Query 042638
Match_columns 92
No_of_seqs 82 out of 84
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 08:09:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042638.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042638hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00031 Cystatin: Cystatin do 99.8 3.2E-19 6.9E-24 114.7 2.3 63 4-67 1-63 (94)
2 cd00042 CY Substituted updates 99.7 8E-18 1.7E-22 110.3 5.9 61 4-66 1-61 (105)
3 smart00043 CY Cystatin-like do 99.7 6E-17 1.3E-21 106.7 4.4 63 3-66 3-65 (107)
4 PF07430 PP1: Phloem filament 96.4 0.0049 1.1E-07 47.5 4.4 71 3-76 114-187 (202)
5 TIGR01638 Atha_cystat_rel Arab 95.6 0.0087 1.9E-07 41.1 2.0 54 10-66 9-62 (92)
6 PF00666 Cathelicidins: Cathel 94.3 0.021 4.5E-07 37.2 1.1 34 16-49 4-37 (67)
7 PF07430 PP1: Phloem filament 90.3 0.3 6.4E-06 37.9 3.0 71 3-77 7-85 (202)
8 PF06907 Latexin: Latexin; In 90.3 0.23 5E-06 38.8 2.4 60 8-67 1-62 (220)
9 PF12870 Lumazine_bd: Lumazine 83.3 4 8.8E-05 25.3 4.9 62 20-85 50-111 (111)
10 PF02995 DUF229: Protein of un 70.6 4.9 0.00011 33.7 3.2 31 3-33 451-481 (497)
11 PF02985 HEAT: HEAT repeat; I 66.4 8.2 0.00018 20.3 2.5 16 12-27 12-27 (31)
12 PF10077 DUF2314: Uncharacteri 65.0 16 0.00036 25.7 4.6 61 13-83 1-67 (133)
13 cd06380 PBP1_iGluR_AMPA N-term 61.9 5.9 0.00013 30.3 1.9 27 13-39 10-36 (382)
14 TIGR02105 III_needle type III 60.1 12 0.00025 24.5 2.8 21 9-29 29-49 (72)
15 PF07739 TipAS: TipAS antibiot 55.8 15 0.00032 23.8 2.8 24 9-32 52-75 (118)
16 cd06382 PBP1_iGluR_Kainate N-t 54.3 9.8 0.00021 28.3 2.0 28 4-32 3-30 (327)
17 PF07849 DUF1641: Protein of u 48.4 18 0.00039 21.0 2.1 16 11-26 20-35 (42)
18 PRK15344 type III secretion sy 47.0 26 0.00056 23.1 2.9 21 9-29 28-48 (71)
19 cd06391 PBP1_iGluR_delta_2 N-t 46.7 20 0.00043 28.9 2.7 37 2-40 1-37 (400)
20 PF03752 ALF: Short repeats of 45.2 18 0.00039 20.9 1.8 13 13-25 12-24 (43)
21 cd06368 PBP1_iGluR_non_NMDA_li 44.3 18 0.0004 26.6 2.1 21 14-34 11-31 (324)
22 PF01094 ANF_receptor: Recepto 39.4 32 0.00069 25.0 2.7 25 15-39 1-25 (348)
23 PF00714 IFN-gamma: Interferon 38.9 24 0.00052 25.9 1.9 18 8-25 106-123 (138)
24 PF13513 HEAT_EZ: HEAT-like re 38.4 27 0.00058 19.8 1.8 16 12-27 40-55 (55)
25 PF03101 FAR1: FAR1 DNA-bindin 36.2 48 0.001 20.6 2.8 22 70-91 63-85 (91)
26 cd06385 PBP1_NPR_A Ligand-bind 34.4 40 0.00087 26.1 2.7 21 14-34 18-38 (405)
27 PF07539 DRIM: Down-regulated 33.4 33 0.00071 24.5 1.9 28 10-39 27-54 (141)
28 PF11030 Nucleocapsid-N: Nucle 32.3 35 0.00076 25.5 1.9 40 30-73 117-157 (167)
29 PRK13894 conjugal transfer ATP 31.3 2.7E+02 0.0058 22.1 7.5 73 1-86 243-318 (319)
30 PF12399 BCA_ABC_TP_C: Branche 30.2 31 0.00068 18.0 1.0 9 11-19 12-20 (23)
31 PF12717 Cnd1: non-SMC mitotic 29.3 46 0.001 23.6 2.1 36 10-45 73-109 (178)
32 PLN00066 PsbP domain-containin 28.1 29 0.00063 27.7 0.9 23 38-60 193-215 (262)
33 PF13180 PDZ_2: PDZ domain; PD 28.0 64 0.0014 19.7 2.3 20 56-75 63-82 (82)
34 TIGR01660 narH nitrate reducta 27.3 41 0.00089 29.3 1.8 14 9-22 300-313 (492)
35 cd06392 PBP1_iGluR_delta_1 N-t 26.6 63 0.0014 26.4 2.7 38 2-41 1-38 (400)
36 PF10304 DUF2411: Domain of un 26.4 85 0.0018 17.6 2.5 20 10-29 16-35 (36)
37 PF00514 Arm: Armadillo/beta-c 26.2 1E+02 0.0022 16.5 2.8 18 10-27 22-39 (41)
38 PF15418 DUF4625: Domain of un 26.2 79 0.0017 22.4 2.8 29 49-78 32-60 (132)
39 COG3360 Uncharacterized conser 25.7 38 0.00082 22.5 1.0 47 16-66 19-65 (71)
40 PF03415 Peptidase_C11: Clostr 25.2 20 0.00044 29.2 -0.4 11 1-11 105-115 (397)
41 COG3836 HpcH 2,4-dihydroxyhept 24.1 85 0.0018 25.3 2.9 24 8-31 186-209 (255)
42 KOG2333 Uncharacterized conser 23.9 48 0.001 29.5 1.6 43 28-73 363-408 (614)
43 smart00185 ARM Armadillo/beta- 23.9 1.1E+02 0.0025 15.5 2.6 18 10-27 22-39 (41)
44 PRK10984 DNA-binding transcrip 23.6 1.1E+02 0.0024 22.2 3.2 28 3-30 79-106 (127)
45 PF03584 Herpes_ICP4_N: Herpes 23.2 76 0.0016 24.2 2.3 19 3-21 22-40 (173)
46 PF09682 Holin_LLH: Phage holi 22.2 88 0.0019 21.0 2.4 22 8-29 85-106 (108)
47 cd06393 PBP1_iGluR_Kainate_Glu 22.0 79 0.0017 24.5 2.3 21 14-34 21-41 (384)
48 PF14398 ATPgrasp_YheCD: YheC/ 21.2 81 0.0018 24.1 2.2 23 65-87 127-150 (262)
49 cd04268 ZnMc_MMP_like Zinc-dep 20.5 1.5E+02 0.0033 19.9 3.3 22 13-34 13-34 (165)
50 cd06388 PBP1_iGluR_AMPA_GluR4 20.4 95 0.0021 24.5 2.5 37 3-41 2-39 (371)
51 PF07340 Herpes_IE1: Cytomegal 20.4 1.4E+02 0.003 25.5 3.6 33 2-35 15-49 (392)
52 cd00869 PI3Ka_II Phosphoinosit 20.3 44 0.00096 24.8 0.6 30 12-44 83-112 (169)
53 cd01783 DAGK_delta_RA Ubiquiti 20.3 70 0.0015 22.1 1.5 36 12-47 25-60 (97)
No 1
>PF00031 Cystatin: Cystatin domain; InterPro: IPR000010 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The cystatins are cysteine proteinase inhibitors belonging to MEROPS inhibitor family I25, clan IH [, , ]. They mainly inhibit peptidases belonging to peptidase families C1 (papain family) and C13 (legumain family). The cystatin family includes: The Type 1 cystatins, which are intracellular cystatins that are present in the cytosol of many cell types, but can also appear in body fluids at significant concentrations. They are single-chain polypeptides of about 100 residues, which have neither disulphide bonds nor carbohydrate side chains. The Type 2 cystatins, which are mainly extracellular secreted polypeptides synthesised with a 19-28 residue signal peptide. They are broadly distributed and found in most body fluids. The Type 3 cystatins, which are multidomain proteins. The mammalian representatives of this group are the kininogens. There are three different kininogens in mammals: H- (high molecular mass, IPR002395 from INTERPRO) and L- (low molecular mass) kininogen which are found in a number of species, and T-kininogen that is found only in rat. Unclassified cystatins. These are cystatin-like proteins found in a range of organisms: plant phytocystatins, fetuin in mammals, insect cystatins and a puff adder venom cystatin which inhibits metalloproteases of the MEROPS peptidase family M12 (astacin/adamalysin). Also a number of the cystatins-like proteins have been shown to be devoid of inhibitory activity. All true cystatins inhibit cysteine peptidases of the papain family (MEROPS peptidase family C1), and some also inhibit legumain family enzymes (MEROPS peptidase family C13). These peptidases play key roles in physiological processes, such as intracellular protein degradation (cathepsins B, H and L), are pivotal in the remodelling of bone (cathepsin K), and may be important in the control of antigen presentation (cathepsin S, mammalian legumain). Moreover, the activities of such peptidases are increased in pathophysiological conditions, such as cancer metastasis and inflammation. Additionally, such peptidases are essential for several pathogenic parasites and bacteria. Thus in animals cystatins not only have capacity to regulate normal body processes and perhaps cause disease when down-regulated, but in other organisms may also participate in defence against biotic and abiotic stress. ; GO: 0004869 cysteine-type endopeptidase inhibitor activity; PDB: 3L0R_B 2W9P_K 2W9Q_A 3S67_A 3QRD_D 1R4C_G 3GAX_A 1TIJ_B 1G96_A 3NX0_A ....
