Query 024113
Match_columns 272
No_of_seqs 139 out of 775
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 09:04:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024113.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024113hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13967 RSN1_TM: Late exocyto 100.0 1.4E-41 3.1E-46 287.8 13.1 155 6-200 1-157 (157)
2 COG5594 Uncharacterized integr 100.0 9.4E-38 2E-42 313.2 13.8 222 3-270 20-257 (827)
3 KOG1134 Uncharacterized conser 100.0 1.1E-33 2.4E-38 288.1 12.2 230 1-270 1-238 (728)
4 PF01102 Glycophorin_A: Glycop 68.6 4.9 0.00011 33.0 2.8 20 12-31 73-92 (122)
5 PF07292 NID: Nmi/IFP 35 domai 50.8 9.8 0.00021 29.5 1.5 15 218-232 49-63 (88)
6 PF05393 Hum_adeno_E3A: Human 38.5 34 0.00073 26.7 2.8 39 6-44 32-72 (94)
7 PF10912 DUF2700: Protein of u 37.9 42 0.00091 28.1 3.6 31 178-208 110-140 (143)
8 PF12273 RCR: Chitin synthesis 36.6 31 0.00066 28.1 2.5 14 17-30 11-24 (130)
9 PF15179 Myc_target_1: Myc tar 36.0 60 0.0013 28.7 4.2 33 6-38 24-56 (197)
10 PF02439 Adeno_E3_CR2: Adenovi 34.0 1.1E+02 0.0025 20.0 4.3 30 3-32 4-33 (38)
11 PHA02673 ORF109 EEV glycoprote 31.4 39 0.00085 29.0 2.4 23 99-121 29-51 (161)
12 PF14654 Epiglycanin_C: Mucin, 22.3 1.7E+02 0.0038 23.2 4.3 29 2-30 16-44 (106)
13 PF15050 SCIMP: SCIMP protein 22.1 1.3E+02 0.0028 24.8 3.7 13 18-30 21-33 (133)
14 PF01034 Syndecan: Syndecan do 21.9 33 0.00071 25.1 0.2 27 12-38 18-44 (64)
15 PF04059 RRM_2: RNA recognitio 20.7 55 0.0012 25.7 1.3 11 222-232 2-12 (97)
16 PHA03093 EEV glycoprotein; Pro 20.6 81 0.0018 27.7 2.4 23 99-121 32-54 (185)
No 1
>PF13967 RSN1_TM: Late exocytosis, associated with Golgi transport
Probab=100.00 E-value=1.4e-41 Score=287.77 Aligned_cols=155 Identities=35% Similarity=0.657 Sum_probs=137.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhcCCCCCccccceeccCC--CCCCCCCCccccccccccccccccccccchhhhccCC
Q 024113 6 DIGVAATINILSAFAFLSAFAILRIQPINDRVYFPKWYLKG--LRSSPLQTGTLVSKFVNLDFRSYLRFLSWMPAALQMP 83 (272)
Q Consensus 6 ~~~tsl~in~~i~~~~lllF~~LR~rp~~~~vY~PR~~l~~--~~~~P~~~~~~~~~~~~~~~~~~~~~f~WI~~~~~~~ 83 (272)
+|.+|+++|++++++++++||+||+| ++++|+||.+.++ .+.+|++ .++|+|+||+++++++
T Consensus 1 s~~~sl~~~~~i~~~~~~~F~~lR~~--~~~iY~pR~~~~~~~~~~~~~~--------------~~~g~f~Wi~~~~~~~ 64 (157)
T PF13967_consen 1 SFLTSLAINLIIFLVLLLLFCILRKR--FPRIYQPRSYLPHPEPERPPPL--------------PSRGFFGWIKPVFKIS 64 (157)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhc--cHHhcccccccCCcccccCCCC--------------CCCCchHHHHHHHcCC
Confidence 58999999999999999999999975 9999999998753 1111211 1458999999999999
Q ss_pred hhHHHHhhCchHHHHHHHHHHHHHHHHHHHHHhhheeeeeeecCCccccCccCCCCCCccccccCCCCCCccchhhhhhc
