Query 043987
Match_columns 152
No_of_seqs 125 out of 665
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 10:18:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043987.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043987hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02519 Auxin_inducible: Auxi 100.0 2.1E-37 4.6E-42 228.4 9.5 99 1-111 1-100 (100)
2 PLN03090 auxin-responsive fami 100.0 7.5E-36 1.6E-40 222.3 9.8 91 4-110 12-103 (104)
3 PLN03219 uncharacterized prote 100.0 3E-31 6.4E-36 198.5 9.5 90 11-110 12-105 (108)
4 PLN03220 uncharacterized prote 100.0 1.4E-30 2.9E-35 194.2 9.1 64 45-108 32-101 (105)
5 PF02214 BTB_2: BTB/POZ domain 82.4 0.61 1.3E-05 32.5 0.9 54 60-113 7-63 (94)
6 PRK02899 adaptor protein; Prov 79.8 1.2 2.6E-05 36.4 1.9 25 72-96 38-62 (197)
7 smart00666 PB1 PB1 domain. Pho 74.9 4.5 9.8E-05 27.2 3.4 51 56-111 8-69 (81)
8 PRK02315 adaptor protein; Prov 74.3 1.9 4.1E-05 35.9 1.7 25 72-96 38-62 (233)
9 cd05992 PB1 The PB1 domain is 73.2 6.9 0.00015 26.1 4.0 53 56-112 7-70 (81)
10 PF05389 MecA: Negative regula 70.4 1.4 3.1E-05 35.8 0.0 25 72-96 38-62 (220)
11 PF00651 BTB: BTB/POZ domain; 60.2 22 0.00048 24.3 4.5 57 53-113 13-74 (111)
12 cd06407 PB1_NLP A PB1 domain i 53.6 19 0.00041 25.5 3.3 48 54-105 5-64 (82)
13 PF08948 DUF1859: Domain of un 50.8 7.1 0.00015 30.0 0.8 28 49-76 86-123 (126)
14 PF14317 YcxB: YcxB-like prote 47.2 33 0.00073 21.0 3.4 33 48-80 27-59 (62)
15 PF11822 DUF3342: Domain of un 46.9 24 0.00053 31.3 3.6 54 60-116 13-71 (317)
16 cd06396 PB1_NBR1 The PB1 domai 45.8 70 0.0015 23.0 5.2 57 54-113 5-70 (81)
17 cd06397 PB1_UP1 Uncharacterize 39.2 53 0.0011 23.9 3.7 46 56-105 7-63 (82)
18 PF00564 PB1: PB1 domain; Int 38.8 32 0.0007 23.0 2.5 43 56-102 8-62 (84)
19 PF02209 VHP: Villin headpiece 34.3 22 0.00047 21.9 1.0 19 69-87 1-19 (36)
20 smart00153 VHP Villin headpiec 33.9 27 0.00059 21.4 1.3 19 69-87 1-19 (36)
21 PRK13317 pantothenate kinase; 33.9 61 0.0013 27.6 4.0 61 68-129 135-208 (277)
22 cd06398 PB1_Joka2 The PB1 doma 33.4 60 0.0013 23.4 3.3 51 56-106 7-70 (91)
23 KOG1290 Serine/threonine prote 30.1 31 0.00068 32.9 1.7 19 48-66 62-83 (590)
24 PF07429 Glyco_transf_56: 4-al 29.9 81 0.0018 28.6 4.2 52 60-114 214-267 (360)
25 cd06401 PB1_TFG The PB1 domain 28.0 83 0.0018 22.7 3.2 31 54-87 5-35 (81)
26 PF11834 DUF3354: Domain of un 27.2 47 0.001 23.1 1.8 17 73-89 26-42 (69)
27 KOG2124 Glycosylphosphatidylin 26.8 82 0.0018 31.7 3.9 82 43-124 87-195 (883)
28 COG1759 5-formaminoimidazole-4 25.7 34 0.00074 30.9 1.1 80 45-126 87-200 (361)
29 PRK02797 4-alpha-L-fucosyltran 25.6 1.3E+02 0.0028 26.9 4.7 65 47-114 141-228 (322)
30 cd04395 RhoGAP_ARHGAP21 RhoGAP 23.8 1.6E+02 0.0035 23.2 4.6 42 73-114 19-60 (196)
31 PF12058 DUF3539: Protein of u 22.7 14 0.0003 27.3 -1.6 14 68-81 4-17 (88)
32 PF04332 DUF475: Protein of un 22.4 57 0.0012 28.8 1.8 16 2-17 6-21 (294)
33 PRK10308 3-methyl-adenine DNA 22.1 3E+02 0.0065 23.5 6.1 61 50-110 45-121 (283)
34 PF04304 DUF454: Protein of un 21.8 55 0.0012 21.8 1.3 23 69-91 5-27 (71)
35 COG4862 MecA Negative regulato 21.8 52 0.0011 28.0 1.4 26 71-96 37-62 (224)
36 PF05194 UreE_C: UreE urease a 21.7 1.2E+02 0.0026 21.1 3.1 29 49-82 23-51 (87)
37 PF06849 DUF1246: Protein of u 21.7 5 0.00011 31.2 -4.3 23 45-67 67-92 (124)
38 cd06410 PB1_UP2 Uncharacterize 20.7 1.3E+02 0.0029 21.9 3.2 33 54-90 17-50 (97)
39 PF12062 HSNSD: heparan sulfat 20.4 73 0.0016 30.0 2.1 39 49-87 95-140 (487)
No 1
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=100.00 E-value=2.1e-37 Score=228.37 Aligned_cols=99 Identities=39% Similarity=0.709 Sum_probs=87.0
Q ss_pred CCCHHHHHHHHHHHHHhhhcCCCccccCCCCCccccCCCCCCCCCCCCCCCeEEEEecc-ceeeeeeccCcCcHHHHHHH
Q 043987 1 MISSKRLIKLARKSQMIASMGRERISLPRTNSTDYHLGSHNKSSSSVAEKGHFVIYTTD-QRRYVLPLTYLNSSIFLELL 79 (152)
Q Consensus 1 m~s~~kL~~~~kKWqk~aa~~rk~~s~~~~~~~~~~~~~~~s~~~~~vpkG~~~VYVGe-~~RfvVp~~yL~hP~F~~LL 79 (152)
||+.+|..+.++||++.++.++++.+...+ .+...+|+||||||||+ ++||+||++|||||+|++||
T Consensus 1 M~~~~k~~~~~~k~~~~~~~~~~~~~~~~~------------~~~~~vp~G~~~VyVG~~~~Rfvvp~~~L~hp~f~~LL 68 (100)
T PF02519_consen 1 MASRLKSLASAKKWQSRARSKSSSSSSSRS------------SSESDVPKGHFAVYVGEERRRFVVPVSYLNHPLFQELL 68 (100)
T ss_pred CccHHHHHHHHHhhhhhhhhcccccccccc------------cccCCCCCCeEEEEeCccceEEEechHHcCchhHHHHH
Confidence 999999999999999987666554432111 11357899999999997 99999999999999999999
Q ss_pred HhhHHhcCCCCCCCccccCcHHHHHHHHHHHH
Q 043987 80 KLSEEEYGLKSDGPITLPCDAVFMDLVVSFIQ 111 (152)
Q Consensus 80 ~~seeEfG~~~~G~L~IPCd~~~Fe~vl~~l~ 111 (152)
++|||||||+++|+|+||||+++|++++|+|+
T Consensus 69 ~~aeeEfG~~~~G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 69 EQAEEEFGFDQDGPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred HHHhhhcCcCCCCcEEeeCCHHHHHHHHHHhC
Confidence 99999999999999999999999999999985
No 2
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=7.5e-36 Score=222.27 Aligned_cols=91 Identities=26% Similarity=0.552 Sum_probs=78.8
Q ss_pred HHHHHHHHHHHHHhhhcCCCccccCCCCCccccCCCCCCCCCCCCCCCeEEEEecc-ceeeeeeccCcCcHHHHHHHHhh
