Query 032439
Match_columns 140
No_of_seqs 80 out of 82
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 14:06:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032439.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032439hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09366 DUF1997: Protein of u 99.8 1.8E-20 3.9E-25 143.5 7.2 68 72-139 2-70 (158)
2 PF06240 COXG: Carbon monoxide 88.1 1.6 3.5E-05 32.2 5.5 69 64-133 2-72 (140)
3 PF11485 DUF3211: Protein of u 71.6 5.2 0.00011 31.3 3.4 57 64-122 4-64 (136)
4 cd07823 SRPBCC_5 Ligand-bindin 59.1 36 0.00078 24.6 5.6 42 64-105 4-46 (146)
5 smart00243 GAS2 Growth-Arrest- 44.2 52 0.0011 23.5 4.2 34 90-123 19-52 (73)
6 cd05888 Ig1_Nectin-4_like Frst 41.6 24 0.00052 24.5 2.3 33 90-124 68-100 (100)
7 cd05877 Ig_LP_like Immunoglobu 31.9 54 0.0012 22.3 2.8 19 88-106 70-88 (106)
8 cd05901 Ig_Versican Immunoglob 31.5 66 0.0014 24.1 3.4 22 85-106 78-99 (117)
9 COG0694 Thioredoxin-like prote 31.0 14 0.0003 27.1 -0.4 17 3-19 49-65 (93)
10 cd08904 START_STARD6-like Lipi 30.8 1.8E+02 0.0039 23.5 6.0 64 63-126 50-119 (204)
11 COG3131 MdoG Periplasmic gluca 27.4 93 0.002 29.4 4.2 39 83-125 225-263 (534)
12 PF14085 DUF4265: Domain of un 27.3 2E+02 0.0044 21.1 5.3 44 92-135 5-58 (117)
13 PRK02899 adaptor protein; Prov 26.4 52 0.0011 26.6 2.2 43 92-134 2-76 (197)
14 COG3427 Carbon monoxide dehydr 26.1 43 0.00094 26.4 1.6 42 62-106 6-48 (146)
15 cd05886 Ig1_Nectin-1_like Firs 23.2 56 0.0012 23.2 1.6 18 91-108 68-85 (99)
16 cd05902 Ig_Neurocan Immunoglob 23.0 85 0.0018 22.8 2.6 23 85-107 71-93 (110)
17 cd05900 Ig_Aggrecan Immunoglob 23.0 96 0.0021 22.5 2.8 22 85-106 73-94 (112)
18 PF09189 DUF1952: Domain of un 22.9 80 0.0017 22.8 2.3 32 94-125 24-55 (78)
19 cd05871 Ig_Semaphorin_classIII 21.2 1.4E+02 0.0031 20.4 3.3 34 90-125 57-90 (91)
20 PHA02914 Immunoglobulin-like d 20.2 6E+02 0.013 23.9 7.9 71 61-132 57-133 (500)
No 1
>PF09366 DUF1997: Protein of unknown function (DUF1997); InterPro: IPR018971 This family of proteins are functionally uncharacterised.
Probab=99.82 E-value=1.8e-20 Score=143.49 Aligned_cols=68 Identities=43% Similarity=0.710 Sum_probs=65.3
Q ss_pred cchhhhhcCcce-eeeecCccceeEecCCeEEEEeeeeeEEEEEEceEEEEEEEEcCCceEEEEeeeee
Q 032439 72 RPLIEYMSLPAS-QYSVLDAERIERVDDNTFRCYVYRFKFFAFEICPVLLVRVEEQPNGCCIKLLSCKL 139 (140)
Q Consensus 72 ~~L~eYLrqPa~-vyALLDp~~lerLgd~tFR~~v~~L~ff~leV~PVVdLrV~~~~~~c~v~~lsc~L 139 (140)
.+|++||++|++ +++++|++++|+||||+|||+|++++||+|+|+|+|+|+||+++++|.+++++|+|
T Consensus 2 ~~l~~YL~~~~r~~~~~~d~~~ie~l~~~~yr~~~~~~~~~~~~v~P~v~l~v~~~~~~~~i~~~~~~l 70 (158)
T PF09366_consen 2 APLAEYLSDPQRWFSALFDPMRIEPLGDNTYRLKMRPFQFFGFEVEPVVDLRVWPQDDGLTIRSLDCEL 70 (158)
T ss_pred CchHHHHhCchhHHHHhcCHHHcEEcCCCeEEEEEcCccEEEEEEEEEEEEEEEEcCCCeEEEEEEEEE
Confidence 579999999998 77777999999999999999999999999999999999999999999999999997
No 2
>PF06240 COXG: Carbon monoxide dehydrogenase subunit G (CoxG); InterPro: IPR010419 The CO dehydrogenase structural genes coxMSL are flanked by nine accessory genes arranged as the cox gene cluster. The cox genes are specifically and coordinately transcribed under chemolithoautotrophic conditions in the presence of CO as carbon and energy source [].; PDB: 2NS9_A 2PCS_A.
