RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10708
(589 letters)
>gnl|CDD|199823 cd10498, MH2_SMAD_4, C-terminal Mad Homology 2 (MH2) domain in
SMAD4. The MH2 domain is located at the C-terminus of
the SMAD (small mothers against decapentaplegic) family
of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. The MH2 domain is responsible for
type I receptor interaction, phosphorylation-triggered
homo- and hetero-oligomerization, and transactivation.
It is negatively regulated by the N-terminal MH1 domain.
SMAD4, which belongs to the Dwarfin family of proteins,
is involved in many cell functions such as
differentiation, apoptosis, gastrulation, embryonic
development and the cell cycle. SMAD4 binds receptor
regulated SMADs (R-SMADs) such as SMAD1 or SMAD2, and
forms an oligomeric complex that binds to DNA and serves
as a transcription factor. SMAD4 is often mutated in
several cancers, such as multiploid colorectal cancer,
cervical cancer and pancreatic carcinoma, as well as in
juvenile polyposis syndrome.
Length = 222
Score = 485 bits (1250), Expect = e-171
Identities = 207/222 (93%), Positives = 216/222 (97%)
Query: 357 PEYWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERA 416
PEYWCS+AYFELDTQVGETFKVPSSCP VT+DGYVDPSGGNRFCLG LSNVHRT+ SERA
Sbjct: 1 PEYWCSIAYFELDTQVGETFKVPSSCPTVTVDGYVDPSGGNRFCLGQLSNVHRTEASERA 60
Query: 417 RLHIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFD 476
RLHIGKGVQLD +GEGDVWL CLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFD
Sbjct: 61 RLHIGKGVQLDCKGEGDVWLRCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFD 120
Query: 477 LRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLC 536
LRQC+RQMQQQAATAQAAAAAQAAAVAG+IPGP SVGGIAPAISLSAAAGIGVDDLRRLC
Sbjct: 121 LRQCHRQMQQQAATAQAAAAAQAAAVAGNIPGPGSVGGIAPAISLSAAAGIGVDDLRRLC 180
Query: 537 ILRLSFVKGWGPDYPRQSIKETPCWVEVHLHRALQLLDEVLH 578
ILR+SFVKGWGPDYPRQSIKETPCW+E+HLHRALQLLDEVLH
Sbjct: 181 ILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLH 222
Score = 122 bits (308), Expect = 6e-32
Identities = 51/64 (79%), Positives = 54/64 (84%)
Query: 277 YFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERARFSKESGL 336
YFELDTQVGETFKVPSSCP VT+DGYVDPSGGNRFCLG LSNVHRT+ SERAR G+
Sbjct: 9 YFELDTQVGETFKVPSSCPTVTVDGYVDPSGGNRFCLGQLSNVHRTEASERARLHIGKGV 68
Query: 337 QTSC 340
Q C
Sbjct: 69 QLDC 72
>gnl|CDD|217398 pfam03166, MH2, MH2 domain. This is the MH2 (MAD homology 2)
domain found at the carboxy terminus of MAD related
proteins such as Smads. This domain is separated from
the MH1 domain by a non-conserved linker region. The MH2
domain mediates interaction with a wide variety of
proteins and provides specificity and selectivity to
Smad function and also is critical for mediating
interactions in Smad oligomers. Unlike MH1, MH2 does not
bind DNA. The well-studied MH2 domain of Smad4 is
composed of five alpha helices and three loops enclosing
a beta sandwich. Smads are involved in the propagation
of TGF-beta signals by direct association with the
TGF-beta receptor kinase which phosphorylates the last
two Ser of a conserved 'SSXS' motif located at the
C-terminus of MH2.
Length = 179
Score = 271 bits (695), Expect = 1e-88
Identities = 103/213 (48%), Positives = 132/213 (61%), Gaps = 37/213 (17%)
Query: 357 PEYWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERA 416
PE+WCS+AY+EL+T+VGETFKV +VT+DG+ DPS G+RFCLG LSNV+R + E+
Sbjct: 4 PEFWCSIAYYELNTRVGETFKVSG--NSVTVDGFTDPSNGDRFCLGQLSNVNRNEAIEKT 61
Query: 417 RLHIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFD 476
R HIGKGVQL + +G+VW++ SD +FVQS YLD AG VHKI P A +KVFD
Sbjct: 62 RRHIGKGVQLSYKADGEVWVYNRSDSPIFVQSPYLDYPAGF-HPLTVHKIPPGASLKVFD 120
Query: 477 LRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLC 536
R Y+ ++Q + + A VDDLRR+C
Sbjct: 121 FRLFYQLLRQASNSGFEA----------------------------------VDDLRRMC 146
Query: 537 ILRLSFVKGWGPDYPRQSIKETPCWVEVHLHRA 569
+R+SFVKGWG DYPRQ I TPCW+EVHL+R
Sbjct: 147 TIRISFVKGWGEDYPRQDITSTPCWIEVHLNRP 179
Score = 86.2 bits (214), Expect = 1e-19
Identities = 31/53 (58%), Positives = 41/53 (77%), Gaps = 2/53 (3%)
Query: 277 YFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERAR 329
Y+EL+T+VGETFKV +VT+DG+ DPS G+RFCLG LSNV+R + E+ R
Sbjct: 12 YYELNTRVGETFKVSG--NSVTVDGFTDPSNGDRFCLGQLSNVNRNEAIEKTR 62
Score = 49.6 bits (119), Expect = 7e-07
Identities = 17/25 (68%), Positives = 23/25 (92%)
Query: 216 PEYWCSVAYFELDTQVGETFKVPSS 240
PE+WCS+AY+EL+T+VGETFKV +
Sbjct: 4 PEFWCSIAYYELNTRVGETFKVSGN 28
>gnl|CDD|199819 cd00050, MH2, C-terminal Mad Homology 2 (MH2) domain. The MH2
domain is found in the SMAD (small mothers against
decapentaplegic) family of proteins and is responsible
for type I receptor interactions,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain which
prevents it from forming a complex with SMAD4. The MH2
domain is multifunctional and provides SMADs with their
specificity and selectivity, as well as transcriptional
activity. Several transcriptional co-activators and
repressors have also been reported to regulate SMAD
signaling by interacting with the MH2 domain. Mutations
in the MH2 domains of SMAD2 and especially SMAD4 have
been detected in colorectal and other human cancers.
Length = 170
Score = 258 bits (661), Expect = 9e-84
Identities = 96/208 (46%), Positives = 121/208 (58%), Gaps = 38/208 (18%)
Query: 360 WCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERARLH 419
WCS+AY+EL+T+VGE F V S P+V +DG+ DPS G+RFCLG LSNV+R + ER R H
Sbjct: 1 WCSIAYYELNTRVGELFHVYS--PSVAVDGFTDPSNGDRFCLGQLSNVNRNETIERTRRH 58
Query: 420 IGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDLRQ 479
IGKGV L G G+VW CLSDH++FVQS LD GR P V KI P IKVFD ++
Sbjct: 59 IGKGVHLYYVG-GEVWAECLSDHAIFVQSRNLDYPHGRHP-LTVCKIPPGCSIKVFDNQE 116
Query: 480 CYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLCILR 539
+ + Q T GV +L ++C +R
Sbjct: 117 FAQLLHQSVNT----------------------------------GFEGVYELTKMCTIR 142
Query: 540 LSFVKGWGPDYPRQSIKETPCWVEVHLH 567
+SFVKGWGP+Y RQ I TPCW+E+HLH
Sbjct: 143 MSFVKGWGPEYHRQDITSTPCWIEIHLH 170
Score = 82.3 bits (203), Expect = 3e-18
Identities = 32/64 (50%), Positives = 42/64 (65%), Gaps = 2/64 (3%)
Query: 277 YFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERARFSKESGL 336
Y+EL+T+VGE F V S P+V +DG+ DPS G+RFCLG LSNV+R + ER R G+
Sbjct: 6 YYELNTRVGELFHVYS--PSVAVDGFTDPSNGDRFCLGQLSNVNRNETIERTRRHIGKGV 63
Query: 337 QTSC 340
Sbjct: 64 HLYY 67
Score = 44.1 bits (104), Expect = 4e-05
Identities = 14/21 (66%), Positives = 18/21 (85%)
Query: 219 WCSVAYFELDTQVGETFKVPS 239
WCS+AY+EL+T+VGE F V S
Sbjct: 1 WCSIAYYELNTRVGELFHVYS 21
>gnl|CDD|197770 smart00524, DWB, Domain B in dwarfin family proteins.
