and Ste20 kinases share a function in localizing
cell growth with respect to the septin ring. They both
contain a PH domain, a Cdc42/Rac interactive binding
(CRIB) domain, and a C-terminal Protein Kinase catalytic
(PKc) domain. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 91
Score = 29.1 bits (66), Expect = 1.2
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 204 LNIYEKENKLTPKTTFPWSEIRHISFDDKK-FIIKPVDKSSPNFIFFSLK 252
L+ Y+ E+ + + P +I ++S D K + + V KSS I+ S+K
Sbjct: 31 LDFYKNESSSSASLSIPLKDISNVSRTDLKPYCFEIVRKSSTKSIYISVK 80
>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase
component YidC; Validated.
Length = 429
Score = 31.0 bits (70), Expect = 1.5
Identities = 15/86 (17%), Positives = 32/86 (37%), Gaps = 6/86 (6%)
Query: 371 RRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIR 430
+K T E + K++ KE +R+ ++ RE + AM + + ++
Sbjct: 331 EIKKTRTAEKNEAKARKKEIAQKRRAAEREINREA-----RQERAAAMARARARRA-AVK 384
Query: 431 LANEALKCVKVSEREAAEREKCAMEQ 456
+ L +E +E E+
Sbjct: 385 AKKKGLIDASPNEDTPSENEESKGSP 410
>gnl|CDD|130902 TIGR01843, type_I_hlyD, type I secretion membrane fusion protein,
HlyD family. Type I secretion is an ABC transport
process that exports proteins, without cleavage of any
signal sequence, from the cytosol to extracellular
medium across both inner and outer membranes. The
secretion signal is found in the C-terminus of the
transported protein. This model represents the adaptor
protein between the ATP-binding cassette (ABC) protein
of the inner membrane and the outer membrane protein,
and is called the membrane fusion protein. This model
selects a subfamily closely related to HlyD; it is
defined narrowly and excludes, for example, colicin V
secretion protein CvaA and multidrug efflux proteins
[Protein fate, Protein and peptide secretion and
trafficking].
Length = 423
Score = 30.7 bits (70), Expect = 1.7
Identities = 20/98 (20%), Positives = 44/98 (44%), Gaps = 6/98 (6%)
Query: 381 QQMKSQAKEEKSRRQIERNKLARE------KQLREAAEREKCAMEQRLVQYQEEIRLANE 434
QQ++ ++E ++RR+++ L ++ R A+ E +E L + +I
Sbjct: 172 QQLEVISEELEARRKLKEKGLVSRLELLELERERAEAQGELGRLEAELEVLKRQIDELQL 231
Query: 435 ALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
+ ++ + RE E + RL + +E + A + L
Sbjct: 232 ERQQIEQTFREEVLEELTEAQARLAELRERLNKARDRL 269
>gnl|CDD|241357 cd13203, FERM_C1_myosin_like, Myosin-like FERM domain C-lobe,
repeat 1. These myosin-like proteins are unidentified
though they are sequence similar to myosin 1/myo1,
myosin 7/myoVII, and myosin 10/myoX. These myosin-like
proteins contain an N-terminal motor/head region and a
C-terminal tail consisting of two myosin tail homology 4
(MyTH4) and twos FERM domains. In myoX the FERM domain
forms a supramodule with its MyTH4 domain which binds to
the negatively charged E-hook region in the tails of
alpha- and beta-tubulin forming a proposed motorized
link between actin filaments and microtubules and a
similar thing might happen in these myosins. The FERM
domain has a cloverleaf tripart structure (FERM_N,
FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe,
C-lobe/F1, F2, F3). The first FERM_N repeat is present
in this hierarchy. The C-lobe/F3 within the FERM domain
is part of the PH domain family. The FERM domain is
found in the cytoskeletal-associated proteins such as
ezrin, moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 117
Score = 29.3 bits (66), Expect = 2.0
Identities = 21/97 (21%), Positives = 38/97 (39%), Gaps = 10/97 (10%)
Query: 161 MSRDEAEMEYLKIAQDLDMYGVNYFPISNKK----DTDLWLGVTALGLNIYEKENKLTPK 216
S +A++ YL +YG F ++ K +L LGV G + K
Sbjct: 1 KSELQAKVLYLTCVMQYPLYGTTLFDVTYKGFWSYPNNLILGVHCDGFKFVNPKTKAI-L 59
Query: 217 TTFPWSEIRHISFD-DKKFIIKPVDKSSPN----FIF 248
+ +S++ I D + + +S P+ F+F
Sbjct: 60 AEYRYSDLESIEVDPSDDVLTLTLSQSVPDEHKCFMF 96
>gnl|CDD|173502 PTZ00266, PTZ00266, NIMA-related protein kinase; Provisional.
Length = 1021
Score = 30.9 bits (69), Expect = 2.1
Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 371 RRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKC-AMEQRLVQYQEEI 429
R + + E ++++ + E R ++ER +L RE+ R+ ER++ +E+ V E
Sbjct: 459 RIERLEREERERLERERMERIERERLERERLERERLERDRLERDRLDRLERERVDRLERD 518
Query: 430 RL 431
RL
Sbjct: 519 RL 520
Score = 28.5 bits (63), Expect = 9.5
Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 14/90 (15%)
Query: 372 RRKPDTMEIQQMKSQAKEEKSRRQ-IER---NKLAREKQLREAAEREKCAMEQRLVQYQE 427
RK M+I + K + E+ R+ +ER ++ RE+ RE ERE+ +
Sbjct: 446 HRKALEMKILEKKRIERLEREERERLERERMERIERERLERERLERERLERD-------- 497
Query: 428 EIRLANEALKCVKVSEREAAEREKCAMEQR 457
RL + L ++ + ER++ +R
Sbjct: 498 --RLERDRLDRLERERVDRLERDRLEKARR 525
>gnl|CDD|221389 pfam12037, DUF3523, Domain of unknown function (DUF3523). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 257 to 277 amino acids in length. This domain is
found associated with pfam00004. This domain has a
conserved LER sequence motif.