Probab=99.75 E-value=3.2e-19 Score=114.68 Aligned_cols=63 Identities=25% Similarity=0.427 Sum_probs=60.6
Q ss_pred CCccccCCCChHHHHHHHHHHHHHhhhcCCCCcchhhhhhhhhhhhhhhhheeeeeeEeccccc
Q 042638 4 PGWQAVPVHDPQVQDAANHAIQTIQQRSNSLFPYVLQEIVHAKAEVIEDFAKFAMLLKVKRGEK 67 (92)
Q Consensus 4 gG~~~v~~~DP~Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~AqsQVV~g~~K~~l~lklkrg~k 67 (92)
|||.+++++||+|+++|++|+..||+.||+.+.|++.+|++|++|||+| .+|.|.+.+.+++-
T Consensus 1 Gg~~~~~~~dp~v~~~~~~al~~~N~~~~~~~~~~~~~v~~a~~QvV~G-~~Y~i~~~~~~t~C 63 (94)
T PF00031_consen 1 GGPSPVDPNDPEVQEAAEFALDKFNEQSNSGYKFKLVKVISATTQVVAG-INYYIEFEVGETNC 63 (94)
T ss_dssp SSEEEECTTSHHHHHHHHHHHHHHHHHSTTSEEEEEEEEEEEEEEESSS-EEEEEEEEEEEEEE
T ss_pred CCCccCCCCCHHHHHHHHHHHHHHHHhCcccCcceeeeeeEEEEeecCC-ceEEEEEEEEcccc
Confidence 8999999999999999999999999999999999999999999999999 79999999998854
No 2
>cd00042 CY Substituted updates: Jan 30, 2002
Probab=99.72 E-value=8e-18 Score=110.27 Aligned_cols=61 Identities=21% Similarity=0.451 Sum_probs=58.9
Q ss_pred CCccccCCCChHHHHHHHHHHHHHhhhcCCCCcchhhhhhhhhhhhhhhhheeeeeeEecccc
Q 042638 4 PGWQAVPVHDPQVQDAANHAIQTIQQRSNSLFPYVLQEIVHAKAEVIEDFAKFAMLLKVKRGE 66 (92)
Q Consensus 4 gG~~~v~~~DP~Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~AqsQVV~g~~K~~l~lklkrg~ 66 (92)
|||++++++||+|+++|++|+..||+.||+.| |++.+|++|++|||+| .+|.+.+++++.+
T Consensus 1 gg~~~~~~~d~~~~~~~~~a~~~~N~~~~~~~-~~~~~i~~~~~QvvaG-~~y~i~~~~~~t~ 61 (105)
T cd00042 1 GGPSDIPANDPEVQELADFAVAEYNKKSNDKY-LEFFKVLSAKSQVVAG-TNYYITVEAGDTN 61 (105)
T ss_pred CCCccCCCCCHHHHHHHHHHHHHHHhhcCccc-eeEEEEEEEEEEEEee-eEEEEEEEEeccc
Confidence 79999999999999999999999999999999 9999999999999999 9999999999873
No 3
>smart00043 CY Cystatin-like domain. Cystatins are a family of cysteine protease inhibitors that occur mainly as single domain proteins. However some extracellular proteins such as kininogen, His-rich glycoprotein and fetuin also contain these domains.
Probab=99.67 E-value=6e-17 Score=106.68 Aligned_cols=63 Identities=27% Similarity=0.465 Sum_probs=59.5
Q ss_pred CCCccccCCCChHHHHHHHHHHHHHhhhcCCCCcchhhhhhhhhhhhhhhhheeeeeeEecccc
Q 042638 3 CPGWQAVPVHDPQVQDAANHAIQTIQQRSNSLFPYVLQEIVHAKAEVIEDFAKFAMLLKVKRGE 66 (92)
Q Consensus 3 ~gG~~~v~~~DP~Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~AqsQVV~g~~K~~l~lklkrg~ 66 (92)
.|||++++++||+|+++|++|+..||+.||+.|.|++.+|++|++|||+| .+|.+.+++++++
T Consensus 3 ~Gg~~~~~~~d~~~~~~~~~a~~~~N~~~~~~~~~~~~~v~~a~~QvvaG-~~y~l~~~v~~t~ 65 (107)
T smart00043 3 LGGPSDVPPNDPEVQEAADFAVAEYNKKSNDKYELRVIKVVSAKSQVVAG-TNYYLKVEVGETN 65 (107)
T ss_pred CCCCccCCCCCHHHHHHHHHHHHHHHHhcccchhhhhhhhheeeeeeecc-eEEEEEEEEEece
Confidence 48999999999999999999999999999999999999999999999999 8999999988654
No 4
>PF07430 PP1: Phloem filament protein PP1; InterPro: IPR009994 This domain represents a conserved region approximately 200 residues long, four copies of which are found within the plant phloem filament protein PP1. This is one of the constituents of the proteinaceous filaments found in the sieve elements of Cucurbita phloem [].
Probab=96.44 E-value=0.0049 Score=47.51 Aligned_cols=71 Identities=13% Similarity=0.270 Sum_probs=57.6
Q ss_pred CCCcccc-CCCChHHHHHHHHHHHHHhhhcCCCCcchhhhhhhhhhhhhhh-hheeeeeeEeccc-cceeeeeeEEE
Q 042638 3 CPGWQAV-PVHDPQVQDAANHAIQTIQQRSNSLFPYVLQEIVHAKAEVIED-FAKFAMLLKVKRG-EKEEKLNVEVH 76 (92)
Q Consensus 3 ~gG~~~v-~~~DP~Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~AqsQVV~g-~~K~~l~lklkrg-~k~e~~~vev~ 76 (92)
...|.++ ++++|.||+.+.+||.++| ++|+ --|-.+|.++-.|=+.. -.||.|++.-+-| ++.-+|.+-|-
T Consensus 114 ~~~Wi~I~nin~p~VQeLgkFAV~EhN-K~gd--~LkF~KV~eGw~q~l~~d~ikYrLhI~AkDg~G~~~~YeAvV~ 187 (202)
T PF07430_consen 114 SKKWIPIPNINNPFVQELGKFAVIEHN-KAGD--KLKFEKVYEGWYQDLGNDGIKYRLHIVAKDGLGRLGNYEAVVW 187 (202)
T ss_pred cCCCEECCCCCcHHHHHHHHHHHHHHh-hcCC--ceEEEEEeeEEEEeccCCCceEEEEEEeecCCCCcCceEEEEE
Confidence 3578777 8899999999999999999 6666 44567888998887753 3899999999999 78888877554
No 5
>TIGR01638 Atha_cystat_rel Arabidopsis thaliana cystatin-related protein. This model represents a family similar in sequence and probably homologous to a large family of cysteine proteinase inhibitors, or cystatins, as described by pfam model pfam00031. Cystatins may help plants resist attack by insects.
Probab=95.56 E-value=0.0087 Score=41.09 Aligned_cols=54 Identities=11% Similarity=0.057 Sum_probs=44.4
Q ss_pred CCCChHHHHHHHHHHHHHhhhcCCCCcchhhhhhhhhhhhhhhhheeeeeeEecccc
Q 042638 10 PVHDPQVQDAANHAIQTIQQRSNSLFPYVLQEIVHAKAEVIEDFAKFAMLLKVKRGE 66 (92)
Q Consensus 10 ~~~DP~Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~AqsQVV~g~~K~~l~lklkrg~ 66 (92)
.++.--..+-|+.|++.||+.-+ .-+++++|++|..|..+| .+|.+++..+-..
T Consensus 9 ~T~rd~~~~la~~al~k~N~~~~--t~lEfV~vVrAn~~~~~g-~~~yITF~Ard~~ 62 (92)
T TIGR01638 9 ETNRDLLERLSYVASKKYNDTKF--LNLELVEVVRANYRGGAK-SKSYITFEARDKP 62 (92)
T ss_pred cCHHHHHHHHHHHHHHHhhhhcC--ceEEEEEEEEEEeeccce-EEEEEEEEEecCC
Confidence 34445567999999999999876 567999999999999999 8888888776443
No 6
>PF00666 Cathelicidins: Cathelicidin; InterPro: IPR001894 The precursor sequences of a number of antimicrobial peptides secreted by neutrophils (polymorphonuclear leukocytes) upon activation have been found to be evolutionarily related and are collectively known as cathelicidins []. Structurally, these proteins consist of three domains: a signal sequence, a conserved region of about 100 residues that contains four cysteines involved in two disulphide bonds, and a highly divergent C-terminal section of variable size. It is in this C-terminal section that the antibacterial peptides are found; they are proteolytically processed from their precursor by enzymes such as elastase. This structure is shown in the following schematic representation: +---+--------------------------------+--------------------+ |Sig| Propeptide C C C C | Antibacterial pep. | +---+----------------|--|--|--|------+--------------------+ | | | | +--+ +--+ 'C': conserved cysteine involved in a disulphide bond. ; GO: 0006952 defense response, 0005576 extracellular region; PDB: 1KWI_A 1PFP_A 1LXE_A 1N5P_A 1N5H_A.