Length = 171
Score = 251 bits (642), Expect = 8e-81
Identities = 100/209 (47%), Positives = 125/209 (59%), Gaps = 38/209 (18%)
Query: 359 YWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERARL 418
WC +AY+EL+T+VGETFKV S P+VT+DG+ DPS GNRFCLG LSNV+R + +E R
Sbjct: 1 SWCKIAYYELNTRVGETFKVSS--PSVTVDGFTDPSDGNRFCLGQLSNVNRNEATELIRK 58
Query: 419 HIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDLR 478
HIGKGVQL GDVWL+ SD +FVQS YLD GR D VHK+ P IKVFD+
Sbjct: 59 HIGKGVQLSYEN-GDVWLYNRSDSPIFVQSPYLDEPGGRTL-DTVHKLPPGYSIKVFDME 116
Query: 479 QCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLCIL 538
+ + + ++ A GV DL R+C +
Sbjct: 117 KFAQLLARELAK----------------------------------GFEGVYDLARMCTI 142
Query: 539 RLSFVKGWGPDYPRQSIKETPCWVEVHLH 567
R+SFVKGWGPDY RQ+I TPCW+EVHL+
Sbjct: 143 RISFVKGWGPDYSRQTITSTPCWIEVHLN 171
Score = 85.1 bits (211), Expect = 3e-19
Identities = 34/53 (64%), Positives = 43/53 (81%), Gaps = 2/53 (3%)
Query: 277 YFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERAR 329
Y+EL+T+VGETFKV S P+VT+DG+ DPS GNRFCLG LSNV+R + +E R
Sbjct: 7 YYELNTRVGETFKVSS--PSVTVDGFTDPSDGNRFCLGQLSNVNRNEATELIR 57
Score = 45.8 bits (109), Expect = 1e-05
Identities = 15/22 (68%), Positives = 19/22 (86%)
Query: 218 YWCSVAYFELDTQVGETFKVPS 239
WC +AY+EL+T+VGETFKV S
Sbjct: 1 SWCKIAYYELNTRVGETFKVSS 22
>gnl|CDD|199816 cd10492, MH1_SMAD_4, N-terminal Mad Homology 1 (MH1) domain in
SMAD4. The MH1 is a small DNA-binding domain present in
SMAD (small mothers against decapentaplegic) family of
proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. MH1 binds to the DNA major groove
in an unusual manner via a beta hairpin structure. It
negatively regulates the functions of the MH2 domain,
the C-terminal domain of SMAD. This MH1 belongs to
SMAD4, a common mediator SMAD (co-SMAD), which belongs
to the Dwarfin family of proteins and is involved in
many cell functions such as differentiation, apoptosis,
gastrulation, embryonic development and cell cycle.
SMAD4 binds receptor regulated SMADs (R-SMADs) such as
SMAD1 or SMAD2, and forms an oligomeric complex that
binds to DNA and serves as a transcription factor. SMAD4
is often mutated in several cancers, such as multiploid
colorectal cancer and pancreatic carcinoma, as well as
in juvenile polyposis syndrome (JPS).
Length = 125
Score = 213 bits (544), Expect = 5e-67
Identities = 85/91 (93%), Positives = 91/91 (100%)
Query: 69 QEKRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDLHKN 128
++KRDELDSLITAIT+NG+HPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDLHKN
Sbjct: 35 KDKRDELDSLITAITSNGAHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDLHKN 94
Query: 129 ELKHLKYCQYAFDLKCDSVCVNPYHYERVVS 159
ELKH+K+CQYAFDLKCDSVCVNPYHYERVVS
Sbjct: 95 ELKHVKFCQYAFDLKCDSVCVNPYHYERVVS 125
>gnl|CDD|199820 cd10495, MH2_R-SMAD, C-terminal Mad Homology 2 (MH2) domain in
receptor regulated SMADs. The MH2 domain is located at
the C-terminus of the SMAD (small mothers against
decapentaplegic) family of proteins, which are signal
transducers and transcriptional modulators that mediate
multiple signaling pathways. The MH2 domain is
responsible for type I receptor interaction,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain.
Receptor regulated SMADs (R-SMADs) include SMAD1, SMAD2,
SMAD3, SMAD5 and SMAD9. SMAD1 plays an essential role in
bone development and postnatal bone formation through
activation by bone morphogenetic protein (BMP) type 1
receptor kinase. SMAD2 regulates multiple cellular
processes, such as cell proliferation, apoptosis and
differentiation, while SMAD3 modulates signals of
activin and TGF-beta. SMAD5 is involved in BMP signal
modulation, possibly playing a role in the pathway
involving inhibition of hematopoietic progenitor cells
by TGF-beta. SMAD9 (also known as SMAD8) can mediate the
differentiation of mesenchymal stem cells into
tendon-like cells by inhibiting the osteogenic pathway.
Length = 182
Score = 189 bits (482), Expect = 5e-57
Identities = 86/219 (39%), Positives = 122/219 (55%), Gaps = 39/219 (17%)
Query: 360 WCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPS-GGNRFCLGALSNVHRTDQSERARL 418
WCS++Y+EL+++VGE FK S P++ +DG+ DPS +RFCLG LSNV+R E R
Sbjct: 1 WCSISYYELNSRVGEQFKA--SNPSIIVDGFTDPSNNSDRFCLGLLSNVNRNATIENTRR 58
Query: 419 HIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDLR 478
HIG+GV L G G+V+ CLSD ++FVQS + G P V KI P +K+F+ +
Sbjct: 59 HIGRGVHLFYVG-GEVYAECLSDSAIFVQSRNCNLRHGFHPA-TVCKIPPGCSLKIFNNQ 116
Query: 479 QCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLCIL 538
+ Q+ +Q+ A V +L ++C +
Sbjct: 117 S-FAQLLEQSVNRGFEA---------------------------------VYELTKMCTI 142
Query: 539 RLSFVKGWGPDYPRQSIKETPCWVEVHLHRALQLLDEVL 577
R+SFVKGWG +Y RQ + TPCW+E+HLH LQ LD+VL
Sbjct: 143 RISFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL 181
Score = 65.9 bits (161), Expect = 2e-12
Identities = 27/54 (50%), Positives = 37/54 (68%), Gaps = 3/54 (5%)
Query: 277 YFELDTQVGETFKVPSSCPNVTIDGYVDPS-GGNRFCLGALSNVHRTDQSERAR 329
Y+EL+++VGE FK S P++ +DG+ DPS +RFCLG LSNV+R E R
Sbjct: 6 YYELNSRVGEQFKA--SNPSIIVDGFTDPSNNSDRFCLGLLSNVNRNATIENTR 57
>gnl|CDD|199826 cd10985, MH2_SMAD_2_3, C-terminal Mad Homology 2 (MH2) domain in
SMAD2 and SMAD3. The MH2 domain is located at the
C-terminus of the SMAD (small mothers against
decapentaplegic) family of proteins, which are signal
transducers and transcriptional modulators that mediate
multiple signaling pathways. The MH2 domain is
responsible for type I receptor interaction,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain. SMAD2
and SMAD3 are receptor regulated SMADs (R-SMADs). SMAD2
regulates multiple cellular processes, such as cell
proliferation, apoptosis and differentiation, while
SMAD3 modulates signals of activin and TGF-beta.
