Query 044019
Match_columns 142
No_of_seqs 130 out of 657
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 10:41:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044019.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044019hhsearch_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 3.8E-38 8.2E-43 229.4 10.1 99 1-102 1-100 (100)
2 PLN03090 auxin-responsive fami 100.0 2.9E-36 6.3E-41 221.5 10.1 91 4-101 12-103 (104)
3 PLN03220 uncharacterized prote 100.0 7E-32 1.5E-36 198.3 9.6 86 5-99 10-101 (105)
4 PLN03219 uncharacterized prote 100.0 1.9E-31 4.1E-36 196.9 9.4 89 12-101 13-105 (108)
5 PRK02899 adaptor protein; Prov 84.5 0.81 1.8E-05 36.9 2.5 25 63-87 38-62 (197)
6 cd05992 PB1 The PB1 domain is 81.8 5.6 0.00012 26.2 5.4 53 47-103 7-70 (81)
7 PF02214 BTB_2: BTB/POZ domain 80.5 0.82 1.8E-05 31.4 1.0 54 51-104 7-63 (94)
8 PRK02315 adaptor protein; Prov 80.1 1.4 2.9E-05 36.3 2.3 25 63-87 38-62 (233)
9 smart00666 PB1 PB1 domain. Pho 76.7 4 8.6E-05 27.2 3.5 52 47-103 8-70 (81)
10 PF05389 MecA: Negative regula 73.5 1.1 2.3E-05 36.0 0.0 25 63-87 38-62 (220)
11 PF00651 BTB: BTB/POZ domain; 65.2 20 0.00044 24.1 5.0 57 44-104 13-74 (111)
12 cd06407 PB1_NLP A PB1 domain i 54.3 21 0.00046 24.9 3.6 47 45-95 5-63 (82)
13 cd06396 PB1_NBR1 The PB1 domai 53.1 54 0.0012 23.2 5.5 57 45-104 5-70 (81)
14 TIGR02527 dot_icm_IcmQ Dot/Icm 50.7 12 0.00026 30.3 2.1 55 11-65 78-146 (182)
15 PF14317 YcxB: YcxB-like prote 49.8 33 0.00071 20.8 3.6 33 39-71 27-59 (62)
16 cd06397 PB1_UP1 Uncharacterize 45.0 44 0.00096 23.9 4.0 47 47-97 7-64 (82)
17 PF08948 DUF1859: Domain of un 44.1 11 0.00024 28.5 0.9 28 40-67 86-123 (126)
18 PF00564 PB1: PB1 domain; Int 43.5 84 0.0018 20.6 5.1 51 48-102 9-70 (84)
19 PF02209 VHP: Villin headpiece 40.7 15 0.00033 22.3 1.0 19 60-78 1-19 (36)
20 smart00153 VHP Villin headpiec 40.6 17 0.00038 21.9 1.2 19 60-78 1-19 (36)
21 cd06398 PB1_Joka2 The PB1 doma 37.6 56 0.0012 23.2 3.7 51 47-97 7-70 (91)
22 PF09475 Dot_icm_IcmQ: Dot/Icm 37.5 11 0.00024 30.5 0.0 55 11-65 78-146 (179)
23 PF11822 DUF3342: Domain of un 33.5 77 0.0017 27.8 4.5 52 51-105 13-69 (317)
24 cd06401 PB1_TFG The PB1 domain 32.8 74 0.0016 22.6 3.6 43 45-90 5-61 (81)
25 PF07429 Glyco_transf_56: 4-al 31.2 89 0.0019 27.9 4.6 51 51-104 214-266 (360)
26 cd04751 Commd3 COMM_Domain con 30.4 53 0.0011 23.3 2.6 30 82-112 64-93 (95)
27 PF11834 DUF3354: Domain of un 30.4 37 0.00081 23.2 1.7 17 64-80 26-42 (69)
28 COG3769 Predicted hydrolase (H 30.3 74 0.0016 27.3 3.8 74 2-80 45-120 (274)
29 PF12058 DUF3539: Protein of u 27.7 9.9 0.00021 27.6 -1.6 14 59-72 4-17 (88)
30 COG4923 Predicted nuclease (RN 26.9 93 0.002 26.1 3.7 14 84-97 88-101 (245)
31 PF04332 DUF475: Protein of un 26.8 41 0.00088 29.2 1.7 16 2-17 6-21 (294)