Q 043987 4 SKRLIKLARKSQMIASMGRERISLPRTNSTDYHLGSHNKSSSSVAEKGHFVIYTTD-QRRYVLPLTYLNSSIFLELLKLS 82 (152)
Q Consensus 4 ~~kL~~~~kKWqk~aa~~rk~~s~~~~~~~~~~~~~~~s~~~~~vpkG~~~VYVGe-~~RfvVp~~yL~hP~F~~LL~~s 82 (152)
.++|++|+|||+++++.+ . . + + ...+.++|+||||||||+ ++||+||++|||||+|++||++|
T Consensus 12 ~~~~kq~l~r~~s~~~~~---~-----~------~-~-~~~~~~vpkG~~aVyVG~~~~RfvVp~~~L~hP~F~~LL~~a 75 (104)
T PLN03090 12 TAMLKQILKRCSSLGKKQ---G-----Y------D-E-DGLPLDVPKGHFPVYVGENRSRYIVPISFLTHPEFQSLLQQA 75 (104)
T ss_pred HHHHHHHHHHHHHhcccC---C-----c------c-c-ccCCCCCCCCcEEEEECCCCEEEEEEHHHcCCHHHHHHHHHH
Confidence 578999999999875322 1 0 1 0 123667999999999997 68999999999999999999999
Q ss_pred HHhcCCCCCCCccccCcHHHHHHHHHHH
Q 043987 83 EEEYGLKSDGPITLPCDAVFMDLVVSFI 110 (152)
Q Consensus 83 eeEfG~~~~G~L~IPCd~~~Fe~vl~~l 110 (152)
||||||+++|+|+||||+++|++++|+|
T Consensus 76 eeEfGf~~~G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 76 EEEFGFDHDMGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred HHHhCCCCCCcEEEeCCHHHHHHHHHHh
Confidence 9999999999999999999999999998
No 3
>PLN03219 uncharacterized protein; Provisional
Probab=99.97 E-value=3e-31 Score=198.54 Aligned_cols=90 Identities=27% Similarity=0.532 Sum_probs=72.8
Q ss_pred HHHHHHhhhcCCCccccCCCCCccccCCCCCCCCCCCCCCCeEEEEecc---ceeeeeeccCcCcHHHHHHHHhhHHhcC
Q 043987 11 ARKSQMIASMGRERISLPRTNSTDYHLGSHNKSSSSVAEKGHFVIYTTD---QRRYVLPLTYLNSSIFLELLKLSEEEYG 87 (152)
Q Consensus 11 ~kKWqk~aa~~rk~~s~~~~~~~~~~~~~~~s~~~~~vpkG~~~VYVGe---~~RfvVp~~yL~hP~F~~LL~~seeEfG 87 (152)
-+-|+...-.+|+..+.+... ++.+..+||||||||||+ ++||+||++|||||+|++||++||||||
T Consensus 12 ~~~~~~~~~~~~~~~~~~~~~----------~~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfG 81 (108)
T PLN03219 12 KQIFKSQSMRNKNGSSSPSSS----------TTTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECG 81 (108)
T ss_pred HHHHHHHHHhcccCCCCCccC----------CCCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhC
Confidence 355775555566544432222 122568999999999996 7999999999999999999999999999
Q ss_pred CCC-CCCccccCcHHHHHHHHHHH
Q 043987 88 LKS-DGPITLPCDAVFMDLVVSFI 110 (152)
Q Consensus 88 ~~~-~G~L~IPCd~~~Fe~vl~~l 110 (152)
|++ +|+|+||||++.|++++..-
T Consensus 82 f~~~~G~L~IPCd~~~F~~ll~~~ 105 (108)
T PLN03219 82 FHHSMGGLTIPCREESFLHLITSH 105 (108)
T ss_pred CCCCCCCEEEeCCHHHHHHHHHhh
Confidence 997 69999999999999999653
No 4
>PLN03220 uncharacterized protein; Provisional
Probab=99.97 E-value=1.4e-30 Score=194.16 Aligned_cols=64 Identities=33% Similarity=0.711 Sum_probs=60.5
Q ss_pred CCCCCCCeEEEEecc-----ceeeeeeccCcCcHHHHHHHHhhHHhcCCCC-CCCccccCcHHHHHHHHH
Q 043987 45 SSVAEKGHFVIYTTD-----QRRYVLPLTYLNSSIFLELLKLSEEEYGLKS-DGPITLPCDAVFMDLVVS 108 (152)
Q Consensus 45 ~~~vpkG~~~VYVGe-----~~RfvVp~~yL~hP~F~~LL~~seeEfG~~~-~G~L~IPCd~~~Fe~vl~ 108 (152)
+.+|||||||||||+ ++||+||+.|||||+|++||++|||||||++ +|+|+||||++.|++++.
T Consensus 32 ~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~ 101 (105)
T PLN03220 32 SDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCREEVFLDLIA 101 (105)
T ss_pred cCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCCHHHHHHHHH
Confidence 567999999999996 6999999999999999999999999999998 699999999999999985
No 5
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=82.40 E-value=0.61 Score=32.47 Aligned_cols=54 Identities=13% Similarity=0.243 Sum_probs=40.1
Q ss_pred ceeeeeeccCcC-c--HHHHHHHHhhHHhcCCCCCCCccccCcHHHHHHHHHHHHcC
Q 043987 60 QRRYVLPLTYLN-S--SIFLELLKLSEEEYGLKSDGPITLPCDAVFMDLVVSFIQRG 113 (152)
Q Consensus 60 ~~RfvVp~~yL~-h--P~F~~LL~~seeEfG~~~~G~L~IPCd~~~Fe~vl~~l~~~ 113 (152)
+++|.++.+.|. + ..|..++........-..+|.+-|-++...|++||..++.+
T Consensus 7 G~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~~ 63 (94)
T PF02214_consen 7 GTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRTG 63 (94)
T ss_dssp TEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHHT
T ss_pred CEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhhc
Confidence 567888877776 4 37888887652222224689999999999999999999995
No 6
>PRK02899 adaptor protein; Provisional
Probab=79.81 E-value=1.2 Score=36.40 Aligned_cols=25 Identities=28% Similarity=0.768 Sum_probs=21.6
Q ss_pred cHHHHHHHHhhHHhcCCCCCCCccc
Q 043987 72 SSIFLELLKLSEEEYGLKSDGPITL 96 (152)
Q Consensus 72 hP~F~~LL~~seeEfG~~~~G~L~I 96 (152)
+-+|.++|+++..|+||..+|||+|
T Consensus 38 e~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 38 HQLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHHhhhccCcccCCeEEE
Confidence 4578888999999999999999964
No 7
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=74.92 E-value=4.5 Score=27.25 Aligned_cols=51 Identities=24% Similarity=0.425 Sum_probs=35.9
Q ss_pred EeccceeeeeeccCcCcHHHHHHHHhhHHhcCCC----------CCC-CccccCcHHHHHHHHHHHH
Q 043987 56 YTTDQRRYVLPLTYLNSSIFLELLKLSEEEYGLK----------SDG-PITLPCDAVFMDLVVSFIQ 111 (152)
Q Consensus 56 YVGe~~RfvVp~~yL~hP~F~~LL~~seeEfG~~----------~~G-~L~IPCd~~~Fe~vl~~l~ 111 (152)
|.|+.+||.||- ..-|.+|..+..+.|++. .+| .++|.++. .++.++.+..