Length = 276
Score = 30.1 bits (68), Expect = 2.2
Identities = 24/96 (25%), Positives = 48/96 (50%), Gaps = 11/96 (11%)
Query: 378 MEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALK 437
E++ + + ++++ ++ER ++ E++ + E+ + EQ+ QYQ+E LA + +
Sbjct: 66 AELEAKIKEYEAQQAQAKLERARVEAEERRKTLQEQTQ--QEQQRAQYQDE--LARKRYQ 121
Query: 438 CVKVSEREAAER---EKCAMEQRLVQYQEEIRLANE 470
E E R E M++ V QE +R A E
Sbjct: 122 ----KELEQQRRQNEELLKMQEESVLRQEAMRRATE 153
Score = 28.6 bits (64), Expect = 6.9
Identities = 23/92 (25%), Positives = 39/92 (42%), Gaps = 10/92 (10%)
Query: 367 DLFMRRRKPDTMEIQQMKSQAKEEKSRRQIERNKLA-REKQLREAAEREKCAMEQRLVQY 425
+L +RR+ + + Q +S ++E RR E L R + + E AE E+ E +
Sbjct: 123 ELEQQRRQNEELLKMQEESVLRQEAMRRATEEEILEMRRETIEEEAELER---ENIRAKI 179
Query: 426 QEEIRL------ANEALKCVKVSEREAAEREK 451
+ E R NE + + + ERE
Sbjct: 180 EAEARGRAKEERENEDINREMLKLKANEERET 211
>gnl|CDD|109874 pfam00836, Stathmin, Stathmin family. The Stathmin family of
proteins play an important role in the regulation of the
microtubule cytoskeleton. They regulate microtubule
dynamics by promoting depolymerization of microtubules
and/or preventing polymerisation of tubulin
heterodimers.
Length = 140
Score = 29.2 bits (65), Expect = 2.2
Identities = 28/103 (27%), Positives = 51/103 (49%), Gaps = 8/103 (7%)
Query: 371 RRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIR 430
+++ EIQ+ K +A EE RR+ + ++ KQL E E E+ +++ + + +
Sbjct: 38 KKKDLSLEEIQK-KLEAAEE--RRKSQEAEVL--KQLAEKREHEREVLQKAIEENNNFSK 92
Query: 431 LANEALKCVKVSEREAAEREKCAMEQRLVQ---YQEEIRLANE 470
+A E L S +E E + A +RL + + EE+R E
Sbjct: 93 MAEEKLTQKMESIKENREAQLAAKLERLQEKDKHAEEVRKNKE 135
>gnl|CDD|235932 PRK07093, PRK07093, para-aminobenzoate synthase component I;
Validated.
Length = 323
Score = 30.2 bits (69), Expect = 2.4
Identities = 8/25 (32%), Positives = 16/25 (64%)
Query: 227 ISFDDKKFIIKPVDKSSPNFIFFSL 251
I F+ +K II+P+++ + + I F
Sbjct: 24 IDFEQQKPIIEPLEELAESGILFDF 48
>gnl|CDD|220369 pfam09731, Mitofilin, Mitochondrial inner membrane protein.
Mitofilin controls mitochondrial cristae morphology.
Mitofilin is enriched in the narrow space between the
inner boundary and the outer membranes, where it forms a
homotypic interaction and assembles into a large
multimeric protein complex. The first 78 amino acids
contain a typical amino-terminal-cleavable mitochondrial
presequence rich in positive-charged and hydroxylated
residues and a membrane anchor domain. In addition, it
has three centrally located coiled coil domains.
Length = 493
Score = 30.4 bits (69), Expect = 2.5
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 384 KSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALK 437
+E +R +E + A EKQLR EREK + + +Y+E++R E
Sbjct: 203 SKLEEELLAR--LESKEAALEKQLRLEFEREKEELRK---KYEEKLRQELERQA 251
>gnl|CDD|197664 smart00338, BRLZ, basic region leucin zipper.
Length = 65
Score = 27.5 bits (62), Expect = 2.7
Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 17/75 (22%)
Query: 388 KEEKSRRQIERNKLA----REKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSE 443
++EK RR+ ERN+ A RE++ E E +E+++ Q + E NE LK E
Sbjct: 2 EDEKRRRRRERNREAARRSRERKKAEIEE-----LERKVEQLEAE----NERLK----KE 48
Query: 444 REAAEREKCAMEQRL 458
E RE ++ L
Sbjct: 49 IERLRRELEKLKSEL 63
>gnl|CDD|218311 pfam04888, SseC, Secretion system effector C (SseC) like family.
SseC is a secreted protein that forms a complex together
with SecB and SecD on the surface of Salmonella. All
these proteins are secreted by the type III secretion
system. Many mucosal pathogens use type III secretion
systems for the injection of effector proteins into
target cells. SecB, SseC and SecD are inserted into the
target cell membrane. where they form a small pore or
translocon. In addition to SseC, this family includes
the bacterial secreted proteins PopB, PepB, YopB and
EspD which are thought to be directly involved in pore
formation, and type III secretion system translocon.
