RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 026861
(232 letters)
>gnl|CDD|178142 PLN02527, PLN02527, aspartate carbamoyltransferase.
Length = 306
Score = 238 bits (609), Expect = 1e-78
Identities = 98/114 (85%), Positives = 107/114 (93%)
Query: 119 DDIKDYLTSQGVEWEESADLMEVASKCDVVYQTRIQRERFGERTDLYEEARGKYIVDQNV 178
DDIKDYLTS+GVEWEES+DLMEVASKCDV+YQTRIQRERFGER DLYE ARGKYIVD+ V
Sbjct: 193 DDIKDYLTSKGVEWEESSDLMEVASKCDVLYQTRIQRERFGERIDLYEAARGKYIVDKKV 252
Query: 179 LQVMEKHAVVLHPLPRLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLLLVGW 232
+ V+ KHAVV+HPLPRLDEIT DVD+DPRAAYFRQAKNGL+IRMALLKLLL GW
Sbjct: 253 MDVLPKHAVVMHPLPRLDEITTDVDSDPRAAYFRQAKNGLFIRMALLKLLLGGW 306
Score = 36.3 bits (84), Expect = 0.008
Identities = 13/19 (68%), Positives = 16/19 (84%)
Query: 100 DDVIEAQQFDRDILNAIFE 118
DVIEAQQFDR++L +FE
Sbjct: 1 SDVIEAQQFDREMLELLFE 19
>gnl|CDD|215776 pfam00185, OTCace, Aspartate/ornithine carbamoyltransferase,
Asp/Orn binding domain.
Length = 156
Score = 125 bits (315), Expect = 2e-36
Identities = 46/116 (39%), Positives = 66/116 (56%), Gaps = 6/116 (5%)
Query: 115 AIFEDDIKDYLTSQGVEWEESADLMEVASKCDVVYQTRIQRERFGERTDLYEEARGKYIV 174
+ + K+ L S G+ + DL E DVVY R Q+ER E+ + +Y V
Sbjct: 45 ELLDKAKKEALKSGGITITVTDDLEEALKGADVVYTDRWQKEREER----LEKFKPRYQV 100
Query: 175 DQNVLQVMEKHAVVLHPLP--RLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLL 228
+ +L+ + A+ +HPLP R +EIT DVD PR+ F QA+NGL++RMALL LL
Sbjct: 101 TEELLKKAKPDAIFMHPLPAHRGEEITDDVDDGPRSVIFDQAENGLHVRMALLALL 156
>gnl|CDD|234849 PRK00856, pyrB, aspartate carbamoyltransferase catalytic subunit;
Provisional.
Length = 305
Score = 124 bits (315), Expect = 1e-34
Identities = 41/104 (39%), Positives = 56/104 (53%), Gaps = 3/104 (2%)
Query: 131 EWEESADLMEVASKCDVVYQTRIQRERF-GERTDLYEEARGKYIVDQNVLQVMEKHAVVL 189
E+ DL EV DVV R+Q+ER G YEE + Y + L + + A+V+
Sbjct: 200 EYGVHTDLDEVIEDADVVMMLRVQKERMDGGLLPSYEEYKRSYGLTAERLALAKPDAIVM 259
Query: 190 HPLP--RLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLLLVG 231
HP P R EI DV P++ F Q NG+ +RMA+L+LLL G
Sbjct: 260 HPGPVNRGVEIASDVADGPQSVIFEQVTNGVAVRMAVLELLLGG 303
>gnl|CDD|223614 COG0540, PyrB, Aspartate carbamoyltransferase, catalytic chain
[Nucleotide transport and metabolism].