Q 024113 84 EPELIDHAGLDSAVYLRIYLIGLKIFIPIACLGFAVMVPVNWTNKTLEHSKLKYSNIDLLSISNVPLGSNRMSSLQRFYS 163 (272)
Q Consensus 84 d~~il~~~GLDA~vfLrFlr~~~~lf~~~sv~~~~ILlPvn~~~~~~~~~~~~~~~l~~ltisNv~~~s~~~~~~~~~~~ 163 (272)
|+|+++++|+||++||||+|||+++|+++++++++||+|||+++++..++..+.++++++|++|++++++
T Consensus 65 d~~i~~~~GlDa~~flrflr~~~~~f~~~~i~~~~vLlPi~~~~~~~~~~~~~~~~l~~~tisnv~~~s~---------- 134 (157)
T PF13967_consen 65 DDEILRHCGLDAYVFLRFLRMLIKIFLFLSILSLPVLLPINYTGGDDDGDSDNESGLDRLTISNVPKGSS---------- 134 (157)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHheeeeEEeCCCCccccccccccccccHHhhcCCCC----------
Confidence 9999999999999999999999999999999999999999999988754433337999999999998877
Q ss_pred ccCcccccccccchhHHHHHHHHHHHHHHHHHHHHHH
Q 024113 164 NLGSWAFLGNVFFKRFWTHLVMAYVFTFWTCYVLKRE 200 (272)
Q Consensus 164 ~~~~~~~~~~~~~~~lw~hvv~ayl~t~~~l~lL~~e 200 (272)
++|+|++++|+++++++|++++|
T Consensus 135 --------------~lw~h~v~~~i~~~~~~~~l~~E 157 (157)
T PF13967_consen 135 --------------RLWAHVVFAYIFTFYVLYLLWRE 157 (157)
T ss_pred --------------eehHHHHHHHHHHHHHHhhheeC
Confidence 99999999999999999999987
No 2
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=100.00 E-value=9.4e-38 Score=313.24 Aligned_cols=222 Identities=23% Similarity=0.354 Sum_probs=187.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCccccceeccCCCC-CCCCCCccccccccccccccccccccchhhhcc
Q 024113 3 TLGDIGVAATINILSAFAFLSAFAILRIQPINDRVYFPKWYLKGLR-SSPLQTGTLVSKFVNLDFRSYLRFLSWMPAALQ 81 (272)
Q Consensus 3 ~~~~~~tsl~in~~i~~~~lllF~~LR~rp~~~~vY~PR~~l~~~~-~~P~~~~~~~~~~~~~~~~~~~~~f~WI~~~~~ 81 (272)
+.+++.||+.++..++++++.+|++||+| ++++|+||+...+.. +.|.| .+.|+|||+.++++
T Consensus 20 s~~~~~t~l~f~~~~~~~~l~~f~iLR~r--~k~lY~pr~~~~~~~~~~P~~--------------~~ss~~gWl~~L~~ 83 (827)
T COG5594 20 STSAVITQLVFAGLIFLVFLILFLILRKR--WKRLYAPRTNFDGQNECLPEP--------------NPSSYWGWLEPLVK 83 (827)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHH--HhHhcCcceeecCCCcccCCC--------------CccchHHHHHHHHh
Confidence 57899999999999999999999999965 999999999886543 23322 25689999999999
Q ss_pred CChhHHHHhhCchHHHHHHHHHHHHHHHHHHHHHhhheeeeeeecCCccccC-ccCCCCCCccccccCCCCCCccchhhh
Q 024113 82 MPEPELIDHAGLDSAVYLRIYLIGLKIFIPIACLGFAVMVPVNWTNKTLEHS-KLKYSNIDLLSISNVPLGSNRMSSLQR 160 (272)
Q Consensus 82 ~~d~~il~~~GLDA~vfLrFlr~~~~lf~~~sv~~~~ILlPvn~~~~~~~~~-~~~~~~l~~ltisNv~~~s~~~~~~~~ 160 (272)
++|+.+++++|+|||+||||+|||+++|+++|++++|||+|||++.+..+.. ..+.+++++++++|+.+ ++
T Consensus 84 i~d~~~l~~aGlD~y~fLrflkm~~~~~~i~sl~~ipIL~Pvn~~~~~~~~gn~~s~s~l~~Ls~~Nv~~-~n------- 155 (827)
T COG5594 84 IPDEFLLQYAGLDGYFFLRFLKMLIKLLFILSLILIPILLPVNYHFQKATNGNSDSESGLDKLSISNVSP-SN------- 155 (827)