Probab=88.08 E-value=1.6 Score=32.17 Aligned_cols=69 Identities=14% Similarity=0.193 Sum_probs=48.5
Q ss_pred EeeeeccCcchhhhhcCcceeeeecCc-cceeEecCCeEEEEee-eeeEEEEEEceEEEEEEEEcCCceEEE
Q 032439 64 SVRVRQLQRPLIEYMSLPASQYSVLDA-ERIERVDDNTFRCYVY-RFKFFAFEICPVLLVRVEEQPNGCCIK 133 (140)
Q Consensus 64 ~i~V~e~~~~L~eYLrqPa~vyALLDp-~~lerLgd~tFR~~v~-~L~ff~leV~PVVdLrV~~~~~~c~v~ 133 (140)
+..|+-....+-+||.+|+.+-+.+.. +.+|.++ +.|+.++. ++.++...+.=.+.+.=...++..+++
T Consensus 2 s~~v~a~~~~vw~~l~D~~~l~~ciPG~~~~e~~~-~~~~~~~~v~vG~i~~~~~g~~~~~~~~~~~~~~~~ 72 (140)
T PF06240_consen 2 SFEVPAPPEKVWAFLSDPENLARCIPGVESIEKVG-DEYKGKVKVKVGPIKGTFDGEVRITEIDPPESYTLE 72 (140)
T ss_dssp EEEECS-HHHHHHHHT-HHHHHHHSTTEEEEEEEC-TEEEEEEEEESCCCEEEEEEEEEEEEEETTTEEEEE
T ss_pred cEEecCCHHHHHHHhcCHHHHHhhCCCcEEeeecC-cEEEEEEEEEeccEEEEEEEEEEEEEcCCCcceEee
Confidence 345666667889999999986666655 7899999 99999988 677777777666666655555554444
No 3
>PF11485 DUF3211: Protein of unknown function (DUF3211); InterPro: IPR021578 This archaeal family of proteins has no known function. ; PDB: 2EJX_A.
Probab=71.58 E-value=5.2 Score=31.26 Aligned_cols=57 Identities=19% Similarity=0.335 Sum_probs=42.1
Q ss_pred Eeeeecc--CcchhhhhcCcc-eeeeecCc-cceeEecCCeEEEEeeeeeEEEEEEceEEEEE
Q 032439 64 SVRVRQL--QRPLIEYMSLPA-SQYSVLDA-ERIERVDDNTFRCYVYRFKFFAFEICPVLLVR 122 (140)
Q Consensus 64 ~i~V~e~--~~~L~eYLrqPa-~vyALLDp-~~lerLgd~tFR~~v~~L~ff~leV~PVVdLr 122 (140)
++.++.. ...|.++|++|. ....|+-+ +.++ .++|.|++..+ +-.|.++++-.|-+.