T Consensus 8 ~~~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~ 69 (81)
T smart00666 8 YGGETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYD 69 (81)
T ss_pred ECCEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHH
Confidence 445789999985 777999999999998874 244 56777765 3444444444
No 8
>PRK02315 adaptor protein; Provisional
Probab=74.32 E-value=1.9 Score=35.92 Aligned_cols=25 Identities=20% Similarity=0.513 Sum_probs=22.5
Q ss_pred cHHHHHHHHhhHHhcCCCCCCCccc
Q 043987 72 SSIFLELLKLSEEEYGLKSDGPITL 96 (152)
Q Consensus 72 hP~F~~LL~~seeEfG~~~~G~L~I 96 (152)
+-+|.++|+++..|+||..+|||+|
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 4689999999999999999999964
No 9
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=73.22 E-value=6.9 Score=26.12 Aligned_cols=53 Identities=28% Similarity=0.458 Sum_probs=37.6
Q ss_pred EeccceeeeeeccCcCcHHHHHHHHhhHHhcCCC----------CCCC-ccccCcHHHHHHHHHHHHc
Q 043987 56 YTTDQRRYVLPLTYLNSSIFLELLKLSEEEYGLK----------SDGP-ITLPCDAVFMDLVVSFIQR 112 (152)
Q Consensus 56 YVGe~~RfvVp~~yL~hP~F~~LL~~seeEfG~~----------~~G~-L~IPCd~~~Fe~vl~~l~~ 112 (152)
|-|+.+||.+|. .++-|.+|..+..+.|++. .+|- ++|.++ ..|+.++....+
T Consensus 7 ~~~~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~~ 70 (81)
T cd05992 7 YGGEIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEARR 70 (81)
T ss_pred ecCCCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHhh
Confidence 446889999998 8889999999999988874 2333 455554 455555555543
No 10
>PF05389 MecA: Negative regulator of genetic competence (MecA); InterPro: IPR008681 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. This family contains several bacterial MecA proteins. In complex media competence development is poor, and there is little or no expression of late competence genes. Overexpression of MecA inhibits comG transcription [, , ]. MecA enables the recognition and targeting of unfolded and aggregated proteins to the ClpC protease or to other proteins involved in proteolysis. Acts negatively in the development of competence by binding ComK and recruiting it to the ClpCP protease. When overexpressed, inhibits sporulation. Also involved in Spx degradation by ClpC. ; PDB: 3JTP_C 2Y1R_O 3PXI_c 3PXG_b 3JTO_D 3JTN_A.
Probab=70.37 E-value=1.4 Score=35.83 Aligned_cols=25 Identities=36% Similarity=0.793 Sum_probs=0.0
Q ss_pred cHHHHHHHHhhHHhcCCCCCCCccc
Q 043987 72 SSIFLELLKLSEEEYGLKSDGPITL 96 (152)
Q Consensus 72 hP~F~~LL~~seeEfG~~~~G~L~I 96 (152)
+-.|.++|+++.+|+||..+|||++
T Consensus 38 e~fF~~ileea~~e~~F~~~~~l~~ 62 (220)
T PF05389_consen 38 EEFFYSILEEADEEHGFENDGPLTF 62 (220)
T ss_dssp -------------------------
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 6789999999999999999999975
No 11
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=60.23 E-value=22 Score=24.28 Aligned_cols=57 Identities=21% Similarity=0.359 Sum_probs=41.4
Q ss_pred EEEEeccceeeeeeccCc--CcHHHHHHHHhhHHhcCCCCCC--Ccccc-CcHHHHHHHHHHHHcC
Q 043987 53 FVIYTTDQRRYVLPLTYL--NSSIFLELLKLSEEEYGLKSDG--PITLP-CDAVFMDLVVSFIQRG 113 (152)
Q Consensus 53 ~~VYVGe~~RfvVp~~yL--~hP~F~~LL~~seeEfG~~~~G--~L~IP-Cd~~~Fe~vl~~l~~~ 113 (152)
+.+.||+.++|-+.-..| ..|.|+.+++.. +....+ .|.++ ++...|+.++..+-.+
T Consensus 13 ~~i~v~d~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~ 74 (111)
T PF00651_consen 13 VTIRVGDGKTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMYTG 74 (111)
T ss_dssp EEEEETTTEEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHHHS
T ss_pred EEEEECCCEEEeechhhhhccchhhhhccccc----ccccccccccccccccccccccccccccCC
Confidence 345567788999988887 569999999987 222333 35544 7899999999998766
No 12
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=53.59 E-value=19 Score=25.52 Aligned_cols=48 Identities=25% Similarity=0.449 Sum_probs=33.3
Q ss_pred EEEeccceeeeeeccCcCcHHHHHHHHhhHHhcCCCC------------CCCccccCcHHHHHH
Q 043987 54 VIYTTDQRRYVLPLTYLNSSIFLELLKLSEEEYGLKS------------DGPITLPCDAVFMDL 105 (152)
Q Consensus 54 ~VYVGe~~RfvVp~~yL~hP~F~~LL~~seeEfG~~~------------~G~L~IPCd~~~Fe~ 105 (152)
+.|-||..||-+|..- -|++|.++-.+.|++.. +..++|.|+.++=|-
T Consensus 5 ~~~~~d~~r~~l~~~~----~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~ea 64 (82)
T cd06407 5 ATYGEEKIRFRLPPSW----GFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEEC 64 (82)
T ss_pred EEeCCeEEEEEcCCCC----CHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHH
Confidence 4566788999988643 58888888888776542 345678888765443
No 13
>PF08948 DUF1859: Domain of unknown function (DUF1859); InterPro: IPR015043 This entry is represented by Bacteriophage PRD1, P5. This protein has no known function though it is sometimes found in the N terminus of bacteriophage spike proteins []. ; PDB: 1W8X_N.