T ss_pred CCHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHhHEeeeeeecccccccCCccchhhhhHhhhhcccC-CC-------
Confidence 9999999999999999999999999999999999999999999988654321 23578999999999975 55
Q ss_pred hhcccCcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC--C-------CCccceEEeccCCC
Q 024113 161 FYSNLGSWAFLGNVFFKRFWTHLVMAYVFTFWTCYVLKREYEIVAAMRLHFLASEH--R-------RPDQFTSFACIIHN 231 (272)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~lw~hvv~ayl~t~~~l~lL~~e~~~~v~lR~~yl~s~~--~-------~~~~rTVlV~~IP~ 231 (272)
++|+|++..|++.++++|.+++|++.|+.+||+|++++. . +.++|||+++++|+
T Consensus 156 -----------------~~~aHvf~~~~f~~~vlfii~~el~~y~~lr~a~~~~p~y~qs~~~~~~~~ssRTvlis~LP~ 218 (827)
T COG5594 156 -----------------RLYAHVFLSWFFFGYVLFIIFRELRFYVVLRQAYLRSPLYQQSLLTLQNNLSSRTVLISGLPS 218 (827)
T ss_pred -----------------ceeeeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHhhccCCCCceEEeecCCh
Confidence 899999999999999999999999999999999999986 2 34889999999999
Q ss_pred ccccccccccceeccccccce-----eEEEEcccchHHHHHhhh
Q 024113 232 FEFILEYTTREVCSFSFSFLQ-----HIVRFRNANKLLILFQVL 270 (272)
Q Consensus 232 ~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~l~~l~~~~ 270 (272)
+ .+++|.+...+.=++ ..++.|+.++|++++.+-
T Consensus 219 ~-----~~~~e~L~~~~~kl~~~~i~~~~l~~~~~~l~~l~k~R 257 (827)
T COG5594 219 E-----LRSDEELKELFDKLKVGEIDSDVLCRDLGTLQELYKER 257 (827)
T ss_pred h-----hcCchhHHHHHhhcCeeeeccchhhhhhHHHHHHHHhH
Confidence 7 577777665422222 333336688888876543
No 3
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=1.1e-33 Score=288.08 Aligned_cols=230 Identities=42% Similarity=0.706 Sum_probs=192.4
Q ss_pred CCchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCccccceeccCCCCCCCCCCcccccccccccccccccc-ccchhhh
Q 024113 1 MATLGDIGVAATINILSAFAFLSAFAILRIQPINDRVYFPKWYLKGLRSSPLQTGTLVSKFVNLDFRSYLRF-LSWMPAA 79 (272)
Q Consensus 1 ~~~~~~~~tsl~in~~i~~~~lllF~~LR~rp~~~~vY~PR~~l~~~~~~P~~~~~~~~~~~~~~~~~~~~~-f~WI~~~ 79 (272)
|++++++..+-.++...+..++.+|.+++.+|++.++|.|++.+.+.++.|.... . ...+++. |+|+.++
T Consensus 1 ~~~~~~~~~~s~~~~~~~~~~~~~~~~l~l~~~~~~vy~~~~~l~~~~~~~~~~~------~---~~~~~~~~~~Wl~~~ 71 (728)
T KOG1134|consen 1 MATFESIGISSTLNLNSAFAFLFLFLFLRLQPRNFRVYLPIWSLKGLRSSPIESK------V---EPVPSSVNFGWLPAL 71 (728)
T ss_pred CCccccccccccccchhhHHHHHHHHHHHhhhcceEEEEeeeeeccccCcCcccc------C---CCCCCcccccchHHH
Confidence 5667777777778888888889999999988999999999998877654332211 0 1123344 9999999
Q ss_pred ccCChhHHHHhhCchHHHHHHHHHHHHHHHHHHHHHhhheeeeeeecCCccccCccCCCCCCccccccCCCCCCccchhh
Q 024113 80 LQMPEPELIDHAGLDSAVYLRIYLIGLKIFIPIACLGFAVMVPVNWTNKTLEHSKLKYSNIDLLSISNVPLGSNRMSSLQ 159 (272)
