RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11780
(383 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 = 91.2 bits (227), Expect = 8e-23
Identities = 42/100 (42%), Positives = 54/100 (54%), Gaps = 8/100 (8%)
Query: 185 VTRVSEDVPVGTSVLQVKAVDGDRGINNKILYSISSGS-QGIFDIDPNTGNIFTLKELDR 243
V E+ P GT VL V A D D G N ++ YSI SG+ G+F IDP+TG I T K LDR
Sbjct: 3 EVSVPENAPPGTVVLTVSATDPDSGENGEVTYSIVSGNEDGLFSIDPSTGEITTAKPLDR 62
Query: 244 ESATSNNGAYILEIKVTEESKTVQPAPTAKTEVTIIITDV 283
E +S Y L + T+ P ++ VTI + DV
Sbjct: 63 EEQSS----YTLTVTATDGG---GPPLSSTATVTITVLDV 95
Score = 57.7 bits (140), Expect = 1e-10
Identities = 30/115 (26%), Positives = 41/115 (35%), Gaps = 26/115 (22%)
Query: 60 DTPAGTFIYRLRGADPDGDVLTFGVQGHGHDVIRIENLNVMLKVVYHLENVDGDEKDLFS 119
+ P GT + + DPD +V Y + V G+E LFS
Sbjct: 9 NAPPGTVVLTVSATDPDSGENG--------------------EVTYSI--VSGNEDGLFS 46
Query: 120 ISTVNGKGVIKLIGKLDYENKFLYQLKILAVDRSNNDRRNTGTAAILVKVQDVED 174
I G I LD E + Y L + A D + TA + + V DV D
Sbjct: 47 IDPSTG--EITTAKPLDREEQSSYTLTVTATDGGGPPL--SSTATVTITVLDVND 97
Score = 26.9 bits (60), Expect = 6.9
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 319 YVAEIHENSVINTPVTFLGGVVPQVFDYDQGKNG--TFQMFIEGDMGTFEITPQ 370
Y + EN+ T V + D D G+NG T+ + + G F I P
Sbjct: 2 YEVSVPENAPPGTVVLTV-----SATDPDSGENGEVTYSIVSGNEDGLFSIDPS 50
>gnl|CDD|215665 pfam00028, Cadherin, Cadherin domain.
Length = 92
Score = 75.4 bits (186), Expect = 4e-17
Identities = 42/98 (42%), Positives = 52/98 (53%), Gaps = 8/98 (8%)
Query: 185 VTRVSEDVPVGTSVLQVKAVDGDRGINNKILYSISSG-SQGIFDIDPNTGNIFTLKELDR 243
V E+ PVGT VL V A D D G N +I YSI G G F IDP+TG++ T K LDR
Sbjct: 2 SASVPENAPVGTEVLTVTATDADLGPNGRIFYSILGGGPGGWFRIDPDTGDLSTTKPLDR 61
Query: 244 ESATSNNGAYILEIKVTEESKTVQPAPTAKTEVTIIIT 281
ES G Y L + T+ P ++ T VTI +
Sbjct: 62 ES----IGEYELTVLATDSG---GPPLSSTTTVTITVL 92
Score = 40.0 bits (94), Expect = 2e-04
Identities = 23/117 (19%), Positives = 36/117 (30%), Gaps = 26/117 (22%)
Query: 51 IVIRLKEGPDTPAGTFIYRLRGADPDGDVLTFGVQGHGHDVIRIENLNVMLKVVYHLENV 110
+ E + P GT + + D D ++ Y + +
Sbjct: 1 YSASVPE--NAPVGTEVLTVTATDADLGPNG--------------------RIFYSI--L 36
Query: 111 DGDEKDLFSISTVNGKGVIKLIGKLDYENKFLYQLKILAVDRSNNDRRNTGTAAILV 167
G F I G + LD E+ Y+L +LA D +T T I V
Sbjct: 37 GGGPGGWFRIDPDTG--DLSTTKPLDRESIGEYELTVLATDSGGPPLSSTTTVTITV 91
>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 = 65.1 bits (159), Expect = 2e-13
Identities = 34/83 (40%), Positives = 43/83 (51%), Gaps = 8/83 (9%)
Query: 202 KAVDGDRGINNKILYSISSGS-QGIFDIDPNTGNIFTLKELDRESATSNNGAYILEIKVT 260
A D D G N K+ YSI SG+ G+F IDP TG I T K LDRE Y L ++ T
Sbjct: 1 SATDADSGENGKVTYSILSGNDDGLFSIDPETGEITTTKPLDREE----QPEYTLTVEAT 56
Query: 261 EESKTVQPAPTAKTEVTIIITDV 283
+ P ++ VTI + DV
Sbjct: 57 DGG---GPPLSSTATVTITVLDV 76
Score = 53.5 bits (129), Expect = 2e-09
Identities = 24/76 (31%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 102 KVVYHLENVDGDEKDLFSISTVNGKGVIKLIGKLDYENKFLYQLKILAVDRSNNDRRNTG 161
KV Y + + G++ LFSI G I LD E + Y L + A D +T
Sbjct: 12 KVTYSI--LSGNDDGLFSIDPETG--EITTTKPLDREEQPEYTLTVEATDGGGPPLSSTA 67
Query: 162 TAAILVKVQDVEDQPP 177
T + + V DV D P
Sbjct: 68 T--VTITVLDVNDNAP 81
>gnl|CDD|237555 PRK13914, PRK13914, invasion associated secreted endopeptidase;
Provisional.
