RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8639
(570 letters)
>gnl|CDD|206637 cd11304, Cadherin_repeat, Cadherin tandem repeat domain. Cadherins
are glycoproteins involved in Ca2+-mediated cell-cell
adhesion. The cadherin repeat domains occur as tandem
repeats in the extracellular regions, which are thought
to mediate cell-cell contact when bound to calcium. They
play numerous roles in cell fate, signalling,
proliferation, differentiation, and migration; members
include E-, N-, P-, T-, VE-, CNR-, proto-, and
FAT-family cadherin, desmocollin, and desmoglein, a
large variety of domain architectures with varying
repeat copy numbers. Cadherin-repeat containing proteins
exist as monomers, homodimers, or heterodimers.
Length = 98
Score = 93.9 bits (234), Expect = 3e-23
Identities = 37/102 (36%), Positives = 53/102 (51%), Gaps = 4/102 (3%)
Query: 171 PLTIPVNEDTLVGSTIWNFTATDADDGSNGELRYGLVRQYPEGNHFSVDHLTGTLTLLQP 230
+ V E+ G+ + +ATD D G NGE+ Y +V E FS+D TG +T +P
Sbjct: 1 SYEVSVPENAPPGTVVLTVSATDPDSGENGEVTYSIVSG-NEDGLFSIDPSTGEITTAKP 59
Query: 231 LDYETLTSFILVVKVTDQAANISERLSTSLTARVVVKDLNDN 272
LD E +S+ L V TD LS++ T + V D+NDN
Sbjct: 60 LDREEQSSYTLTVTATDGG---GPPLSSTATVTITVLDVNDN 98
Score = 84.3 bits (209), Expect = 6e-20
Identities = 44/108 (40%), Positives = 53/108 (49%), Gaps = 15/108 (13%)
Query: 424 VFLVSEDAIPGTYIIKVVARSPSTYVYHMYLISDFSGYN--LTYMIPAGVADDMFKIDAE 481
V E+A PGT ++ V A P D SG N +TY I +G D +F ID
Sbjct: 3 EVSVPENAPPGTVVLTVSATDP-----------D-SGENGEVTYSIVSGNEDGLFSIDPS 50
Query: 482 TGVVTLARSLDRETVDQYNLVVHVTDSKSGD-YDTTNVFITILDVNDN 528
TG +T A+ LDRE Y L V TD T V IT+LDVNDN
Sbjct: 51 TGEITTAKPLDREEQSSYTLTVTATDGGGPPLSSTATVTITVLDVNDN 98
Score = 79.3 bits (196), Expect = 4e-18
Identities = 35/90 (38%), Positives = 51/90 (56%), Gaps = 3/90 (3%)
Query: 285 IYVSEQTRVGSHVTKMTAVDQDSGDNGRVTYVISGGNEDARFHLDHDKGILSLARVISEY 344
+ V E G+ V ++A D DSG+NG VTY I GNED F +D G ++ A+ +
Sbjct: 4 VSVPENAPPGTVVLTVSATDPDSGENGEVTYSIVSGNEDGLFSIDPSTGEITTAKPLD-R 62
Query: 345 DHQSKFRAVLNITASDHGIPPKSSSLVINI 374
+ QS + L +TA+D G PP SS+ + I
Sbjct: 63 EEQSSYT--LTVTATDGGGPPLSSTATVTI 90
Score = 76.6 bits (189), Expect = 4e-17
Identities = 36/100 (36%), Positives = 47/100 (47%), Gaps = 6/100 (6%)
Query: 64 EIKEDVPIGFTVGNVVSTDSTGRAGGGHVMYSLTSLSPTDHSGAFDIDKSSGSLVVARQL 123
+ E+ P G V V +TD G V YS+ S + F ID S+G + A+ L
Sbjct: 5 SVPENAPPGTVVLTVSATDP-DSGENGEVTYSIVSGNEDGL---FSIDPSTGEITTAKPL 60
Query: 124 DRETCPEYKLEVRALDTSTSSNPQSSAVAIKIEIVDVNDN 163
DRE Y L V A D P SS + I ++DVNDN
Sbjct: 61 DREEQSSYTLTVTATD--GGGPPLSSTATVTITVLDVNDN 98
>gnl|CDD|214520 smart00112, CA, Cadherin repeats. Cadherins are glycoproteins
involved in Ca2+-mediated cell-cell adhesion. Cadherin
domains occur as repeats in the extracellular regions
which are thought to mediate cell-cell contact when
bound to calcium.