T Consensus 4 ~~~i~t~H~~e~v~~ILSDP~F~lp~l~p~ik~v~-~~~~sF~~~g~-~~~~~~~~~G~vy~s 64 (136)
T PF11485_consen 4 EIEIKTSHDIEVVLTILSDPEFVLPRLFPPIKSVK-VEENSFRAEGK-FGGFPFEMKGNVYVS 64 (136)
T ss_dssp EEEEE-SS-HHHHHHHHT-HHHHHHHHSTTEEEEE--STTEEEEEEE-ETTEEEEEEEEEEEE
T ss_pred EEEeccCCChHheEEEecCCccEecccCCceEEEE-ecCCEEEEEEE-EeeEEEEEEEEEEEc
Confidence 3444444 357999999999 79999999 8888 99999999988 666667776666544
No 4
>cd07823 SRPBCC_5 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=59.15 E-value=36 Score=24.58 Aligned_cols=42 Identities=14% Similarity=0.052 Sum_probs=31.0
Q ss_pred EeeeeccCcchhhhhcCcceeeeecC-ccceeEecCCeEEEEe
Q 032439 64 SVRVRQLQRPLIEYMSLPASQYSVLD-AERIERVDDNTFRCYV 105 (140)
Q Consensus 64 ~i~V~e~~~~L~eYLrqPa~vyALLD-p~~lerLgd~tFR~~v 105 (140)
++.|+-.+..+=++|.+|+..-+.+. -+.++.+++++|+.++
T Consensus 4 ~~~v~a~pe~vw~~l~D~~~~~~~~pg~~~~~~~~~~~~~~~~ 46 (146)
T cd07823 4 EFTVPAPPDRVWALLLDIERVAPCLPGASLTEVEGDDEYKGTV 46 (146)
T ss_pred eEEecCCHHHHHHHhcCHHHHHhcCCCceeccccCCCeEEEEE
Confidence 45566667788999999997666654 4667778889887665
No 5
>smart00243 GAS2 Growth-Arrest-Specific Protein 2 Domain. GROWTH-ARREST-SPECIFIC PROTEIN 2 Domain
Probab=44.19 E-value=52 Score=23.51 Aligned_cols=34 Identities=15% Similarity=0.238 Sum_probs=21.7
Q ss_pred ccceeEecCCeEEEEeeeeeEEEEEEceEEEEEE
Q 032439 90 AERIERVDDNTFRCYVYRFKFFAFEICPVLLVRV 123 (140)
Q Consensus 90 p~~lerLgd~tFR~~v~~L~ff~leV~PVVdLrV 123 (140)
+=+++++++|.||+--....+|--=+.-.|-+||
T Consensus 19 ~f~i~ri~eGkYr~Gd~~~~~~vRil~~~VMVRV 52 (73)
T smart00243 19 KFQVEKISEGKYRFGDSQILRLVRILRSTVMVRV 52 (73)
T ss_pred CcceEEecCCceEEcCCceEEEEEEeCCeEEEEE
Confidence 3479999999999875543332222334666666
No 6
>cd05888 Ig1_Nectin-4_like Frst immunoglobulin (Ig) domain of nectin-4 (also known as poliovirus receptor related protein 4, or as LNIR receptor) and similar proteins. Ig1_Nectin-4_like: domain similar to the first immunoglobulin (Ig) domain of nectin-4 (also known as poliovirus receptor related protein 4, or as LNIR receptor). Nectin-4 belongs to the nectin family, which is comprised of four transmembrane glycoproteins (nectins-1 through -4). Nectins are synaptic cell adhesion molecules (CAMs) which participate in adhesion and signaling at various intracellular junctions. Nectins form homophilic cis-dimers, followed by homophilic and heterophilic trans-dimers involved in cell-cell adhesion. For example nectin-4 trans-interacts with nectin-1. Nectin-4 has also been shown to interact with the actin filament-binding protein, afadin. Unlike the other nectins, which are widely expressed in adult tissues, nectin-4 is mainly expressed during embryogenesis, and is not detected in normal adult
Probab=41.62 E-value=24 Score=24.47 Aligned_cols=33 Identities=21% Similarity=0.343 Sum_probs=22.0
Q ss_pred ccceeEecCCeEEEEeeeeeEEEEEEceEEEEEEE
Q 032439 90 AERIERVDDNTFRCYVYRFKFFAFEICPVLLVRVE 124 (140)
Q Consensus 90 p~~lerLgd~tFR~~v~~L~ff~leV~PVVdLrV~ 124 (140)
-..++.-|.|+|.|.+..+.-=+. +=++.|+||
T Consensus 68 I~nv~~sD~GtY~C~v~~~p~g~~--~~~~~L~V~ 100 (100)
T cd05888 68 LRNAVQADEGKYKCRVITFPAGNF--EAELVLTVW 100 (100)
T ss_pred EecCccccceEEEEEEEeCCCCCe--eeEEEEEeC
Confidence 345677799999999864332122 667777775
No 7
>cd05877 Ig_LP_like Immunoglobulin (Ig)-like domain of human cartilage link protein (LP). Ig_LP_like: immunoglobulin (Ig)-like domain similar to that that found in human cartilage link protein (LP). In cartilage, chondroitin-keratan sulfate proteoglycan (CSPG), aggrecan, forms cartilage link protein stabilized aggregates with hyaluronan (HA). These aggregates contribute to the tissue's load bearing properties. Aggregates having other CSPGs substituting for aggrecan may contribute to the structural integrity of many different tissues. Members of the vertebrate HPLN (hyaluronan/HA and proteoglycan binding link) protein family are physically linked adjacent to CSPG genes.