Length = 303
Score = 29.7 bits (67), Expect = 2.8
Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 14/64 (21%)
Query: 377 TMEIQQMKSQAKEEK---SRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLAN 433
E+ ++ S+ E++ +Q+ER + +EK+ E E Q ++ I A
Sbjct: 2 EAELTELISKLAEKQAKSKLQQLERARDKQEKKAEEYQE-----------QIKKAIEKAE 50
Query: 434 EALK 437
EA K
Sbjct: 51 EAKK 54
>gnl|CDD|213755 TIGR02977, phageshock_pspA, phage shock protein A. Members of this
family are the phage shock protein PspA, from the phage
shock operon. This is a narrower family than the set of
PspA and its homologs, sometimes several in a genome, as
described by pfam04012. PspA appears to maintain the
protonmotive force under stress conditions that include
overexpression of certain phage secretins, heat shock,
ethanol, and protein export defects [Cellular processes,
Adaptations to atypical conditions].
Length = 219
Score = 29.6 bits (67), Expect = 2.9
Identities = 28/93 (30%), Positives = 42/93 (45%), Gaps = 8/93 (8%)
Query: 373 RKPDTMEIQQMKSQAKEE----KSRRQIERNKLA---REKQLREAAEREKCAMEQRLVQY 425
R+ +E Q Q K E K R + R L + ++L EA ERE A+E+ L +
Sbjct: 59 RRVSRLEAQVADWQDKAELALSKGREDLARAALIEKQKAQELAEALERELAAVEETLAKL 118
Query: 426 QEEIRLANEALKCVKVSEREAAEREKCAMEQRL 458
QE+I L + ++ A R + A RL
Sbjct: 119 QEDIAKLQAKLAEARARQKALAIRHQAA-SSRL 150
>gnl|CDD|227061 COG4717, COG4717, Uncharacterized conserved protein [Function
unknown].
Length = 984
Score = 30.2 bits (68), Expect = 3.0
Identities = 19/99 (19%), Positives = 38/99 (38%), Gaps = 8/99 (8%)
Query: 381 QQMKSQAKEEKSRRQIERNKLAREKQLREA---AEREKCAMEQRLVQYQEEIRLAN---- 433
+++Q + + ++R ++A E Q EA E ++ + + E+ L
Sbjct: 655 AVLEAQFIDLSTLFCVQRLRVAAELQKEEARLALEGNIERTKELNDELRAELELHRKEIL 714
Query: 434 EALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
+ C +A RE EQ+L Q + + L
Sbjct: 715 DLFDCGTADTEDAF-REAAREEQQLTQRESRLESLEAQL 752
Score = 29.0 bits (65), Expect = 6.9
Identities = 22/93 (23%), Positives = 37/93 (39%), Gaps = 18/93 (19%)
Query: 386 QAKEEKSRRQI----ERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVK- 440
+A+ E R++I + E REAA E Q+L Q + + L+ V
Sbjct: 703 RAELELHRKEILDLFDCGTADTEDAFREAAREE-----QQLTQRESRLESLEAQLEGVAA 757
Query: 441 --------VSEREAAEREKCAMEQRLVQYQEEI 465
+ +RE E E +E+ + EE+
Sbjct: 758 EAYELSASLDQRELKEEELALLEEAIDALDEEV 790
>gnl|CDD|218896 pfam06098, Radial_spoke_3, Radial spoke protein 3. This family
consists of several radial spoke protein 3 (RSP3)
sequences. Eukaryotic cilia and flagella present in
diverse types of cells perform motile, sensory, and
developmental functions in organisms from protists to
humans. They are centred by precisely organised,
microtubule-based structures, the axonemes. The axoneme
consists of two central singlet microtubules, called the
central pair, and nine outer doublet microtubules. These
structures are well-conserved during evolution. The
outer doublet microtubules, each composed of A and B
sub-fibres, are connected to each other by nexin links,
while the central pair is held at the centre of the
axoneme by radial spokes. The radial spokes are T-shaped
structures extending from the A-tubule of each outer
doublet microtubule to the centre of the axoneme. Radial
spoke protein 3 (RSP3), is present at the proximal end
of the spoke stalk and helps in anchoring the radial
spoke to the outer doublet. It is thought that radial
spokes regulate the activity of inner arm dynein through
protein phosphorylation and dephosphorylation.
Length = 288
Score = 29.6 bits (67), Expect = 3.4
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCA-MEQRLVQYQEEIRLANEALK 437
E+ +++ Q ++ + RR E + R E AER + E+R Q +E + E +
Sbjct: 153 ELAELRQQQRQFEQRRNAELAETQR----LEEAERRRREEKERRKKQDKERKQREKETAE 208
Query: 438 CVKVSEREAAER 449
K++ R A+
Sbjct: 209 --KIAARAFAQG 218
Score = 28.9 bits (65), Expect = 5.6
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 7/58 (12%)
Query: 369 FMRRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQ 426
F +RR + E Q++ + E + R + ER R+KQ +E +REK +++
Sbjct: 164 FEQRRNAELAETQRL--EEAERRRREEKER----RKKQDKERKQREK-ETAEKIAARA 214
>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812). This
family consists of several eukaryotic proteins of
unknown function.