Probab=94.32 E-value=0.021 Score=37.15 Aligned_cols=34 Identities=18% Similarity=0.056 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHhhhcCCCCcchhhhhhhhhhhh
Q 042638 16 VQDAANHAIQTIQQRSNSLFPYVLQEIVHAKAEV 49 (92)
Q Consensus 16 Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~AqsQV 49 (92)
.++|...||..||++|.+.+.|+|++..---.+.
T Consensus 4 Y~eav~~Av~~yN~~s~~~nlfRLLe~~p~P~~~ 37 (67)
T PF00666_consen 4 YEEAVLRAVDFYNQGSSGENLFRLLELDPPPGWD 37 (67)
T ss_dssp CHHHHHHHHHHHHHCS-SSEEEEEEEE---SSSS
T ss_pred HHHHHHHHHHHHhcCCCccCceeeeeccCCCCCC
Confidence 4799999999999999999999999987544433
No 7
>PF07430 PP1: Phloem filament protein PP1; InterPro: IPR009994 This domain represents a conserved region approximately 200 residues long, four copies of which are found within the plant phloem filament protein PP1. This is one of the constituents of the proteinaceous filaments found in the sieve elements of Cucurbita phloem [].
Probab=90.35 E-value=0.3 Score=37.86 Aligned_cols=71 Identities=23% Similarity=0.365 Sum_probs=47.7
Q ss_pred CCCcccc-CCCChHHHHHHHHHHHHHhhhc-CCCCcchhhhhhhhh--hhhhhhhheeeeeeE----eccccceeeeeeE
Q 042638 3 CPGWQAV-PVHDPQVQDAANHAIQTIQQRS-NSLFPYVLQEIVHAK--AEVIEDFAKFAMLLK----VKRGEKEEKLNVE 74 (92)
Q Consensus 3 ~gG~~~v-~~~DP~Vq~AA~~AVk~~n~~S-Nsl~~ykl~eIv~Aq--sQVV~g~~K~~l~lk----lkrg~k~e~~~ve 74 (92)
.|||-.+ ++.+|.+|+.|.|||.+++-.- ||+.+ ..|.+.- -+..++ +||-|.++ +.|-=+=|..-.|
T Consensus 7 ~~~w~~ip~v~~~~~q~v~~~~veq~k~~~~~~l~~---~~v~egwy~el~~~~-~~yrlhv~a~d~l~r~l~~e~ii~e 82 (202)
T PF07430_consen 7 SPKWIKIPDVKEPCLQEVAKFAVEQFKIQYGDSLKF---RSVVEGWYFELCPNS-LKYRLHVKAIDFLGRSLKYEAIIIE 82 (202)
T ss_pred CcccccCCcccchHHHHHHHHHHHHHhhhcccceee---eeeeeceeecccccc-eeEEEeehhhhhhccccceeeeeee
Confidence 5899777 7999999999999999998654 44432 2344443 445566 88888876 4555554544444
Q ss_pred EEe
Q 042638 75 VHK 77 (92)
Q Consensus 75 v~~ 77 (92)
=++
T Consensus 83 ~~~ 85 (202)
T PF07430_consen 83 EKP 85 (202)
T ss_pred hhh
Confidence 443
No 8
>PF06907 Latexin: Latexin; InterPro: IPR009684 This family consists of several animal specific latexin and proteins related to latexin that belong to MEROPS proteinase inhibitor family I47, clan I- []. Latexin, a protein possessing inhibitory activity against rat carboxypeptidase A1 (CPA1) and CPA2 (MEROPS peptidase family M14A), is expressed in a neuronal subset in the cerebral cortex and cells in other neural and non-neural tissues of rat [, ]. OCX-32, the 32 kDa eggshell matrix protein, is present at high levels in the uterine fluid during the terminal phase of eggshell formation, and is localised predominantly in the outer eggshell. The timing of OCX-32 secretion into the uterine fluid suggests that it may play a role in the termination of mineral deposition []. OCX-32 protein possesses limited identity (32%) to two unrelated proteins: latexin and to a skin protein that is encoded by a retinoic acid receptor-responsive gene, TIG1. Tazarotene Induced Gene 1 (TIG1) is a putative 228 transmembrane protein with a small N-terminal intracellular region, a single membrane-spanning hydrophobic region, and a large C-terminal extracellular region containing a glycosylation signal. TIG1 is up-regulated by retinoic acid receptor but not by retinoid X receptor-specific synthetic retinoids []. TIG1 may be a tumour suppressor gene whose diminished expression is involved in the malignant progression of prostate cancer [].; PDB: 1WNH_A 2BO9_B.
Probab=90.26 E-value=0.23 Score=38.82 Aligned_cols=60 Identities=25% Similarity=0.264 Sum_probs=49.1
Q ss_pred ccCCCChHHHHHHHHHHHHHhhhcCCCC-cchhhhhhhhhhhhhhhh-heeeeeeEeccccc
Q 042638 8 AVPVHDPQVQDAANHAIQTIQQRSNSLF-PYVLQEIVHAKAEVIEDF-AKFAMLLKVKRGEK 67 (92)
Q Consensus 8 ~v~~~DP~Vq~AA~~AVk~~n~~SNsl~-~ykl~eIv~AqsQVV~g~-~K~~l~lklkrg~k 67 (92)
+++|+.=--++||..|+-=||-++-|.+ .|-|..|.+|.++++.|. -||+|..-+++=..
T Consensus 1 e~~p~h~~a~rAA~va~hy~N~~~GSP~~l~~l~~V~~a~~e~ip~~G~Ky~L~FSte~~~~ 62 (220)
T PF06907_consen 1 EINPSHRPAQRAARVAQHYINYRAGSPSRLFVLQQVQKARAEDIPGEGCKYDLVFSTEEYIE 62 (220)
T ss_dssp E--TTSHHHHHHHHHHHHHHHHHH-BTTB-EEEEEEEEEEEEEETTTEEEEEEEEEEEETTT
T ss_pred CCCCcchHHHHHHHHHHHHhccccCCCceeeehhhhhhhhheeccCCCCEEEEEEEhHHhhc
Confidence 4677777889999999999999999988 888999999999999776 99999998887543
No 9
>PF12870 Lumazine_bd: Lumazine-binding domain; InterPro: IPR024267 This entry represents a lumazine-binding domain found in a family of putative lipoproteins from bacteria. Lumazine is a fluorescent accessory protein having 6,7-dimethyl-8-(1'-D-ribityl) lumazine (DMRL) as its authentic chromophore; it modulates the emission of bacterial luciferase to shorter wavelengths with increasing luminous strength.; PDB: 3K7C_C.
Probab=83.34 E-value=4 Score=25.32 Aligned_cols=62 Identities=16% Similarity=0.293 Sum_probs=37.1
Q ss_pred HHHHHHHHhhhcCCCCcchhhhhhhhhhhhhhhhheeeeeeEeccccceeeeeeEEEecCCeeeee
Q 042638 20 ANHAIQTIQQRSNSLFPYVLQEIVHAKAEVIEDFAKFAMLLKVKRGEKEEKLNVEVHKKEGTFHLN 85 (92)
Q Consensus 20 A~~AVk~~n~~SNsl~~ykl~eIv~AqsQVV~g~~K~~l~lklkrg~k~e~~~vev~~~~g~~~l~ 85 (92)
.............+...++..+|..-.. ...+...+.+..+-| +.+.+.+.|-|.+|.|-++
T Consensus 50 ~~~~~~~~~~~~~~~~~~~~~~v~~~~~---g~~A~V~v~~~~~~g-~~~~~~~~lvk~dg~Wkv~ 111 (111)
T PF12870_consen 50 EKQFASEMKKKYKKIGSIKIVEVEENTI---GDTATVTVKITYKDG-KEKTFTVPLVKEDGKWKVC 111 (111)
T ss_dssp HHHHHHHHHHHHHHTTSEEEEEEEEEEE---SSEEEEEEEEEETTS--EEEEEEEEEEETTEEEE-
T ss_pred HHHHHHHHHHhhhccCceEEEEEEEecc---CCEEEEEEEEEECCC-CeeEEEEEEEEECCEEEeC
Confidence 3333444444444555666666654433 334666666665554 5577899999999999874
No 10
>PF02995 DUF229: Protein of unknown function (DUF229); InterPro: IPR004245 Members of this family are uncharacterised with a long conserved region that may contain several domains.
Probab=70.55 E-value=4.9 Score=33.65 Aligned_cols=31 Identities=29% Similarity=0.682 Sum_probs=27.7
Q ss_pred CCCccccCCCChHHHHHHHHHHHHHhhhcCC
Q 042638 3 CPGWQAVPVHDPQVQDAANHAIQTIQQRSNS 33 (92)
Q Consensus 3 ~gG~~~v~~~DP~Vq~AA~~AVk~~n~~SNs 33 (92)
+-+|.+++.+|+.++.+|+++|..+|.....