Length = 481
Score = 32.9 bits (74), Expect = 0.33
Identities = 30/118 (25%), Positives = 43/118 (36%), Gaps = 17/118 (14%)
Query: 209 GINNKILYSISSG---------SQGIFDIDPNTGNI-FTLKELDRESATSNNGAYILEIK 258
G++N I+ SI G S G I N G F + + TS A E+K
Sbjct: 96 GVDNSIITSIKGGTKVTVETTESNGWHKITYNDGKTGFVNGKYLTDKVTSTPVAPTQEVK 155
Query: 259 VTEESKTVQPAPTAKTEVTIIITDVTEESKTVQPAPTAKTEVTIIITDVNDETPTFRS 316
++ PA KTE V + ++ PAP + D N T +S
Sbjct: 156 KETTTQQAAPAAETKTE-------VKQTTQATTPAPKVAETKETPVVDQNATTHAVKS 206
>gnl|CDD|218637 pfam05558, DREPP, DREPP plasma membrane polypeptide. This family
contains several plant plasma membrane proteins termed
DREPPs as they are developmentally regulated plasma
membrane polypeptides.
Length = 201
Score = 29.6 bits (66), Expect = 2.1
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 259 VTEESKTVQPAPTAKTEVTIIITD----VTEESKTVQPAPTAKTEVTIIITDVNDETP 312
+ EE K + AP A+TE + + V EE K + P A T +ETP
Sbjct: 130 IVEEKKPEEEAPAAETEKKPAVKEKEIVVEEEKKEEEAVPVAAAPSTKAPETKVEETP 187
>gnl|CDD|202974 pfam04327, DUF464, Protein of unknown function (DUF464).
Length = 102
Score = 28.4 bits (64), Expect = 2.1
Identities = 13/63 (20%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 119 SISTVNG-KGVIKLIGKLDYENKFLYQLKILAVDRSNNDRRNTGTAAILVKVQDVEDQPP 177
+I VNG + + + K++ E+ +L L++ N++ +L+ ++ + +Q P
Sbjct: 40 AIGAVNGLEKLAGIKPKVEVEDGYLE-LELPDDLLEKNEKAQLLLETLLLGLKTIAEQYP 98
Query: 178 EFV 180
E++
Sbjct: 99 EYI 101
>gnl|CDD|224000 COG1074, RecB, ATP-dependent exoDNAse (exonuclease V) beta subunit
(contains helicase and exonuclease domains) [DNA
replication, recombination, and repair].
Length = 1139
Score = 29.7 bits (67), Expect = 3.1
Identities = 16/47 (34%), Positives = 17/47 (36%), Gaps = 16/47 (34%)
Query: 45 IDE-------QTEIVIRLKEGPDTPAGTF---------IYRLRGADP 75
IDE Q I+ RL G T IYR RGAD
Sbjct: 384 IDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQSIYRFRGADI 430
>gnl|CDD|234563 TIGR04364, methyltran_FxLD, methyltransferase, FxLD system.
Members of this family resemble occur regularly in the
vicinity of lantibiotic biosynthesis enzymes and their
probable target, the FxLD family of putative ribosomal
natural product precursor (TIGR04363). Members resemble
protein-L-isoaspartate O-methyltransferase (TIGR00080)
and a predicted methyltranserase, TIGR04188, of another
putative peptide modification system.
Length = 394
Score = 29.3 bits (66), Expect = 3.3
Identities = 11/28 (39%), Positives = 12/28 (42%)
Query: 63 AGTFIYRLRGADPDGDVLTFGVQGHGHD 90
G+F Y R G FGV HG D
Sbjct: 311 GGSFAYLARRPAEGGGGFEFGVIAHGPD 338
>gnl|CDD|129488 TIGR00393, kpsF, KpsF/GutQ family protein. This model describes a
number of closely related proteins with the
phosphosugar-binding domain SIS (Sugar ISomerase)
followed by two copies of the CBS (named after
Cystathionine Beta Synthase) domain. One is GutQ, a
protein of the glucitol operon. Another is KpsF, a
virulence factor involved in capsular polysialic acid
biosynthesis in some pathogenic strains of E. coli
[Energy metabolism, Sugars].