Length = 191
Score = 177 bits (451), Expect = 2e-52
Identities = 91/224 (40%), Positives = 126/224 (56%), Gaps = 38/224 (16%)
Query: 357 PEYWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERA 416
P +WCS++Y+E++T+VGETF +S P++T+DG+ DPS RFCLG LSNV+R Q E
Sbjct: 6 PAFWCSISYYEMNTRVGETFH--ASQPSLTVDGFTDPSNSERFCLGLLSNVNRNPQVELT 63
Query: 417 RLHIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFD 476
R HIGKGV+L G G+V+ CLSD ++FVQS ++ G P V KI P +K+F+
Sbjct: 64 RRHIGKGVRLYYIG-GEVFAECLSDSAIFVQSPNCNQRYGWHPA-TVCKIPPGCNLKIFN 121
Query: 477 LRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLC 536
Q + + Q+ A Q L R+C
Sbjct: 122 -NQEFAALLSQSVNQGFEAVYQ---------------------------------LTRMC 147
Query: 537 ILRLSFVKGWGPDYPRQSIKETPCWVEVHLHRALQLLDEVLHTM 580
+R+SFVKGWG +Y RQ++ TPCW+E+HL+ LQ LD VL M
Sbjct: 148 TIRMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDRVLTQM 191
Score = 68.4 bits (167), Expect = 3e-13
Identities = 29/55 (52%), Positives = 40/55 (72%), Gaps = 2/55 (3%)
Query: 275 LPYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERAR 329
+ Y+E++T+VGETF +S P++T+DG+ DPS RFCLG LSNV+R Q E R
Sbjct: 12 ISYYEMNTRVGETFH--ASQPSLTVDGFTDPSNSERFCLGLLSNVNRNPQVELTR 64
Score = 42.2 bits (99), Expect = 2e-04
Identities = 12/26 (46%), Positives = 19/26 (73%)
Query: 216 PEYWCSVAYFELDTQVGETFKVPSSC 241
P +WCS++Y+E++T+VGETF
Sbjct: 6 PAFWCSISYYEMNTRVGETFHASQPS 31
>gnl|CDD|199811 cd00049, MH1, N-terminal Mad Homology 1 (MH1) domain. The MH1 is a
small DNA-binding domain present in SMAD (small mothers
against decapentaplegic) family of proteins, which are
signal transducers and transcriptional modulators that
mediate multiple signaling pathways. MH1 binds to the
DNA major groove in an unusual manner via a beta hairpin
structure. It negatively regulates the functions of the
MH2 domain, the C-terminal domain of SMAD.
Receptor-regulated SMAD proteins (R-SMADs, including
SMAD1, SMAD2, SMAD3, SMAD5, and SMAD9) are activated by
phosphorylation by transforming growth factor (TGF)-beta
type I receptors. The active R-SMAD associates with a
common mediator SMAD (Co-SMAD or SMAD4) and other
cofactors, which together translocate to the nucleus to
regulate gene expression. The inhibitory or antagonistic
SMADs (I-SMADs, including SMAD6 and SMAD7) negatively
regulate TGF-beta signaling by competing with R-SMADs
for type I receptor or Co-SMADs. MH1 domains of R-SMAD
and SMAD4 contain a nuclear localization signal as well
as DNA-binding activity. The activated R-SMAD/SMAD4
complex then binds with very low affinity to a DNA
sequence CAGAC called SMAD-binding element (SBE) via the
MH1 domain.
Length = 121
Score = 170 bits (432), Expect = 1e-50
Identities = 62/91 (68%), Positives = 74/91 (81%), Gaps = 1/91 (1%)
Query: 70 EKRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDLHKN- 128
+++ +LDSL AITT G PSKCVTI R+LDGRLQVA RKG PHVIY R+WRWPDLH +
Sbjct: 31 KEKKQLDSLEKAITTQGGVPSKCVTIPRSLDGRLQVAHRKGLPHVIYCRLWRWPDLHSHH 90
Query: 129 ELKHLKYCQYAFDLKCDSVCVNPYHYERVVS 159
ELK L+ CQ+AF++K D VCVNPYHY+RV S
Sbjct: 91 ELKALELCQFAFNMKKDEVCVNPYHYQRVES 121
>gnl|CDD|199822 cd10497, MH2_SMAD_1_5_9, C-terminal Mad Homology 2 (MH2) domain in
SMAD1, SMAD5 and SMAD9. The MH2 domain is located at
the C-terminus of the SMAD (small mothers against
decapentaplegic) family of proteins, which are signal
transducers and transcriptional modulators that mediate
multiple signaling pathways. The MH2 domain is
responsible for type I receptor interaction,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain, which
prevents it from forming a complex with SMAD4. SMAD1,
SMAD5 and SMAD9 (also known as SMAD8), are receptor
regulated SMADs (R-SMADs). SMAD1 plays an essential role
in bone development and postnatal bone formation through
activation by bone morphogenetic protein (BMP) type 1
receptor kinase. SMAD5 is involved in BMP signal
modulation and may also play a role in the pathway
involving inhibition of hematopoietic progenitor cells
by TGF-beta. SMAD9 mediates the differentiation of
mesenchymal stem cells (MSCs) into tendon-like cells by
inhibiting the osteogenic pathway.
Length = 201
Score = 165 bits (419), Expect = 8e-48
Identities = 91/225 (40%), Positives = 123/225 (54%), Gaps = 39/225 (17%)
Query: 357 PEYWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPS-GGNRFCLGALSNVHRTDQSER 415
P+YWCS+AY+EL+ +VGE F +S ++ +DG+ DPS +RFCLG LSNV+R E
Sbjct: 4 PKYWCSIAYYELNNRVGEAF--HASSTSIIVDGFTDPSNNSDRFCLGLLSNVNRNSTIEN 61
Query: 416 ARLHIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVF 475
R HIGKGV L G G+V+ CLSD S+FVQS + G P V KI P +K+F
Sbjct: 62 TRRHIGKGVHLYYVG-GEVYAECLSDSSIFVQSRNCNYHHGFHP-TTVCKIPPGCSLKIF 119
Query: 476 DLRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRL 535
+ Q + Q+ Q+ A V +L ++
Sbjct: 120 N-NQEFAQLLSQSVNHGFEA---------------------------------VYELTKM 145
Query: 536 CILRLSFVKGWGPDYPRQSIKETPCWVEVHLHRALQLLDEVLHTM 580
C +R+SFVKGWG +Y RQ + TPCW+E+HLH LQ LD+VL M
Sbjct: 146 CTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQM 190
Score = 53.7 bits (129), Expect = 3e-08
Identities = 25/54 (46%), Positives = 35/54 (64%), Gaps = 3/54 (5%)
Query: 277 YFELDTQVGETFKVPSSCPNVTIDGYVDPS-GGNRFCLGALSNVHRTDQSERAR 329
Y+EL+ +VGE F +S ++ +DG+ DPS +RFCLG LSNV+R E R
Sbjct: 12 YYELNNRVGEAF--HASSTSIIVDGFTDPSNNSDRFCLGLLSNVNRNSTIENTR 63
>gnl|CDD|217397 pfam03165, MH1, MH1 domain. The MH1 (MAD homology 1) domain is
found at the amino terminus of MAD related proteins such
as Smads. This domain is separated from the MH2 domain
by a non-conserved linker region. The crystal structure
of the MH1 domain shows that a highly conserved 11
residue beta hairpin is used to bind the DNA consensus
sequence GNCN in the major groove, shown to be vital for
the transcriptional activation of target genes. Not all
examples of MH1 can bind to DNA however. Smad2 cannot
bind DNA and has a large insertion within the hairpin
that presumably abolishes DNA binding. A basic helix
(H2) in MH1 with the nuclear localisation signal KKLKK
has been shown to be essential for Smad3 nuclear import.
Smads also use the MH1 domain to interact with
transcription factors such as Jun, TFE3, Sp1, and Runx.
Length = 103
Score = 155 bits (394), Expect = 2e-45
Identities = 54/90 (60%), Positives = 68/90 (75%), Gaps = 1/90 (1%)
Query: 70 EKRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDL-HKN 128
+K+ +L+ L A+ + G P+KCVTI R+LDGRLQVAGRKG PHVIY R+WRWPDL ++
Sbjct: 14 KKKQQLEELELAVESRGGPPTKCVTIPRSLDGRLQVAGRKGLPHVIYCRLWRWPDLQSQH 73
Query: 129 ELKHLKYCQYAFDLKCDSVCVNPYHYERVV 158
ELK + C+YAF K D VC+NPYHY RV
Sbjct: 74 ELKAIPTCEYAFRSKKDEVCINPYHYSRVE 103
>gnl|CDD|214708 smart00523, DWA, Domain A in dwarfin family proteins.