T Consensus 451 C~~~~~~~~~~~~~~~~a~~~v~~iN~~l~~ 481 (497)
T PF02995_consen 451 CEGWKTIPTNDSLVQRIAKFLVDHINEYLKE 481 (497)
T ss_pred CcCccccccCcHHHHHHHHHHHHHHHHHHhc
Confidence 4578999999999999999999999997655
No 11
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=66.40 E-value=8.2 Score=20.26 Aligned_cols=16 Identities=31% Similarity=0.549 Sum_probs=14.0
Q ss_pred CChHHHHHHHHHHHHH
Q 042638 12 HDPQVQDAANHAIQTI 27 (92)
Q Consensus 12 ~DP~Vq~AA~~AVk~~ 27 (92)
.||+|+.||-.++..+
T Consensus 12 ~~~~VR~~a~~~l~~i 27 (31)
T PF02985_consen 12 PSPEVRQAAAECLGAI 27 (31)
T ss_dssp SSHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHH
Confidence 5899999999998776
No 12
>PF10077 DUF2314: Uncharacterized protein conserved in bacteria (DUF2314); InterPro: IPR018756 This domain of unkown function is found in various bacterial hypothetical proteins, as well as putative ankyrin repeat proteins.
Probab=65.01 E-value=16 Score=25.70 Aligned_cols=61 Identities=28% Similarity=0.455 Sum_probs=42.7
Q ss_pred ChHHHHHHHHHHHHHhhhcCCCCcchhhhhhhhhhhhhhhhheeeeeeEecc-----ccceeeeeeEEEec-CCeee
Q 042638 13 DPQVQDAANHAIQTIQQRSNSLFPYVLQEIVHAKAEVIEDFAKFAMLLKVKR-----GEKEEKLNVEVHKK-EGTFH 83 (92)
Q Consensus 13 DP~Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~AqsQVV~g~~K~~l~lklkr-----g~k~e~~~vev~~~-~g~~~ 83 (92)
||+.+.|...|-++ ++|=..++..++...+.+ ..|.+ +|+.= +...|++=|++..- ++.|.
T Consensus 1 D~~M~aA~~~Ar~t--------l~~Fw~el~~~~~~~~~~-~~~~~-VK~~f~d~~~~~~~EhmWv~~~~~~g~~~~ 67 (133)
T PF10077_consen 1 DPEMNAAIAKARET--------LPYFWRELSWERRRIVPG-LDFAL-VKLPFTDPEDEPNVEHMWVEVVDFDGDTFS 67 (133)
T ss_pred CHHHHHHHHHHHHh--------HHHHHHHHHHhhcCCCCc-cceEE-EEEEccCCCCCCceeEEEEEEEEecCCEEE
Confidence 78888888887554 445556777788888877 33333 45544 77799999999888 66664
No 13
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=61.90 E-value=5.9 Score=30.33 Aligned_cols=27 Identities=30% Similarity=0.311 Sum_probs=23.7
Q ss_pred ChHHHHHHHHHHHHHhhhcCCCCcchh
Q 042638 13 DPQVQDAANHAIQTIQQRSNSLFPYVL 39 (92)
Q Consensus 13 DP~Vq~AA~~AVk~~n~~SNsl~~ykl 39 (92)
+.....|.+.||+.+|++.+.+..|+|
T Consensus 10 ~~~~~~a~~~Av~~iN~~~~~~~~~~l 36 (382)
T cd06380 10 EDQEYSAFRFAISQHNTNPNSTAPFKL 36 (382)
T ss_pred ChHHHHHHHHHHHHhcccccccCCeee
Confidence 578899999999999998877777887
No 14
>TIGR02105 III_needle type III secretion apparatus needle protein. Type III secretion systems translocate proteins, usually virulence factors, out across both inner and outer membranes of certain Gram-negative bacteria and further across the plasma membrane and into the cytoplasm of the host cell. This protein, termed YscF in Yersinia, and EscF, PscF, EprI, etc. in other systems, forms the needle of the injection apparatus.
Probab=60.13 E-value=12 Score=24.46 Aligned_cols=21 Identities=14% Similarity=0.213 Sum_probs=18.9
Q ss_pred cCCCChHHHHHHHHHHHHHhh
Q 042638 9 VPVHDPQVQDAANHAIQTIQQ 29 (92)
Q Consensus 9 v~~~DP~Vq~AA~~AVk~~n~ 29 (92)
-.|+||++.--.||++.+||.
T Consensus 29 ~~~~nP~~La~~Q~~~~qYs~ 49 (72)
T TIGR02105 29 DLPNDPELMAELQFALNQYSA 49 (72)
T ss_pred CCCCCHHHHHHHHHHHHHHHH
Confidence 468999999999999999986
No 15
>PF07739 TipAS: TipAS antibiotic-recognition domain; InterPro: IPR012925 TipAL is a bacterial transcriptional regulator of the MerR family. The tipA gene can be expressed as a long form, TipAL, and a short form, TipAS, which constitutes the C-terminal part of TipAL. TipAS forms the antibiotic-recognition domain []. This domain, which has an alpha-helical globin-like fold, is also found at the C terminus of other MerR family transcription factors, including Mta, a central regulator of multidrug resistance in Bacillus subtilis [], and SkgA from Caulobacter crescentus []. ; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1NY9_A 3HH0_A 3QAO_A.
Probab=55.79 E-value=15 Score=23.77 Aligned_cols=24 Identities=29% Similarity=0.390 Sum_probs=17.4
Q ss_pred cCCCChHHHHHHHHHHHHHhhhcC
Q 042638 9 VPVHDPQVQDAANHAIQTIQQRSN 32 (92)
Q Consensus 9 v~~~DP~Vq~AA~~AVk~~n~~SN 32 (92)
+||++|+||+.|.-=...+++-++
T Consensus 52 ~~p~s~evq~l~~~~~~~~~~~~~ 75 (118)
T PF07739_consen 52 VDPDSPEVQELAERWMELINQFTG 75 (118)
T ss_dssp --TT-HHHHHHHHHHHHHHHHSS-
T ss_pred CCcCCHHHHHHHHHHHHHHHHHhC
Confidence 699999999999988888886554
No 16
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=54.26 E-value=9.8 Score=28.30 Aligned_cols=28 Identities=18% Similarity=0.022 Sum_probs=22.4
Q ss_pred CCccccCCCChHHHHHHHHHHHHHhhhcC
Q 042638 4 PGWQAVPVHDPQVQDAANHAIQTIQQRSN 32 (92)
Q Consensus 4 gG~~~v~~~DP~Vq~AA~~AVk~~n~~SN 32 (92)
|++-+. ......+.|++.|++.||...+
T Consensus 3 G~i~~~-~~g~~~~~a~~lAv~~iN~~gg 30 (327)
T cd06382 3 GAIFDD-DDDSGEELAFRYAIDRINREKE 30 (327)
T ss_pred EEEecC-CCchHHHHHHHHHHHHhccccc
Confidence 455454 6678899999999999998765
No 17
>PF07849 DUF1641: Protein of unknown function (DUF1641); InterPro: IPR012440 Archaeal and bacterial hypothetical proteins are found in this family, with the region in question being approximately 40 residues long.
Probab=48.39 E-value=18 Score=20.99 Aligned_cols=16 Identities=25% Similarity=0.422 Sum_probs=13.3
Q ss_pred CCChHHHHHHHHHHHH
Q 042638 11 VHDPQVQDAANHAIQT 26 (92)
Q Consensus 11 ~~DP~Vq~AA~~AVk~ 26 (92)
..||+||++..+.+.-
T Consensus 20 l~DpdvqrgL~~ll~~ 35 (42)
T PF07849_consen 20 LRDPDVQRGLGFLLAF 35 (42)
T ss_pred HcCHHHHHHHHHHHHH
Confidence 5799999999887754
No 18
>PRK15344 type III secretion system needle protein SsaG; Provisional
Probab=47.02 E-value=26 Score=23.14 Aligned_cols=21 Identities=19% Similarity=0.203 Sum_probs=18.7
Q ss_pred cCCCChHHHHHHHHHHHHHhh
Q 042638 9 VPVHDPQVQDAANHAIQTIQQ 29 (92)
Q Consensus 9 v~~~DP~Vq~AA~~AVk~~n~ 29 (92)
-+|+||+..--+|||+.+|+.
T Consensus 28 ~~~~nP~~ml~lQf~i~QyS~ 48 (71)
T PRK15344 28 NDLLNPESMIKAQFALQQYST 48 (71)
T ss_pred CCCCCHHHHHHHHHHHHHHHH
Confidence 478999999999999999875
No 19
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=46.68 E-value=20 Score=28.89 Aligned_cols=37 Identities=11% Similarity=0.073 Sum_probs=27.0
Q ss_pred CCCCccccCCCChHHHHHHHHHHHHHhhhcCCCCcchhh
Q 042638 2 HCPGWQAVPVHDPQVQDAANHAIQTIQQRSNSLFPYVLQ 40 (92)
Q Consensus 2 ~~gG~~~v~~~DP~Vq~AA~~AVk~~n~~SNsl~~ykl~ 40 (92)
|.||.-+.+. .+.+.|-++||..+|++++.+..|+|.