Length = 316
Score = 124 bits (314), Expect = 2e-34
Identities = 44/116 (37%), Positives = 69/116 (59%), Gaps = 4/116 (3%)
Query: 119 DDIKDYLTSQGVEWEESADLMEVASKCDVVYQTRIQRERFGERTDLYEEARGKYIVDQNV 178
+ I + L +G E EV + DV+Y R+Q+ERF + + Y + + Y +
Sbjct: 199 EYILEELEEKGGVVVEHDSDEEVIEEADVLYMLRVQKERFND-PEEYSKVKEYYKLYGLT 257
Query: 179 LQ-VMEKHAVVLHPLP--RLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLLLVG 231
L+ + + A+V+HPLP R+ EI +VD P++ YF+Q KNG+ +RMALL+LLL G
Sbjct: 258 LERLAKPDAIVMHPLPVNRVVEIASEVDDTPQSRYFQQVKNGVAVRMALLELLLGG 313
>gnl|CDD|233083 TIGR00670, asp_carb_tr, aspartate carbamoyltransferase. Aspartate
transcarbamylase (ATCase) is an alternate name.PyrB
encodes the catalytic chain of aspartate
carbamoyltransferase, an enzyme of pyrimidine
biosynthesis, which organizes into trimers. In some
species, including E. coli and the Archaea but excluding
Bacillus subtilis, a regulatory subunit PyrI is also
present in an allosterically regulated hexameric
holoenzyme. Several molecular weight classes of ATCase
are described in MEDLINE:96303527 and often vary within
taxa. PyrB and PyrI are fused in Thermotoga
maritima.Ornithine carbamoyltransferases are in the same
superfamily and form an outgroup [Purines, pyrimidines,
nucleosides, and nucleotides, Pyrimidine ribonucleotide
biosynthesis].
Length = 301
Score = 116 bits (292), Expect = 2e-31
Identities = 49/111 (44%), Positives = 73/111 (65%), Gaps = 1/111 (0%)
Query: 119 DDIKDYLTSQGVEWEESADLMEVASKCDVVYQTRIQRERFGERTDLYEEARGKYIVDQNV 178
+I + L ++G++ E+ L EV + DV+Y TRIQ+ERF + + YE+ +G Y +
Sbjct: 191 KEILEELKAKGIKVRETESLEEVIDEADVLYVTRIQKERFPDPEE-YEKVKGSYGITLER 249
Query: 179 LQVMEKHAVVLHPLPRLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLLL 229
L+ +K +++HPLPR+DEI VD P A YF+QA NG+ +RMALL LLL
Sbjct: 250 LEAAKKGVIIMHPLPRVDEIDPSVDDTPHAKYFKQAFNGVPVRMALLALLL 300
>gnl|CDD|169269 PRK08192, PRK08192, aspartate carbamoyltransferase; Provisional.
Length = 338
Score = 85.5 bits (212), Expect = 1e-19
Identities = 41/95 (43%), Positives = 58/95 (61%), Gaps = 11/95 (11%)
Query: 143 SKCDVVYQTRIQRERFG--ERTDLYEEARGKYIVDQNVL-QVMEKHAVVLHPLPR----- 194
K D++Y TRIQ ERF E + Y RGK+ ++Q++ Q + + V++HPLPR
Sbjct: 225 DKADILYLTRIQEERFPSQEEANKY---RGKFRLNQSIYTQHCKSNTVIMHPLPRDSRAQ 281
Query: 195 LDEITVDVDADPRAAYFRQAKNGLYIRMALLKLLL 229
+E+ D+++ P A FRQA NGL IRMAL L L
Sbjct: 282 ANELDNDLNSHPNLAIFRQADNGLLIRMALFALTL 316
>gnl|CDD|183362 PRK11891, PRK11891, aspartate carbamoyltransferase; Provisional.
Length = 429
Score = 79.9 bits (197), Expect = 2e-17
Identities = 39/117 (33%), Positives = 67/117 (57%), Gaps = 8/117 (6%)
Query: 119 DDIKDYLTSQGVEWEESADLMEVASKCDVVYQTRIQRERFGERTDLYEEARGKYIVDQNV 178
I + ++ G E++ DL DVVY TRIQ+ERF + + +E + ++Q +
Sbjct: 283 AYIVEQISRNGHVIEQTDDLAAGLRGADVVYATRIQKERFAD--ESFEGYTPDFQINQAL 340
Query: 179 LQ-VMEKHAVVLHPLPR-----LDEITVDVDADPRAAYFRQAKNGLYIRMALLKLLL 229
+ V + +++HPLPR ++++ D++ DPR A FRQ NG+ +RMA+ +LL
Sbjct: 341 VDAVCKPDTLIMHPLPRDSRPGANDLSTDLNRDPRLAIFRQTDNGIPVRMAIFAVLL 397
>gnl|CDD|139876 PRK13814, pyrB, aspartate carbamoyltransferase catalytic subunit;
Provisional.