Length = 109
Score = 147 bits (373), Expect = 2e-42
Identities = 50/92 (54%), Positives = 66/92 (71%), Gaps = 1/92 (1%)
Query: 71 KRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDL-HKNE 129
K+ +L+ L+ A+ + G P++CV I R+LDGRLQVA RKG PHV+Y R++RWPDL +E
Sbjct: 18 KKKQLEELLQAVESKGGPPTRCVLIPRSLDGRLQVAHRKGLPHVLYCRLFRWPDLQSPHE 77
Query: 130 LKHLKYCQYAFDLKCDSVCVNPYHYERVVSPG 161
LK L C++AF+ K D VC NPYHY RV P
Sbjct: 78 LKALPTCEHAFESKSDEVCCNPYHYSRVERPE 109
>gnl|CDD|199815 cd10491, MH1_SMAD_2_3, N-terminal Mad Homology 1 (MH1) domain in
SMAD2 and SMAD3. The MH1 is a small DNA-binding domain
present in SMAD (small mothers against decapentaplegic)
family of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. MH1 binds to the DNA major groove
in an unusual manner via a beta hairpin structure. It
negatively regulates the functions of the MH2 domain,
the C-terminal domain of SMAD. This MH1 is found in
SMAD2 as well as SMAD3. SMAD2 mediates the signal of the
transforming growth factor (TGF)-beta, and thereby
regulates multiple cellular processes, such as cell
proliferation, apoptosis, and differentiation. It plays
a role in the transmission of extracellular signals from
ligands of the TGF-beta superfamily growth factors into
the cell nucleus. SMAD3 modulates signals of activin and
TGF-beta. It binds SMAD4, enabling its transmigration
into the nucleus where it forms complexes with other
proteins and acts as a transcription factor. Increased
SMAD3 activity has been implicated in the pathogenesis
of scleroderma.
Length = 124
Score = 133 bits (337), Expect = 4e-37
Identities = 57/96 (59%), Positives = 73/96 (76%), Gaps = 2/96 (2%)
Query: 63 KSDNEEQEKRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRW 122
KS ++ +K LD L AITT S+ +KC+TI R+LDGRLQV+ RKG PHVIY R+WRW
Sbjct: 28 KSLVKKLKKTGGLDELEKAITTQNSN-TKCITIPRSLDGRLQVSHRKGLPHVIYCRLWRW 86
Query: 123 PDLHKN-ELKHLKYCQYAFDLKCDSVCVNPYHYERV 157
PDL + EL+ ++ C+YAF+LK D VCVNPYHY+RV
Sbjct: 87 PDLQSHHELRAIETCEYAFNLKKDEVCVNPYHYQRV 122
>gnl|CDD|199812 cd10488, MH1_R-SMAD, N-terminal Mad Homology 1 (MH1) domain of
receptor regulated SMADs. The MH1 is a small
DNA-binding domain present in SMAD (small mothers
against decapentaplegic) family of proteins, which are
signal transducers and transcriptional modulators that
mediate multiple signaling pathways. It binds to the
major groove in an unusual manner via a beta hairpin
structure. It negatively regulates the functions of the
MH2 domain, the C-terminal domain of SMAD. This MH1
domain is found in all receptor regulated SMADs
(R-SMADs) including SMAD1, SMAD2, SMAD3, SMAD5 and
SMAD9. SMAD1 plays an essential role in bone development
and postnatal bone formation through activation by bone
morphogenetic protein (BMP) type 1 receptor kinase.
SMAD2 regulates multiple cellular processes, such as
cell proliferation, apoptosis and differentiation, while
SMAD3 modulates signals of activin and TGF-beta. SMAD4,
a common mediator SMAD (co-SMAD) binds R-SMADs, forming
an oligomeric complex that binds to DNA and serves as a
transcription factor. SMAD5 is involved in bone
morphogenetic proteins (BMP) signal modulation, possibly
playing a role in the pathway involving inhibition of
hematopoietic progenitor cells by TGF-beta. SMAD9 (also
known as SMAD8) can mediate the differentiation of
mesenchymal stem cells (MSCs) into tendon-like cells by
inhibiting the osteogenic pathway.
Length = 123
Score = 127 bits (321), Expect = 6e-35
Identities = 50/91 (54%), Positives = 70/91 (76%), Gaps = 2/91 (2%)
Query: 70 EKRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDLH-KN 128
+K+ +L+ L AI+T ++CVTI R+LDGRLQV+ RKG PHVIY R+WRWPDL +
Sbjct: 34 KKKGQLEELEKAISTQNV-NTRCVTIPRSLDGRLQVSHRKGLPHVIYCRLWRWPDLQSHH 92
Query: 129 ELKHLKYCQYAFDLKCDSVCVNPYHYERVVS 159
ELK L+ C++AF++K + VC+NPYHY+RV +
Sbjct: 93 ELKPLELCEFAFNMKKEEVCINPYHYKRVET 123
>gnl|CDD|199814 cd10490, MH1_SMAD_1_5_9, N-terminal Mad Homology 1 (MH1) domain in
SMAD1, SMAD5 and SMAD9 (also known as SMAD8). The MH1
is a small DNA-binding domain present in SMAD (small
mothers against decapentaplegic) family of proteins,
which are signal transducers and transcriptional
modulators that mediate multiple signaling pathways. MH1
binds to the DNA major groove in an unusual manner via a
beta hairpin structure. It negatively regulates the
functions of the MH2 domain, the C-terminal domain of
SMAD. This MH1 domain is found in SMAD1, SMAD5 and
SMAD9, all closely related receptor regulated SMADs
(R-SMADs). SMAD1 plays an essential role in bone
development and postnatal bone formation through
activation by bone morphogenetic protein (BMP) type 1
receptor kinase. SMAD5 is involved in bone morphogenetic
proteins (BMP) signal modulation and may also play a
role in the pathway involving inhibition of
hematopoietic progenitor cells by TGF-beta. SMAD9
mediates the differentiation of mesenchymal stem cells
(MSCs) into tendon-like cells by inhibiting the
osteogenic pathway.
Length = 124
Score = 121 bits (305), Expect = 1e-32
Identities = 51/90 (56%), Positives = 66/90 (73%), Gaps = 2/90 (2%)
Query: 69 QEKRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDLHK- 127
++K+ L+ L A++ G PSKCVTI R+LDGRLQV+ RKG PHVIY R+WRWPDL
Sbjct: 34 KKKKGALEELEKALSCPGQ-PSKCVTIPRSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSH 92
Query: 128 NELKHLKYCQYAFDLKCDSVCVNPYHYERV 157
+ELK L+ C++ F K VC+NPYHY+RV
Sbjct: 93 HELKPLECCEFPFGSKQKEVCINPYHYKRV 122
>gnl|CDD|199821 cd10496, MH2_I-SMAD, C-terminal Mad Homology 2 (MH2) domain in
Inhibitory SMADs. The MH2 domain is located at the
C-terminus of the SMAD (small mothers against
decapentaplegic) family of proteins, which are signal
transducers and transcriptional modulators that mediate
multiple signaling pathways. The MH2 domain is
responsible for type I receptor interaction,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain, which
prevents it from forming a complex with SMAD4. SMAD6 and
SMAD7 are inhibitory SMADs (I-SMADs) that function as
negative regulators of signaling mediated by the
TGF-beta superfamily. SMAD6 specifically inhibits bone
morphogenetic protein (BMP) type I receptor mediated
signaling, while SMAD7 enhances muscle differentiation
and is often associated with cancer, tissue fibrosis and
inflammatory diseases.