Length = 81
Score = 81.6 bits (202), Expect = 4e-19
Identities = 33/85 (38%), Positives = 48/85 (56%), Gaps = 4/85 (4%)
Query: 190 TATDADDGSNGELRYGLVRQYPEGNHFSVDHLTGTLTLLQPLDYETLTSFILVVKVTDQA 249
+ATDAD G NG++ Y ++ + FS+D TG +T +PLD E + L V+ TD
Sbjct: 1 SATDADSGENGKVTYSILSG-NDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGG 59
Query: 250 ANISERLSTSLTARVVVKDLNDNAP 274
LS++ T + V D+NDNAP
Sbjct: 60 ---GPPLSSTATVTITVLDVNDNAP 81
Score = 75.8 bits (187), Expect = 4e-17
Identities = 33/70 (47%), Positives = 40/70 (57%), Gaps = 1/70 (1%)
Query: 462 NLTYMIPAGVADDMFKIDAETGVVTLARSLDRETVDQYNLVVHVTDS-KSGDYDTTNVFI 520
+TY I +G D +F ID ETG +T + LDRE +Y L V TD T V I
Sbjct: 12 KVTYSILSGNDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGGGPPLSSTATVTI 71
Query: 521 TILDVNDNAP 530
T+LDVNDNAP
Sbjct: 72 TVLDVNDNAP 81
Score = 70.1 bits (172), Expect = 5e-15
Identities = 31/76 (40%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 90 GHVMYSLTSLSPTDHSGAFDIDKSSGSLVVARQLDRETCPEYKLEVRALDTSTSSNPQSS 149
G V YS+ S + F ID +G + + LDRE PEY L V A D P SS
Sbjct: 11 GKVTYSILSGNDDGL---FSIDPETGEITTTKPLDREEQPEYTLTVEATDGGG--PPLSS 65
Query: 150 AVAIKIEIVDVNDNAP 165
+ I ++DVNDNAP
Sbjct: 66 TATVTITVLDVNDNAP 81
Score = 62.8 bits (153), Expect = 2e-12
Identities = 27/74 (36%), Positives = 45/74 (60%), Gaps = 3/74 (4%)
Query: 301 TAVDQDSGDNGRVTYVISGGNEDARFHLDHDKGILSLARVISEYDHQSKFRAVLNITASD 360
+A D DSG+NG+VTY I GN+D F +D + G ++ + + + + Q ++ L + A+D
Sbjct: 1 SATDADSGENGKVTYSILSGNDDGLFSIDPETGEITTTKPL-DREEQPEYT--LTVEATD 57
Query: 361 HGIPPKSSSLVINI 374
G PP SS+ + I
Sbjct: 58 GGGPPLSSTATVTI 71
>gnl|CDD|215665 pfam00028, Cadherin, Cadherin domain.
Length = 92
Score = 74.3 bits (183), Expect = 2e-16
Identities = 32/90 (35%), Positives = 46/90 (51%), Gaps = 3/90 (3%)
Query: 285 IYVSEQTRVGSHVTKMTAVDQDSGDNGRVTYVISGGNEDARFHLDHDKGILSLARVISEY 344
V E VG+ V +TA D D G NGR+ Y I GG F +D D G LS + + +
Sbjct: 3 ASVPENAPVGTEVLTVTATDADLGPNGRIFYSILGGGPGGWFRIDPDTGDLSTTKPL-DR 61
Query: 345 DHQSKFRAVLNITASDHGIPPKSSSLVINI 374
+ ++ L + A+D G PP SS+ + I
Sbjct: 62 ESIGEYE--LTVLATDSGGPPLSSTTTVTI 89
Score = 70.0 bits (172), Expect = 6e-15
Identities = 32/94 (34%), Positives = 48/94 (51%), Gaps = 4/94 (4%)
Query: 173 TIPVNEDTLVGSTIWNFTATDADDGSNGELRYGLVRQYPEGNHFSVDHLTGTLTLLQPLD 232
+ V E+ VG+ + TATDAD G NG + Y ++ G F +D TG L+ +PLD
Sbjct: 2 SASVPENAPVGTEVLTVTATDADLGPNGRIFYSILGG-GPGGWFRIDPDTGDLSTTKPLD 60
Query: 233 YETLTSFILVVKVTDQAANISERLSTSLTARVVV 266
E++ + L V TD LS++ T + V
Sbjct: 61 RESIGEYELTVLATDSG---GPPLSSTTTVTITV 91
Score = 62.7 bits (153), Expect = 2e-12
Identities = 31/101 (30%), Positives = 44/101 (43%), Gaps = 11/101 (10%)
Query: 424 VFLVSEDAIPGTYIIKVVARSPSTYVYHMYLISDFSGYNLTYMIPAGVADDMFKIDAETG 483
V E+A GT ++ V A + Y I G F+ID +TG
Sbjct: 2 SASVPENAPVGTEVLTVTATDADLGP----------NGRIFYSILGGGPGGWFRIDPDTG 51
Query: 484 VVTLARSLDRETVDQYNLVVHVTDS-KSGDYDTTNVFITIL 523
++ + LDRE++ +Y L V TDS TT V IT+L
Sbjct: 52 DLSTTKPLDRESIGEYELTVLATDSGGPPLSSTTTVTITVL 92