Length = 310
Score = 50.1 bits (119), Expect = 3e-07
Identities = 29/87 (33%), Positives = 49/87 (56%), Gaps = 3/87 (3%)
Query: 146 DVVYQTRIQRERFGERTDLYEEARGKYIVDQNVLQVMEKHAVVLHPLP--RLDEITVDVD 203
DV+ R+Q+ER D+ + RG + + L + A+V+HP P R EI DV
Sbjct: 219 DVIVTLRLQKERHDNSVDI-DAFRGSFRLTPEKLYSAKPDAIVMHPGPVNREVEINSDVA 277
Query: 204 ADPRAAYFRQAKNGLYIRMALLKLLLV 230
+ ++ +Q +NG+ +RMA+L+L L+
Sbjct: 278 DNQQSVILQQVRNGVAMRMAVLELFLL 304
>gnl|CDD|223156 COG0078, ArgF, Ornithine carbamoyltransferase [Amino acid transport
and metabolism].
Length = 310
Score = 46.4 bits (111), Expect = 3e-06
Identities = 28/112 (25%), Positives = 49/112 (43%), Gaps = 15/112 (13%)
Query: 126 TSQGVEWEESADLMEVASKCDVVYQTRI------QRERFGERTDLYEEARGKYIVDQNVL 179
+ + E + E DVVY T + + E R Y V++ ++
Sbjct: 205 SGGKITLTEDPE--EAVKGADVVY-TDVWVSMGEEAEAEERRIAF----LPPYQVNEELM 257
Query: 180 QVMEKHAVVLHPLP--RLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLLL 229
+ A+ +H LP R +E+T +V P + F +A+N L+ + A+L LL
Sbjct: 258 ALAGPDAIFMHCLPAHRGEEVTDEVFEGPASVVFDEAENRLHTQKAVLAALL 309
>gnl|CDD|234835 PRK00779, PRK00779, ornithine carbamoyltransferase; Provisional.
Length = 304
Score = 45.1 bits (108), Expect = 1e-05
Identities = 31/122 (25%), Positives = 54/122 (44%), Gaps = 18/122 (14%)
Query: 118 EDDIKDYLTSQGVEWEESADLMEVASKCDVVY--------QTRIQRERFGERTDLYEEAR 169
+ ++ G E + D E DVVY Q ER +A
Sbjct: 191 PEIVEKIAKETGASIEVTHDPKEAVKGADVVYTDVWVSMGQEAEAEER--------LKAF 242
Query: 170 GKYIVDQNVLQVMEKHAVVLHPLP--RLDEITVDVDADPRAAYFRQAKNGLYIRMALLKL 227
Y V++ ++ + + A+ +H LP R +E+T +V P++ + +A+N L+ + ALL
Sbjct: 243 APYQVNEELMALAKPDAIFMHCLPAHRGEEVTDEVIDGPQSVVWDEAENRLHAQKALLAW 302
Query: 228 LL 229
LL
Sbjct: 303 LL 304
>gnl|CDD|237369 PRK13376, pyrB, bifunctional aspartate carbamoyltransferase
catalytic subunit/aspartate carbamoyltransferase
regulatory subunit; Provisional.
Length = 525
Score = 43.6 bits (103), Expect = 4e-05
Identities = 28/86 (32%), Positives = 39/86 (45%), Gaps = 8/86 (9%)
Query: 149 YQTRIQRERFGERTDLYE---EARGKYIVDQNVLQVMEKHAVVLHPLPR---LDEITVDV 202
Y TR+Q ER GE D+ E R + L + + HPLPR I +
Sbjct: 249 YFTRLQLERMGE--DILEKEHILRKAVTFRKEFLDKLPEGVKFYHPLPRHKVYPTIPTFL 306
Query: 203 DADPRAAYFRQAKNGLYIRMALLKLL 228
D P + QA NG ++R+ LL +L
Sbjct: 307 DTLPLNGWETQAINGYWVRIVLLSML 332
>gnl|CDD|129743 TIGR00658, orni_carb_tr, ornithine carbamoyltransferase. This
family of ornithine carbamoyltransferases (OTCase) is in
a superfamily with the related enzyme aspartate
carbamoyltransferase. Most known examples are anabolic,
playing a role in arginine biosynthesis, but some are
catabolic. Most OTCases are homotrimers, but the
homotrimers are organized into dodecamers built from
four trimers in at least two species; the catabolic
OTCase of Pseudomonas aeruginosa is allosterically
regulated, while OTCase of the extreme thermophile
Pyrococcus furiosus shows both allostery and thermophily
[Amino acid biosynthesis, Glutamate family].