Length = 536
Score = 29.7 bits (67), Expect = 3.7
Identities = 10/74 (13%), Positives = 32/74 (43%), Gaps = 1/74 (1%)
Query: 395 QIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSEREAAEREKCAM 454
++ ++ E+ + E E A+++++ + + I +K + ++ E +
Sbjct: 252 EVPPAEMDTEEDRTKEREAELEALQEQIDELESSIEEVLSEIKALASKIKQVNEELT-TV 310
Query: 455 EQRLVQYQEEIRLA 468
Q + +EE ++
Sbjct: 311 RQENEELEEEYKIK 324
>gnl|CDD|237068 PRK12344, PRK12344, putative alpha-isopropylmalate/homocitrate
synthase family transferase; Provisional.
Length = 524
Score = 29.7 bits (68), Expect = 4.0
Identities = 14/28 (50%), Positives = 19/28 (67%), Gaps = 4/28 (14%)
Query: 171 LKIAQDLDMYGVNY----FPISNKKDTD 194
L+IA+ LD GV+Y +P SN KDT+
Sbjct: 30 LRIARKLDELGVDYIEGGWPGSNPKDTE 57
>gnl|CDD|237546 PRK13889, PRK13889, conjugal transfer relaxase TraA; Provisional.
Length = 988
Score = 29.7 bits (67), Expect = 4.1
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 7/51 (13%)
Query: 273 ASEDLLPQRYGDYDDSTYKPGMLASEDLLPQRVIDQYQMTPEMWEDRIKIW 323
++ L +R D + K G++ SE +LP+ PE W DR ++W
Sbjct: 27 SASRLRDERLDRSHDFSAKRGVVHSEVMLPEG-------APEAWSDRERLW 70
Score = 29.7 bits (67), Expect = 4.3
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 7/37 (18%)
Query: 118 DSTYKPGMLASEDLLPQRVIDQYQMTPEMWEDRIKIW 154
D + K G++ SE +LP+ PE W DR ++W
Sbjct: 41 DFSAKRGVVHSEVMLPEG-------APEAWSDRERLW 70
>gnl|CDD|218704 pfam05701, DUF827, Plant protein of unknown function (DUF827).
This family consists of several plant proteins of
unknown function. Several sequences in this family are
described as being "myosin heavy chain-like".
Length = 484
Score = 29.6 bits (66), Expect = 4.3
Identities = 15/58 (25%), Positives = 27/58 (46%)
Query: 378 MEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEA 435
+++QQ S+A+E + + R +L + K+ E + E RL +E A A
Sbjct: 337 LKLQQASSEAEEARKEAEAAREELRKLKEEAEQTKAALETAELRLEAALKEAEAAKAA 394
>gnl|CDD|148759 pfam07334, IFP_35_N, Interferon-induced 35 kDa protein (IFP 35)
N-terminus. This family represents the N-terminus of
interferon-induced 35 kDa protein (IFP 35)
(approximately 80 residues long), which contains a
leucine zipper motif in an alpha helical configuration.
This family also includes N-myc-interactor (Nmi), a
homologous interferon-induced protein.
Length = 76
Score = 27.2 bits (60), Expect = 5.0
Identities = 14/37 (37%), Positives = 20/37 (54%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREK 415
EIQ+ Q KEE + + E +L RE Q++E K
Sbjct: 4 EIQKENIQLKEEIQKLEAELQQLTREFQIKEDIPETK 40
>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase.
Length = 1066
Score = 29.5 bits (66), Expect = 5.0
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 2/72 (2%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
E + K EE+ R+ ++ + A+EK+L++ +K A + +Q Q+ N K
Sbjct: 5 ESEAEKKILTEEELERKKKKEEKAKEKELKKLKAAQKEAKAK--LQAQQASDGTNVPKKS 62
Query: 439 VKVSEREAAERE 450
K S + E E
Sbjct: 63 EKKSRKRDVEDE 74
>gnl|CDD|221408 pfam12072, DUF3552, Domain of unknown function (DUF3552). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria, archaea and eukaryotes.
This domain is about 200 amino acids in length. This
domain is found associated with pfam00013, pfam01966.
This domain has a single completely conserved residue A
that may be functionally important.
Length = 201
Score = 28.7 bits (65), Expect = 5.2
Identities = 25/86 (29%), Positives = 45/86 (52%), Gaps = 19/86 (22%)
Query: 386 QAKEE--KSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSE 443
+AKEE K R + ER R +L+ E+RL+Q +E + +E+L+ +
Sbjct: 57 EAKEEIHKLRAEAERELKERRNELQ--------RQEKRLLQKEETLDRKDESLE-----K 103
Query: 444 REAA----EREKCAMEQRLVQYQEEI 465
+E + E+E A +Q+L + +EE+
Sbjct: 104 KEESLEEKEKELAARQQQLEEKEEEL 129
>gnl|CDD|225664 COG3122, COG3122, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 215
Score = 28.8 bits (64), Expect = 5.6
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 388 KEEKSRRQIERNKLAREKQLREAAEREKCAM---EQRLVQYQEEIRLANEALKCVK 440
K K +R +++++ + R AAE K +++L + Q++ LA E VK
Sbjct: 59 KRAKVQRLAKKSRVDAREAYRIAAEENKAEQLERDKQLSEQQKQAALAKEYKAQVK 114
>gnl|CDD|116500 pfam07888, CALCOCO1, Calcium binding and coiled-coil domain
(CALCOCO1) like. Proteins found in this family are
similar to the coiled-coil transcriptional coactivator
protein coexpressed by Mus musculus (CoCoA/CALCOCO1).