32 COG4862 MecA Negative regulato 26.3 51 0.0011 27.6 2.1 27 62-88 37-63 (224)
33 COG1759 5-formaminoimidazole-4 26.0 33 0.00072 30.5 1.0 80 36-116 87-200 (361)
34 cd01406 SIR2-like Sir2-like: P 25.2 1.2E+02 0.0026 24.1 4.1 56 42-104 1-58 (242)
35 KOG1290 Serine/threonine prote 25.2 41 0.0009 31.7 1.5 19 39-57 62-83 (590)
36 PRK02797 4-alpha-L-fucosyltran 24.1 1.7E+02 0.0037 25.8 5.0 64 38-104 141-227 (322)
37 PRK10308 3-methyl-adenine DNA 22.5 2.9E+02 0.0063 23.2 6.0 61 41-101 45-121 (283)
38 PF06849 DUF1246: Protein of u 21.5 4.8 0.0001 30.8 -4.4 23 36-58 67-92 (124)
39 COG2899 Uncharacterized protei 21.1 49 0.0011 29.1 1.1 16 2-17 56-71 (346)
40 cd06080 MUM1_like Mutated mela 20.9 1.3E+02 0.0028 21.0 3.1 39 40-78 28-74 (80)
41 PF05194 UreE_C: UreE urease a 20.1 1.4E+02 0.0029 20.6 3.0 27 42-73 25-51 (87)
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=3.8e-38 Score=229.41 Aligned_cols=99 Identities=40% Similarity=0.738 Sum_probs=88.4
Q ss_pred CcchHHHHHHHHHHhhhhhccccccccCccccccCCcCCCCCeEEEEecC-CeeeeeecccCCcHHHHHHHHhhhhhcCC
Q 044019 1 MINSIRLVQLASKWQKIVATKRKRISFPRSVATQKSSVANKGHFVVYTTD-NTRFTVPLEYLSRSVFIELLRMSEEEFGL 79 (142)
Q Consensus 1 m~~~kkL~~~~kKWq~~a~~~r~~~s~~~~~~~~~~~~vpkG~~~VyVGe-~~RfvVp~~yL~hp~F~~LL~~seeEfG~ 79 (142)
||+.+|....++||++.++..+++.+..... +...+|+||||||||+ ++||+||++|||||+|++||++|+|||||
T Consensus 1 M~~~~k~~~~~~k~~~~~~~~~~~~~~~~~~---~~~~vp~G~~~VyVG~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~ 77 (100)
T PF02519_consen 1 MASRLKSLASAKKWQSRARSKSSSSSSSRSS---SESDVPKGHFAVYVGEERRRFVVPVSYLNHPLFQELLEQAEEEFGF 77 (100)
T ss_pred CccHHHHHHHHHhhhhhhhhccccccccccc---ccCCCCCCeEEEEeCccceEEEechHHcCchhHHHHHHHHhhhcCc
Confidence 9999999999999999887766544433222 2378999999999998 89999999999999999999999999999
Q ss_pred CCCCCeeecCcHHHHHHHHHHHh
Q 044019 80 PSDGPITLPCDSTFFKYVMSLVK 102 (142)
Q Consensus 80 ~~~G~L~iPC~~~~Fe~vl~~l~ 102 (142)
+++|+|+||||+++||+++|+|+
T Consensus 78 ~~~G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 78 DQDGPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred CCCCcEEeeCCHHHHHHHHHHhC
Confidence 99999999999999999999985
No 2
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=2.9e-36 Score=221.49 Aligned_cols=91 Identities=29% Similarity=0.575 Sum_probs=79.1
Q ss_pred hHHHHHHHHHHhhhhhccccccccCccccccCCcCCCCCeEEEEecC-CeeeeeecccCCcHHHHHHHHhhhhhcCCCCC
Q 044019 4 SIRLVQLASKWQKIVATKRKRISFPRSVATQKSSVANKGHFVVYTTD-NTRFTVPLEYLSRSVFIELLRMSEEEFGLPSD 82 (142)
Q Consensus 4 ~kkL~~~~kKWq~~a~~~r~~~s~~~~~~~~~~~~vpkG~~~VyVGe-~~RfvVp~~yL~hp~F~~LL~~seeEfG~~~~ 82 (142)
.++|++|+|||++++..+. + ..+..+.++|+||||||||+ ++||+||++|||||+|++||++|||||||+++
T Consensus 12 ~~~~kq~l~r~~s~~~~~~----~---~~~~~~~~vpkG~~aVyVG~~~~RfvVp~~~L~hP~F~~LL~~aeeEfGf~~~ 84 (104)