Length = 165
Score = 118 bits (298), Expect = 4e-31
Identities = 66/208 (31%), Positives = 89/208 (42%), Gaps = 45/208 (21%)
Query: 360 WCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGAL-SNVHRTDQSERARL 418
WC++AY+EL +VG + V N+ D G+ FCLGAL + ++ R R
Sbjct: 1 WCTIAYWELRERVGRLYPVKQPAVNIFDDL----PKGDGFCLGALNRQGNASEAVARVRS 56
Query: 419 HIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDLR 478
IG GV L R VW++ S++ +FV S LD R V K+ P +KVFD
Sbjct: 57 KIGLGVTL-SREPDGVWIYNRSEYPIFVNSPTLDSPPSRNL--LVTKVPPGYSLKVFDYE 113
Query: 479 QCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLCIL 538
R Q + Q P+SV
Sbjct: 114 ---RAALLQ--RRDDHFSPQGPVD------PNSV-------------------------- 136
Query: 539 RLSFVKGWGPDYPRQSIKETPCWVEVHL 566
R+SFVKGWGP+Y RQ I PCW+E+ L
Sbjct: 137 RISFVKGWGPNYSRQFITSCPCWLEILL 164
Score = 33.9 bits (78), Expect = 0.11
Identities = 31/140 (22%), Positives = 46/140 (32%), Gaps = 31/140 (22%)
Query: 275 LPYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGAL-SNVHRTDQSERARFSKE 333
+ Y+EL +VG + V N+ D G+ FCLGAL + ++ R R
Sbjct: 4 IAYWELRERVGRLYPVKQPAVNIFDDL----PKGDGFCLGALNRQGNASEAVARVRSKIG 59
Query: 334 SGLQ--------------------TSCLFSPTGSSGLLSNQPPPEYWCSVAYFELDTQVG 373
G+ S S LL + PP Y V D +
Sbjct: 60 LGVTLSREPDGVWIYNRSEYPIFVNSPTLDSPPSRNLLVTKVPPGYSLKV----FDYERA 115
Query: 374 ETFKVPSSCPNVTIDGYVDP 393
+ + + G VDP
Sbjct: 116 ALLQRRDD--HFSPQGPVDP 133
Score = 31.6 bits (72), Expect = 0.63
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 219 WCSVAYFELDTQVGETFKVPSSCPN 243
WC++AY+EL +VG + V N
Sbjct: 1 WCTIAYWELRERVGRLYPVKQPAVN 25
>gnl|CDD|199824 cd10499, MH2_SMAD_6, C-terminal Mad Homology 2 (MH2) domain in
SMAD6. The MH2 domain is located at the C-terminus of
the SMAD (small mothers against decapentaplegic) family
of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. The MH2 domain is responsible for
type I receptor interaction, phosphorylation-triggered
homo- and hetero-oligomerization, and transactivation.
It is negatively regulated by the N-terminal MH1 domain,
which prevents it from forming a complex with SMAD4.
SMAD6, an inhibitory or antagonistic SMAD (I-SMAD), acts
as a negative regulator of signaling mediated by the
TGF-beta superfamily of ligands, by competing with SMAD4
and preventing the transcription of SMAD4's gene
products. SMAD6 specifically inhibits bone morphogenetic
protein (BMP) type I receptor mediated signaling. SMAD6
and SMAD7 act as critical mediators for effective
TGF-beta I-mediated suppression of
Interleukin-1/Toll-like receptor (IL-1R/TLR) signaling
through simultaneous binding to Pellino-1, an adaptor
protein of interleukin-1 receptor associated kinase 1
(IRAK1), via their MH2 domains.
Length = 174
Score = 105 bits (263), Expect = 3e-26
Identities = 70/215 (32%), Positives = 95/215 (44%), Gaps = 46/215 (21%)
Query: 355 PPPEYWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSE 414
+WCSVAY+E T+VG + V +V+I + D G+ FCLG L+ R++
Sbjct: 5 TKRSHWCSVAYWEHRTRVGRLYAVYD--QSVSI--FYDLPQGSGFCLGQLNLEQRSESVR 60
Query: 415 RARLHIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKV 474
R R IG G+ L +G VW + S+H +FV S LD R V K+ P IKV
Sbjct: 61 RTRSKIGYGILLSKEPDG-VWAYNRSEHPIFVNSPTLDIPGSRTL--VVRKVPPGYSIKV 117
Query: 475 FDLRQCYRQMQQQAATAQAAAAAQAAAVAGHIP-GPHSVGGIAPAISLSAAAGIGVDDLR 533
FD + + Q A + A P P+SV
Sbjct: 118 FDYER--SCLLQHTAEPELA----------DGPYDPNSV--------------------- 144
Query: 534 RLCILRLSFVKGWGPDYPRQSIKETPCWVEVHLHR 568
R+SF KGWGP Y RQ I PCW+E+ L+
Sbjct: 145 -----RISFAKGWGPCYSRQFITSCPCWLEILLNN 174
Score = 30.9 bits (70), Expect = 1.2
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 214 PPPEYWCSVAYFELDTQVGETFKV 237
+WCSVAY+E T+VG + V
Sbjct: 5 TKRSHWCSVAYWEHRTRVGRLYAV 28
Score = 29.0 bits (65), Expect = 4.1
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 277 YFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERAR 329
Y+E T+VG + V +V+I + D G+ FCLG L+ R++ R R
Sbjct: 15 YWEHRTRVGRLYAVYD--QSVSI--FYDLPQGSGFCLGQLNLEQRSESVRRTR 63
>gnl|CDD|199825 cd10500, MH2_SMAD_7, C-terminal Mad Homology 2 (MH2) domain in
SMAD7. The MH2 domain is located at the C-terminus of
the SMAD (small mothers against decapentaplegic) family
of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. The MH2 domain is responsible for
type I receptor interaction, phosphorylation-triggered
homo- and hetero-oligomerization, and transactivation.
It is negatively regulated by the N-terminal MH1 domain,
which prevents it from forming a complex with SMAD4.
SMAD7, an inhibitory or antagonistic SMAD (I-SMAD), acts
as a negative regulator of signaling mediated by the
TGF-beta superfamily of ligands, by blocking TGF-beta
type 1 and activin association with the receptor as well
as access to SMAD2. SMAD7 enhances muscle
differentiation, playing pivotal roles in embryonic
development and adult homoeostasis. SMAD7 and SMAD6 act
as critical mediators for effective TGF-beta I-mediated
suppression of Interleukin-1/Toll-like receptor
(IL-1R/TLR) signaling through simultaneous binding to
Pellino-1, an adaptor protein of interleukin-1 receptor
associated kinase 1(IRAK1), via their MH2 domains.
Altered expression of SMAD7 is often associated with
cancer, tissue fibrosis and inflammatory diseases.
Length = 171
Score = 91.6 bits (227), Expect = 2e-21
Identities = 64/206 (31%), Positives = 94/206 (45%), Gaps = 44/206 (21%)
Query: 359 YWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERARL 418
+WC VAY+E T+VG + V ++D + D GN FCLG L++ +++ ++ R
Sbjct: 7 HWCVVAYWEEKTRVGRLYSVQEP----SLDIFYDLPQGNGFCLGQLNSDNKSQLVQKVRS 62
Query: 419 HIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDLR 478
IG G+QL +G VW++ S + +F++S LD R VHK++P IK FD
Sbjct: 63 KIGYGIQLTREVDG-VWVYNRSSYPIFIKSATLDNPDSRTL--LVHKVFPGFSIKAFDYE 119
Query: 479 QCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLCIL 538
+ Y +Q+ P H G V
Sbjct: 120 KAY-SLQR--------------------PNDHE-------FMQQPWTGFTV--------- 142
Query: 539 RLSFVKGWGPDYPRQSIKETPCWVEV 564
++SFVKGWG Y RQ I PCW+EV
Sbjct: 143 QISFVKGWGQCYTRQFISSCPCWLEV 168
Score = 32.7 bits (74), Expect = 0.28
Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 6/75 (8%)
Query: 267 EPGNTS--ILLPYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQ 324
E G+ S ++ Y+E T+VG + V ++D + D GN FCLG L++ +++
Sbjct: 1 ERGDQSHWCVVAYWEEKTRVGRLYSVQEP----SLDIFYDLPQGNGFCLGQLNSDNKSQL 56
Query: 325 SERARFSKESGLQTS 339
++ R G+Q +
Sbjct: 57 VQKVRSKIGYGIQLT 71
>gnl|CDD|199813 cd10489, MH1_SMAD_6_7, N-terminal Mad Homology 1 (MH1) domain in
SMAD6 and SMAD7. The MH1 is a small DNA-binding domain
present in SMAD (small mothers against decapentaplegic)
family of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. MH1 binds to the DNA major groove
in an unusual manner via a beta hairpin structure. It
negatively regulates the functions of the MH2 domain,
the C-terminal domain of SMAD. This MH1 domain is found
in SMAD6 and SMAD7, both inhibitory SMADs (I-SMADs) and
negative regulators of signaling mediated by TGF-beta
superfamily. SMAD6 specifically inhibits bone
morphogenetic protein (BMP) type I receptor mediated
signaling while SMAD7 enhances muscle differentiation
and is often associated with cancer, tissue fibrosis and
inflammatory diseases.