Score = 58.5 bits (142), Expect = 8e-11
Identities = 28/93 (30%), Positives = 43/93 (46%), Gaps = 4/93 (4%)
Query: 64 EIKEDVPIGFTVGNVVSTDSTGRAGGGHVMYSLTSLSPTDHSGAFDIDKSSGSLVVARQL 123
+ E+ P+G V V +TD+ G + YS+ P F ID +G L + L
Sbjct: 4 SVPENAPVGTEVLTVTATDAD-LGPNGRIFYSILGGGPGGW---FRIDPDTGDLSTTKPL 59
Query: 124 DRETCPEYKLEVRALDTSTSSNPQSSAVAIKIE 156
DRE+ EY+L V A D+ ++ V I +
Sbjct: 60 DRESIGEYELTVLATDSGGPPLSSTTTVTITVL 92
>gnl|CDD|176764 cd08786, CARD_RIP2_CARD3, Caspase activation and recruitment domain
of Receptor Interacting Protein 2. Caspase activation
and recruitment domain (CARD) of Receptor Interacting
Protein 2 (RIP2/RIPK2/RICK/CARDIAK/CARD3). RIP kinases
serve as essential sensors of cellular stress.
Vertebrates contain several types containing a
homologous N-terminal kinase domain and varying
C-terminal domains. RIP2 harbors a C-terminal CARD
domain and functions as an effector kinase downstream of
the pattern recognition receptors from the Nod-like
(NLR)-family, NOD1 and NOD2, which recognizes bacterial
peptidoglycans released upon infection. This cascade is
implicated in inflammatory immune responses and the
clearance of intracellular pathogens. RIP2 associates
with NOD1 and NOD2 via CARD-CARD interactions. In
general, CARDs are death domains (DDs) found associated
with caspases. They are known to be important in the
signaling pathways for apoptosis, inflammation, and
host-defense mechanisms. DDs are protein-protein
interaction domains found in a variety of domain
architectures. Their common feature is that they form
homodimers by self-association or heterodimers by
associating with other members of the DD superfamily
including PYRIN and DED (Death Effector Domain). They
serve as adaptors in signaling pathways and can recruit
other proteins into signaling complexes.
Length = 87
Score = 31.0 bits (70), Expect = 0.29
Identities = 22/72 (30%), Positives = 31/72 (43%), Gaps = 5/72 (6%)
Query: 203 RYGLVRQYPEG--NHFSVDHLTGTLTLLQPLDYETLTSFILVVKVTDQAANISERLSTSL 260
R +V Q E N S+D L + LL DYE +++ Q + +
Sbjct: 7 REEIVSQMTEACLNQ-SLDALL-SRQLLMREDYELISTKPTRTSKVRQLLDTCDCQGEEF 64
Query: 261 TARVVVKDLNDN 272
ARVVV+ L DN
Sbjct: 65 -ARVVVQKLKDN 75
>gnl|CDD|206635 cd00031, CA_like, Cadherin repeat-like domain. Cadherins are
glycoproteins involved in Ca2+-mediated cell-cell
adhesion. The cadherin repeat domains occur as tandem
repeats in the extracellular regions, which are thought
to mediate cell-cell contact when bound to calcium. They
play numerous roles in cell fate, signalling,
proliferation, differentiation, and migration; members
include E-, N-, P-, T-, VE-, CNR-, proto-, and
FAT-family cadherin, desmocollin, and desmoglein, a
large variety of domain architectures with varying
repeat copy numbers. Cadherin-repeat containing proteins
exist as monomers, homodimers, or heterodimers. This
family also includes the cadherin-like repeats of
extracellular alpha-dystroglycan.