T PLN03090 12 TAMLKQILKRCSSLGKKQG----Y---DEDGLPLDVPKGHFPVYVGENRSRYIVPISFLTHPEFQSLLQQAEEEFGFDHD 84 (104)
T ss_pred HHHHHHHHHHHHHhcccCC----c---ccccCCCCCCCCcEEEEECCCCEEEEEEHHHcCCHHHHHHHHHHHHHhCCCCC
Confidence 4678999999998854321 1 11123668999999999997 68999999999999999999999999999999
Q ss_pred CCeeecCcHHHHHHHHHHH
Q 044019 83 GPITLPCDSTFFKYVMSLV 101 (142)
Q Consensus 83 G~L~iPC~~~~Fe~vl~~l 101 (142)
|+|+||||+++|++++|+|
T Consensus 85 G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 85 MGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred CcEEEeCCHHHHHHHHHHh
Confidence 9999999999999999998
No 3
>PLN03220 uncharacterized protein; Provisional
Probab=99.97 E-value=7e-32 Score=198.30 Aligned_cols=86 Identities=33% Similarity=0.580 Sum_probs=70.9
Q ss_pred HHHHHHHHHHhhhhhccccccccCccccccCCcCCCCCeEEEEecC-----CeeeeeecccCCcHHHHHHHHhhhhhcCC
Q 044019 5 IRLVQLASKWQKIVATKRKRISFPRSVATQKSSVANKGHFVVYTTD-----NTRFTVPLEYLSRSVFIELLRMSEEEFGL 79 (142)
Q Consensus 5 kkL~~~~kKWq~~a~~~r~~~s~~~~~~~~~~~~vpkG~~~VyVGe-----~~RfvVp~~yL~hp~F~~LL~~seeEfG~ 79 (142)
.++++++|+.. ++. +.+.+ ...+.+|||||||||||+ ++||+||++|||||+|++||++|||||||
T Consensus 10 ~~~k~~~~~~~-~~~--~~~~~------~~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf 80 (105)
T PLN03220 10 NATKQILKLNS-LAN--RNRTS------SSSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGF 80 (105)
T ss_pred HHHHHHHHHHh-hcc--ccccc------ccccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCC
Confidence 46778888776 432 21111 112467999999999996 69999999999999999999999999999
Q ss_pred CC-CCCeeecCcHHHHHHHHH
Q 044019 80 PS-DGPITLPCDSTFFKYVMS 99 (142)
Q Consensus 80 ~~-~G~L~iPC~~~~Fe~vl~ 99 (142)
++ +|+|+||||++.|++++.
T Consensus 81 ~~~~G~L~IPCd~~~F~~ll~ 101 (105)
T PLN03220 81 NHPMGGLTIPCREEVFLDLIA 101 (105)
T ss_pred CCCCCCEEeeCCHHHHHHHHH
Confidence 98 699999999999999985
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=99.97 E-value=1.9e-31 Score=196.86 Aligned_cols=89 Identities=31% Similarity=0.562 Sum_probs=71.5
Q ss_pred HHHhhhhhccccccccCccccccCCcCCCCCeEEEEecC---CeeeeeecccCCcHHHHHHHHhhhhhcCCCC-CCCeee
Q 044019 12 SKWQKIVATKRKRISFPRSVATQKSSVANKGHFVVYTTD---NTRFTVPLEYLSRSVFIELLRMSEEEFGLPS-DGPITL 87 (142)
Q Consensus 12 kKWq~~a~~~r~~~s~~~~~~~~~~~~vpkG~~~VyVGe---~~RfvVp~~yL~hp~F~~LL~~seeEfG~~~-~G~L~i 87 (142)
+-||..+-.+|+-.+.++. ..+.+..+||||||||||+ ++||+||++|||||+|++||++|||||||++ +|+|+|
T Consensus 13 ~~~~~~~~~~~~~~~~~~~-~~~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~I 91 (108)
T PLN03219 13 QIFKSQSMRNKNGSSSPSS-STTTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTI 91 (108)
T ss_pred HHHHHHHHhcccCCCCCcc-CCCCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEE
Confidence 4566555445443332222 2223678999999999996 7999999999999999999999999999996 699999