Length = 304
Score = 39.6 bits (93), Expect = 6e-04
Identities = 27/100 (27%), Positives = 52/100 (52%), Gaps = 12/100 (12%)
Query: 137 DLMEVASKCDVVYQTRI-----QRERFGERTDLYEEARGKYIVDQNVLQVMEKHAVVLHP 191
D +E DV+Y T + + ++ ER L+ Y V++ ++++ + + +H
Sbjct: 209 DPVEAVKGADVIY-TDVWVSMGEEDKKEERLKLFRP----YQVNEELMELAKPEVIFMHC 263
Query: 192 LP--RLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLLL 229
LP R +E+T +V P + F QA+N L+ + A++ LL
Sbjct: 264 LPAHRGEEVTDEVIEGPHSIVFDQAENRLHAQKAVMVALL 303
>gnl|CDD|237819 PRK14805, PRK14805, ornithine carbamoyltransferase; Provisional.
Length = 302
Score = 32.4 bits (74), Expect = 0.17
Identities = 29/97 (29%), Positives = 43/97 (44%), Gaps = 13/97 (13%)
Query: 140 EVASKCDVVY-QTRIQRERFGERTDLYE--EARGKYIVDQNVLQVMEKHAV--VLHPLP- 193
E D +Y T I G+ T L E Y V++ +MEK V+H P
Sbjct: 210 EAIEGHDAIYTDTWIS---MGDDTPLAEIKAKFAPYQVNK---ALMEKAGATFVMHCQPA 263
Query: 194 -RLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLLL 229
R EIT +V + +QA+N ++ + A+L LL
Sbjct: 264 HRGVEITSEVMDGEGSLILQQAENRMHAQNAVLVTLL 300
>gnl|CDD|177976 PLN02342, PLN02342, ornithine carbamoyltransferase.
Length = 348
Score = 31.3 bits (71), Expect = 0.41
Identities = 27/103 (26%), Positives = 49/103 (47%), Gaps = 10/103 (9%)
Query: 133 EESADLMEVASKCDVVYQ----TRIQRERFGERTDLYEEARGKYIVDQNVLQVMEKHAVV 188
E + D E DVVY + Q+E +R + +G + V++ ++++ A
Sbjct: 248 EITNDPAEAVKGADVVYTDVWASMGQKEEAEKR---KKAFQG-FQVNEALMKLAGPQAYF 303
Query: 189 LHPLP--RLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLLL 229
+H LP R E+T V P + F QA+N ++ + A++ L
Sbjct: 304 MHCLPAERGVEVTDGVMEAPNSIVFPQAENRMHAQNAIMLHQL 346
>gnl|CDD|235017 PRK02255, PRK02255, putrescine carbamoyltransferase; Provisional.
Length = 338
Score = 30.8 bits (70), Expect = 0.56
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 2/61 (3%)
Query: 171 KYIVDQNVLQVMEKHAVVLHPLP--RLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLL 228
KY V ++ HA +H LP R +E+T +V PR+ F +A+N L ALL
Sbjct: 251 KYQVTPELMAKAGPHAKFMHCLPATRGEEVTDEVMDSPRSICFDEAENRLTAIRALLVYF 310
Query: 229 L 229
+
Sbjct: 311 M 311
>gnl|CDD|173265 PRK14804, PRK14804, ornithine carbamoyltransferase; Provisional.