Probab=50.78 E-value=7.1 Score=29.98 Aligned_cols=28 Identities=25% Similarity=0.585 Sum_probs=9.0
Q ss_pred CCCeEEEEeccceeee----------eeccCcCcHHHH
Q 043987 49 EKGHFVIYTTDQRRYV----------LPLTYLNSSIFL 76 (152)
Q Consensus 49 pkG~~~VYVGe~~Rfv----------Vp~~yL~hP~F~ 76 (152)
..|||||.|-.+-+|+ +|+-|||.|+-+
T Consensus 86 ~QGYfPlL~~~~~KFv~~~~~~GKks~P~~FlNF~IA~ 123 (126)
T PF08948_consen 86 KQGYFPLLVPGRAKFVVRHTGSGKKSVPMFFLNFTIAQ 123 (126)
T ss_dssp --SS--EEE--SSSSEEEEEEEESS----S--------
T ss_pred CcccceeeccchhhhhhhhccCCCcceeeEEEeceeee
Confidence 5799999997766666 688888888744
No 14
>PF14317 YcxB: YcxB-like protein
Probab=47.16 E-value=33 Score=21.01 Aligned_cols=33 Identities=15% Similarity=0.308 Sum_probs=26.0
Q ss_pred CCCCeEEEEeccceeeeeeccCcCcHHHHHHHH
Q 043987 48 AEKGHFVIYTTDQRRYVLPLTYLNSSIFLELLK 80 (152)
Q Consensus 48 vpkG~~~VYVGe~~RfvVp~~yL~hP~F~~LL~ 80 (152)
.-+.++-+|+++..-++||.+.++.--..++.+
T Consensus 27 e~~~~~~l~~~~~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 27 ETKDYFYLYLGKNQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred EeCCEEEEEECCCeEEEEEHHHCCHhHHHHHHH
Confidence 357889999999999999999998555555543
No 15
>PF11822 DUF3342: Domain of unknown function (DUF3342); InterPro: IPR021777 This family of proteins are functionally uncharacterised. This family is found in bacteria. This presumed domain is typically between 170 to 303 amino acids in length. The N-terminal half of this family is a BTB-like domain.
Probab=46.85 E-value=24 Score=31.29 Aligned_cols=54 Identities=19% Similarity=0.399 Sum_probs=42.3
Q ss_pred ceeeeeeccCcC--cHHHHHHHHh---hHHhcCCCCCCCccccCcHHHHHHHHHHHHcCCCH
Q 043987 60 QRRYVLPLTYLN--SSIFLELLKL---SEEEYGLKSDGPITLPCDAVFMDLVVSFIQRGIDS 116 (152)
Q Consensus 60 ~~RfvVp~~yL~--hP~F~~LL~~---seeEfG~~~~G~L~IPCd~~~Fe~vl~~l~~~~~~ 116 (152)
.|=|..|.+.|- ...|++.|.. ..++.. +=.|.+-||+..|+.++.-+++..+.
T Consensus 13 ~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~~---~idisVhCDv~iF~WLm~yv~~~~p~ 71 (317)
T PF11822_consen 13 KRDFTCPRDLLVSEMRYFAEYLSRYINDSQRWE---EIDISVHCDVHIFEWLMRYVKGEPPS 71 (317)
T ss_pred ceeeeccHHHHHHhhHHHHHHHhhcccccCcCC---CcceEEecChhHHHHHHHHhhcCCCc
Confidence 578999998885 4679999976 333332 56688999999999999999986554
No 16
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=45.83 E-value=70 Score=22.98 Aligned_cols=57 Identities=9% Similarity=0.298 Sum_probs=39.8
Q ss_pred EEEeccceeeeeeccCcCcHHHHHHHHhhHHhcCCC---------CCCCccccCcHHHHHHHHHHHHcC
Q 043987 54 VIYTTDQRRYVLPLTYLNSSIFLELLKLSEEEYGLK---------SDGPITLPCDAVFMDLVVSFIQRG 113 (152)
Q Consensus 54 ~VYVGe~~RfvVp~~yL~hP~F~~LL~~seeEfG~~---------~~G~L~IPCd~~~Fe~vl~~l~~~ 113 (152)
+-|-||..||.++- -.++-|.+|..+-+.-|+++ .+-+++|.|++++ +..+.+.++.
T Consensus 5 aty~~d~~rf~~~~--~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~e~v~lssd~eL-eE~~rl~~~~ 70 (81)
T cd06396 5 VTYNGESQSFLVSD--SENTTWASVEAMVKVSFGLNDIQIKYVDEENEEVSVNSQGEY-EEALKSAVRQ 70 (81)
T ss_pred EEECCeEEEEEecC--CCCCCHHHHHHHHHHHhCCCcceeEEEcCCCCEEEEEchhhH-HHHHHHHHhC
Confidence 45668899999984 22557999999999888854 3456789998765 4444454443
No 17
>cd06397 PB1_UP1 Uncharacterized protein 1. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=39.20 E-value=53 Score=23.91 Aligned_cols=46 Identities=30% Similarity=0.434 Sum_probs=33.8
Q ss_pred EeccceeeeeeccCcCcHHHHHHHHhhHHhcCCC----------CC-CCccccCcHHHHHH
Q 043987 56 YTTDQRRYVLPLTYLNSSIFLELLKLSEEEYGLK----------SD-GPITLPCDAVFMDL 105 (152)
Q Consensus 56 YVGe~~RfvVp~~yL~hP~F~~LL~~seeEfG~~----------~~-G~L~IPCd~~~Fe~ 105 (152)
|-|+.|||..|. -|.+.+|-++.+.=|-+. +| ..|||.=+.++.+.
T Consensus 7 ~~g~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~eL~d~ 63 (82)
T cd06397 7 FLGDTRRIVFPD----IPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKELQDF 63 (82)
T ss_pred eCCceEEEecCC----CccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHHHHHH
Confidence 557899999998 899999999988877665 34 34677665554443
No 18
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=38.81 E-value=32 Score=22.95 Aligned_cols=43 Identities=35% Similarity=0.561 Sum_probs=29.2
Q ss_pred Eecccee-eeeeccCcCcHHHHHHHHhhHHhcCCC----------CCCC-ccccCcHHH
Q 043987 56 YTTDQRR-YVLPLTYLNSSIFLELLKLSEEEYGLK----------SDGP-ITLPCDAVF 102 (152)
Q Consensus 56 YVGe~~R-fvVp~~yL~hP~F~~LL~~seeEfG~~----------~~G~-L~IPCd~~~ 102 (152)
|.|+.+| +.+| ..+-|.+|.++.++.||.. .+|- ++|.++.++
T Consensus 8 ~~~~~~~~~~~~----~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~Dl 62 (84)
T PF00564_consen 8 YGGDIRRIISLP----SDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDEDL 62 (84)
T ss_dssp ETTEEEEEEEEC----STSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHHH
T ss_pred ECCeeEEEEEcC----CCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHHH
Confidence 3455556 4444 5679999999999999983 3553 567666543
No 19
>PF02209 VHP: Villin headpiece domain; InterPro: IPR003128 Villin is an F-actin bundling protein involved in the maintenance of the microvilli of the absorptive epithelia. The villin-type "headpiece" domain is a modular motif found at the extreme C terminus of larger "core" domains in over 25 cytoskeletal proteins in plants and animals, often in assocation with the Gelsolin repeat. Although the headpiece is classified as an F-actin-binding domain, it has been shown that not all headpiece domains are intrinsically F-actin-binding motifs, surface charge distribution may be an important element for F-actin recognition []. An autonomously folding, 35 residue, thermostable subdomain (HP36) of the full-length 76 amino acid residue villin headpiece, is the smallest known example of a cooperatively folded domain of a naturally occurring protein. The structure of HP36, as determined by NMR spectroscopy, consists of three short helices surrounding a tightly packed hydrophobic core []. ; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1ZV6_A 1QZP_A 1UND_A 2PPZ_A 3TJW_B 1YU8_X 2JM0_A 1WY4_A 3MYC_A 1YU5_X ....