Length = 98
Score = 31.5 bits (71), Expect = 0.29
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
Query: 475 MFKIDAETGVVTLARSLDRETVDQYNLVVHVTDSKSGDYDTTNVF-ITILDVNDN 528
+ +G++ LDRE + + V + T++VF I + D NDN
Sbjct: 44 WLHWEPHSGILEGLEKLDREDKGVHYISVSAASLGANVPQTSSVFSIEVYDENDN 98
>gnl|CDD|227624 COG5308, NUP170, Nuclear pore complex subunit [Intracellular
trafficking and secretion].
Length = 1263
Score = 32.2 bits (73), Expect = 0.94
Identities = 17/73 (23%), Positives = 28/73 (38%), Gaps = 1/73 (1%)
Query: 371 VINILSETVSTSLPTFLSPSYHAN-VSEDAIPGTYIIKVVARSPSTYGNYVYTEVFLVSE 429
I + +S+ LP+F S + + A+ + + V R S Y T+ LV
Sbjct: 223 KICLTKSILSSLLPSFFSFGIPGETIKQLAVDQSRGLLYVLRKKSAVRAYSITKNGLVGP 282
Query: 430 DAIPGTYIIKVVA 442
I I + A
Sbjct: 283 VFISFASIDRNAA 295
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 29.9 bits (68), Expect = 3.0
Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 458 FSGYNLTYMIPAGVADDMFKIDAETGVVTLARSLDRETVDQY 499
GY + M A F +D ETGV L +++++E
Sbjct: 183 EPGYIRSEM-NAKAKSTPFMVDTETGVKALVKAIEKEPGRAA 223
>gnl|CDD|237699 PRK14392, PRK14392, membrane protein; Provisional.
Length = 207
Score = 28.9 bits (65), Expect = 6.0
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 370 LVINILSETVSTSLPTFLSPSYHANV 395
LV++IL T++ SLP S+H
Sbjct: 57 LVLDILKGTLAASLPILFGISHHWLP 82
>gnl|CDD|188606 TIGR04091, LTA_dltB, D-alanyl-lipoteichoic acid biosynthesis
protein DltB. Members of this protein family are DltB,
part of a four-gene operon for D-alanyl-lipoteichoic
acid biosynthesis that is present in the vast majority
of low-GC Gram-positive organisms. This protein may be
involved in transport of D-alanine across the plasma
membrane [Cell envelope, Biosynthesis and degradation of
murein sacculus and peptidoglycan].
Length = 380
Score = 29.0 bits (66), Expect = 6.8
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 448 YVYHMYLISDFSGYNL 463
Y Y YL DF+GY+L
Sbjct: 222 YAYSFYLFFDFAGYSL 237
>gnl|CDD|216920 pfam02182, YDG_SRA, YDG/SRA domain. The function of this domain is
unknown, it contains a conserved motif YDG after which
it has been named.
Length = 154
Score = 28.0 bits (63), Expect = 7.9
Identities = 12/40 (30%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 292 RVGSHVTKMTAVDQDSGDNGRVTY--VISGGNEDARFHLD 329
VG H +D + G + V SGG ED + D
Sbjct: 23 VVGLHRPHQAGIDGMKSEGGTIATSIVSSGGYEDDEDNGD 62
>gnl|CDD|222441 pfam13898, DUF4205, Domain of unknown function (DUF4205). The
proteins in this family are uncharacterized but often
named FAM188B.
Length = 341
Score = 28.5 bits (64), Expect = 9.3
Identities = 9/34 (26%), Positives = 14/34 (41%)
Query: 208 RQYPEGNHFSVDHLTGTLTLLQPLDYETLTSFIL 241
Q+ + D+LT L L E L +F+
Sbjct: 108 SQFSPAGRYKQDNLTEKLMLFTFTKLEELQAFLY 141
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
0.315 0.131 0.375
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 28,181,832
Number of extensions: 2729613
Number of successful extensions: 2061
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2043
Number of HSP's successfully gapped: 31
Length of query: 570
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 468
Effective length of database: 6,413,494
Effective search space: 3001515192
Effective search space used: 3001515192
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 (27.7 bits)