T Consensus 1 ~IGaif~~~s--~~~~~Af~~Ai~~iN~~~~~l~~~~l~ 37 (400)
T cd06391 1 HIGAIFDESA--KKDDEVFRMAVADLNQNNEILQTEKIT 37 (400)
T ss_pred CcceeeccCC--chHHHHHHHHHHHhcCCccccCCCcce
Confidence 5677766544 455789999999999988766666443
No 20
>PF03752 ALF: Short repeats of unknown function; InterPro: IPR005506 This set of repeats is found in a small family of secreted proteins of no known function, which may be involved in signal transduction.
Probab=45.19 E-value=18 Score=20.92 Aligned_cols=13 Identities=38% Similarity=0.588 Sum_probs=11.6
Q ss_pred ChHHHHHHHHHHH
Q 042638 13 DPQVQDAANHAIQ 25 (92)
Q Consensus 13 DP~Vq~AA~~AVk 25 (92)
=|.|++||+.|+.
T Consensus 12 G~~vr~AA~~AL~ 24 (43)
T PF03752_consen 12 GPAVRAAAQAALD 24 (43)
T ss_pred CHHHHHHHHHHHH
Confidence 6999999999983
No 21
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=44.34 E-value=18 Score=26.59 Aligned_cols=21 Identities=29% Similarity=0.213 Sum_probs=18.7
Q ss_pred hHHHHHHHHHHHHHhhhcCCC
Q 042638 14 PQVQDAANHAIQTIQQRSNSL 34 (92)
Q Consensus 14 P~Vq~AA~~AVk~~n~~SNsl 34 (92)
+..+.|++.||+.||....-+
T Consensus 11 ~~~~~a~~lAv~~iN~~ggil 31 (324)
T cd06368 11 RQEELAFRFAIDRINTNEEIL 31 (324)
T ss_pred hHHHHHHHHHHHHhccccccc
Confidence 889999999999999987654
No 22
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=39.39 E-value=32 Score=24.96 Aligned_cols=25 Identities=28% Similarity=0.272 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHhhhcCCCCcchh
Q 042638 15 QVQDAANHAIQTIQQRSNSLFPYVL 39 (92)
Q Consensus 15 ~Vq~AA~~AVk~~n~~SNsl~~ykl 39 (92)
.++.|++.|++.||+...-+.-++|
T Consensus 1 ~~~~a~~~Ai~~iN~~~~~~~~~~l 25 (348)
T PF01094_consen 1 RVLAAVQLAIDEINNNPDLLPNITL 25 (348)
T ss_dssp HHHHHHHHHHHHHHHSSTSSTTSEE
T ss_pred CHHHHHHHHHHHHHcCCCCCCCeEE
Confidence 4789999999999997664444443
No 23
>PF00714 IFN-gamma: Interferon gamma This family is a subset of the SCOP family.; InterPro: IPR002069 Interferon gamma (IFN-gamma) is produced by lymphocytes activated by specific antigens or mitogens. IFN-gamma shows antiviral activity and has important immunoregulatory functions. It is a potent activator of microphages and had antiproliferative effects on transformed cells. It can potentiate the antiviral and antitumor effects of the type I interferons. The crystal structures of a number IFN-gamma proteins have been solved, including bovine interferon-gamma at 2.0-A [] and human IFN-gamma at 2.9-A [].; GO: 0005133 interferon-gamma receptor binding, 0006955 immune response, 0005576 extracellular region; PDB: 1FG9_A 1FYH_D 1EKU_B 3BES_L 1RFB_A 1D9G_A 1D9C_B.
Probab=38.89 E-value=24 Score=25.94 Aligned_cols=18 Identities=33% Similarity=0.346 Sum_probs=13.0
Q ss_pred ccCCCChHHHHHHHHHHH
Q 042638 8 AVPVHDPQVQDAANHAIQ 25 (92)
Q Consensus 8 ~v~~~DP~Vq~AA~~AVk 25 (92)
.++++||.||+.|-+=+.
T Consensus 106 ~i~vnD~~vQrKAi~EL~ 123 (138)
T PF00714_consen 106 KIQVNDLQVQRKAINELF 123 (138)
T ss_dssp CS-TTCHHHHHHHHHCHH
T ss_pred cccCcCHHHHHHHHHHHH
Confidence 479999999987765443
No 24
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=38.44 E-value=27 Score=19.80 Aligned_cols=16 Identities=31% Similarity=0.426 Sum_probs=12.7
Q ss_pred CChHHHHHHHHHHHHH
Q 042638 12 HDPQVQDAANHAIQTI 27 (92)
Q Consensus 12 ~DP~Vq~AA~~AVk~~ 27 (92)
+++.|+.+|-+|+.+|
T Consensus 40 ~~~~VR~~A~~aLg~l 55 (55)
T PF13513_consen 40 DDDSVRAAAAWALGNL 55 (55)
T ss_dssp SSHHHHHHHHHHHHCH
T ss_pred CCHHHHHHHHHHHhcC
Confidence 5669999999987643
No 25
>PF03101 FAR1: FAR1 DNA-binding domain; InterPro: IPR004330 Phytochrome A is the primary photoreceptor for mediating various far-red light-induced responses in higher plants. It has been found that the proteins governing this response, which include FAR-RED ELONGATED HYPOCOTYL3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1), are a pair of homologous proteins sharing significant sequence homology to mutator-like transposases. These proteins appear to be novel transcription factors, which are essential for activating the expression of FHY1 and FHL (for FHY1-like) and related genes, whose products are required for light-induced phytochrome A nuclear accumulation and subsequent light responses in plants. The FRS (FAR1 Related Sequences) family of proteins share a similar domain structure to mutator-like transposases, including an N-terminal C2H2 zinc finger domain, a central putative core transposase domain, and a C-terminal SWIM motif (named after SWI2/SNF and MuDR transposases). It seems plausible that the FRS family represent transcription factors derived from mutator-like transposases [, ]. This entry represents a domain found in FAR1 and FRS proteins. It contains a WRKY like fold and is therefore most likely a zinc binding DNA-binding domain.
Probab=36.24 E-value=48 Score=20.55 Aligned_cols=22 Identities=14% Similarity=0.519 Sum_probs=17.2
Q ss_pred eeeeEEEec-CCeeeeecccccc
Q 042638 70 KLNVEVHKK-EGTFHLNQMQQDQ 91 (92)
Q Consensus 70 ~~~vev~~~-~g~~~l~~~~~~~ 91 (92)
++++.|.+. +|.|.|.....+|
T Consensus 63 ~a~i~v~~~~~~~w~v~~~~~~H 85 (91)
T PF03101_consen 63 KARINVKRRKDGKWRVTSFVLEH 85 (91)
T ss_pred CEEEEEEEccCCEEEEEECcCCc
Confidence 456667777 9999999888776
No 26
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=34.40 E-value=40 Score=26.13 Aligned_cols=21 Identities=29% Similarity=0.452 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHhhhcCCC
Q 042638 14 PQVQDAANHAIQTIQQRSNSL 34 (92)
Q Consensus 14 P~Vq~AA~~AVk~~n~~SNsl 34 (92)
|.++-|++.|++.||.+.+-+
T Consensus 18 ~~~~~a~~lAve~IN~~~gil 38 (405)
T cd06385 18 PRVGPALERAIDRVNADPDLL 38 (405)
T ss_pred hhhHHHHHHHHHHHhcCCCCC
Confidence 789999999999999987554
No 27
>PF07539 DRIM: Down-regulated in metastasis; InterPro: IPR011430 These eukaryotic proteins include DRIM (Down-Regulated In Metastasis) (O75691 from SWISSPROT), which is differentially expressed in metastatic and non-metastatic human breast carcinoma cells []. It is believed to be involved in processing of non-coding RNA [].
Probab=33.42 E-value=33 Score=24.46 Aligned_cols=28 Identities=32% Similarity=0.391 Sum_probs=23.4
Q ss_pred CCCChHHHHHHHHHHHHHhhhcCCCCcchh
Q 042638 10 PVHDPQVQDAANHAIQTIQQRSNSLFPYVL 39 (92)
Q Consensus 10 ~~~DP~Vq~AA~~AVk~~n~~SNsl~~ykl 39 (92)
.-.|++||.+|=-++-+|+.. .+.||+.
T Consensus 27 ~~~d~~vQklAL~cll~~k~~--~l~pY~d 54 (141)
T PF07539_consen 27 SSRDPEVQKLALDCLLTWKDP--YLTPYKD 54 (141)
T ss_pred cCCCHHHHHHHHHHHHHhCcH--HHHhHHH
Confidence 457999999999999999874 6778863
No 28
>PF11030 Nucleocapsid-N: Nucleocapsid protein N ; InterPro: IPR020253 This entry represents the nucleocapsid protein from bovine, porcine and equine toroviruses. It is the major structural component of virions associating with the virion genomic RNA.