Probab=34.35 E-value=22 Score=21.90 Aligned_cols=19 Identities=32% Similarity=0.551 Sum_probs=15.3
Q ss_pred CcCcHHHHHHHHhhHHhcC
Q 043987 69 YLNSSIFLELLKLSEEEYG 87 (152)
Q Consensus 69 yL~hP~F~~LL~~seeEfG 87 (152)
||+.-.|++++.|+.+||.
T Consensus 1 YLsd~dF~~vFgm~~~eF~ 19 (36)
T PF02209_consen 1 YLSDEDFEKVFGMSREEFY 19 (36)
T ss_dssp GS-HHHHHHHHSS-HHHHH
T ss_pred CcCHHHHHHHHCCCHHHHH
Confidence 7899999999999999984
No 20
>smart00153 VHP Villin headpiece domain.
Probab=33.89 E-value=27 Score=21.38 Aligned_cols=19 Identities=32% Similarity=0.581 Sum_probs=17.1
Q ss_pred CcCcHHHHHHHHhhHHhcC
Q 043987 69 YLNSSIFLELLKLSEEEYG 87 (152)
Q Consensus 69 yL~hP~F~~LL~~seeEfG 87 (152)
||+.-.|+.++.++.+||-
T Consensus 1 yLsdeeF~~vfgmsr~eF~ 19 (36)
T smart00153 1 YLSDEDFEEVFGMTREEFY 19 (36)
T ss_pred CCCHHHHHHHHCCCHHHHH
Confidence 7899999999999999984
No 21
>PRK13317 pantothenate kinase; Provisional
Probab=33.87 E-value=61 Score=27.61 Aligned_cols=61 Identities=18% Similarity=0.200 Sum_probs=45.4
Q ss_pred cCc-CcHHHHHHHHhhHH------------hcCCCCCCCccccCcHHHHHHHHHHHHcCCCHHHHHHHHHhhhcc
Q 043987 68 TYL-NSSIFLELLKLSEE------------EYGLKSDGPITLPCDAVFMDLVVSFIQRGIDSEGVQKAFLNTITT 129 (152)
Q Consensus 68 ~yL-~hP~F~~LL~~see------------EfG~~~~G~L~IPCd~~~Fe~vl~~l~~~~~~~d~e~~~l~si~~ 129 (152)
.+| +---|.+|++.|.. -||.. ..++.+.--...|-.++.++.++.+++|+.+.++.+++.
T Consensus 135 ~lL~~~~~~~el~~la~~g~~~~~Dl~v~dIy~~~-~~~l~i~s~csvFakv~~l~~~g~~~eDIaasl~~~v~~ 208 (277)
T PRK13317 135 KLLTNISDYEQLIELAKHGDRNNIDLKVGDIYKGP-LPPIPGDLTASNFGKVLHHLDSEFTSSDILAGVIGLVGE 208 (277)
T ss_pred HHHhCCCCHHHHHHHHhcCCCccccceeccccCCC-CCCCCCceeEehhhhhhhhhccCCCHHHHHHHHHHHHHH
Confidence 344 44558888888865 25543 456777777778888888999999999999999888754
No 22
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=33.37 E-value=60 Score=23.43 Aligned_cols=51 Identities=27% Similarity=0.367 Sum_probs=33.7
Q ss_pred Eeccceeeeeecc-CcCcHHHHHHHHhhHHhcCCCC-----------CCC-ccccCcHHHHHHH
Q 043987 56 YTTDQRRYVLPLT-YLNSSIFLELLKLSEEEYGLKS-----------DGP-ITLPCDAVFMDLV 106 (152)
Q Consensus 56 YVGe~~RfvVp~~-yL~hP~F~~LL~~seeEfG~~~-----------~G~-L~IPCd~~~Fe~v 106 (152)
|-|+-+||-+|.. --.+.-|..|.++-++-|.... +|- ++|.||.++-+-+
T Consensus 7 y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~ 70 (91)
T cd06398 7 YGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAI 70 (91)
T ss_pred eCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHH
Confidence 4467899999974 0114578888888888776553 444 5677876654433
No 23
>KOG1290 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=30.07 E-value=31 Score=32.92 Aligned_cols=19 Identities=21% Similarity=0.289 Sum_probs=16.1
Q ss_pred CCCCeEEEEecc---ceeeeee
Q 043987 48 AEKGHFVIYTTD---QRRYVLP 66 (152)
Q Consensus 48 vpkG~~~VYVGe---~~RfvVp 66 (152)
.+-||.||++|| ..||+|-
T Consensus 62 ~kGGYHpV~IGD~F~~gRY~v~ 83 (590)
T KOG1290|consen 62 RKGGYHPVRIGDVFNGGRYHVQ 83 (590)
T ss_pred hcCCCceeeccccccCceEEEE
Confidence 578999999998 4899875
No 24
>PF07429 Glyco_transf_56: 4-alpha-L-fucosyltransferase glycosyl transferase group 56; InterPro: IPR009993 This family contains the bacterial enzyme 4-alpha-L-fucosyltransferase (Fuc4NAc transferase) (approximately 360 residues long). This catalyses the synthesis of Fuc4NAc-ManNAcA-GlcNAc-PP-Und (lipid III) as part of the biosynthetic pathway of enterobacterial common antigen (ECA), a polysaccharide comprised of the trisaccharide repeat unit Fuc4NAc-ManNAcA-GlcNAc [].; GO: 0008417 fucosyltransferase activity, 0009246 enterobacterial common antigen biosynthetic process, 0009276 Gram-negative-bacterium-type cell wall
Probab=29.88 E-value=81 Score=28.59 Aligned_cols=52 Identities=13% Similarity=0.316 Sum_probs=35.5
Q ss_pred ceeeeeeccCcC--cHHHHHHHHhhHHhcCCCCCCCccccCcHHHHHHHHHHHHcCC
Q 043987 60 QRRYVLPLTYLN--SSIFLELLKLSEEEYGLKSDGPITLPCDAVFMDLVVSFIQRGI 114 (152)
Q Consensus 60 ~~RfvVp~~yL~--hP~F~~LL~~seeEfG~~~~G~L~IPCd~~~Fe~vl~~l~~~~ 114 (152)
..|++||+.|=. .-...++.+.+++-|| ++-+.+-=+---|+..+.+|.+-+
T Consensus 214 ~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~---~~~~~iL~e~mpf~eYl~lL~~cD 267 (360)
T PF07429_consen 214 DVKIIVPLSYGANNQAYIQQVIQAGKELFG---AENFQILTEFMPFDEYLALLSRCD 267 (360)
T ss_pred CeEEEEECCCCCchHHHHHHHHHHHHHhcC---ccceeEhhhhCCHHHHHHHHHhCC
Confidence 479999999974 5678888888888888 333444334445666666666543
No 25
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=27.97 E-value=83 Score=22.74 Aligned_cols=31 Identities=19% Similarity=0.179 Sum_probs=21.1
Q ss_pred EEEeccceeeeeeccCcCcHHHHHHHHhhHHhcC
Q 043987 54 VIYTTDQRRYVLPLTYLNSSIFLELLKLSEEEYG 87 (152)
Q Consensus 54 ~VYVGe~~RfvVp~~yL~hP~F~~LL~~seeEfG 87 (152)
+||-||-||+-+|.+- =-|.+|.++.+..|.