Q Consensus 80 ~~~~d~~il~~~GLDA~vfLrFlr~~~~lf~~~sv~~~~ILlPvn~~~~~~~~~~~~~~~l~~ltisNv~~~s~~~~~~~ 159 (272)
++++|+|+++++|+||++||||+++++++|+++++++++||+|||+++++.+..+ .++++++|++|++.+|+
T Consensus 72 ~k~~~~ei~~~~GlDa~~~L~~~~~~~~lf~~~~~l~~~illPVn~~~~~~~~~~--~~s~~~ls~snv~~~s~------ 143 (728)
T KOG1134|consen 72 LKIPDEEILEHAGLDAYVFLRFLKLGIKLFAVLSLLSVPILLPVNWTNGNLELGN--EDSLDKLSISNVQPGSS------ 143 (728)
T ss_pred hcCCHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhheEEeeEEEecCcccccc--cchhhhhhheeccCCCC------
Confidence 9999999999999999999999999999999999999999999999999885432 23799999999999888
Q ss_pred hhhcccCcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCccceEEeccCCCcccccccc
Q 024113 160 RFYSNLGSWAFLGNVFFKRFWTHLVMAYVFTFWTCYVLKREYEIVAAMRLHFLASEHRRPDQFTSFACIIHNFEFILEYT 239 (272)
Q Consensus 160 ~~~~~~~~~~~~~~~~~~~lw~hvv~ayl~t~~~l~lL~~e~~~~v~lR~~yl~s~~~~~~~rTVlV~~IP~~~~~~~~~ 239 (272)
++|+|++++|+++++++|++++||++++.+||+|+.++.+++++.|+++.++|.. +..
T Consensus 144 ------------------~lw~Hv~~~y~~~~~~~~~l~~e~~~~~~~R~~~l~~~~~~~~~~s~~~~~~~~~----~~~ 201 (728)
T KOG1134|consen 144 ------------------LLWAHVFFTYLFTFFTLFILYREYKHVASIRQAYLASPKYRPDQSSVLVRNVPPP----DGV 201 (728)
T ss_pred ------------------CEEEEeehhHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcCccccchhhhcccCC----CCC
Confidence 8999999999999999999999999999999999999998999999999999954 343
Q ss_pred ccceeccc-------cccceeEEEEcccchHHHHHhhh
Q 024113 240 TREVCSFS-------FSFLQHIVRFRNANKLLILFQVL 270 (272)
Q Consensus 240 ~~~~~~~~-------~~~~~~~~~~~~~~~l~~l~~~~ 270 (272)
+...+.+. .++..|++. +|.+||.++.++.
T Consensus 202 s~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~l~~~~ 238 (728)
T KOG1134|consen 202 SVSVIVRHFFSLNHPVKVRSHQVV-YNESKLSKLLSKL 238 (728)
T ss_pred chhhHHhhhhhccCCceeehhHHH-hhHHHHHHHHHHH
Confidence 44333332 566778888 9999999887653
No 4
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=68.57 E-value=4.9 Score=33.03 Aligned_cols=20 Identities=15% Similarity=0.336 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHhcC
Q 024113 12 TINILSAFAFLSAFAILRIQ 31 (272)
Q Consensus 12 ~in~~i~~~~lllF~~LR~r 31 (272)
++..+|+++++++||+.|+|
T Consensus 73 v~aGvIg~Illi~y~irR~~ 92 (122)
T PF01102_consen 73 VMAGVIGIILLISYCIRRLR 92 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 45566778889999998865
No 5
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=50.78 E-value=9.8 Score=29.48 Aligned_cols=15 Identities=13% Similarity=0.011 Sum_probs=13.4
Q ss_pred CCccceEEeccCCCc
Q 024113 218 RPDQFTSFACIIHNF 232 (272)
Q Consensus 218 ~~~~rTVlV~~IP~~ 232 (272)
..+.|||+|+|||..