Probab=31.93 E-value=54 Score=22.30 Aligned_cols=19 Identities=26% Similarity=0.394 Sum_probs=14.6
Q ss_pred cCccceeEecCCeEEEEee
Q 032439 88 LDAERIERVDDNTFRCYVY 106 (140)
Q Consensus 88 LDp~~lerLgd~tFR~~v~ 106 (140)
|--..++.-|.|+|+|.+.
T Consensus 70 L~I~~v~~~DsG~Y~C~v~ 88 (106)
T cd05877 70 LVITDLRLEDYGRYRCEVI 88 (106)
T ss_pred EEEccCChHHCEEEEEEEE
Confidence 4445566678999999996
No 8
>cd05901 Ig_Versican Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican. Ig_Versican: immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican. In CSPGs, the Ig-like domain is followed by hyaluronan (HA)-binding tandem repeats, and a C-terminal region with epidermal growth factor-like, lectin-like, and complement regulatory protein-like domains. Separating these N- and C-terminal regions is a nonhomologous glycosaminoglycan attachment region. In cartilage, the CSPG aggrecan (not included in this group) forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Like aggrecan, versican has a wide distribution in connective tissue and extracellular matrices. Aggregates having other CSPGs substituting for aggrecan may contribute to the structural integrity of many different tissues. Members of the vertebrate HPLN (hyaluronan/HA
Probab=31.49 E-value=66 Score=24.09 Aligned_cols=22 Identities=23% Similarity=0.448 Sum_probs=16.4
Q ss_pred eeecCccceeEecCCeEEEEee
Q 032439 85 YSVLDAERIERVDDNTFRCYVY 106 (140)
Q Consensus 85 yALLDp~~lerLgd~tFR~~v~ 106 (140)
.|-|--..++.-|.|+|||.+.
T Consensus 78 ~asL~i~~v~~sD~G~Y~C~V~ 99 (117)
T cd05901 78 DASLTIVKLRASDAGVYRCEVM 99 (117)
T ss_pred ceEEEEcccccccCEEEEEEEE
Confidence 3455556677779999999985
No 9
>COG0694 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]
Probab=30.97 E-value=14 Score=27.12 Aligned_cols=17 Identities=18% Similarity=0.333 Sum_probs=13.1
Q ss_pred eeeecCCCccceeeeee
Q 032439 3 MALNCSSSTCITFSYNK 19 (140)
Q Consensus 3 ~~~~~~~~~~~~~~~~~ 19 (140)
+--+|++|+.|+.++..
T Consensus 49 l~GaC~gC~sS~~TLk~ 65 (93)
T COG0694 49 LGGACSGCPSSTVTLKN 65 (93)
T ss_pred eCCcCCCCcccHHHHHH
Confidence 34589999999887654
No 10
>cd08904 START_STARD6-like Lipid-binding START domain of mammalian STARD6 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD6 and related domains. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD6 is expressed in male germ cells of normal rats, and in the steroidogenic Leydig cells of perinatal hypothyroid testes. It may play a pivotal role in the steroidogenesis as well as in the spermatogenesis of normal rats. STARD6 has also been detected in the rat nervous system, and may participate in neurosteroid synthesis.