Q ss_pred cCcHHHHHHHHHHH
Q 044019 88 PCDSTFFKYVMSLV 101 (142)
Q Consensus 88 PC~~~~Fe~vl~~l 101 (142)
|||++.|++++..-
T Consensus 92 PCd~~~F~~ll~~~ 105 (108)
T PLN03219 92 PCREESFLHLITSH 105 (108)
T ss_pred eCCHHHHHHHHHhh
Confidence 99999999998753
No 5
>PRK02899 adaptor protein; Provisional
Probab=84.47 E-value=0.81 Score=36.86 Aligned_cols=25 Identities=28% Similarity=0.777 Sum_probs=21.5
Q ss_pred cHHHHHHHHhhhhhcCCCCCCCeee
Q 044019 63 RSVFIELLRMSEEEFGLPSDGPITL 87 (142)
Q Consensus 63 hp~F~~LL~~seeEfG~~~~G~L~i 87 (142)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 38 HQLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHHhhhccCcccCCeEEE
Confidence 3578888999999999999999864
No 6
>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=81.82 E-value=5.6 Score=26.22 Aligned_cols=53 Identities=26% Similarity=0.394 Sum_probs=38.6
Q ss_pred EecCCeeeeeecccCCcHHHHHHHHhhhhhcCCC----------CCCC-eeecCcHHHHHHHHHHHhc
Q 044019 47 YTTDNTRFTVPLEYLSRSVFIELLRMSEEEFGLP----------SDGP-ITLPCDSTFFKYVMSLVKG 103 (142)
Q Consensus 47 yVGe~~RfvVp~~yL~hp~F~~LL~~seeEfG~~----------~~G~-L~iPC~~~~Fe~vl~~l~~ 103 (142)
|-|+-+||.+|. .++.|.+|..+.++.|++. .+|- ++|.++ ..|+.++...++
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 446789999998 8889999999999888874 2444 456555 466666666654
No 7
>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=80.47 E-value=0.82 Score=31.40 Aligned_cols=54 Identities=19% Similarity=0.281 Sum_probs=40.6
Q ss_pred CeeeeeecccCC-c--HHHHHHHHhhhhhcCCCCCCCeeecCcHHHHHHHHHHHhcc
Q 044019 51 NTRFTVPLEYLS-R--SVFIELLRMSEEEFGLPSDGPITLPCDSTFFKYVMSLVKGC 104 (142)
Q Consensus 51 ~~RfvVp~~yL~-h--p~F~~LL~~seeEfG~~~~G~L~iPC~~~~Fe~vl~~l~~~ 104 (142)
+++|.++.+-|. + ..|..|++.......-+.+|.+-|-++...|++|+.-++.+
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 578888887776 4 47888888653222224679999999999999999999983
No 8
>PRK02315 adaptor protein; Provisional
Probab=80.13 E-value=1.4 Score=36.31 Aligned_cols=25 Identities=20% Similarity=0.481 Sum_probs=22.4
Q ss_pred cHHHHHHHHhhhhhcCCCCCCCeee
Q 044019 63 RSVFIELLRMSEEEFGLPSDGPITL 87 (142)
Q Consensus 63 hp~F~~LL~~seeEfG~~~~G~L~i 87 (142)
+-+|.++|+++..|+||..+|||++
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 3589999999999999999999864
No 9
>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=76.72 E-value=4 Score=27.16 Aligned_cols=52 Identities=25% Similarity=0.424 Sum_probs=37.1
Q ss_pred EecCCeeeeeecccCCcHHHHHHHHhhhhhcCCC----------CCC-CeeecCcHHHHHHHHHHHhc
Q 044019 47 YTTDNTRFTVPLEYLSRSVFIELLRMSEEEFGLP----------SDG-PITLPCDSTFFKYVMSLVKG 103 (142)
Q Consensus 47 yVGe~~RfvVp~~yL~hp~F~~LL~~seeEfG~~----------~~G-~L~iPC~~~~Fe~vl~~l~~ 103 (142)
|.|+.+||.+|- ...|.+|..+..+.|++. .+| .++|.+|. .++.++.+.+.