Probab=32.29 E-value=35 Score=25.50 Aligned_cols=40 Identities=15% Similarity=0.334 Sum_probs=30.4
Q ss_pred hcCCCCcchhhhhhh-hhhhhhhhhheeeeeeEeccccceeeeee
Q 042638 30 RSNSLFPYVLQEIVH-AKAEVIEDFAKFAMLLKVKRGEKEEKLNV 73 (92)
Q Consensus 30 ~SNsl~~ykl~eIv~-AqsQVV~g~~K~~l~lklkrg~k~e~~~v 73 (92)
.--++-|-||++|.+ |--|+|+| ..+++|+-|+.+...+|
T Consensus 117 emq~~aptklvkiakraamqivsg----hatveis~g~eds~~rv 157 (167)
T PF11030_consen 117 EMQNIAPTKLVKIAKRAAMQIVSG----HATVEISNGTEDSNHRV 157 (167)
T ss_pred HHhhcchHHHHHHHHHHHHHhhcc----ceEEEecCCCCCCCcee
Confidence 334677888888864 66799999 67889999988765554
No 29
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=31.28 E-value=2.7e+02 Score=22.15 Aligned_cols=73 Identities=12% Similarity=0.183 Sum_probs=38.5
Q ss_pred CCCCCccccCCCChHHHHHHHHHHHHHhhhcCCCCcchhhhhhhhhhhhhhhhheeeeeeEeccccceeeee--eEEEec
Q 042638 1 GHCPGWQAVPVHDPQVQDAANHAIQTIQQRSNSLFPYVLQEIVHAKAEVIEDFAKFAMLLKVKRGEKEEKLN--VEVHKK 78 (92)
Q Consensus 1 ~~~gG~~~v~~~DP~Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~AqsQVV~g~~K~~l~lklkrg~k~e~~~--vev~~~ 78 (92)
||.|++.++-.+||. +|..-=.....+.. ..+. ....++.+. +++++.++|..-..... +||.--
T Consensus 243 Gh~G~~tTiHa~s~~--~ai~Rl~~l~~~~~---~~~~-----~i~~~i~~~---id~VV~~~r~~~~R~v~eI~ev~g~ 309 (319)
T PRK13894 243 GHEGGAATLHANNAK--AGLDRLKSLISMHP---DAPK-----PIEPLIGEA---VHVVVHIARTPGGRRIQEILEVSGY 309 (319)
T ss_pred CCCceEEEECCCCHH--HHHHHHHHHHhhcC---CCHH-----HHHHHHHHh---CCEEEEEEEeCCceEEEEEEEEEee
Confidence 788899988888764 22222111122211 1111 123445566 77788887732222222 555544
Q ss_pred -CCeeeeec
Q 042638 79 -EGTFHLNQ 86 (92)
Q Consensus 79 -~g~~~l~~ 86 (92)
+|.|.+..
T Consensus 310 ~~g~~~~~~ 318 (319)
T PRK13894 310 ANGQYITKT 318 (319)
T ss_pred cCCEEEEEe
Confidence 89998764
No 30
>PF12399 BCA_ABC_TP_C: Branched-chain amino acid ATP-binding cassette transporter
Probab=30.16 E-value=31 Score=17.95 Aligned_cols=9 Identities=33% Similarity=0.693 Sum_probs=7.2
Q ss_pred CCChHHHHH
Q 042638 11 VHDPQVQDA 19 (92)
Q Consensus 11 ~~DP~Vq~A 19 (92)
.+||+|++|
T Consensus 12 ~~n~~V~~a 20 (23)
T PF12399_consen 12 RANPEVREA 20 (23)
T ss_pred hcCHHHHHh
Confidence 468999886
No 31
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=29.32 E-value=46 Score=23.59 Aligned_cols=36 Identities=8% Similarity=0.261 Sum_probs=27.1
Q ss_pred CCCChHHHHHHHHHHHHHhhh-cCCCCcchhhhhhhh
Q 042638 10 PVHDPQVQDAANHAIQTIQQR-SNSLFPYVLQEIVHA 45 (92)
Q Consensus 10 ~~~DP~Vq~AA~~AVk~~n~~-SNsl~~ykl~eIv~A 45 (92)
.=.||+|+++|.....++..+ +.+.++--+.+++.+
T Consensus 73 ~D~~~~Ir~~A~~~~~e~~~~~~~~~i~~~~~e~i~~ 109 (178)
T PF12717_consen 73 VDENPEIRSLARSFFSELLKKRNPNIIYNNFPELISS 109 (178)
T ss_pred cCCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHH
Confidence 346899999999999999999 445555555666654
No 32
>PLN00066 PsbP domain-containing protein 4; Provisional
Probab=28.09 E-value=29 Score=27.74 Aligned_cols=23 Identities=4% Similarity=0.003 Sum_probs=16.7
Q ss_pred hhhhhhhhhhhhhhhhheeeeee
Q 042638 38 VLQEIVHAKAEVIEDFAKFAMLL 60 (92)
Q Consensus 38 kl~eIv~AqsQVV~g~~K~~l~l 60 (92)
+.-+|++|....++|...|+|.+
T Consensus 193 ~e~eLl~a~~re~dGktYY~~E~ 215 (262)
T PLN00066 193 EEGKVLSMEVAEHSGRTYYQFEL 215 (262)
T ss_pred cccceeEeeeeecCCcEEEEEEE
Confidence 45689999888888855555555
No 33
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=27.97 E-value=64 Score=19.70 Aligned_cols=20 Identities=25% Similarity=0.263 Sum_probs=14.8
Q ss_pred eeeeeEeccccceeeeeeEE
Q 042638 56 FAMLLKVKRGEKEEKLNVEV 75 (92)
Q Consensus 56 ~~l~lklkrg~k~e~~~vev 75 (92)
=.+.|++.|+.+...++|++
T Consensus 63 ~~v~l~v~R~g~~~~~~v~l 82 (82)
T PF13180_consen 63 DTVTLTVLRDGEELTVEVTL 82 (82)
T ss_dssp SEEEEEEEETTEEEEEEEE-
T ss_pred CEEEEEEEECCEEEEEEEEC
Confidence 56778888888888877764
No 34
>TIGR01660 narH nitrate reductase, beta subunit. The Nitrate reductase enzyme complex allows bacteria to use nitrate as an electron acceptor during anaerobic growth. The enzyme complex consists of a tetramer that has an alpha, beta and 2 gamma subunits. The alpha and beta subunits have catalytic activity and the gamma subunits attach the enzyme to the membrane and is a b-type cytochrome that receives electrons from the quinone pool and transfers them to the beta subunit. This model is specific for the beta subunit for nitrate reductase I (narH) and nitrate reductase II (narY) for gram positive and gram negative bacteria.A few thermophiles and archaea also match the model.The seed members used in this model are all experimentally characterized and include the following: NarH and NarY, both E.Coli, sequences from B. Subtilis, Pseudomonas fluorescens, Paracoccus denitrificans, and Halomonas halodenitrificans. This model also matches PFAM pfam00037 for 4Fe-4S binding domain.
Probab=27.29 E-value=41 Score=29.31 Aligned_cols=14 Identities=29% Similarity=0.461 Sum_probs=12.1
Q ss_pred cCCCChHHHHHHHH
Q 042638 9 VPVHDPQVQDAANH 22 (92)
Q Consensus 9 v~~~DP~Vq~AA~~ 22 (92)
++|+||+|++||+.
T Consensus 300 ldp~dp~v~~~A~~ 313 (492)
T TIGR01660 300 LDPNDPEVIAQAKK 313 (492)
T ss_pred cCCCCHHHHHHHHH
Confidence 48999999999964
No 35
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=26.64 E-value=63 Score=26.45 Aligned_cols=38 Identities=8% Similarity=-0.010 Sum_probs=27.5
Q ss_pred CCCCccccCCCChHHHHHHHHHHHHHhhhcCCCCcchhhh
Q 042638 2 HCPGWQAVPVHDPQVQDAANHAIQTIQQRSNSLFPYVLQE 41 (92)
Q Consensus 2 ~~gG~~~v~~~DP~Vq~AA~~AVk~~n~~SNsl~~ykl~e 41 (92)
|.||..+... .+...|=++||..+|...+.+.-++|.-
T Consensus 1 ~iG~if~~~~--~~~~~af~~Av~~~N~~~~~l~~~~L~~ 38 (400)
T cd06392 1 HIGAIFEENA--AKDDRVFQLAVSDLSLNDDILQSEKITY 38 (400)
T ss_pred CeeeccCCCc--hHHHHHHHHHHHHhccCccccCCceEEE
Confidence 6788877543 4468999999999998766555455543
No 36
>PF10304 DUF2411: Domain of unknown function (DUF2411); InterPro: IPR019414 This entry represents a 38 residue domain of unknown function that is found at the extreme C-terminal end of some HEAT repeats.
Probab=26.43 E-value=85 Score=17.64 Aligned_cols=20 Identities=20% Similarity=0.371 Sum_probs=17.0
Q ss_pred CCCChHHHHHHHHHHHHHhh
Q 042638 10 PVHDPQVQDAANHAIQTIQQ 29 (92)
Q Consensus 10 ~~~DP~Vq~AA~~AVk~~n~ 29 (92)
.-+|+.|+.=|+-|+++++.