Probab=30.85 E-value=1.8e+02 Score=23.49 Aligned_cols=64 Identities=20% Similarity=0.266 Sum_probs=41.4
Q ss_pred EEeeeeccCcchhhhhcCcce----eeeecCccceeEecCCeEEEEeeeeeEEEEEEce--EEEEEEEEc
Q 032439 63 ESVRVRQLQRPLIEYMSLPAS----QYSVLDAERIERVDDNTFRCYVYRFKFFAFEICP--VLLVRVEEQ 126 (140)
Q Consensus 63 ~~i~V~e~~~~L~eYLrqPa~----vyALLDp~~lerLgd~tFR~~v~~L~ff~leV~P--VVdLrV~~~ 126 (140)
..--++.....|-+||.++.. =.++...+-||+|+++|+-+.-..-.+.+.-|-| .|++|-|..
T Consensus 50 ~egvi~~~~e~v~~~l~~~e~r~~Wd~~~~~~~iie~Id~~T~I~~~~~~~~~~~~vspRDfV~vr~~~r 119 (204)
T cd08904 50 VEGIIPESPAKLIQFMYQPEHRIKWDKSLQVYKMLQRIDSDTFICHTITQSFAMGSISPRDFVDLVHIKR 119 (204)
T ss_pred EEEEecCCHHHHHHHHhccchhhhhcccccceeeEEEeCCCcEEEEEecccccCCcccCceEEEEEEEEE
Confidence 445566667788999999872 2366667889999999987664332222111444 567777643
No 11
>COG3131 MdoG Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]
Probab=27.36 E-value=93 Score=29.36 Aligned_cols=39 Identities=18% Similarity=0.269 Sum_probs=33.4
Q ss_pred eeeeecCccceeEecCCeEEEEeeeeeEEEEEEceEEEEEEEE
Q 032439 83 SQYSVLDAERIERVDDNTFRCYVYRFKFFAFEICPVLLVRVEE 125 (140)
Q Consensus 83 ~vyALLDp~~lerLgd~tFR~~v~~L~ff~leV~PVVdLrV~~ 125 (140)
.+|||||.-.++ |-||+.+++=+-.-++|+-.|-+|..-
T Consensus 225 tvYALLDsps~t----GAYRFvI~pG~~~vmDV~a~Ly~R~~i 263 (534)
T COG3131 225 TVYALLDSPSAT----GAYRFVIHPGKDTVMDVQAHLYLRKDI 263 (534)
T ss_pred EEEEEecCCCcc----ceeEEEEecCCceEEEeeceEeeccch
Confidence 499999998875 899999999998888999888888654
No 12
>PF14085 DUF4265: Domain of unknown function (DUF4265)
Probab=27.34 E-value=2e+02 Score=21.09 Aligned_cols=44 Identities=23% Similarity=0.357 Sum_probs=27.7
Q ss_pred ceeEecCCeEEEEeeeeeEEEE--------EEc--eEEEEEEEEcCCceEEEEe
Q 032439 92 RIERVDDNTFRCYVYRFKFFAF--------EIC--PVLLVRVEEQPNGCCIKLL 135 (140)
Q Consensus 92 ~lerLgd~tFR~~v~~L~ff~l--------eV~--PVVdLrV~~~~~~c~v~~l 135 (140)
+-+++|+|+|++.=-|+=.-++ +-. .-...+|...++.+|++++
T Consensus 5 wa~~l~~~~y~l~n~Pf~a~glA~gDvV~~~~~~g~~~~~~~v~~sGnsTiRv~ 58 (117)
T PF14085_consen 5 WAERLGDDTYRLDNIPFFAYGLALGDVVRAEPDDGELWFQKVVESSGNSTIRVI 58 (117)
T ss_pred eEEEcCCCEEEEEecccccCCCCCCCEEEEEeCCCeEEEEEEEecCCCEEEEEE
Confidence 4578899999988777643333 222 1234555566777887765
No 13
>PRK02899 adaptor protein; Provisional
Probab=26.41 E-value=52 Score=26.56 Aligned_cols=43 Identities=21% Similarity=0.323 Sum_probs=30.3
Q ss_pred ceeEecCCeEEEEeeeeeE-------------------------------EEEEEceEEEEEEEEcC-CceEEEE
Q 032439 92 RIERVDDNTFRCYVYRFKF-------------------------------FAFEICPVLLVRVEEQP-NGCCIKL 134 (140)