T Consensus 8 ~~~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~~ 70 (81)
T smart00666 8 YGGETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYDS 70 (81)
T ss_pred ECCEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHHH
Confidence 445679999986 777999999999998874 244 46788865 45555555543
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=73.51 E-value=1.1 Score=36.02 Aligned_cols=25 Identities=36% Similarity=0.780 Sum_probs=0.0
Q ss_pred cHHHHHHHHhhhhhcCCCCCCCeee
Q 044019 63 RSVFIELLRMSEEEFGLPSDGPITL 87 (142)
Q Consensus 63 hp~F~~LL~~seeEfG~~~~G~L~i 87 (142)
+-.|.++|+++.+|+||..+|||++
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 5689999999999999999999875
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=65.16 E-value=20 Score=24.13 Aligned_cols=57 Identities=19% Similarity=0.264 Sum_probs=41.5
Q ss_pred EEEEecCCeeeeeecccC--CcHHHHHHHHhhhhhcCCCCCC--Ceeec-CcHHHHHHHHHHHhcc
Q 044019 44 FVVYTTDNTRFTVPLEYL--SRSVFIELLRMSEEEFGLPSDG--PITLP-CDSTFFKYVMSLVKGC 104 (142)
Q Consensus 44 ~~VyVGe~~RfvVp~~yL--~hp~F~~LL~~seeEfG~~~~G--~L~iP-C~~~~Fe~vl~~l~~~ 104 (142)
+.+.||++++|-+.-..| ..|.|+.+++.. +...++ .+.++ ++...|+.++..+-.+
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 345667788999988887 569999999988 112233 35555 8899999999888755
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=54.26 E-value=21 Score=24.87 Aligned_cols=47 Identities=26% Similarity=0.494 Sum_probs=32.7
Q ss_pred EEEecCCeeeeeecccCCcHHHHHHHHhhhhhcCCCC------------CCCeeecCcHHHHH
Q 044019 45 VVYTTDNTRFTVPLEYLSRSVFIELLRMSEEEFGLPS------------DGPITLPCDSTFFK 95 (142)
Q Consensus 45 ~VyVGe~~RfvVp~~yL~hp~F~~LL~~seeEfG~~~------------~G~L~iPC~~~~Fe 95 (142)
+.|-||-.||-+|..- -|++|.++-++.|++.. +..++|.|+.++=|
T Consensus 5 ~~~~~d~~r~~l~~~~----~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~e 63 (82)
T cd06407 5 ATYGEEKIRFRLPPSW----GFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEE 63 (82)
T ss_pred EEeCCeEEEEEcCCCC----CHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHH
Confidence 3455678899988744 58888888887776532 34567888877544
No 13
>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=53.15 E-value=54 Score=23.20 Aligned_cols=57 Identities=14% Similarity=0.281 Sum_probs=39.9
Q ss_pred EEEecCCeeeeeecccCCcHHHHHHHHhhhhhcCCC---------CCCCeeecCcHHHHHHHHHHHhcc
Q 044019 45 VVYTTDNTRFTVPLEYLSRSVFIELLRMSEEEFGLP---------SDGPITLPCDSTFFKYVMSLVKGC 104 (142)
Q Consensus 45 ~VyVGe~~RfvVp~~yL~hp~F~~LL~~seeEfG~~---------~~G~L~iPC~~~~Fe~vl~~l~~~ 104 (142)
|-|-||..||.+|- -.++.|.+|..+-+.-|+++ .+.+++|.|++++ +..+.+.++.
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 44667889999876 22456899999988888864 2457899998765 4445555543
No 14
>TIGR02527 dot_icm_IcmQ Dot/Icm secretion system protein IcmQ. Members of this protein family are the IcmQ component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the literature now seems to favor calling this the Dot/Icm system. This protein was shown to be essential for translocation (PubMed:15661013).