Length = 119
Score = 73.6 bits (181), Expect = 7e-16
Identities = 32/92 (34%), Positives = 46/92 (50%), Gaps = 8/92 (8%)
Query: 71 KRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDL-HKNE 129
K +L+ L+ A+ + G CV + R PHV+ +++RWPDL H +E
Sbjct: 35 KEKQLELLLQAVESRGGDYLACVLLPRRD-----PRSMPQDPHVLCCQLFRWPDLRHSSE 89
Query: 130 LKHLKYCQYAFDLKCDSVCVNPYHYERVVSPG 161
LK L C+ A D VC NPYH+ R+ P
Sbjct: 90 LKRLPTCESAKD--PVYVCCNPYHWSRLCRPE 119
>gnl|CDD|199817 cd10493, MH1_SMAD_6, N-terminal Mad Homology 1 (MH1) domain in
SMAD6. The MH1 is a small DNA-binding domain present in
SMAD (small mothers against decapentaplegic) family of
proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. MH1 binds to the DNA major groove
in an unusual manner via a beta hairpin structure. It
negatively regulates the functions of the MH2 domain,
the C-terminal domain of SMAD. This MH1 belongs to
SMAD6, an inhibitory SMAD (I-SMAD) or antagonistic SMAD,
which acts as a negative regulator of signaling mediated
by TGF-beta superfamily ligands, by competing with SMAD4
and preventing the transcription of SMAD4's gene
products. SMAD6 specifically inhibits bone morphogenetic
protein (BMP) type I receptor mediated signaling.
Length = 113
Score = 72.9 bits (179), Expect = 1e-15
Identities = 37/91 (40%), Positives = 52/91 (57%), Gaps = 4/91 (4%)
Query: 71 KRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDL-HKNE 129
K LD L+ A+ + G PS CV + RT L++ GR+ P ++ R++RWPDL H +
Sbjct: 25 KERSLDVLLEAVESRGGLPSGCVMVPRT---ELRLGGRRVPPQLLLCRLFRWPDLQHPAQ 81
Query: 130 LKHLKYCQYAFDLKCDSVCVNPYHYERVVSP 160
LK L +CQ +VC NPYHY R+ P
Sbjct: 82 LKALCHCQSFGAQDGPTVCCNPYHYSRLCGP 112
>gnl|CDD|199818 cd10494, MH1_SMAD_7, N-terminal Mad Homology 1 (MH1) domain in
SMAD7. The MH1 is a small DNA-binding domain present in
SMAD (small mothers against decapentaplegic) family of
proteins. It binds to the major groove in an unusual
manner via a beta hairpin structure. It negatively
regulates the functions of the MH2 domain, the
C-terminal domain of SMAD. This MH1 belongs to SMAD7, an
inhibitory SMAD (I-SMAD) or antagonistic SMAD, which
acts as a negative regulator of signaling mediated by
TGF-beta superfamily ligands, by blocking TGF-beta type
1 and activin association with the receptor as well as
access to SMAD2. SMAD7 enhances muscle differentiation,
playing pivotal roles in embryonic development and adult
homoeostasis. Altered expression of SMAD7 is often
associated with cancer, tissue fibrosis and inflammatory
diseases.
Length = 123
Score = 50.6 bits (121), Expect = 9e-08
Identities = 30/115 (26%), Positives = 54/115 (46%), Gaps = 12/115 (10%)
Query: 53 GTSGSPGPGYKSDNE---------EQEKRDELDSLITAITTNGSHPSKCVTIQRTLDGRL 103
G G ++ E ++ K +L+ L+ A+ + G + C+ + LD RL
Sbjct: 5 AKPPRGGGGGAAEAELKALTHSVLKKLKERQLEGLLQAVESRGGARTPCLLLPARLDARL 64
Query: 104 QVAGRKGFPHVIYARIWRWPDL-HKNELKHLKYCQYAFDLKCDSVCVNPYHYERV 157
P ++ +++RWPDL H +E+K L C+ + + VC NP+H R+
Sbjct: 65 G-QQSYSLPLLLC-KVFRWPDLRHSSEVKRLSCCESYGKINPELVCCNPHHLSRL 117
>gnl|CDD|221581 pfam12446, DUF3682, Protein of unknown function (DUF3682). This
domain family is found in eukaryotes, and is typically
between 125 and 136 amino acids in length.
Length = 133
Score = 33.6 bits (77), Expect = 0.087
Identities = 14/44 (31%), Positives = 17/44 (38%)
Query: 16 ASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPG 59
SS G A P G S++ SSGG +GS G
Sbjct: 10 VSSGSSAPAPPAGPGPGPNAPPAPAAPGVDSSAGSSGGEAGSSG 53
>gnl|CDD|235668 PRK06007, fliF, flagellar MS-ring protein; Reviewed.
Length = 542
Score = 34.9 bits (81), Expect = 0.14
Identities = 18/83 (21%), Positives = 27/83 (32%), Gaps = 17/83 (20%)
Query: 10 PNPPAPASSQPQQSTSAGSNPGGGGAVS-----PPHQNGYTSTSSSSGGTSGSPGPGYKS 64
PN S Q + TS G GG PP+Q +S+ S
Sbjct: 285 PNQGVVRSEQTVEETSTGQGGNPGGVPGALSNQPPNQAQGADGGNSTS-----------S 333
Query: 65 DNEEQEKRD-ELDSLITAITTNG 86
+ +E + E+D I+
Sbjct: 334 SSRSEETTNYEVDKTISHTKKQP 356
>gnl|CDD|234681 PRK00182, tatB, sec-independent translocase; Provisional.
Length = 160
Score = 32.5 bits (74), Expect = 0.26
Identities = 12/50 (24%), Positives = 17/50 (34%)
Query: 17 SSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPGYKSDN 66
+Q QQ SAG V+ P +S + GY D+
Sbjct: 109 EAQRQQQASAGRADNNANVVTRPADGSQPRSSQNDPKGGPPYAGGYSWDD 158
>gnl|CDD|237890 PRK15055, PRK15055, anaerobic sulfite reductase subunit A;
Provisional.
Length = 344
Score = 33.4 bits (77), Expect = 0.31
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 12/48 (25%)
Query: 283 QVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERARF 330
+ GE +V +SC +DG+ D +GG+ F R + ER RF
Sbjct: 256 KRGERRRVWASC---MVDGFTDMAGGHGF---------RKKKGERMRF 291
Score = 30.7 bits (70), Expect = 2.1
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 15/52 (28%)
Query: 371 QVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERAR---LH 419
+ GE +V +SC +DG+ D +GG+ F R + ER R LH
Sbjct: 256 KRGERRRVWASC---MVDGFTDMAGGHGF---------RKKKGERMRFKVLH 295
>gnl|CDD|236515 PRK09435, PRK09435, membrane ATPase/protein kinase; Provisional.
Length = 332
Score = 33.3 bits (77), Expect = 0.36
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 487 QAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDL 532
A+ AAA +A+ + P G P ++ SA G G+D++
Sbjct: 208 NKTAARRAAAEYRSAL--RLLRPKDPGWQPPVLTCSALEGEGIDEI 251
>gnl|CDD|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 624
Score = 32.3 bits (73), Expect = 0.74
Identities = 14/50 (28%), Positives = 20/50 (40%)
Query: 12 PPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPG 61
P +S P S + G GG + P G T+ ++G T S P
Sbjct: 373 PSGGGASAPSGSAAEGPASGGAATIPTPGTQGPQGTAPAAGMTPSSAAPA 422
>gnl|CDD|216138 pfam00823, PPE, PPE family. This family named after a PPE motif
near to the amino terminus of the domain. The PPE family
of proteins all contain an amino-terminal region of
about 180 amino acids. The carboxyl terminus of this
family are variable, and on the basis of this region
fall into at least three groups. The MPTR subgroup has
tandem copies of a motif NXGXGNXG. The second subgroup
contains a conserved motif at about position 350. The
third group are only related in the amino terminal
region. The function of these proteins is uncertain but
it has been suggested that they may be related to
antigenic variation of Mycobacterium tuberculosis.