Q Consensus 92 ~lerLgd~tFR~~v~~L~f-------------------------------f~leV~PVVdLrV~~~~-~~c~v~~ 134 (140)
+||||.+||.||+++.-.+ ++|+..--|++.|.+.+ +|+.+-+
T Consensus 2 kiErInentIrv~it~~DL~eRgi~~~dL~~n~~k~e~lF~~mm~Ea~~e~~F~~~~pl~~qv~p~~~~gl~l~I 76 (197)
T PRK02899 2 RLERLNYNKIKIFLTFDDLSERGLTKEDLWRDAPKVHQLFRDMMQEANKELGFEADGPIAVEVFSLQAQGMVVIV 76 (197)
T ss_pred CeeEccCCeEEEEEeHHHHHHcCCCHHHHhcCcHHHHHHHHHHHHHhhhccCcccCCeEEEEEEecCCCcEEEEE
Confidence 5899999999999864321 24444434888888888 7776654
No 14
>COG3427 Carbon monoxide dehydrogenase subunit G, CoxG [Energy production and conversion]
Probab=26.13 E-value=43 Score=26.43 Aligned_cols=42 Identities=14% Similarity=0.238 Sum_probs=30.6
Q ss_pred EEEeeeeccCcchhhhhcCcceeeeecCc-cceeEecCCeEEEEee
Q 032439 62 KESVRVRQLQRPLIEYMSLPASQYSVLDA-ERIERVDDNTFRCYVY 106 (140)
Q Consensus 62 ~~~i~V~e~~~~L~eYLrqPa~vyALLDp-~~lerLgd~tFR~~v~ 106 (140)
+++|..| ..-.-++|.+|+.+.+.+-. +.+|..|| .|.+++.
T Consensus 6 ~f~V~~p--~e~Vw~~L~dpe~~a~ciPG~qs~e~~g~-e~~~~v~ 48 (146)
T COG3427 6 TFRVAAP--PEAVWEFLNDPEQVAACIPGVQSVETNGD-EYTAKVK 48 (146)
T ss_pred eEEecCC--HHHHHHHhcCHHHHHhhcCCcceeeecCC-eEEEEEE
Confidence 3444443 35678899999987777766 67888888 8887765
No 15
>cd05886 Ig1_Nectin-1_like First immunoglobulin (Ig) domain of nectin-1 (also known as poliovirus receptor related protein 1, or as CD111) and similar proteins. Ig1_Nectin-1_like: domain similar to the first immunoglobulin (Ig) domain of nectin-1 (also known as poliovirus receptor related protein 1, or as CD111). Nectin-1 belongs to the nectin family comprised of four transmembrane glycoproteins (nectins-1 through -4). Nectins are synaptic cell adhesion molecules (CAMs) which facilitate adhesion and signaling at various intracellular junctions. Nectins form homophilic cis-dimers, followed by homophilic and heterophilic trans-dimers involved in cell-cell adhesion. In addition nectins heterophilically trans-interact with other CAMs such as nectin-like molecules (Necls), nectin-1 for example, has been shown to trans-interact with Necl-1. Nectins also interact with various other proteins, including the actin filament (F-actin)-binding protein, afadin. Mutation in the human nectin-1 gene is
Probab=23.18 E-value=56 Score=23.21 Aligned_cols=18 Identities=28% Similarity=0.578 Sum_probs=14.5
Q ss_pred cceeEecCCeEEEEeeee
Q 032439 91 ERIERVDDNTFRCYVYRF 108 (140)
Q Consensus 91 ~~lerLgd~tFR~~v~~L 108 (140)
..++.-|+|+|+|.+...