This protein binds to a highly conserved N-terminal
domain of p160 coactivators, such as GRIP1, and thus
enhances transcriptional activation by a number of
nuclear receptors. CALCOCO1 has a central coiled-coil
region with three leucine zipper motifs, which is
required for its interaction with GRIP1 and may regulate
the autonomous transcriptional activation activity of
the C-terminal region.
Length = 546
Score = 29.2 bits (65), Expect = 5.6
Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 19/96 (19%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
E+ +++ +EE+S+R+ +L EK + VQ E R +E
Sbjct: 379 ELLKLEEWLQEERSQREKLEVELGIEK-------------DCNRVQLSENRRELSELRSA 425
Query: 439 VKVSEREAAEREKCAME-QRLVQYQE--EIRLANEA 471
++V ++ E+E+ E Q L+ Y E+RL EA
Sbjct: 426 LRVLQK---EKEQLQEEKQELLDYIRVLELRLDKEA 458
>gnl|CDD|148750 pfam07321, YscO, Type III secretion protein YscO. This family
contains the bacterial type III secretion protein YscO,
which is approximately 150 residues long. YscO has been
shown to be required for high-level expression and
secretion of the anti-host proteins V antigen and Yops
in Yersinia pestis.
Length = 152
Score = 28.2 bits (63), Expect = 5.9
Identities = 27/84 (32%), Positives = 44/84 (52%), Gaps = 11/84 (13%)
Query: 390 EKSRRQIE--RNKLAR-EKQLREAAEREKCAMEQRLVQYQEEIRLANEAL-KCVKVSERE 445
EK ++Q+ R A E+QL EA +R + A QRL Q +++++ A +A K +++ +E
Sbjct: 70 EKWQQQVGLLRENEASLEQQLAEAKQRLE-AERQRLRQARQQLQEARKAQEKFAELARQE 128
Query: 446 AAEREKCAMEQRLVQYQEEIRLAN 469
AE Q QY EE+
Sbjct: 129 QAE------AQAQRQYLEELEQEE 146
>gnl|CDD|224755 COG1842, PspA, Phage shock protein A (IM30), suppresses
sigma54-dependent transcription [Transcription / Signal
transduction mechanisms].
Length = 225
Score = 28.4 bits (64), Expect = 6.2
Identities = 23/94 (24%), Positives = 46/94 (48%), Gaps = 10/94 (10%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
I+ M+S+ K+R+ + + +AR+KQL E + E+ + + ++ NE L
Sbjct: 32 AIRDMESELA--KARQALAQ-AIARQKQLERKLEEAQARAEKLEEKAELALQAGNEDLA- 87
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
REA E ++ ++E + E++ A E +
Sbjct: 88 -----REALEEKQ-SLEDLAKALEAELQQAEEQV 115
>gnl|CDD|240439 PTZ00491, PTZ00491, major vault protein; Provisional.
Length = 850
Score = 29.2 bits (66), Expect = 6.2
Identities = 23/95 (24%), Positives = 41/95 (43%), Gaps = 4/95 (4%)
Query: 377 TMEIQQMKSQAKEEKSRR---QIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLAN 433
+E Q+M +AK E+ R +++ A E + AE A E RL++ + E+ A
Sbjct: 682 RLERQKMHDKAKAEEQRTKLLELQAESAAVESSGQSRAEALAEA-EARLIEAEAEVEQAE 740
Query: 434 EALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLA 468
K +++ E+ + E L Q + L
Sbjct: 741 LRAKALRIEAEAELEKLRKRQELELEYEQAQNELE 775
>gnl|CDD|176209 cd08247, AST1_like, AST1 is a cytoplasmic protein associated with
the periplasmic membrane in yeast. This group contains
members identified in targeting of yeast membrane
proteins ATPase. AST1 is a cytoplasmic protein
associated with the periplasmic membrane in yeast,
identified as a multicopy suppressor of pma1 mutants
which cause temperature sensitive growth arrest due to
the inability of ATPase to target to the cell surface.
This family is homologous to the medium chain family of
dehydrogenases and reductases. Medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of an
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 352
Score = 28.8 bits (65), Expect = 6.3
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 10/48 (20%)
Query: 322 IWYADHRGMSRDEAEMEYLKIAQDLDMYGVNYFPISILDLCIGNHDLF 369
I Y H G+ + +E +K D+ ILD C+G +DLF
Sbjct: 202 IDYDAHSGVKLLKPVLENVKGQGKFDL---------ILD-CVGGYDLF 239
>gnl|CDD|215621 PLN03188, PLN03188, kinesin-12 family protein; Provisional.
Length = 1320
Score = 29.1 bits (65), Expect = 6.7
Identities = 28/92 (30%), Positives = 46/92 (50%), Gaps = 4/92 (4%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
EI +K + EK RR + + + QLR+ AE + A E LV+ +E A K
Sbjct: 1163 EISALKVE--REKERRYLRDENKSLQAQLRDTAEAVQAAGEL-LVRLKEAEEALTVAQKR 1219
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEIRLANE 470
+E+EAAE K +++ +++ EI N+
Sbjct: 1220 AMDAEQEAAEAYK-QIDKLKRKHENEISTLNQ 1250
>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain. This domain is
found at the N terminus of SMC proteins. The SMC
(structural maintenance of chromosomes) superfamily
proteins have ATP-binding domains at the N- and
C-termini, and two extended coiled-coil domains
separated by a hinge in the middle. The eukaryotic SMC
proteins form two kind of heterodimers: the SMC1/SMC3
and the SMC2/SMC4 types. These heterodimers constitute
an essential part of higher order complexes, which are
involved in chromatin and DNA dynamics. This family also
includes the RecF and RecN proteins that are involved in
DNA metabolism and recombination.