Length = 268
Score = 28.6 bits (64), Expect = 4.8
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 244 ESATSNNGAYILEIKVTEESKTVQPAPTAKTEVTIIITDV 283
S+ + Y+L+IKV +E+ + APT T +T+ + D
Sbjct: 85 NSSLARAADYVLDIKVEKEACPINLAPTTSTTLTLALGDA 124
>gnl|CDD|214776 smart00690, DM5, Domain of unknown function, currently peculiar to
Drosophila.
Length = 102
Score = 27.3 bits (61), Expect = 5.2
Identities = 11/43 (25%), Positives = 16/43 (37%), Gaps = 5/43 (11%)
Query: 262 ESKTVQPAPTAKTEVTIII-----TDVTEESKTVQPAPTAKTE 299
E+ + A A E T I D +E + + PAP
Sbjct: 48 ENAALALAKQANEEKTAIYVLSKKPDASELADQLAPAPQTSPS 90
>gnl|CDD|180266 PRK05803, PRK05803, sporulation sigma factor SigK; Reviewed.
Length = 233
Score = 28.0 bits (63), Expect = 7.3
Identities = 19/48 (39%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 92 IRIE-NLNVMLKVVYHLENVDGDEKDLFSISTVNGKGVIKLIGKLDYE 138
I IE NL ++ +V EN D DL SI T+ G+IK I D
Sbjct: 53 ILIERNLRLVAHIVKKFENTGEDVDDLISIGTI---GLIKAIESFDAG 97
>gnl|CDD|132512 TIGR03472, HpnI, hopanoid biosynthesis associated glycosyl
transferase protein HpnI. This family of genes include
a glycosyl transferase, group 2 domain (pfam00535) which
are responsible, generally for the transfer of
nucleotide-diphosphate sugars to substrates such as
polysaccharides and lipids. The member of this clade
from Acidithiobacillus ferrooxidans ATCC 23270
(AFE_0974) is found in the same locus as squalene-hopene
cyclase (SHC, TIGR01507) and other genes associated with
the biosynthesis of hopanoid natural products.
Similarly, in Ralstonia eutropha JMP134 (Reut_B4902)
this gene is adjacent to HpnAB, IspH and HpnH
(TIGR03470), although SHC itself is elsewhere in the
genome. Notably, this gene (here named HpnI) and three
others form a conserved set (HpnIJKL) which occur in a
subset of all genomes containing the SHC enzyme. This
relationship was discerned using the method of partial
phylogenetic profiling. This group includes Zymomonas
mobilis, the organism where the initial hopanoid
biosynthesis locus was described consisting of the genes
HpnA-E and SHC (HpnF). Continuing past SHC are found a
phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and
another radical SAM enzyme (ZMO0874), HpnH. Although
discontinuous in Z. mobilis, we continue the gene symbol
sequence with HpnIJKL. Hopanoids are known to feature
polar glycosyl head groups in many organisms.
Length = 373
Score = 28.1 bits (63), Expect = 7.3
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 59 PDTPAGTFIYRLRGADPDGDV-LTFGVQGHGHDVIRIENLNVMLKVVYH 106
PD PA + RLR PD D+ L + HG + ++ NL ML H
Sbjct: 80 PDDPALAVVRRLRADFPDADIDLVIDARRHGPN-RKVSNLINMLPHARH 127
>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 28.5 bits (64), Expect = 7.8
Identities = 17/74 (22%), Positives = 23/74 (31%), Gaps = 7/74 (9%)
Query: 261 EESKTVQPAPTAKTEVTIIITDVTEESKTVQPAPTAKTEVTIIITDVNDETPTFRSPRYV 320
E++ VQ P V + V AP + ++ V P V
Sbjct: 859 REAEEVQVQPVVAE------VPVAAAVEPVVSAPVVEAVAEVVEEPVVVAEPQPEEVVVV 912
Query: 321 AEIHENSVINTPVT 334
H VI PVT
Sbjct: 913 ETTHPE-VIAAPVT 925
Score = 28.1 bits (63), Expect = 9.6
Identities = 15/80 (18%), Positives = 27/80 (33%), Gaps = 2/80 (2%)
Query: 256 EIKVTEESKTVQPAPTAKTEVTIIITD-VTEESKTVQPAPTAKTEVTIIITDVNDETPTF 314
E+ V + V AP + ++ V E + + T +I V ++
Sbjct: 872 EVPVAAAVEPVVSAPVVEAVAEVVEEPVVVAEPQPEEVVVVETTHPEVIAAPVTEQPQVI 931
Query: 315 RSPRYVAEIHENSVINTPVT 334
+ VA E + PV
Sbjct: 932 -TESDVAVAQEVAEHAEPVV 950
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 0.136 0.375
Gapped
Lambda K H
0.267 0.0715 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,464,089
Number of extensions: 1931246
Number of successful extensions: 1582
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1570
Number of HSP's successfully gapped: 36
Length of query: 383
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 284
Effective length of database: 6,546,556
Effective search space: 1859221904
Effective search space used: 1859221904
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: 60 (26.9 bits)