T Consensus 5 ~~~g~DiR~~~~~~~~---~t~~~L~~~v~~~F~ 35 (81)
T cd06401 5 AQLGDDIRRIPIHNED---ITYDELLLMMQRVFR 35 (81)
T ss_pred EEeCCeEEEEeccCcc---ccHHHHHHHHHHHhc
Confidence 4666777887766422 267888888876665
No 26
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=27.22 E-value=47 Score=23.08 Aligned_cols=17 Identities=35% Similarity=0.694 Sum_probs=15.3
Q ss_pred HHHHHHHHhhHHhcCCC
Q 043987 73 SIFLELLKLSEEEYGLK 89 (152)
Q Consensus 73 P~F~~LL~~seeEfG~~ 89 (152)
-.++|||+.|++.||+.
T Consensus 26 ~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFS 42 (69)
T ss_pred ccHHHHHHHHHHHhCCC
Confidence 37999999999999985
No 27
>KOG2124 consensus Glycosylphosphatidylinositol anchor synthesis protein [Signal transduction mechanisms]
Probab=26.83 E-value=82 Score=31.70 Aligned_cols=82 Identities=11% Similarity=0.222 Sum_probs=61.6
Q ss_pred CCCCCCCCCeEEEEecc-ceeeeeeccCcCcHH-HHHHHHhhHHhcCCCCCCCcc-------------------------
Q 043987 43 SSSSVAEKGHFVIYTTD-QRRYVLPLTYLNSSI-FLELLKLSEEEYGLKSDGPIT------------------------- 95 (152)
Q Consensus 43 ~~~~~vpkG~~~VYVGe-~~RfvVp~~yL~hP~-F~~LL~~seeEfG~~~~G~L~------------------------- 95 (152)
|.|+..+.||+|..-|. .--=.|+....++|+ |....+++..-|+|.+...+.
T Consensus 87 r~PTeSRpghvAliaGfyedpSAvtkgwk~NPv~FDsvFN~S~~t~~~gs~dil~~fs~~~~~v~~~~y~~~~~~~~~d~ 166 (883)
T KOG2124|consen 87 RVPTESRPGHVALIAGFYEDPSAVTKGWKSNPVNFDSVFNRSRHTYSFGSPDILPMFSEDLSHVDTPMYDHELEDFDSDA 166 (883)
T ss_pred CCCCCCCCCcEEEEeccccChHHhhhhhhcCCchhhhhhhhhhhhhcccCcccchhhhcCCCccCccccchhHhhccccc
Confidence 45778899999999995 222345566777775 899999999888886543332
Q ss_pred ccCcHHHHHHHHHHHHcCCCHHHHHHHHH
Q 043987 96 LPCDAVFMDLVVSFIQRGIDSEGVQKAFL 124 (152)
Q Consensus 96 IPCd~~~Fe~vl~~l~~~~~~~d~e~~~l 124 (152)
+-||+-.|+++-.+++++...+++++++.
T Consensus 167 ~~lD~WvFd~~~~l~~~~~~~~~L~~~~~ 195 (883)
T KOG2124|consen 167 IELDEWVFDRVDDLLHNSTNDQELRDLLH 195 (883)
T ss_pred cccchhhhhhHHHHHhhhhcchhHHHhhc
Confidence 45788899999999999876667887776
No 28
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=25.69 E-value=34 Score=30.91 Aligned_cols=80 Identities=20% Similarity=0.452 Sum_probs=47.1
Q ss_pred CCCCCCCeEEEEec-c--ceeeeeeccCcCcH----------HHHHHHHhhH----HhcCC--CCCCCc-----------
Q 043987 45 SSVAEKGHFVIYTT-D--QRRYVLPLTYLNSS----------IFLELLKLSE----EEYGL--KSDGPI----------- 94 (152)
Q Consensus 45 ~~~vpkG~~~VYVG-e--~~RfvVp~~yL~hP----------~F~~LL~~se----eEfG~--~~~G~L----------- 94 (152)
..-+|.|-|++||| | -..|.||+ +++- .-..||++|. +.|.= +.||++
T Consensus 87 ~I~IP~gSfv~Y~G~d~ie~~~~vP~--fGnR~lLrwE~~~~~~~~lLekAgi~~P~~~~~PeeIdr~VIVK~pgAkggR 164 (361)
T COG1759 87 AIFIPHGSFVAYVGYDGIENEFEVPM--FGNRELLRWEEDRKLEYKLLEKAGLRIPKKYKSPEEIDRPVIVKLPGAKGGR 164 (361)
T ss_pred eEEecCCceEEEecchhhhhcccCcc--cccHhHhhhhcchhhHHHHHHHcCCCCCcccCChHHcCCceEEecCCccCCc
Confidence 34689999999999 4 36677773 3332 2356777774 12210 023433
Q ss_pred --cccCcHH-HHHHHHHHHHcCCC-HHHHHHHHHhh
Q 043987 95 --TLPCDAV-FMDLVVSFIQRGID-SEGVQKAFLNT 126 (152)
Q Consensus 95 --~IPCd~~-~Fe~vl~~l~~~~~-~~d~e~~~l~s 126 (152)
-+.=+.. +-|.+-.+++++.- .+|+++|-+.-
T Consensus 165 GyFiA~s~eef~ek~e~l~~~gvi~~edlkna~IeE 200 (361)
T COG1759 165 GYFIASSPEEFYEKAERLLKRGVITEEDLKNARIEE 200 (361)
T ss_pred eEEEEcCHHHHHHHHHHHHHcCCcchhhhhhceeeE
Confidence 2333444 44556677777763 45888877654
No 29
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=25.62 E-value=1.3e+02 Score=26.87 Aligned_cols=65 Identities=12% Similarity=0.255 Sum_probs=43.3
Q ss_pred CCCCCeEEEEecc---------------------ceeeeeeccC--cCcHHHHHHHHhhHHhcCCCCCCCccccCcHHHH
Q 043987 47 VAEKGHFVIYTTD---------------------QRRYVLPLTY--LNSSIFLELLKLSEEEYGLKSDGPITLPCDAVFM 103 (152)
Q Consensus 47 ~vpkG~~~VYVGe---------------------~~RfvVp~~y--L~hP~F~~LL~~seeEfG~~~~G~L~IPCd~~~F 103 (152)
..++|.+.|.||. .-|++||+.| =|.--.++..+.+.+-|| .+-+++-=+---|
T Consensus 141 ~~~~~~~tIlvGNSgd~SN~Hie~L~~l~~~~~~~v~ii~PlsYp~gn~~Yi~~V~~~~~~lF~---~~~~~~L~e~l~f 217 (322)
T PRK02797 141 RQRAGKMTILVGNSGDRSNRHIEALRALHQQFGDNVKIIVPMGYPANNQAYIEEVRQAGLALFG---AENFQILTEKLPF 217 (322)
T ss_pred ccCCCceEEEEeCCCCCcccHHHHHHHHHHHhCCCeEEEEECCcCCCCHHHHHHHHHHHHHhcC---cccEEehhhhCCH
Confidence 3466778888871 2499999999 455566666667777777 3345544455556
Q ss_pred HHHHHHHHcCC
Q 043987 104 DLVVSFIQRGI 114 (152)
Q Consensus 104 e~vl~~l~~~~ 114 (152)
+..+.+|.+-+
T Consensus 218 ~eYl~lL~~~D 228 (322)
T PRK02797 218 DDYLALLRQCD 228 (322)
T ss_pred HHHHHHHHhCC
Confidence 66666666544
No 30
>cd04395 RhoGAP_ARHGAP21 RhoGAP_ARHGAP21: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP21-like proteins. ArhGAP21 is a multi-domain protein, containing RhoGAP, PH and PDZ domains, and is believed to play a role in the organization of the cell-cell junction complex. It has been shown to function as a GAP of Cdc42 and RhoA, and to interact with alpha-catenin and Arf6. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=23.80 E-value=1.6e+02 Score=23.22 Aligned_cols=42 Identities=19% Similarity=0.252 Sum_probs=34.2
Q ss_pred HHHHHHHHhhHHhcCCCCCCCccccCcHHHHHHHHHHHHcCC
Q 043987 73 SIFLELLKLSEEEYGLKSDGPITLPCDAVFMDLVVSFIQRGI 114 (152)
Q Consensus 73 P~F~~LL~~seeEfG~~~~G~L~IPCd~~~Fe~vl~~l~~~~ 114 (152)
|.|-+..-..-++.|.+.+|.-++|.+...-+.+...++++.