T Consensus 16 ~D~D~lvr~hA~~~Le~Le~ 35 (36)
T PF10304_consen 16 TDNDDLVREHAQDALEELEA 35 (36)
T ss_pred hCCcHHHHHHHHHHHHHHhc
Confidence 34699999999999999874
No 37
>PF00514 Arm: Armadillo/beta-catenin-like repeat; InterPro: IPR000225 The armadillo (Arm) repeat is an approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila melanogaster segment polarity gene armadillo involved in signal transduction through wingless. Animal Arm-repeat proteins function in various processes, including intracellular signalling and cytoskeletal regulation, and include such proteins as beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumour suppressor protein, and the nuclear transport factor importin-alpha, amongst others []. A subset of these proteins is conserved across eukaryotic kingdoms. In higher plants, some Arm-repeat proteins function in intracellular signalling like their mammalian counterparts, while others have novel functions []. The 3-dimensional fold of an armadillo repeat is known from the crystal structure of beta-catenin, where the 12 repeats form a superhelix of alpha helices with three helices per unit []. The cylindrical structure features a positively charged grove, which presumably interacts with the acidic surfaces of the known interaction partners of beta-catenin.; GO: 0005515 protein binding; PDB: 2Z6G_A 1IQ1_C 3RZX_A 2C1M_A 3BTR_C 3OQS_A 3TPO_A 1IAL_A 1Q1S_C 1PJM_B ....
Probab=26.25 E-value=1e+02 Score=16.52 Aligned_cols=18 Identities=33% Similarity=0.536 Sum_probs=14.7
Q ss_pred CCCChHHHHHHHHHHHHH
Q 042638 10 PVHDPQVQDAANHAIQTI 27 (92)
Q Consensus 10 ~~~DP~Vq~AA~~AVk~~ 27 (92)
.-.|++||+.|--|+..+
T Consensus 22 ~~~~~~v~~~a~~al~nl 39 (41)
T PF00514_consen 22 KSPDPEVQEEAAWALGNL 39 (41)
T ss_dssp TSSSHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHHH
Confidence 468999999998888754
No 38
>PF15418 DUF4625: Domain of unknown function (DUF4625)
Probab=26.17 E-value=79 Score=22.39 Aligned_cols=29 Identities=10% Similarity=0.249 Sum_probs=24.8
Q ss_pred hhhhhheeeeeeEeccccceeeeeeEEEec
Q 042638 49 VIEDFAKFAMLLKVKRGEKEEKLNVEVHKK 78 (92)
Q Consensus 49 VV~g~~K~~l~lklkrg~k~e~~~vev~~~ 78 (92)
++.| -+|.|.+++.-.++-..++|++|-|
T Consensus 32 ~~~G-~~ihfe~~i~d~~~i~si~VeIH~n 60 (132)
T PF15418_consen 32 ATRG-DDIHFEADISDNSAIKSIKVEIHNN 60 (132)
T ss_pred EecC-CcEEEEEEEEcccceeEEEEEEecC
Confidence 3467 7799999999999999999999665
No 39
>COG3360 Uncharacterized conserved protein [Function unknown]
Probab=25.68 E-value=38 Score=22.49 Aligned_cols=47 Identities=21% Similarity=0.270 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHhhhcCCCCcchhhhhhhhhhhhhhhhheeeeeeEecccc
Q 042638 16 VQDAANHAIQTIQQRSNSLFPYVLQEIVHAKAEVIEDFAKFAMLLKVKRGE 66 (92)
Q Consensus 16 Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~AqsQVV~g~~K~~l~lklkrg~ 66 (92)
+-.||+-|+. ..+.++-...--||+.-+-+|++| ++-.+-++||.|=
T Consensus 19 ~d~Ai~~Ai~---RA~~t~~~l~wfeV~~~rg~v~~g-~v~hyqv~lkVgF 65 (71)
T COG3360 19 IDAAIANAIA---RAADTLDNLDWFEVVETRGHVVDG-AVAHYQVTLKVGF 65 (71)
T ss_pred HHHHHHHHHH---HHHhhhhcceEEEEEeecccEeec-ceEEEEEEEEEEE
Confidence 3455666554 444556666666788888999999 7777777776653
No 40
>PF03415 Peptidase_C11: Clostripain family This family belongs to family C11 of the peptidase classification.; InterPro: IPR005077 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C11 (clostripain family, clan CD). ; PDB: 3UWS_A.
Probab=25.19 E-value=20 Score=29.24 Aligned_cols=11 Identities=27% Similarity=0.595 Sum_probs=5.0
Q ss_pred CCCCCccccCC
Q 042638 1 GHCPGWQAVPV 11 (92)
Q Consensus 1 ~~~gG~~~v~~ 11 (92)
+|++||.+.+.
T Consensus 105 ~HG~Gw~~~~~ 115 (397)
T PF03415_consen 105 DHGGGWLPASD 115 (397)
T ss_dssp S-B-TT--TTG
T ss_pred ECCCCCCcCCC
Confidence 59999966554
No 41
>COG3836 HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]
Probab=24.10 E-value=85 Score=25.29 Aligned_cols=24 Identities=29% Similarity=0.325 Sum_probs=20.9
Q ss_pred ccCCCChHHHHHHHHHHHHHhhhc
Q 042638 8 AVPVHDPQVQDAANHAIQTIQQRS 31 (92)
Q Consensus 8 ~v~~~DP~Vq~AA~~AVk~~n~~S 31 (92)
.-+|..|+||+|.+++...++..-
T Consensus 186 ~gn~~hpeV~~aI~~~~~~i~aaG 209 (255)
T COG3836 186 LGNPGHPEVQAAIEHIIARIRAAG 209 (255)
T ss_pred CCCCCCHHHHHHHHHHHHHHHhcC
Confidence 458999999999999999998754
No 42
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=23.94 E-value=48 Score=29.54 Aligned_cols=43 Identities=28% Similarity=0.328 Sum_probs=34.7
Q ss_pred hhhcCCC---CcchhhhhhhhhhhhhhhhheeeeeeEeccccceeeeee
Q 042638 28 QQRSNSL---FPYVLQEIVHAKAEVIEDFAKFAMLLKVKRGEKEEKLNV 73 (92)
Q Consensus 28 n~~SNsl---~~ykl~eIv~AqsQVV~g~~K~~l~lklkrg~k~e~~~v 73 (92)
++++-|. .|-++.+|+.|..+|+.+ +-+++||..|.||-+-.+
T Consensus 363 ~qG~GsALl~rp~rl~~~l~~m~~vs~~---iPiTVKiRTG~keg~~~a 408 (614)
T KOG2333|consen 363 RQGGGSALLNRPARLIRILRAMNAVSGD---IPITVKIRTGTKEGHPVA 408 (614)
T ss_pred ccCCcchhhcCcHHHHHHHHHHHHhccC---CCeEEEEecccccCchhH
Confidence 4444443 378899999999999999 699999999999976544
No 43
>smart00185 ARM Armadillo/beta-catenin-like repeats. Approx. 40 amino acid repeat. Tandem repeats form superhelix of helices that is proposed to mediate interaction of beta-catenin with its ligands. Involved in transducing the Wingless/Wnt signal. In plakoglobin arm repeats bind alpha-catenin and N-cadherin.
Probab=23.92 E-value=1.1e+02 Score=15.48 Aligned_cols=18 Identities=22% Similarity=0.318 Sum_probs=14.1
Q ss_pred CCCChHHHHHHHHHHHHH
Q 042638 10 PVHDPQVQDAANHAIQTI 27 (92)
Q Consensus 10 ~~~DP~Vq~AA~~AVk~~ 27 (92)
..+|+.+++.|-.|+..+
T Consensus 22 ~~~~~~i~~~a~~aL~nl 39 (41)
T smart00185 22 KSEDEEVVKEAAWALSNL 39 (41)
T ss_pred cCCCHHHHHHHHHHHHHH
Confidence 457899999988887665
No 44
>PRK10984 DNA-binding transcriptional regulator Crl; Provisional
Probab=23.56 E-value=1.1e+02 Score=22.18 Aligned_cols=28 Identities=21% Similarity=0.563 Sum_probs=24.7
Q ss_pred CCCccccCCCChHHHHHHHHHHHHHhhh
Q 042638 3 CPGWQAVPVHDPQVQDAANHAIQTIQQR 30 (92)
Q Consensus 3 ~gG~~~v~~~DP~Vq~AA~~AVk~~n~~ 30 (92)
.|.|++.+.-|+.|++..+.....+-++
T Consensus 79 ~G~W~~~~i~~~~~~e~v~~Tl~~Fh~k 106 (127)
T PRK10984 79 EGNWVAEPIKDKEVVERLEHTLREFHEK 106 (127)
T ss_pred CCCeeeccCCcHHHHHHHHHHHHHHHHH
Confidence 5899999999999999999988887664
No 45
>PF03584 Herpes_ICP4_N: Herpesvirus ICP4-like protein N-terminal region; InterPro: IPR005206 The immediate-early protein ICP4 (infected-cell polypeptide 4) is required for efficient transcription of early and late viral genes and is thus essential for productive infection. ICP4 is a large phosphoprotein that binds DNA in a sequence specific manner as a homodimer. ICP4 represses transcription from LAT, ICP4 and ORF-P that have high-affinity a ICP4 binding site that spans the transcription initiation site. ICP4 proteins have two highly conserved regions, this family contains the N-terminal region that contains sites for DNA binding and homodimerisation [].; GO: 0045893 positive regulation of transcription, DNA-dependent, 0042025 host cell nucleus
Probab=23.17 E-value=76 Score=24.24 Aligned_cols=19 Identities=26% Similarity=0.272 Sum_probs=15.1
Q ss_pred CCCccccCCCChHHHHHHH
Q 042638 3 CPGWQAVPVHDPQVQDAAN 21 (92)
Q Consensus 3 ~gG~~~v~~~DP~Vq~AA~ 21 (92)
.||-++-=-+||+|++||.