T Consensus 68 ~nl~~~D~G~Y~C~v~t~ 85 (99)
T cd05886 68 SRLELEDEGVYICEFATF 85 (99)
T ss_pred cCCccccCEEEEEEEEeC
Confidence 456777999999999863
No 16
>cd05902 Ig_Neurocan Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), neurocan. Ig_Neurocan: immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), neurocan. In CSPGs, the Ig-like domain is followed by hyaluronan (HA)-binding tandem repeats, and a C-terminal region with epidermal growth factor-like, lectin-like, and complement regulatory protein-like domains. Separating these N- and C-terminal regions is a nonhomologous glycosaminoglycan attachment region. In cartilage, the CSPG aggrecan (not included in this group) forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Unlike aggrecan which is widely distributed in connective tissue and extracellular matrices, neurocan is localized almost exclusively in nervous tissue. Aggregates having other CSPGs substituting for aggrecan may contribute to the structural integrity of many differen
Probab=23.01 E-value=85 Score=22.79 Aligned_cols=23 Identities=30% Similarity=0.446 Sum_probs=16.9
Q ss_pred eeecCccceeEecCCeEEEEeee
Q 032439 85 YSVLDAERIERVDDNTFRCYVYR 107 (140)
Q Consensus 85 yALLDp~~lerLgd~tFR~~v~~ 107 (140)
.|-|--..++.-|.|+|+|.+..
T Consensus 71 ~asL~i~nv~~~D~G~Y~C~v~~ 93 (110)
T cd05902 71 NASLVLSRLRYSDSGTYRCEVVL 93 (110)
T ss_pred eEEEEECCCCHHHCEEEEEEEEE
Confidence 34444556777789999999985
No 17
>cd05900 Ig_Aggrecan Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), aggrecan. Ig_Aggrecan: immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), aggrecan. These aggregates contribute to the tissue's load bearing properties. In CSPGs, the Ig-like domain is followed by hyaluronan (HA)-binding tandem repeats, and a C-terminal region with epidermal growth factor-like, lectin-like, and complement regulatory protein-like domains. Separating these N- and C-terminal regions is a nonhomologous glycosaminoglycan attachment region. In cartilage, aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggrecan has a wide distribution in connective tissue and extracellular matrices. Members of the vertebrate HPLN (hyaluronan/HA and proteoglycan binding link) protein family are physically linked adjacent to CSPG genes.
Probab=22.97 E-value=96 Score=22.54 Aligned_cols=22 Identities=27% Similarity=0.534 Sum_probs=16.5
Q ss_pred eeecCccceeEecCCeEEEEee
Q 032439 85 YSVLDAERIERVDDNTFRCYVY 106 (140)
Q Consensus 85 yALLDp~~lerLgd~tFR~~v~ 106 (140)
.+-|--..++.-|.|+|+|.+.
T Consensus 73 ~asL~I~nl~~sDsG~Y~C~V~ 94 (112)
T cd05900 73 DATLEITELRSNDSGTYRCEVM 94 (112)
T ss_pred CcEEEEeecccccCEEEEEEEe
Confidence 3444456677778999999996
No 18
>PF09189 DUF1952: Domain of unknown function (DUF1952); InterPro: IPR015272 In Escherichia coli, the MoaD protein plays a central role in the conversion of precursor Z to molybdopterin (MPT) during molybdenum cofactor biosynthesis. MoaD has a fold similar to that of ubiquitin and contains a highly conserved C-terminal Gly-Gly motif, which in its active form contains a transferrable sulphur in the form of a thiocarboxylate group []. This entry represents a domain found in MoaD-related proteins, but with a different structure from the MoaD domain; this domain consists of a TBP-like fold of beta/apha/beta(4)/alpha. These proteins are found in Thermus thermophilus and contain a ubiquitin-like MoaD domain at their N-terminal, and the domain represented by this entry at their C-terminal. One of these proteins is threonine synthase (4.2.3.1 from EC), which catalyses the conversion of O-phospho-L-homoserine to L-threonine and phosphate. ; PDB: 1V8C_B.
Probab=22.90 E-value=80 Score=22.83 Aligned_cols=32 Identities=28% Similarity=0.321 Sum_probs=25.4
Q ss_pred eEecCCeEEEEeeeeeEEEEEEceEEEEEEEE
Q 032439 94 ERVDDNTFRCYVYRFKFFAFEICPVLLVRVEE 125 (140)
Q Consensus 94 erLgd~tFR~~v~~L~ff~leV~PVVdLrV~~ 125 (140)
.+++||.|+..--...|-..+-.||.+|+|-.