Length = 311
Score = 29.2 bits (65), Expect = 1.7
Identities = 34/108 (31%), Positives = 54/108 (50%), Gaps = 13/108 (12%)
Query: 130 VEWEESADLMEVASKCDVVY-QTRIQRERFGERTDLYEEARGKYIVDQNVLQV----MEK 184
+ WE +L + S D VY T + E F + + Y + + + + Q+ MEK
Sbjct: 206 LSWEM--NLHKAVSHADYVYTDTWLDMEFFNDPS--YADKKKQRMELMMPYQINSSLMEK 261
Query: 185 -HAVVLHPLPRLD--EITVDVDADPRAAYFRQAKNGLYIRMA-LLKLL 228
+A V+H +P EIT +V R+ F+QA+N L + A +LKLL
Sbjct: 262 TNAKVMHDMPIHAGYEITREVVLSDRSIIFQQAENRLDAQKAVILKLL 309
>gnl|CDD|233455 TIGR01537, portal_HK97, phage portal protein, HK97 family. This
model represents one of several distantly related
families of phage portal protein. This protein forms a
hole, or portal, that enables DNA passage during
packaging and ejection. It also forms the junction
between the phage head (capsid) and the tail proteins.
It functions as a dodecamer of a single polypeptide of
average mol. wt. of 40-90 KDa [Mobile and
extrachromosomal element functions, Prophage functions].
Length = 341
Score = 28.9 bits (65), Expect = 2.3
Identities = 12/58 (20%), Positives = 24/58 (41%), Gaps = 5/58 (8%)
Query: 160 ERTDLYEEARGKYIVDQNVLQVMEKHA----VVLHPLPRLDEITVDVDADPRAAYFRQ 213
+++ ++D N V+ + L L +++T+D DAD R Y+
Sbjct: 56 SAFQFWQQLILSLLLDGNAYIVIIRDKSGEIYELDLLTP-NKVTLDNDADDRLIYYVI 112
>gnl|CDD|131555 TIGR02503, type_III_SycN, type III secretion chaperone SycN.
Members of this protein family are part of the
machinery of bacterial type III secretion in a number
of bacteria that target animal cells. In the
well-studied system from Yersinia, a complex of this
protein (SycN) and YscB (pfam07329) acts as a chaperone
for the export of YopN (PMID:10094626). YopN then acts
to control effector protein secretion, in response to
calcium levels, so that secretion occurs only after
contact with the targeted eukaryotic cell [Protein
fate, Protein folding and stabilization, Cellular
processes, Pathogenesis].
Length = 119
Score = 27.8 bits (62), Expect = 2.6
Identities = 12/47 (25%), Positives = 19/47 (40%)
Query: 43 NSFSLSADFSKSRLLLSHEKSVKWKQTQQLPLRNSIQCWAVETQSTP 89
S L + LLL +S++W Q ++ R C A + P
Sbjct: 30 QSGRLYVEQHDGTLLLWLARSLEWHQAEEALKRALTLCHAQRGGALP 76
>gnl|CDD|143560 cd07451, CRD_SMO, Cysteine-rich domain of the smoothened receptor
(Smo) integral membrane protein. The cysteine-rich
domain (CRD) is part of the smoothened receptor (Smo),
an integral membrane protein and one of the key players
in the Hedgehog (Hh) signaling pathway, critical for
development, cell growth and migration, as well as stem
cell maintenance. The CRD of Smo is conserved in
vertebrates and can also be identified in
invertebrates. The precise function of the CRD in Smo
is unknown. Mutations in the Drosophila CRD disrupt Smo
activity in vivo, while deletion of the CRD in
mammalian cells does not seem to affect the activity of
overexpressed Smo.
Length = 132
Score = 27.7 bits (62), Expect = 3.1
Identities = 16/47 (34%), Positives = 19/47 (40%), Gaps = 7/47 (14%)
Query: 37 KLPVHRNSFSLSADFSKSRLLLSHEKSVKWKQTQQLPLRNSIQCWAV 83
KLP S L D + + EK W LRN +CWAV
Sbjct: 17 KLPYTYTSLDLVPDSTTQEEV--QEKLHLWSG-----LRNVPKCWAV 56
>gnl|CDD|180907 PRK07251, PRK07251, pyridine nucleotide-disulfide oxidoreductase;
Provisional.