Probab=50.74 E-value=12 Score=30.30 Aligned_cols=55 Identities=15% Similarity=0.286 Sum_probs=34.1
Q ss_pred HHHHhh-hhhccccccccCccccccC--------CcCCCCCeEEEEecCCeee-----eeecccCCcHH
Q 044019 11 ASKWQK-IVATKRKRISFPRSVATQK--------SSVANKGHFVVYTTDNTRF-----TVPLEYLSRSV 65 (142)
Q Consensus 11 ~kKWq~-~a~~~r~~~s~~~~~~~~~--------~~~vpkG~~~VyVGe~~Rf-----vVp~~yL~hp~ 65 (142)
++.|++ ++++.|..+|.|=-.+..| ...+.+.|++|||-...=+ -+|++=|+.|+
T Consensus 78 lqsWerilanLprqmisRPIYanE~dvk~~IksKenk~NEAYVaiyI~q~dIl~~~~dk~p~Dk~GkpL 146 (182)
T TIGR02527 78 LKQWAKILASLERQMIGRPIYADEADAKAAIKQKENKLNEACVAIAIDQSDIIHLSADKAPKDKLGKLL 146 (182)
T ss_pred HHHHHHHHHhChhhhhCCCCcCCHHHHHHHHHhhhccccceEEEEEEchHhcccCCcccCcccccCCcc
Confidence 578998 5668887776554333222 5678999999999632211 24555555554
No 15
>PF14317 YcxB: YcxB-like protein
Probab=49.80 E-value=33 Score=20.77 Aligned_cols=33 Identities=24% Similarity=0.328 Sum_probs=26.0
Q ss_pred CCCCeEEEEecCCeeeeeecccCCcHHHHHHHH
Q 044019 39 ANKGHFVVYTTDNTRFTVPLEYLSRSVFIELLR 71 (142)
Q Consensus 39 vpkG~~~VyVGe~~RfvVp~~yL~hp~F~~LL~ 71 (142)
.-+.++.+|+++..-++||.+.++.--..++.+
T Consensus 27 e~~~~~~l~~~~~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 27 ETKDYFYLYLGKNQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred EeCCEEEEEECCCeEEEEEHHHCCHhHHHHHHH
Confidence 346789999999999999999999655555544
No 16
>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=44.96 E-value=44 Score=23.92 Aligned_cols=47 Identities=23% Similarity=0.400 Sum_probs=35.1
Q ss_pred EecCCeeeeeecccCCcHHHHHHHHhhhhhcCCC----------CC-CCeeecCcHHHHHHH
Q 044019 47 YTTDNTRFTVPLEYLSRSVFIELLRMSEEEFGLP----------SD-GPITLPCDSTFFKYV 97 (142)
Q Consensus 47 yVGe~~RfvVp~~yL~hp~F~~LL~~seeEfG~~----------~~-G~L~iPC~~~~Fe~v 97 (142)
|-|+.|||..|. .|.+.+|-++.+.=|.++ +| ..|||.=+.++.+..
T Consensus 7 ~~g~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~eL~d~~ 64 (82)
T cd06397 7 FLGDTRRIVFPD----IPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKELQDFY 64 (82)
T ss_pred eCCceEEEecCC----CccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHHHHHHH
Confidence 457789999998 899999999999887765 34 346777666555543
No 17
>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=44.13 E-value=11 Score=28.50 Aligned_cols=28 Identities=21% Similarity=0.496 Sum_probs=8.8
Q ss_pred CCCeEEEEecCCeeee----------eecccCCcHHHH
Q 044019 40 NKGHFVVYTTDNTRFT----------VPLEYLSRSVFI 67 (142)
Q Consensus 40 pkG~~~VyVGe~~Rfv----------Vp~~yL~hp~F~ 67 (142)
..||||+.|-.+-+|+ +|+-|||.|+-+
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 4799999997666665 688888888643
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=43.46 E-value=84 Score=20.56 Aligned_cols=51 Identities=27% Similarity=0.373 Sum_probs=31.9
Q ss_pred ecCCeeeeeecccCCcHHHHHHHHhhhhhcCCC----------CCCC-eeecCcHHHHHHHHHHHh
Q 044019 48 TTDNTRFTVPLEYLSRSVFIELLRMSEEEFGLP----------SDGP-ITLPCDSTFFKYVMSLVK 102 (142)
Q Consensus 48 VGe~~RfvVp~~yL~hp~F~~LL~~seeEfG~~----------~~G~-L~iPC~~~~Fe~vl~~l~ 102 (142)
-|+.+| .+..-..+.|.+|.++.++.||.. .+|- ++|.++.+ |+.++...+
T Consensus 9 ~~~~~~---~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~D-l~~a~~~~~ 70 (84)
T PF00564_consen 9 GGDIRR---IISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDED-LQEAIEQAK 70 (84)
T ss_dssp TTEEEE---EEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHH-HHHHHHHHH
T ss_pred CCeeEE---EEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHH-HHHHHHHHH
Confidence 345555 333445679999999999999983 3554 56666654 444444443
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=40.74 E-value=15 Score=22.26 Aligned_cols=19 Identities=47% Similarity=0.639 Sum_probs=15.4
Q ss_pred cCCcHHHHHHHHhhhhhcC
Q 044019 60 YLSRSVFIELLRMSEEEFG 78 (142)
Q Consensus 60 yL~hp~F~~LL~~seeEfG 78 (142)
||+...|++++.|+.+||.