T Consensus 24 ~~~~dg~y~~pga~Vrfr~~~p~~vGSL~ip~ 55 (78)
T PF09189_consen 24 RREGDGVYRGPGARVRFREAEPRPVGSLRIPQ 55 (78)
T ss_dssp EEEETTEEEETTEEEEEEEEEEEEETTEEEEE
T ss_pred eEcCCCcEecCCeEEEeccCCceeccceeccc
Confidence 35789999998888888888888888777643
No 19
>cd05871 Ig_Semaphorin_classIII Immunoglobulin (Ig)-like domain of class III semaphorin. Ig_Semaphorin_class III; Immunoglobulin (Ig)-like domain of class III semaphorins. Semaphorins are classified into various classes on the basis of structural features additional to the Sema domain. Class III semaphorins are a vertebrate class having a Sema domain, an Ig domain, a short basic domain, and are secreted. They have been shown to be axonal guidance cues and have a part in the regulation of the cardiovascular, immune and respiratory systems. Sema3A, the prototype member of this class III subfamily, induces growth cone collapse and is an inhibitor of axonal sprouting. In perinatal rat cortex as a chemoattractant, it functions to direct, for pyramidal neurons, the orientated extension of apical dendrites. It may play a role, prior to the development of apical dendrites, in signaling the radial migration of newborn cortical neurons towards the upper layers. Sema3A selectively inhibits vascula
Probab=21.22 E-value=1.4e+02 Score=20.39 Aligned_cols=34 Identities=18% Similarity=0.377 Sum_probs=23.0
Q ss_pred ccceeEecCCeEEEEeeeeeEEEEEEceEEEEEEEE
Q 032439 90 AERIERVDDNTFRCYVYRFKFFAFEICPVLLVRVEE 125 (140)
Q Consensus 90 p~~lerLgd~tFR~~v~~L~ff~leV~PVVdLrV~~ 125 (140)
-+.+++-|.|+|.|.+.--.+ +-.+. .+.|.|+.
T Consensus 57 I~~~~~~DsG~Y~C~a~~~~~-~~~~~-~~~l~v~~ 90 (91)
T cd05871 57 LRSLQRSDAGVYTCTAVEHSF-SQTLA-KYTLHVIE 90 (91)
T ss_pred EeeCChhHCEEEEEEEEccCC-eEEEE-EEEEEEec
Confidence 345677789999999975443 43333 77777764
No 20
>PHA02914 Immunoglobulin-like domain protein; Provisional
Probab=20.23 E-value=6e+02 Score=23.95 Aligned_cols=71 Identities=14% Similarity=0.233 Sum_probs=52.0
Q ss_pred EEEEeeeeccCcchhhhhcCcceeeeecCccceeEecCCeEEEEeee------eeEEEEEEceEEEEEEEEcCCceEE
Q 032439 61 RKESVRVRQLQRPLIEYMSLPASQYSVLDAERIERVDDNTFRCYVYR------FKFFAFEICPVLLVRVEEQPNGCCI 132 (140)
Q Consensus 61 q~~~i~V~e~~~~L~eYLrqPa~vyALLDp~~lerLgd~tFR~~v~~------L~ff~leV~PVVdLrV~~~~~~c~v 132 (140)
.+..+.|+..+..-.-|--+|..+|++.-++. ..=++|+|||--.- -.-+.+.|.|-|+..-+.-.+.-+.
T Consensus 57 ~ki~~sI~Nag~dn~CyCGd~dkeYsf~~~Nv-s~sdEGrYrCIFYLn~~EtyrH~I~vrVmPKId~t~~~~~dk~~~ 133 (500)
T PHA02914 57 KEIESSINNAGEDNVCYCGDPDKEYSFIEENI-GEHEDGDFKCIFYLGDNESHKHEILVRKAPKIDTTFLEFNDKHTC 133 (500)
T ss_pred eEEEEeccCCCCCCccccCCCcceeEEEecCc-ccccCCcEEEEEEeCCceeEEEEEEEEEccceeeeeeecCCCcEE
Confidence 35567888887777789999999999987665 55679999996542 2346778889888666665554443
Done!