Length = 1162
Score = 29.2 bits (65), Expect = 6.9
Identities = 17/89 (19%), Positives = 37/89 (41%), Gaps = 3/89 (3%)
Query: 384 KSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSE 443
+ ++E+ + + E + E ++ E++L QEE + SE
Sbjct: 246 LLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKL---QEEELKLLAKEEEELKSE 302
Query: 444 REAAEREKCAMEQRLVQYQEEIRLANEAL 472
ER K E++L + ++E++ + L
Sbjct: 303 LLKLERRKVDDEEKLKESEKELKKLEKEL 331
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 29.0 bits (65), Expect = 6.9
Identities = 20/101 (19%), Positives = 50/101 (49%), Gaps = 2/101 (1%)
Query: 372 RRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRL 431
++E+ + +++ +E + + E KL + +L E + +E+++ + + EIR
Sbjct: 613 EELLQSLELSEAENELEEAEEELESELEKLNLQAELEELLQAALEELEEKVEELEAEIRR 672
Query: 432 ANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
+ ++ + E + E E+ +E+ L Q +EE+ + L
Sbjct: 673 ELQRIENEEQLEEKLEELEQ--LEEELEQLREELEELLKKL 711
Score = 29.0 bits (65), Expect = 8.1
Identities = 17/92 (18%), Positives = 41/92 (44%), Gaps = 1/92 (1%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
+++++ + +E + + R L ++L E + ++L + E++ E L
Sbjct: 292 RLEELEREIEELEEELEGLRALLEELEELLEKLKSL-EERLEKLEEKLEKLESELEELAE 350
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEIRLANE 470
K + E +E+RL + ++E+ A E
Sbjct: 351 EKNELAKLLEERLKELEERLEELEKELEKALE 382
Score = 28.6 bits (64), Expect = 8.4
Identities = 23/94 (24%), Positives = 44/94 (46%), Gaps = 3/94 (3%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
+I++++ Q E IE A E++L+E + E+ EQ + ++EI E L
Sbjct: 186 KIEELEGQLSELLE--DIEDLLEALEEELKELKKLEEIQEEQEEEELEQEIEALEERLAE 243
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
++ E+E E K + + E +++ E L
Sbjct: 244 LE-EEKERLEELKARLLEIESLELEALKIREEEL 276
>gnl|CDD|217843 pfam04012, PspA_IM30, PspA/IM30 family. This family includes PspA
a protein that suppresses sigma54-dependent
transcription. The PspA protein, a negative regulator of
the Escherichia coli phage shock psp operon, is produced
when virulence factors are exported through secretins in
many Gram-negative pathogenic bacteria and its homologue
in plants, VIPP1, plays a critical role in thylakoid
biogenesis, essential for photosynthesis. Activation of
transcription by the enhancer-dependent bacterial
sigma(54) containing RNA polymerase occurs through ATP
hydrolysis-driven protein conformational changes enabled
by activator proteins that belong to the large AAA(+)
mechanochemical protein family. It has been shown that
PspA directly and specifically acts upon and binds to
the AAA(+) domain of the PspF transcription activator.
Length = 220
Score = 28.5 bits (64), Expect = 7.1
Identities = 20/94 (21%), Positives = 40/94 (42%), Gaps = 10/94 (10%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKC 438
I+ M+S+ K+R+ + + AR+KQL E +K ++ + + + NE L
Sbjct: 31 AIRDMQSELG--KARQALAQVI-ARQKQLERKLEEQKEQAKKLENKARAALTKGNEELA- 86
Query: 439 VKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
REA E++ + ++ A+
Sbjct: 87 -----REALAEIATL-EKQAEALETQLTQQRSAV 114
>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding
[General function prediction only].
Length = 239
Score = 28.5 bits (64), Expect = 7.3
Identities = 20/102 (19%), Positives = 39/102 (38%), Gaps = 11/102 (10%)
Query: 379 EIQQMKSQAKEE--KSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEAL 436
+++ SQ + E + R +I+R A EK ERE A+ + +E I + L
Sbjct: 56 DLENQVSQLESEIQEIRERIKR---AEEKLSAVKDERELRALNIEIQIAKERINSLEDEL 112
Query: 437 KCV------KVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
+ E E + +E+ L + + + +
Sbjct: 113 AELMEEIEKLEKEIEDLKERLERLEKNLAEAEARLEEEVAEI 154
>gnl|CDD|218636 pfam05557, MAD, Mitotic checkpoint protein. This family consists
of several eukaryotic mitotic checkpoint (Mitotic arrest
deficient or MAD) proteins. The mitotic spindle
checkpoint monitors proper attachment of the bipolar
spindle to the kinetochores of aligned sister chromatids
and causes a cell cycle arrest in prometaphase when
failures occur. Multiple components of the mitotic
spindle checkpoint have been identified in yeast and
higher eukaryotes. In S.cerevisiae, the existence of a
Mad1-dependent complex containing Mad2, Mad3, Bub3 and
Cdc20 has been demonstrated.