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=40.58 E-value=17 Score=21.89 Aligned_cols=19 Identities=47% Similarity=0.669 Sum_probs=17.2
Q ss_pred cCCcHHHHHHHHhhhhhcC
Q 044019 60 YLSRSVFIELLRMSEEEFG 78 (142)
Q Consensus 60 yL~hp~F~~LL~~seeEfG 78 (142)
||+.-.|++++.++.+||-
T Consensus 1 yLsdeeF~~vfgmsr~eF~ 19 (36)
T smart00153 1 YLSDEDFEEVFGMTREEFY 19 (36)
T ss_pred CCCHHHHHHHHCCCHHHHH
Confidence 7899999999999999983
No 21
>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=37.57 E-value=56 Score=23.24 Aligned_cols=51 Identities=29% Similarity=0.340 Sum_probs=33.7
Q ss_pred EecCCeeeeeecc-cCCcHHHHHHHHhhhhhcCCCC-----------CCC-eeecCcHHHHHHH
Q 044019 47 YTTDNTRFTVPLE-YLSRSVFIELLRMSEEEFGLPS-----------DGP-ITLPCDSTFFKYV 97 (142)
Q Consensus 47 yVGe~~RfvVp~~-yL~hp~F~~LL~~seeEfG~~~-----------~G~-L~iPC~~~~Fe~v 97 (142)
|=|+-+||-+|.+ --.+.-|..|.++-++-|.... +|- ++|.||.++-+-+
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 3356899999974 0114478888888888776643 444 5788887665543
No 22
>PF09475 Dot_icm_IcmQ: Dot/Icm secretion system protein (dot_icm_IcmQ); InterPro: IPR013365 Proteins in this entry are the IcmQ component of Dot/Icm secretion systems, as found in the obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the literature now seems to favor calling this the Dot/Icm system. This protein was shown to be essential for translocation ().; PDB: 3FXE_A 3FXD_C.
Probab=37.48 E-value=11 Score=30.49 Aligned_cols=55 Identities=16% Similarity=0.400 Sum_probs=0.0
Q ss_pred HHHHhh-hhhccccccccCccccccC--------CcCCCCCeEEEEecCCeeee-----eecccCCcHH
Q 044019 11 ASKWQK-IVATKRKRISFPRSVATQK--------SSVANKGHFVVYTTDNTRFT-----VPLEYLSRSV 65 (142)
Q Consensus 11 ~kKWq~-~a~~~r~~~s~~~~~~~~~--------~~~vpkG~~~VyVGe~~Rfv-----Vp~~yL~hp~ 65 (142)
+.+|++ ++++.|..+|.|=-.++.| ...+.++|++|||-...=+- +|++=|+.|+
T Consensus 78 lqsWerilanLprqmisRPIY~nE~dvk~~IksKenk~NEAYVaiyInq~dIl~~~~dk~~~Dk~GkpL 146 (179)
T PF09475_consen 78 LQSWERILANLPRQMISRPIYANEEDVKAAIKSKENKLNEAYVAIYINQSDILSLSPDKIPTDKLGKPL 146 (179)
T ss_dssp ---------------------------------------------------------------------
T ss_pred HHHHHHHHHhCchhhhCCCCcCCHHHHHHHHHhhhcccceeEEEEEEchHhcccCCcccccccccCCcc
Confidence 578998 5668877776553333222 45688999999996432222 4455555554
No 23
>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=33.47 E-value=77 Score=27.79 Aligned_cols=52 Identities=29% Similarity=0.525 Sum_probs=40.3
Q ss_pred CeeeeeecccCC--cHHHHHHHHh---hhhhcCCCCCCCeeecCcHHHHHHHHHHHhccC
Q 044019 51 NTRFTVPLEYLS--RSVFIELLRM---SEEEFGLPSDGPITLPCDSTFFKYVMSLVKGCI 105 (142)
Q Consensus 51 ~~RfvVp~~yL~--hp~F~~LL~~---seeEfG~~~~G~L~iPC~~~~Fe~vl~~l~~~~ 105 (142)
.+=|..|.+.|- ..-|++.|.. ..++. .+=.|.+-||+..|+.++.-+++..