T Consensus 19 P~iv~~~~~~l~~~g~~~eGIFR~~g~~~~i~~l~~~l~~~~ 60 (196)
T cd04395 19 PLIVEVCCNIVEARGLETVGIYRVPGNNAAISALQEELNRGG 60 (196)
T ss_pred ChHHHHHHHHHHHcCCCCccceeCCCcHHHHHHHHHHHhcCC
Confidence 455544444557889999999999999999999999999885
No 31
>PF12058 DUF3539: Protein of unknown function (DUF3539); InterPro: IPR021926 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 90 amino acids in length. This protein has a conserved NHP sequence motif. ; PDB: 3N5B_B 2XKO_C 2XG8_F.
Probab=22.70 E-value=14 Score=27.26 Aligned_cols=14 Identities=43% Similarity=0.619 Sum_probs=9.9
Q ss_pred cCcCcHHHHHHHHh
Q 043987 68 TYLNSSIFLELLKL 81 (152)
Q Consensus 68 ~yL~hP~F~~LL~~ 81 (152)
.|||||.|.-|-.-
T Consensus 4 ~YLNHPtFGlLy~V 17 (88)
T PF12058_consen 4 TYLNHPTFGLLYRV 17 (88)
T ss_dssp -EEEETTTEEEEEE
T ss_pred ccccCCccchheee
Confidence 58999998776544
No 32
>PF04332 DUF475: Protein of unknown function (DUF475); InterPro: IPR007427 This entry contains proteins that are predicted to be an integral membrane proteins with multiple transmembrane domains.
Probab=22.38 E-value=57 Score=28.78 Aligned_cols=16 Identities=13% Similarity=0.060 Sum_probs=14.5
Q ss_pred CCHHHHHHHHHHHHHh
Q 043987 2 ISSKRLIKLARKSQMI 17 (152)
Q Consensus 2 ~s~~kL~~~~kKWqk~ 17 (152)
+|++-|++|..+|||+
T Consensus 6 VNA~vLk~Ms~~Wq~~ 21 (294)
T PF04332_consen 6 VNATVLKRMSPFWQRR 21 (294)
T ss_pred hhHHHHHhhhHHHHHH
Confidence 6899999999999984
No 33
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=22.08 E-value=3e+02 Score=23.50 Aligned_cols=61 Identities=15% Similarity=0.142 Sum_probs=41.1
Q ss_pred CCeEEEEecc-ceeeeeeccCcCcHHHHHHHHhhHHhcCCCCC---------------CCccccCcHHHHHHHHHHH
Q 043987 50 KGHFVIYTTD-QRRYVLPLTYLNSSIFLELLKLSEEEYGLKSD---------------GPITLPCDAVFMDLVVSFI 110 (152)
Q Consensus 50 kG~~~VYVGe-~~RfvVp~~yL~hP~F~~LL~~seeEfG~~~~---------------G~L~IPCd~~~Fe~vl~~l 110 (152)
.|.|.|.-.. +.++.|.+..-.-+...+++.....-||++.| .+|+||...+.||-+++.|
T Consensus 45 ~~~~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aI 121 (283)
T PRK10308 45 RGVVTVIPDIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAI 121 (283)
T ss_pred cEEEEEEEcCCCceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHH
Confidence 4555555432 44555555553345566777777777777654 4689999999999988876
No 34
>PF04304 DUF454: Protein of unknown function (DUF454); InterPro: IPR007401 This is a predicted membrane protein.
Probab=21.84 E-value=55 Score=21.76 Aligned_cols=23 Identities=26% Similarity=0.384 Sum_probs=18.8
Q ss_pred CcCcHHHHHHHHhhHHhcCCCCC
Q 043987 69 YLNSSIFLELLKLSEEEYGLKSD 91 (152)
Q Consensus 69 yL~hP~F~~LL~~seeEfG~~~~ 91 (152)
++|||.|+..++.-+|.-|.+-.