Length = 438
Score = 28.6 bits (64), Expect = 3.3
Identities = 18/72 (25%), Positives = 26/72 (36%), Gaps = 18/72 (25%)
Query: 122 KDYLTSQGVEWEESADLMEVASKCD-VVYQTRIQRERFG-----------------ERTD 163
K Y+ G+ + +A EV + D V+ T + RF E TD
Sbjct: 205 KQYMEEDGITFLLNAHTTEVKNDGDQVLVVTEDETYRFDALLYATGRKPNTEPLGLENTD 264
Query: 164 LYEEARGKYIVD 175
+ RG VD
Sbjct: 265 IELTERGAIKVD 276
>gnl|CDD|235304 PRK04523, PRK04523, N-acetylornithine carbamoyltransferase;
Reviewed.
Length = 335
Score = 28.2 bits (63), Expect = 3.6
Identities = 25/99 (25%), Positives = 42/99 (42%), Gaps = 6/99 (6%)
Query: 135 SADLMEVASKCDVVYQTRIQRERFGERTDLYEEARGKY---IVDQNVLQVMEKHAVVLHP 191
S D+ + DVVY F + + R +Y IVD+ + + V H
Sbjct: 235 SHDIDSAYAGADVVYAKSWGALPFFGNWEPEKPIRDQYQHFIVDER-KMALTNNGVFSHC 293
Query: 192 LP--RLDEITVDVDADPRAAYFRQAKNGLYIRMALLKLL 228
LP R ++T V P +A+N L+++ A++ L
Sbjct: 294 LPLRRNVKVTDAVMDSPNCIAIDEAENRLHVQKAIMAAL 332
>gnl|CDD|213796 TIGR03316, ygeW, probable carbamoyltransferase YgeW. Members of
this protein family include the ygeW gene product of
Escherichia coli. The function is unknown. Members show
homology to ornithine carbamoyltransferase (TIGR00658)
and aspartate carbamoyltransferase
(carbamoyltransferase), and therefore may belong to the
carbamoyltransferases in function. Members often are
found in a large, conserved genomic region associated
with purine catabolism.
Length = 357
Score = 28.4 bits (63), Expect = 3.7
Identities = 27/137 (19%), Positives = 49/137 (35%), Gaps = 28/137 (20%)
Query: 117 FEDDIKDYLTSQGVEWEESADLMEVASKCDVVY-QTRIQRERFGERTDLY--EEARGKYI 173
+ K G + + + E D+VY ++ +RT+LY + G
Sbjct: 218 VVEVAKKNAAESGGSFRQVNSMEEAFKDADIVYPKSWAPYAVMEKRTELYRANDHEGLKA 277
Query: 174 VDQNVLQVMEKH-----------------AVVLHPLP--------RLDEITVDVDADPRA 208
+++ L KH A+ +H LP + E+T V R
Sbjct: 278 LEKQCLAQNAKHKDWHCTEERMELTRDGEALYMHCLPADISGVSCKEGEVTEGVFDKYRI 337
Query: 209 AYFRQAKNGLYIRMALL 225
A +++A YI A++
Sbjct: 338 ATYKEASWKPYIIAAMI 354
>gnl|CDD|151801 pfam11360, DUF3110, Protein of unknown function (DUF3110). This
family of proteins has no known function.
Length = 86
Score = 26.5 bits (59), Expect = 3.9
Identities = 8/33 (24%), Positives = 17/33 (51%)
Query: 101 DVIEAQQFDRDILNAIFEDDIKDYLTSQGVEWE 133
++EAQ F + I ++I+++ G E+
Sbjct: 40 GLLEAQDFPTPSVEEIDREEIEEFCREAGYEYR 72
>gnl|CDD|239419 cd03166, CD63_LEL, Tetraspanin, extracellular domain or large
extracellular loop (LEL), CD63 family. Tetraspanins are
trans-membrane proteins with 4 trans-membrane segments.
Both the N- and C-termini lie on the intracellular side
of the membrane. This alignment model spans the
extracellular domain between the 3rd and 4th
trans-membrane segment. Tetraspanins are involved in
diverse processes and their various functions may relate
to their ability to act as molecular facilitators.
Tetraspanins associate laterally with one another and
cluster dynamically with numerous parnter domains in
membrane microdomains, forming a network of
multimolecular complexes, the "tetraspanin web". CD63 is
present in platelets, neutrophils, and endothelial
cells, amongst others. In platelets it associates with
the integrin alphaIIBbeta3 and may modulate
alphaIIbbeta3-dependent cytoskeletal reorganization.