T Consensus 22 ~Gd~R~gLwd~peV~~A~~ 40 (173)
T PF03584_consen 22 SGDSRPGLWDDPEVREAAA 40 (173)
T ss_pred CCCCCccccCCHHHHHHHH
Confidence 4566777789999999875
No 46
>PF09682 Holin_LLH: Phage holin protein (Holin_LLH); InterPro: IPR010026 This entry represents the Bacteriophage LL-H, Orf107, holin protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. It is thought that the temporal precision of holin-mediated lysis may occur through the build-up of a holin oligomer which causes the lysis [].
Probab=22.23 E-value=88 Score=21.02 Aligned_cols=22 Identities=23% Similarity=0.465 Sum_probs=19.6
Q ss_pred ccCCCChHHHHHHHHHHHHHhh
Q 042638 8 AVPVHDPQVQDAANHAIQTIQQ 29 (92)
Q Consensus 8 ~v~~~DP~Vq~AA~~AVk~~n~ 29 (92)
-++++|.+++.+.+.||+.+|.
T Consensus 85 gi~~t~~~i~~~IEaAV~~m~~ 106 (108)
T PF09682_consen 85 GIKVTDEQIEGAIEAAVKEMND 106 (108)
T ss_pred CCCCCHHHHHHHHHHHHHHHhh
Confidence 3589999999999999999985
No 47
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=21.96 E-value=79 Score=24.50 Aligned_cols=21 Identities=14% Similarity=0.088 Sum_probs=17.7
Q ss_pred hHHHHHHHHHHHHHhhhcCCC
Q 042638 14 PQVQDAANHAIQTIQQRSNSL 34 (92)
Q Consensus 14 P~Vq~AA~~AVk~~n~~SNsl 34 (92)
-.++.|.++||+.||+++.-+
T Consensus 21 ~~~~~a~~~Av~~IN~~~~il 41 (384)
T cd06393 21 SAEELAFRFSANIINRNRTLL 41 (384)
T ss_pred cHHHHHHHHHHHHhcCCCccC
Confidence 358899999999999988644
No 48
>PF14398 ATPgrasp_YheCD: YheC/D like ATP-grasp
Probab=21.16 E-value=81 Score=24.08 Aligned_cols=23 Identities=17% Similarity=0.365 Sum_probs=18.5
Q ss_pred ccceeeeeeEEEec-CCeeeeecc
Q 042638 65 GEKEEKLNVEVHKK-EGTFHLNQM 87 (92)
Q Consensus 65 g~k~e~~~vev~~~-~g~~~l~~~ 87 (92)
.+.-=-|.|.|+|| .|.|.++-+
T Consensus 127 ~gr~fD~RvlvqK~~~G~W~vtg~ 150 (262)
T PF14398_consen 127 DGRPFDFRVLVQKNGSGKWQVTGI 150 (262)
T ss_pred CCCeEEEEEEEEECCCCCEEEEEE
Confidence 55566688999999 999998854
No 49
>cd04268 ZnMc_MMP_like Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases.
Probab=20.51 E-value=1.5e+02 Score=19.94 Aligned_cols=22 Identities=14% Similarity=0.022 Sum_probs=18.8
Q ss_pred ChHHHHHHHHHHHHHhhhcCCC
Q 042638 13 DPQVQDAANHAIQTIQQRSNSL 34 (92)
Q Consensus 13 DP~Vq~AA~~AVk~~n~~SNsl 34 (92)
++..+++++.|++.+|..++=.
T Consensus 13 ~~~~r~~i~~A~~~W~~~~~i~ 34 (165)
T cd04268 13 PDKLRAAILDAIEAWNKAFAIG 34 (165)
T ss_pred CHHHHHHHHHHHHHHHHHhCcC
Confidence 6789999999999999988433
No 50
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=20.44 E-value=95 Score=24.49 Aligned_cols=37 Identities=22% Similarity=0.060 Sum_probs=24.0
Q ss_pred CCCccccCCCChHHHHHHHHHHHHHhhhc-CCCCcchhhh
Q 042638 3 CPGWQAVPVHDPQVQDAANHAIQTIQQRS-NSLFPYVLQE 41 (92)
Q Consensus 3 ~gG~~~v~~~DP~Vq~AA~~AVk~~n~~S-Nsl~~ykl~e 41 (92)
.||..+ .+.++.+.|=++||..+|... .+..|++|.-
T Consensus 2 iG~if~--~~~~~~~~af~~a~~~~n~~~~~~~~~~~l~~ 39 (371)
T cd06388 2 IGGLFI--RNTDQEYTAFRLAIFLHNTSPNASEAPFNLVP 39 (371)
T ss_pred Cceeec--CCchHHHHHHHHHHHHhhccccccccceEEee
Confidence 356655 334667899999999999754 2333444443
No 51
>PF07340 Herpes_IE1: Cytomegalovirus IE1 protein; InterPro: IPR010855 Expression from a human cytomegalovirus early promoter (E1.7) has been shown to be activated in trans by the IE2 gene product. Although the IE1 gene product alone had no effect on this early viral promoter, maximal early promoter activity was detected when both IE1 and IE2 gene products were present []. The IE1 protein from cytomegalovirus is also known as UL123.; GO: 0050792 regulation of viral reproduction, 0042025 host cell nucleus
Probab=20.41 E-value=1.4e+02 Score=25.45 Aligned_cols=33 Identities=21% Similarity=0.284 Sum_probs=25.5
Q ss_pred CCCCcccc--CCCChHHHHHHHHHHHHHhhhcCCCC
Q 042638 2 HCPGWQAV--PVHDPQVQDAANHAIQTIQQRSNSLF 35 (92)
Q Consensus 2 ~~gG~~~v--~~~DP~Vq~AA~~AVk~~n~~SNsl~ 35 (92)
.++|.++- .|+|| |++|++|==+.+++-.|+..
T Consensus 15 p~~gps~k~pr~e~p-v~~A~~fLek~l~~E~~~~l 49 (392)
T PF07340_consen 15 PDPGPSPKMPRPEDP-VTRAVQFLEKMLADETNTQL 49 (392)
T ss_pred CCCCCCCCCCCCCCh-HHHHHHHHHHHHHHHHhccc
Confidence 34555433 68899 79999999999999888644
No 52
>cd00869 PI3Ka_II Phosphoinositide 3-kinase (PI3K) class II, accessory domain (PIK domain); PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, class II PI3-kinases phosphorylate phosphoinositol (PtdIns), PtdIns(4)-phosphate, but not PtdIns(4,5)-bisphosphate. They are larger, having a C2 domain at the C-terminus.
Probab=20.31 E-value=44 Score=24.78 Aligned_cols=30 Identities=30% Similarity=0.387 Sum_probs=19.4
Q ss_pred CChHHHHHHHHHHHHHhhhcCCCCcchhhhhhh
Q 042638 12 HDPQVQDAANHAIQTIQQRSNSLFPYVLQEIVH 44 (92)
Q Consensus 12 ~DP~Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~ 44 (92)
.|+.|+ ++||+.+...|++...+=+..+|.
T Consensus 83 ~d~~VR---~yAV~~L~~~~ddeL~~yLpQLVQ 112 (169)
T cd00869 83 PDQEVR---AHAVQWLARLSNDELLDYLPQLVQ 112 (169)
T ss_pred CChHHH---HHHHHHHHhCCHHHHHHHHHHHHH
Confidence 566666 588888888877655444444443
No 53
>cd01783 DAGK_delta_RA Ubiquitin-like domain of Diacylgylcerol kinase (DAGK). DAGK_delta_RA Diacylgylcerol kinase (DAGK) phosphorylates the second messenger diacylglycerol to phosphatidic acid as part of a protein kinase C pathway. Nine mammalian DAGK isotypes have been identified, which are classified into five subgroups according to their domain architecture and the DAGK-delta and -theta isozymes, which fall into one such group, contain an RA (Ras-associated) domain. DAGKs also contain a conserved catalytic domain (DAGKc), an assesory domain (DAGKa), and an array of conserved motifs that are likely to play a role in lipid-protein and protein-protein interactions in various DAG/PA-dependent signalling pathways.
Probab=20.28 E-value=70 Score=22.09 Aligned_cols=36 Identities=17% Similarity=0.235 Sum_probs=31.5
Q ss_pred CChHHHHHHHHHHHHHhhhcCCCCcchhhhhhhhhh
Q 042638 12 HDPQVQDAANHAIQTIQQRSNSLFPYVLQEIVHAKA 47 (92)
Q Consensus 12 ~DP~Vq~AA~~AVk~~n~~SNsl~~ykl~eIv~Aqs 47 (92)
.|.-+++...-|++.|....++..-|.|+||.-...
T Consensus 25 ~~tt~~dvv~eaL~kfGl~~~~~~~y~LvEV~ld~g 60 (97)
T cd01783 25 KDTTVQDVILEVLPLFGLQAECPESFRLIEVLLDRG 60 (97)
T ss_pred ccchHHHHHHHHHHHhCcccCCccccEEEEEEecCC
Confidence 467789999999999999999999999999975443
Done!