Length = 159
Score = 31.0 bits (71), Expect = 0.81
Identities = 15/33 (45%), Positives = 19/33 (57%)
Query: 477 LRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGP 509
L Q +Q AA A+AAAAA AA+A +P
Sbjct: 72 LSAAAAQAEQAAAQAEAAAAAYEAALAAMVPPA 104
>gnl|CDD|177553 PHA03185, PHA03185, UL14 tegument protein; Provisional.
Length = 214
Score = 31.1 bits (70), Expect = 1.0
Identities = 16/51 (31%), Positives = 20/51 (39%), Gaps = 1/51 (1%)
Query: 10 PNPPAPASSQPQQSTSAGSNPGGGGAVSP-PHQNGYTSTSSSSGGTSGSPG 59
P + S+P AG PGGG P P + G T +S S S
Sbjct: 162 PGDLSGPGSRPTSGPVAGGLPGGGAPAPPTPPRPGPTDPASESDCGRDSRD 212
>gnl|CDD|225506 COG2958, COG2958, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 307
Score = 31.7 bits (72), Expect = 1.1
Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 472 IKVFDLRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDD 531
I V + R+CY Q A + ++ A + VA I ++ + L A+ GIGV
Sbjct: 192 INVSNCRECYFQ-----AVSNSSWANEGYLVAREIDTHETLKELR---RLHASFGIGVIK 243
Query: 532 LR 533
L
Sbjct: 244 LD 245
>gnl|CDD|235899 PRK06975, PRK06975, bifunctional uroporphyrinogen-III
synthetase/uroporphyrin-III C-methyltransferase;
Reviewed.
Length = 656
Score = 32.0 bits (73), Expect = 1.1
Identities = 15/53 (28%), Positives = 17/53 (32%), Gaps = 4/53 (7%)
Query: 10 PNPPAPASSQPQQ---STSAGSNPGGGGAVS-PPHQNGYTSTSSSSGGTSGSP 58
P APA S+ S S S P A PP T + GS
Sbjct: 272 PATAAPAPSRMTDTNDSKSVTSQPAAAAAAPAPPPNPPATPPEPPARRGRGSA 324
>gnl|CDD|234784 PRK00507, PRK00507, deoxyribose-phosphate aldolase; Provisional.
Length = 221
Score = 30.1 bits (69), Expect = 2.2
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 123 PDLHKNELKHLKYCQYAFDLKCDSVCVNPYHYERVV 158
P+ + ++ K C A + SVCVNP + +
Sbjct: 17 PEATEEDID--KLCDEAKEYGFASVCVNPSYVKLAA 50
>gnl|CDD|107307 cd06312, PBP1_ABC_sugar_binding_like_4, Periplasmic sugar-binding
domain of uncharacterized ABC-type transport systems.
Periplasmic sugar-binding domain of uncharacterized
ABC-type transport systems that share homology with a
family of pentose/hexose sugar-binding proteins of the
type I periplasmic binding protein superfamily, which
consists of two domains connected by a three-stranded
hinge. The substrate specificity of this group is not
known, but it is predicted to be involved in the
transport of sugar-containing molecules and chemotaxis.
Length = 271
Score = 30.3 bits (69), Expect = 2.6
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 483 QMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGV 529
+ A +AA AA+ + IP P ++ PAI + AAGI V
Sbjct: 42 DVADMARLIEAAIAAKPDGIVVTIPDPDALD---PAIKRAVAAGIPV 85
>gnl|CDD|139494 PRK13335, PRK13335, superantigen-like protein; Reviewed.
Length = 356
Score = 30.5 bits (68), Expect = 2.7
Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 2/52 (3%)
Query: 7 MNVPNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSP 58
+N+ PAP Q Q +T S +PP N S+ T SP
Sbjct: 106 LNISATPAPKQEQSQTTTE--STTPKTKVTTPPSTNTPQPMQSTKSDTPQSP 155
>gnl|CDD|235392 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed.
Length = 449
Score = 30.5 bits (70), Expect = 2.9
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 18/76 (23%)
Query: 517 PAISLSAAAGIGVDDLRRLCILRLSFVKGWGPDYP---------RQSIKETPCWVEVHLH 567
P I +SA G G+D+LR I L G+G + ++++ HL
Sbjct: 346 PVIRISAKTGEGIDELREA-IKEL-AFGGFGGNQEGVFLTNARHLEALERA----LEHLE 399
Query: 568 RALQLLDEVLHTMPID 583
RAL+ L+ +P++
Sbjct: 400 RALEGLES---GLPLE 412
>gnl|CDD|221084 pfam11336, DUF3138, Protein of unknown function (DUF3138). This
family of proteins with unknown function appear to be
restricted to Proteobacteria.
Length = 514
Score = 30.3 bits (68), Expect = 2.9
Identities = 19/59 (32%), Positives = 28/59 (47%)
Query: 477 LRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRL 535
L+ +QQQ +AA AA+ AA G + A A S AAA + DD+ ++
Sbjct: 30 LQAQLTALQQQVNELRAALAAKPAAAGGGAKIQSAAAAAAAAPSSDAAAALTNDDVTQM 88
>gnl|CDD|235777 PRK06302, PRK06302, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 155
Score = 29.4 bits (67), Expect = 3.0
Identities = 18/46 (39%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 481 YRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAG 526
+ QQAA A AAA AAA A P APA + + A G
Sbjct: 40 VAPVAQQAAAAPVAAAPAAAAAAAAAPAA------APAAAAAEAEG 79
>gnl|CDD|223980 COG1052, LdhA, Lactate dehydrogenase and related dehydrogenases
[Energy production and conversion / Coenzyme metabolism
/ General function prediction only].
Length = 324
Score = 30.3 bits (69), Expect = 3.0
Identities = 12/65 (18%), Positives = 20/65 (30%), Gaps = 2/65 (3%)
Query: 470 AYIKVFDLRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGV 529
+ F++ + + A+ A A + V P + L A G
Sbjct: 18 RLKEKFEVERYEDDLTPDTELAERLKDADAVITFVNDRIDAEVLEKLPGLKLIATRSAGY 77
Query: 530 D--DL 532
D DL
Sbjct: 78 DNVDL 82
>gnl|CDD|213754 TIGR02971, heterocyst_DevB, ABC exporter membrane fusion protein,
DevB family. Members of this protein family are found
mostly in the Cyanobacteria, but also in the
Planctomycetes. DevB from Anabaena sp. strain PCC 7120
is partially characterized as a membrane fusion protein
of the DevBCA ABC exporter, probably a glycolipid
exporter, required for heterocyst formation. Most
Cyanobacteria have one member only, but Nostoc sp. PCC
7120 has seven members.
Length = 327
Score = 30.2 bits (68), Expect = 3.0
Identities = 17/77 (22%), Positives = 24/77 (31%), Gaps = 2/77 (2%)
Query: 458 APGDAVHKIYPSAYIKVFDLRQCYRQM-QQQAATAQAAAAAQAAAVA-GHIPGPHSVGGI 515
A GD V A + R + + Q A+A A A G I +
Sbjct: 33 AEGDRVQAGQVLAELDSRPERTAELDVARTQLDEAKARLAQVRAGAKKGEIAAQRAARAA 92
Query: 516 APAISLSAAAGIGVDDL 532
A AA ++ L
Sbjct: 93 AKLFKDVAAQQATLNRL 109
>gnl|CDD|236776 PRK10856, PRK10856, cytoskeletal protein RodZ; Provisional.