Length = 99
Score = 26.7 bits (59), Expect = 4.2
Identities = 8/38 (21%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 110 RDILNAIFEDDIKDYLT--SQGVEWEESADLMEVASKC 145
RD + + F D ++ ++ ++ + D M+ KC
Sbjct: 4 RDKVMSEFNDSFNQMISNYNKTNDFRKILDRMQKDLKC 41
>gnl|CDD|234932 PRK01269, PRK01269, tRNA s(4)U8 sulfurtransferase; Provisional.
Length = 482
Score = 27.5 bits (62), Expect = 7.3
Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 7/44 (15%)
Query: 104 EAQQFDRDILNAIFE-------DDIKDYLTSQGVEWEESADLME 140
E ++FD IL+ + E +I + + VE E ++L
Sbjct: 363 EEKKFDFAILDRVVEEARNIDIREIAEQTEQEVVEVETVSELPP 406
>gnl|CDD|220815 pfam10577, UPF0560, Uncharacterized protein family UPF0560. This
family of proteins has no known function.
Length = 805
Score = 27.5 bits (61), Expect = 8.0
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 26 ELMFSYSSLVDKLPVHRNSFSLSADFSKSRLLLSHEKSVK---WKQTQQLPLRNS 77
E++ S P+ +++FS S DF+ S LL+H+ K + + PL+ S
Sbjct: 340 EMVSSAGEADMHTPMLKSAFSSSRDFTSSEELLAHKAEDKSQLPQSGESFPLKAS 394
>gnl|CDD|233979 TIGR02710, TIGR02710, CRISPR-associated protein, TIGR02710 family.
Members of this family are found, exclusively in the
vicinity of CRISPR repeats and other CRISPR-associated
(cas) genes, in Methanothermobacter thermautotrophicus
(Archaea), Thermus thermophilus (Deinococcus-Thermus),
Chloroflexus aurantiacus (Chloroflexi), and
Thermomicrobium roseum (Thermomicrobia) [Mobile and
extrachromosomal element functions, Other].
Length = 380
Score = 27.2 bits (60), Expect = 8.0
Identities = 8/47 (17%), Positives = 19/47 (40%)
Query: 179 LQVMEKHAVVLHPLPRLDEITVDVDADPRAAYFRQAKNGLYIRMALL 225
L+++ + + LD +++ D P + +G +AL
Sbjct: 273 LELIVQIRLEERGKYGLDTDSINPDGLPESTRAALKLDGKKSHLALK 319
>gnl|CDD|234682 PRK00188, trpD, anthranilate phosphoribosyltransferase;
Provisional.
Length = 339
Score = 27.0 bits (61), Expect = 8.4
Identities = 10/24 (41%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 178 VLQVME-KHAVVLHPLPRLDEITV 200
VL+ + K A+V+H LDEI++
Sbjct: 206 VLKRLGSKRALVVHGSDGLDEISL 229
>gnl|CDD|110998 pfam02055, Glyco_hydro_30, O-Glycosyl hydrolase family 30.
Length = 495
Score = 27.2 bits (60), Expect = 8.9
Identities = 10/39 (25%), Positives = 20/39 (51%)
Query: 75 RNSIQCWAVETQSTPSFTIGKKFQLDDVIEAQQFDRDIL 113
++ IQ W + TQ+ P+ KK++ + + RD +
Sbjct: 219 KHGIQFWGLSTQNEPTAGSDKKYKFQSLGFTAEHQRDFI 257
>gnl|CDD|182773 PRK10845, PRK10845, colicin V production protein; Provisional.
Length = 162
Score = 26.3 bits (58), Expect = 9.4
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 62 KSVKWKQTQQLPLRNSIQCWAVE-TQSTPSF 91
KS W Q+Q +P + I W + QS+ SF
Sbjct: 128 KSEDWSQSQLIPQFSFIIRWFFDYLQSSSSF 158
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
0.320 0.132 0.387
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,537,930
Number of extensions: 1073080
Number of successful extensions: 971
Number of sequences better than 10.0: 1
Number of HSP's gapped: 955
Number of HSP's successfully gapped: 36
Length of query: 232
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 138
Effective length of database: 6,768,326
Effective search space: 934028988
Effective search space used: 934028988
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: 57 (25.7 bits)