T Consensus 49 ~vs~rtVlvsgip~~ 63 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDV 63 (88)
T ss_pred cccCCEEEEeCCCCC
Confidence 578899999999995
No 6
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=38.52 E-value=34 Score=26.66 Aligned_cols=39 Identities=10% Similarity=0.072 Sum_probs=21.8
Q ss_pred hHHHHHHHHHHHHHHHHHHH--HHHhcCCCCCccccceecc
Q 024113 6 DIGVAATINILSAFAFLSAF--AILRIQPINDRVYFPKWYL 44 (272)
Q Consensus 6 ~~~tsl~in~~i~~~~lllF--~~LR~rp~~~~vY~PR~~l 44 (272)
.+..++.+-.++|++.++++ |++.+|+.-+.||.|=..+
T Consensus 32 ~Lgm~~lvI~~iFil~VilwfvCC~kRkrsRrPIYrPvI~~ 72 (94)
T PF05393_consen 32 NLGMWFLVICGIFILLVILWFVCCKKRKRSRRPIYRPVIGL 72 (94)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHhhhccCCcccccccc
Confidence 34445555555555444444 4454444557899887754
No 7
>PF10912 DUF2700: Protein of unknown function (DUF2700); InterPro: IPR024483 This is a family of proteins with unknown function.
Probab=37.95 E-value=42 Score=28.06 Aligned_cols=31 Identities=16% Similarity=0.260 Sum_probs=26.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024113 178 RFWTHLVMAYVFTFWTCYVLKREYEIVAAMR 208 (272)
Q Consensus 178 ~lw~hvv~ayl~t~~~l~lL~~e~~~~v~lR 208 (272)
++|.-+...|..-+....++--++-+|+-.+
T Consensus 110 ~F~~Gl~~G~~~E~~~~l~i~v~~lky~Li~ 140 (143)
T PF10912_consen 110 RFVSGLLAGYIVEILIILLIGVEVLKYVLIN 140 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhheeee
Confidence 7999999999999999999988888776544
No 8
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=36.64 E-value=31 Score=28.07 Aligned_cols=14 Identities=21% Similarity=0.187 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHhc
Q 024113 17 SAFAFLSAFAILRI 30 (272)
Q Consensus 17 i~~~~lllF~~LR~ 30 (272)
+++++|++||+.++
T Consensus 11 ~i~l~~~~~~~~~r 24 (130)
T PF12273_consen 11 AILLFLFLFYCHNR 24 (130)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333444444433
No 9
>PF15179 Myc_target_1: Myc target protein 1
Probab=36.02 E-value=60 Score=28.65 Aligned_cols=33 Identities=12% Similarity=0.164 Sum_probs=24.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhcCCCCCccc
Q 024113 6 DIGVAATINILSAFAFLSAFAILRIQPINDRVY 38 (272)
Q Consensus 6 ~~~tsl~in~~i~~~~lllF~~LR~rp~~~~vY 38 (272)
+|-+++++.++||++..++|.+|-+|+--.+|.
T Consensus 24 aF~vSm~iGLviG~li~~LltwlSRRRASa~Is 56 (197)
T PF15179_consen 24 AFCVSMAIGLVIGALIWALLTWLSRRRASARIS 56 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccccccc
Confidence 567788888999999999998887653333343
No 10
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=33.95 E-value=1.1e+02 Score=20.01 Aligned_cols=30 Identities=13% Similarity=0.020 Sum_probs=20.7
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 024113 3 TLGDIGVAATINILSAFAFLSAFAILRIQP 32 (272)
Q Consensus 3 ~~~~~~tsl~in~~i~~~~lllF~~LR~rp 32 (272)
|.-++.++.....++-+++++.|.+-|+|+
T Consensus 4 s~IaIIv~V~vg~~iiii~~~~YaCcykk~ 33 (38)
T PF02439_consen 4 STIAIIVAVVVGMAIIIICMFYYACCYKKH 33 (38)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 445666777777777777777777777663
No 11
>PHA02673 ORF109 EEV glycoprotein; Provisional
Probab=31.35 E-value=39 Score=29.01 Aligned_cols=23 Identities=22% Similarity=0.345 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHhhheee
Q 024113 99 LRIYLIGLKIFIPIACLGFAVMV 121 (272)
Q Consensus 99 LrFlr~~~~lf~~~sv~~~~ILl 121 (272)
-|++++++++..+++++++.+|.