Length = 331
Score = 30.0 bits (68), Expect = 3.1
Identities = 8/54 (14%), Positives = 17/54 (31%)
Query: 8 NVPNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPG 61
V P + + + A + AV P Q + ++ + +P
Sbjct: 181 PVDTTPTNSQTPAVATAPAPAVDPQQNAVVAPSQANVDTAATPAPAAPATPDGA 234
Score = 28.8 bits (65), Expect = 9.2
Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 9 VPNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGP 60
P P AP + P S + AV P QN + S ++ T+ +P P
Sbjct: 175 TPAPAAPVDTTPTNSQTPAVATAPAPAV-DPQQNAVVAPSQANVDTAATPAP 225
>gnl|CDD|237279 PRK13030, PRK13030, 2-oxoacid ferredoxin oxidoreductase;
Provisional.
Length = 1159
Score = 30.3 bits (69), Expect = 3.2
Identities = 13/50 (26%), Positives = 17/50 (34%)
Query: 483 QMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDL 532
+M A AAA AA+A H V A +L +L
Sbjct: 903 EMNLLAFRWGRLAAADPAALAAAWAAAHPVAAPAAPETLDRLVARREAEL 952
>gnl|CDD|218174 pfam04612, T2SM, Type II secretion system (T2SS), protein M. This
family of membrane proteins consists of Type II
secretion system protein M sequences from several
Gram-negative (diderm) bacteria. The precise function of
these proteins is unknown, though in Vibrio cholerae,
the T2SM (EpsM) protein interacts with the T2SL (EpsL)
protein, and also forms homodimers.
Length = 159
Score = 28.8 bits (65), Expect = 4.3
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 477 LRQCYRQMQQQAATAQAAAAAQAAAVAG 504
RQ +Q+QA +A A A ++G
Sbjct: 53 ARQLLAWLQEQAPEIRALRGAGAPPLSG 80
>gnl|CDD|178307 PLN02705, PLN02705, beta-amylase.
Length = 681
Score = 29.5 bits (66), Expect = 6.1
Identities = 19/63 (30%), Positives = 28/63 (44%), Gaps = 1/63 (1%)
Query: 10 PNP-PAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPGYKSDNEE 68
P+P P +QPQ G A P +N + + SSGG G G G + +E
Sbjct: 25 PDPFPNRNRNQPQSRRPRGFAATAAAAAIAPTENDVNNGNISSGGGGGGGGKGKREREKE 84
Query: 69 QEK 71
+E+
Sbjct: 85 KER 87
>gnl|CDD|215807 pfam00230, MIP, Major intrinsic protein. MIP (Major Intrinsic
Protein) family proteins exhibit essentially two
distinct types of channel properties: (1) specific water
transport by the aquaporins, and (2) small neutral
solutes transport, such as glycerol by the glycerol
facilitators.
Length = 218
Score = 28.8 bits (65), Expect = 6.1
Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 4/51 (7%)
Query: 486 QQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLC 536
A A A GHI G H + PA++ + G + LR +
Sbjct: 40 LAVALAFGLALFTLVYCTGHISGAH----LNPAVTFALLVGRRISLLRAIY 86
>gnl|CDD|239070 cd02252, nylC_like, nylC-like family; composed of proteins with
similarity to Flavobacterium endo-type
6-aminohexanoate-oligomer hydrolase (EIII), the product
of the nylon oligomer degradation gene, nylC. EIII is an
amide hydrolase that catalyzes the degradation of
highly-polymerized 6-aminohexanoate oligomers. Together
with other nylon degradation enzymes, such as
6-aminohexanoate cyclic dimer hydrolase (EI) and
6-aminohexanoate dimer hydrolase (EII), EIII plays a
role in the detoxification and biological removal of the
synthetic by-products of nylon manufacture. EIII shows
sequence similarity to L-aminopeptidase
D-amidase/D-esterase (DmpA), an aminopeptidase that
releases N-terminal D and L amino acids from peptide
substrates. Like DmpA, EIII undergoes autocatalytic
cleavage in front of a nucleophile to form a
heterodimer. DmpA shows similarity in catalytic
mechanism to N-terminal nucleophile (Ntn) hydrolases,
which are enzymes that catalyze the cleavage of amide
bonds through the nucleophilic attack of the side chain
of an N-terminal serine, threonine, or cysteine.
Length = 260
Score = 28.7 bits (65), Expect = 6.9
Identities = 22/77 (28%), Positives = 27/77 (35%), Gaps = 12/77 (15%)
Query: 438 CLSDHSVF-------VQSYYLDREAGRAPGDAVHKIYPSAYIKVFDLRQCYRQMQQQAAT 490
LS S F V +R G G V I P+A + FDL ++
Sbjct: 62 VLSGGSAFGLAAADGVMRALEERGVGFPVGVPVVPIVPAAVL--FDL---GGGDKRWRPD 116
Query: 491 AQAAAAAQAAAVAGHIP 507
A AA AA G P
Sbjct: 117 AALGYAAAEAAGPGPFP 133
>gnl|CDD|233459 TIGR01541, tape_meas_lam_C, phage tail tape measure protein, lambda
family. This model represents a relatively
well-conserved region near the C-terminus of the tape
measure protein of a lambda and related phage. This
protein, which controls phage tail length, is typically
about 1000 residues in length. Both low-complexity
sequence and insertion/deletion events appear common in
this family. Mutational studies suggest a ruler or
template role in the determination of phage tail length.
Similar behavior is attributed to proteins from
distantly related or unrelated families in other phage
[Mobile and extrachromosomal element functions, Prophage
functions].
Length = 332
Score = 29.0 bits (65), Expect = 7.3
Identities = 24/112 (21%), Positives = 35/112 (31%), Gaps = 10/112 (8%)
Query: 397 NRFCLGALSNVHRTDQSERARLHIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAG 456
R L AL + S RA+ QLD G GD L +++ +
Sbjct: 47 ERKALEALKKLAEATASIRAQN----KRQLDRFGLGDKQRERLDARLQIDRTFRKQQRDL 102
Query: 457 R----APGDAVHKIYPSAYIKVFDLRQCYRQMQQQAATAQAAAAAQAAAVAG 504
A G A +Y + + + A A A Q +AG
Sbjct: 103 NKAMTAKGLAGSDLYKEQLAAIKAALN--EALAELHAYYAAEDALQGDWLAG 152
>gnl|CDD|217451 pfam03249, TSA, Type specific antigen. There are several antigenic
variants in Rickettsia tsutsugamushi, and a
type-specific antigen (TSA) of 56-kilodaltons located on
the rickettsial surface is responsible for the
variation. TSA proteins are probably integral membrane
proteins.
Length = 502
Score = 29.1 bits (65), Expect = 7.9
Identities = 12/17 (70%), Positives = 12/17 (70%)
Query: 483 QMQQQAATAQAAAAAQA 499
Q QQ ATAQ AAAA A
Sbjct: 317 QQQQAQATAQEAAAAAA 333
>gnl|CDD|223582 COG0508, AceF, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide acyltransferase (E2) component, and
related enzymes [Energy production and conversion].
Length = 404
Score = 28.9 bits (65), Expect = 8.6
Identities = 16/65 (24%), Positives = 20/65 (30%), Gaps = 9/65 (13%)
Query: 485 QQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLCILRLSFVK 544
A AAA A+ + +A A G+D LS VK
Sbjct: 84 PAAAEAPPEPAAAAPASAPATAASAAAGRVLASPAVRRLAREAGID---------LSKVK 134
Query: 545 GWGPD 549
G GP
Sbjct: 135 GTGPG 139
>gnl|CDD|218621 pfam05518, Totivirus_coat, Totivirus coat protein.
Length = 753
Score = 29.0 bits (65), Expect = 9.8
Identities = 13/55 (23%), Positives = 21/55 (38%), Gaps = 2/55 (3%)
Query: 9 VPNPPAP--ASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPG 61
P P A+ + Q+ G PGGGG + PP + + G + +
Sbjct: 681 DPVRPTAHHAALRAPQAPRPGGPPGGGGGLPPPPDLPAAAGPAPCGSSLIASPTA 735
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
0.316 0.133 0.415
Gapped
Lambda K H
0.267 0.0630 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 29,953,050
Number of extensions: 2875493
Number of successful extensions: 4146
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4043
Number of HSP's successfully gapped: 107
Length of query: 589
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 487
Effective length of database: 6,413,494
Effective search space: 3123371578
Effective search space used: 3123371578
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 62 (27.9 bits)