Length = 722
Score = 28.7 bits (64), Expect = 7.4
Identities = 20/85 (23%), Positives = 29/85 (34%), Gaps = 5/85 (5%)
Query: 390 EKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALK--CVKVSER--E 445
E+S ++R +L R K E E E + Q E+ L + +R E
Sbjct: 52 EESMTLLQRAELIRSKSKLIQLENELMQKELEHKRAQIELERKASTLAENYERELDRNLE 111
Query: 446 AAEREKCAMEQRLVQYQEEIRLANE 470
R K E + E A E
Sbjct: 112 LEVRLKALEELEKK-AENEAAEAEE 135
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 28.8 bits (64), Expect = 7.6
Identities = 17/92 (18%), Positives = 41/92 (44%), Gaps = 4/92 (4%)
Query: 373 RKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLA 432
D + Q+ + + K+++++ + + K+ ++ AE +K +E+ Q EI+
Sbjct: 238 FAQDNADKQRDEVRQKQQEAKNLPKPADTSSPKEDKQVAENQKREIEKA----QIEIKKN 293
Query: 433 NEALKCVKVSEREAAEREKCAMEQRLVQYQEE 464
+E K + ++E A E+ + E
Sbjct: 294 DEEALKAKDHKAFDLKQESKASEKEAEDKELE 325
Score = 28.8 bits (64), Expect = 7.7
Identities = 25/112 (22%), Positives = 49/112 (43%), Gaps = 13/112 (11%)
Query: 367 DLFMRRRKPDTMEIQ-----QMKSQAKEEKSRRQIERNKLAREKQLREA-AEREKCAMEQ 420
+ RR D E + + Q KEE ++QI+ +K ++ + A++++ + Q
Sbjct: 193 GVNFRRDMTDLKERESQEDAKRAQQLKEELDKKQIDADKAQQKADFAQDNADKQRDEVRQ 252
Query: 421 RLVQYQEEIRLANEALKCVKVSEREAAEREKCAMEQRLVQYQEEIRLANEAL 472
+ QE L A +++ AE +K +E+ Q EI+ +E
Sbjct: 253 KQ---QEAKNLPKPADTSSPKEDKQVAENQKREIEKA----QIEIKKNDEEA 297
>gnl|CDD|226951 COG4585, COG4585, Signal transduction histidine kinase [Signal
transduction mechanisms].
Length = 365
Score = 28.6 bits (64), Expect = 7.7
Identities = 24/139 (17%), Positives = 46/139 (33%), Gaps = 21/139 (15%)
Query: 353 YFPISILDLCIGNHDLFMRRRKPDTMEIQQMKSQAKEEKSRRQI------ERNKLARE-- 404
+ +L L + + + E ++K+ E R I ERN++AR+
Sbjct: 120 ALFLLLLALVLATLIAILLLLEGVIRERAKLKALLAERLERALIELEELEERNRIARDLH 179
Query: 405 ---------KQLREAAER--EKCAMEQRLVQYQEEIRLANEALKCVK--VSEREAAEREK 451
+ A E+ + +E +L EAL+ V+ V + E E
Sbjct: 180 DSVGQSLTAISMLLALLLLLADEDAEKAQEELKEIEKLLREALQEVRALVRDLRPVELEG 239
Query: 452 CAMEQRLVQYQEEIRLANE 470
+ + L +
Sbjct: 240 LGLVEALRALLADFEERTG 258
>gnl|CDD|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria
with the myosin-like domain [Function unknown].
Length = 499
Score = 28.8 bits (64), Expect = 8.0
Identities = 19/72 (26%), Positives = 31/72 (43%), Gaps = 3/72 (4%)
Query: 386 QAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSERE 445
A+ EK + ER E Q A +E+ A+ Q L ++ + A + L + ++
Sbjct: 92 TAQGEKRAAETEREAARSELQ---KARQEREAVRQELAAARQNLAKAQQELARLTKQAQD 148
Query: 446 AAEREKCAMEQR 457
R K EQR
Sbjct: 149 LQTRLKTLAEQR 160
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 28.6 bits (65), Expect = 8.1
Identities = 21/96 (21%), Positives = 47/96 (48%), Gaps = 12/96 (12%)
Query: 379 EIQQMKSQAKEEKSRRQIERNKLAR-EKQLR---EAAEREKCAMEQRLVQYQEEIRLANE 434
EI +++++ ++E R RN+L + EK+L E +R+ +E+R + +++ + +
Sbjct: 65 EIHKLRNEFEKELRER---RNELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKELEQ 121
Query: 435 ALKCVKVSEREAAEREKCAMEQRLVQY----QEEIR 466
+ ++ E E E + Q L + EE +
Sbjct: 122 KQQELEKKEEELEELIE-EQLQELERISGLTAEEAK 156
>gnl|CDD|153281 cd07597, BAR_SNX8, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexin 8. BAR domains are dimerization, lipid binding
and curvature sensing modules found in many different
proteins with diverse functions. Sorting nexins (SNXs)
are Phox homology (PX) domain containing proteins that
are involved in regulating membrane traffic and protein
sorting in the endosomal system. SNXs differ from each
other in their lipid-binding specificity, subcellular
localization and specific function in the endocytic
pathway. A subset of SNXs also contain BAR domains. The
PX-BAR structural unit determines the specific membrane
targeting of SNXs. SNX8 and the yeast counterpart Mvp1p
are involved in sorting and delivery of late-Golgi
proteins, such as carboxypeptidase Y, to vacuoles. BAR
domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 246
Score = 28.4 bits (64), Expect = 8.2
Identities = 33/142 (23%), Positives = 56/142 (39%), Gaps = 26/142 (18%)
Query: 325 ADHRGMSRDEAEMEYLKIAQDLDMYGVNYFPISILDLCIGNHDLFMRRRKPDTMEIQQMK 384
+S DEA E + + L + LDL + DLF R K IQ++
Sbjct: 101 QLLSDLSEDEARAEEDGVLEKLKLQ---------LDLLVSLRDLFERHEKLSLNNIQRLL 151
Query: 385 SQAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSER 444
+ + K + + R K + AE +K +E +++ +E I AN+ + +
Sbjct: 152 KRIELNKKKLE-----SLRAKPDVKGAEVDK--LEASIIKDKESI--ANQLNRSWFI--- 199
Query: 445 EAAEREKCAMEQRLVQ-YQEEI 465
RE E +L Q Q +
Sbjct: 200 ----RECILEETQLFQETQFLL 217
>gnl|CDD|205206 pfam13025, DUF3886, Protein of unknown function (DUF3886). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are approximately 90 amino acids in length.