T Consensus 5 l~~h~~~g~~I~~w~~~r~i~~k 27 (71)
T PF04304_consen 5 LLNHRLFGPYIRNWEEHRGIPRK 27 (71)
T ss_pred HHcCchhHHHHHHHHHCCCcCHH
Confidence 57999999999999987665543
No 35
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=21.80 E-value=52 Score=27.99 Aligned_cols=26 Identities=23% Similarity=0.505 Sum_probs=23.6
Q ss_pred CcHHHHHHHHhhHHhcCCCCCCCccc
Q 043987 71 NSSIFLELLKLSEEEYGLKSDGPITL 96 (152)
Q Consensus 71 ~hP~F~~LL~~seeEfG~~~~G~L~I 96 (152)
.|-+|.++++.+..|-+|..+|||.|
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~i 62 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWI 62 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEE
Confidence 37899999999999999999999976
No 36
>PF05194 UreE_C: UreE urease accessory protein, C-terminal domain; InterPro: IPR007864 Urease and other nickel metalloenzymes are synthesised as precursors devoid of the metalloenzyme active site. These precursors then undergo a complex post-translational maturation process that requires a number of accessory proteins. Members of this group are nickel-binding proteins required for urease metallocentre assembly []. They are believed to function as metallochaperones to deliver nickel to urease apoprotein [, ]. It has been shown by yeast two-hybrid analysis that UreE forms a dimeric complex with UreG in Helicobacter pylori []. The UreDFG-apoenzyme complex has also been shown to exist [, ] and is believed to be, with the addition of UreE, the assembly system for active urease []. The complexes, rather than the individual proteins, presumably bind to UreB via UreE/H recognition sites. The structure of Klebsiella aerogenes UreE reveals a unique two-domain architecture.The N-terminal domain is structurally related to a heat shock protein, while the C-terminal domain shows homology to the Atx1 copper metallochaperone [, ]. Significantly, the metal-binding sites in UreE and Atx1 are distinct in location and types of residues despite the relationship between these proteins and the mechanism for UreE activation of urease is proposed to be different from the thiol ligand exchange mechanism used by the copper metallochaperones. The C-terminal domain of this protein is the metal-binding region, which can bind up to six Ni molecules per dimer. Most members of this group contain a histidine-rich C-terminal motif that is involved in, but not solely responsible for, binding nickel ions in K. aerogenes UreE []. However, internal ligands, not the histidine residues at the C terminus, are necessary for UreE to assist in urease activation in K. aerogenes [], even though the truncated protein lacking the His-rich region binds two nickel ions instead of six. In H. pylori and some other organisms, the terminal histidine-rich binding sites are absent, but the internal histidine sites are present, and the latter probably function as nickel donors. Deletion analysis shows that this domain alone is sufficient for metal-binding and activation of urease [].; GO: 0016151 nickel ion binding, 0006461 protein complex assembly, 0019627 urea metabolic process; PDB: 3NXZ_B 3TJA_B 3LA0_B 3TJ9_B 3NY0_A 3L9Z_A 3TJ8_A 1EAR_A 1EB0_A 1GMU_B ....
Probab=21.68 E-value=1.2e+02 Score=21.14 Aligned_cols=29 Identities=17% Similarity=0.433 Sum_probs=18.7
Q ss_pred CCCeEEEEeccceeeeeeccCcCcHHHHHHHHhh
Q 043987 49 EKGHFVIYTTDQRRYVLPLTYLNSSIFLELLKLS 82 (152)
Q Consensus 49 pkG~~~VYVGe~~RfvVp~~yL~hP~F~~LL~~s 82 (152)
..-|+|+++++. +..|| ..+.+.+||++.
T Consensus 23 GNrH~p~~i~~~-~l~v~----~d~~l~~~L~~l 51 (87)
T PF05194_consen 23 GNRHWPLFIEED-ELYVP----YDHVLEELLRKL 51 (87)
T ss_dssp HHTT--EEEETT-EEEEE------HHHHHHHHHT
T ss_pred cCCccceEEcCC-EEEec----CcHHHHHHHHHC
Confidence 456899999877 77777 566777787774
No 37
>PF06849 DUF1246: Protein of unknown function (DUF1246); InterPro: IPR010672 The last two steps of de novo purine biosynthesis are: i) conversion of 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (AICAR) to 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (FAICAR) ii) conversion of FAICAR to inosine5'-monophopsphate (IMP) In bacteria and eukaryotes, these steps are catalysed by the well-characterised bifunctional enzyme PurH []. Archaea do not appear to posses PurH, however, and perform these reactions by a different mecahnism []. In archaea, step i) is catalysed by the well-conserved PurP protein, while step ii) is catalysed by the PurO enzyme in some (though not all) species [, ]. This entry represents the N-terminal domain of PurP. Its function is not known, though it is almost always found in association with IPR009720 from INTERPRO.; GO: 0000287 magnesium ion binding, 0005524 ATP binding, 0016879 ligase activity, forming carbon-nitrogen bonds, 0006188 IMP biosynthetic process; PDB: 2PBZ_C 2R85_B 2R87_E 2R84_A 2R86_A 2R7L_A 2R7N_A 2R7K_A 2R7M_A.
Probab=21.67 E-value=5 Score=31.19 Aligned_cols=23 Identities=26% Similarity=0.652 Sum_probs=13.3
Q ss_pred CCCCCCCeEEEEec-c--ceeeeeec
Q 043987 45 SSVAEKGHFVIYTT-D--QRRYVLPL 67 (152)
Q Consensus 45 ~~~vpkG~~~VYVG-e--~~RfvVp~ 67 (152)
..-||.|-|++||| | .++|.||+
T Consensus 67 ~I~VPhgSfv~Y~G~d~ie~~~~vP~ 92 (124)
T PF06849_consen 67 AIFVPHGSFVAYVGYDRIENEFKVPI 92 (124)
T ss_dssp EEE--BTTHHHHH-HHHHHHT-SS-E
T ss_pred eEEecCCCeeEeecHHHHhhcCCCCe
Confidence 34689999999999 4 35588874
No 38
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=20.75 E-value=1.3e+02 Score=21.89 Aligned_cols=33 Identities=21% Similarity=0.258 Sum_probs=23.4
Q ss_pred EEEec-cceeeeeeccCcCcHHHHHHHHhhHHhcCCCC
Q 043987 54 VIYTT-DQRRYVLPLTYLNSSIFLELLKLSEEEYGLKS 90 (152)
Q Consensus 54 ~VYVG-e~~RfvVp~~yL~hP~F~~LL~~seeEfG~~~ 90 (152)
.=||| +.+--.|+-. ..|.+|..+..+.++...
T Consensus 17 l~Y~GG~tr~i~V~r~----~s~~el~~kl~~~~~~~~ 50 (97)
T cd06410 17 LRYVGGETRIVSVDRS----ISFKELVSKLSELFGAGV 50 (97)
T ss_pred EEEcCCceEEEEEcCC----CCHHHHHHHHHHHhCCCC
Confidence 46986 5677777765 367778888888777654
No 39
>PF12062 HSNSD: heparan sulfate-N-deacetylase; InterPro: IPR021930 This family of proteins is are heparan sulphate N-deacetylase enzymes. This protein is found in eukaryotes. This enzyme is often found associated with PF00685 from PFAM. ; GO: 0015016 [heparan sulfate]-glucosamine N-sulfotransferase activity, 0016787 hydrolase activity
Probab=20.36 E-value=73 Score=29.99 Aligned_cols=39 Identities=38% Similarity=0.549 Sum_probs=33.3
Q ss_pred CCCeEEEEecc-ceeeeeec-----cCcCcHH-HHHHHHhhHHhcC
Q 043987 49 EKGHFVIYTTD-QRRYVLPL-----TYLNSSI-FLELLKLSEEEYG 87 (152)
Q Consensus 49 pkG~~~VYVGe-~~RfvVp~-----~yL~hP~-F~~LL~~seeEfG 87 (152)
.||.+|+++-. +.||-|=+ .|+|-+. -++||++-..|||
T Consensus 95 ~kg~lP~LT~~~kGRy~lII~ENl~kYlnld~wNR~LLdkYC~ey~ 140 (487)
T PF12062_consen 95 GKGDLPVLTDNDKGRYSLIIFENLLKYLNLDSWNRELLDKYCREYG 140 (487)
T ss_pred CCCCCCccccCCCCcEEEEEehhHHHHcCChHHHHHHHHHHhHccC
Confidence 46899999854 67887765 8999998 8999999999997
Done!