T Consensus 29 ~R~i~l~~Ri~~~iSIisL~~l~ 51 (161)
T PHA02673 29 RRYIKLFFRLMAAIAIIVLAILV 51 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 79999999999999888877664
No 12
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=22.27 E-value=1.7e+02 Score=23.21 Aligned_cols=29 Identities=10% Similarity=0.027 Sum_probs=16.3
Q ss_pred CchhhHHHHHHHHHHHHHHHHHHHHHHhc
Q 024113 2 ATLGDIGVAATINILSAFAFLSAFAILRI 30 (272)
Q Consensus 2 ~~~~~~~tsl~in~~i~~~~lllF~~LR~ 30 (272)
+.|+-|+.+|+-..+-..++.-+|.++|+
T Consensus 16 ~PWeIfLItLasVvvavGl~aGLfFcvR~ 44 (106)
T PF14654_consen 16 KPWEIFLITLASVVVAVGLFAGLFFCVRN 44 (106)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 45777777776554444444444444575
No 13
>PF15050 SCIMP: SCIMP protein
Probab=22.12 E-value=1.3e+02 Score=24.82 Aligned_cols=13 Identities=15% Similarity=0.128 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHhc
Q 024113 18 AFAFLSAFAILRI 30 (272)
Q Consensus 18 ~~~~lllF~~LR~ 30 (272)
.++.+++||+.|.
T Consensus 21 ~~lglIlyCvcR~ 33 (133)
T PF15050_consen 21 VVLGLILYCVCRW 33 (133)
T ss_pred HHHHHHHHHHHHH
Confidence 3456788999883
No 14
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=21.93 E-value=33 Score=25.10 Aligned_cols=27 Identities=22% Similarity=0.264 Sum_probs=1.0
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCccc
Q 024113 12 TINILSAFAFLSAFAILRIQPINDRVY 38 (272)
Q Consensus 12 ~in~~i~~~~lllF~~LR~rp~~~~vY 38 (272)
++..+++++++++|.+-|.|.+...-|
T Consensus 18 ~Vvgll~ailLIlf~iyR~rkkdEGSY 44 (64)
T PF01034_consen 18 GVVGLLFAILLILFLIYRMRKKDEGSY 44 (64)
T ss_dssp -------------------S------S
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCc
Confidence 344566677788888888654554444
No 15
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=20.71 E-value=55 Score=25.66 Aligned_cols=11 Identities=27% Similarity=-0.043 Sum_probs=10.0
Q ss_pred ceEEeccCCCc
Q 024113 222 FTSFACIIHNF 232 (272)
Q Consensus 222 rTVlV~~IP~~ 232 (272)
-|||++|||+.
T Consensus 2 TTvMirNIPn~ 12 (97)
T PF04059_consen 2 TTVMIRNIPNK 12 (97)
T ss_pred eeEEEecCCCC
Confidence 48999999997
No 16
>PHA03093 EEV glycoprotein; Provisional
Probab=20.61 E-value=81 Score=27.74 Aligned_cols=23 Identities=22% Similarity=0.300 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHhhheee
Q 024113 99 LRIYLIGLKIFIPIACLGFAVMV 121 (272)
Q Consensus 99 LrFlr~~~~lf~~~sv~~~~ILl 121 (272)
-|++.+|++|..+++++++.+|.
T Consensus 32 ~r~i~i~~RisiiiSIlsL~~i~ 54 (185)
T PHA03093 32 VKCIGICIRISIIISILSLIAIT 54 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 47888888888887777665543
Done!