There are two completely conserved L residues that may
be functionally important.
Length = 70
Score = 26.1 bits (58), Expect = 8.2
Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 5/43 (11%)
Query: 374 KPDTME-IQQMKSQAKEEKSRRQIERNKLAREKQLREAAEREK 415
D + ++ K + K E+ +R+ E ++ E EREK
Sbjct: 15 NADLLAKLKAKKKELKAEEEKREEEE----EARKREERKEREK 53
>gnl|CDD|233194 TIGR00930, 2a30, K-Cl cotransporter. [Transport and binding
proteins, Other].
Length = 953
Score = 28.5 bits (64), Expect = 8.9
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 367 DLFMRRRKPDTMEIQQMKSQAKEEKSRRQIERNKLAREKQLREAA 411
D M KP +I + Q+ KS RQ+ N+L E R+AA
Sbjct: 864 DPKMTWTKP--WKITDAELQSNVRKSYRQVRLNELLLEYS-RDAA 905
>gnl|CDD|131972 TIGR02926, AhaH, ATP synthase archaeal, H subunit. he A1/A0 ATP
synthase is homologous to the V-type (V1/V0, vacuolar)
ATPase, but functions in the ATP synthetic direction as
does the F1/F0 ATPase of bacteria. The hydrophilic A1
"stalk" complex (AhaABCDEFG) is the site of ATP
generation and is coupled to the membrane-embedded
proton translocating A0 complex. It is unclear precisely
where AhaH fits into these complexes.
Length = 85
Score = 26.7 bits (59), Expect = 8.9
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 386 QAKEEKSRRQIERNKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEALKCVKVSERE 445
+A+EE+ +R E + ARE L E AE E + + +++ EE + EA K + E+E
Sbjct: 17 EAEEERKQRIAEAREEARE--LLEEAEEEASKLGEEIIKEAEE-EIEKEAEKIREEGEKE 73
Query: 446 AAEREKCAMEQR 457
+ A E+
Sbjct: 74 IEAMKSKAKEKI 85
>gnl|CDD|116408 pfam07794, DUF1633, Protein of unknown function (DUF1633). This
family contains sequences derived from a group of
hypothetical proteins expressed by Arabidopsis thaliana.
These sequences are highly similar and the region
concerned is about 100 residues long.
Length = 698
Score = 28.7 bits (63), Expect = 9.4
Identities = 21/60 (35%), Positives = 27/60 (45%), Gaps = 10/60 (16%)
Query: 254 RMNKLYGDYDDSTYKPGMLASEDLLPQRYGDYDDSTYKPGMLASEDLLPQRVIDQYQMTP 313
++ +L D+DDS K YGD DDS+ K AS P+RVI M P
Sbjct: 45 QLTQLPSDFDDSQNKSN---------HSYGD-DDSSSKMRSAASSRQEPKRVITLGGMGP 94
>gnl|CDD|163506 TIGR03794, NHLM_micro_HlyD, NHLM bacteriocin system secretion
protein. Members of this protein family are homologs of
the HlyD membrane fusion protein of type I secretion
systems. Their occurrence in prokaryotic genomes is
associated with the occurrence of a novel class of
microcin (small bacteriocins) with a leader peptide
region related to nitrile hydratase. We designate the
class of bacteriocin as Nitrile Hydratase Leader
Microcin, or NHLM. This family, therefore, is designated
as NHLM bacteriocin system secretion protein. Some but
not all NHLM-class putative microcins belong to the TOMM
(thiazole/oxazole modified microcin) class as assessed
by the presence of the scaffolding protein and/or
cyclodehydratase in the same gene clusters [Transport
and binding proteins, Amino acids, peptides and amines,
Cellular processes, Biosynthesis of natural products].
Length = 421
Score = 28.3 bits (63), Expect = 9.7
Identities = 18/89 (20%), Positives = 30/89 (33%), Gaps = 7/89 (7%)
Query: 381 QQMKSQAKEEKSRRQIER-----NKLAREKQLREAAEREKCAMEQRLVQYQEEIRLANEA 435
Q +A EE R E ++ +++ L Q++EE + A
Sbjct: 130 FQKSKEALEETIGRLREELAALSREVGKQRGLLSRGLATFKRDRILQQQWREEQEKYDAA 189
Query: 436 LKCVKVSE--REAAEREKCAMEQRLVQYQ 462
K + +A ER + Q L Q
Sbjct: 190 DKARAIYALQTKADERNLETVLQSLSQAD 218
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
0.319 0.135 0.403
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,770,676
Number of extensions: 2470493
Number of successful extensions: 3552
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3173
Number of HSP's successfully gapped: 364
Length of query: 472
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 372
Effective length of database: 6,502,202
Effective search space: 2418819144
Effective search space used: 2418819144
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: 61 (27.2 bits)