T Consensus 13 ~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~---~~idisVhCDv~iF~WLm~yv~~~~ 69 (317)
T PF11822_consen 13 KRDFTCPRDLLVSEMRYFAEYLSRYINDSQRW---EEIDISVHCDVHIFEWLMRYVKGEP 69 (317)
T ss_pred ceeeeccHHHHHHhhHHHHHHHhhcccccCcC---CCcceEEecChhHHHHHHHHhhcCC
Confidence 577999998885 4679999966 33332 2456889999999999999998854
No 24
>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=32.77 E-value=74 Score=22.63 Aligned_cols=43 Identities=28% Similarity=0.319 Sum_probs=27.3
Q ss_pred EEEecCCeeeeeecccCCcHHHHHHHHhhhhhcC--C-----------CCCCCe-eecCc
Q 044019 45 VVYTTDNTRFTVPLEYLSRSVFIELLRMSEEEFG--L-----------PSDGPI-TLPCD 90 (142)
Q Consensus 45 ~VyVGe~~RfvVp~~yL~hp~F~~LL~~seeEfG--~-----------~~~G~L-~iPC~ 90 (142)
+||-||-||+-+|.+ .=.|.+|.++.+..|. | +.||-+ ||.++
T Consensus 5 ~~~g~DiR~~~~~~~---~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~ 61 (81)
T cd06401 5 AQLGDDIRRIPIHNE---DITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDS 61 (81)
T ss_pred EEeCCeEEEEeccCc---cccHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccH
Confidence 456567788666542 2267888888876665 2 246664 78775
No 25
>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=31.22 E-value=89 Score=27.92 Aligned_cols=51 Identities=20% Similarity=0.440 Sum_probs=33.5
Q ss_pred CeeeeeecccCC--cHHHHHHHHhhhhhcCCCCCCCeeecCcHHHHHHHHHHHhcc
Q 044019 51 NTRFTVPLEYLS--RSVFIELLRMSEEEFGLPSDGPITLPCDSTFFKYVMSLVKGC 104 (142)
Q Consensus 51 ~~RfvVp~~yL~--hp~F~~LL~~seeEfG~~~~G~L~iPC~~~~Fe~vl~~l~~~ 104 (142)
..|++||+.|=. ..-.+++.+.+++-|| ++-+.+-=+---|+..+.+|++-
T Consensus 214 ~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~---~~~~~iL~e~mpf~eYl~lL~~c 266 (360)
T PF07429_consen 214 DVKIIVPLSYGANNQAYIQQVIQAGKELFG---AENFQILTEFMPFDEYLALLSRC 266 (360)
T ss_pred CeEEEEECCCCCchHHHHHHHHHHHHHhcC---ccceeEhhhhCCHHHHHHHHHhC
Confidence 379999999974 4577777777777787 23344433444466666666554
No 26
>cd04751 Commd3 COMM_Domain containing protein 3. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=30.42 E-value=53 Score=23.32 Aligned_cols=30 Identities=13% Similarity=0.331 Sum_probs=23.7
Q ss_pred CCCeeecCcHHHHHHHHHHHhccChHHHHHH
Q 044019 82 DGPITLPCDSTFFKYVMSLVKGCIPEDLVKA 112 (142)
Q Consensus 82 ~G~L~iPC~~~~Fe~vl~~l~~~~~~~~e~~ 112 (142)
..++.+-|+++-|.+++.-|+.. .+.+|++
T Consensus 64 ~~~i~f~c~~e~L~~Li~~Lk~A-~~~~e~~ 93 (95)
T cd04751 64 KPDINFTCTLEQLQDLVNKLKDA-AKNIERA 93 (95)
T ss_pred cceEEEEeCHHHHHHHHHHHHHH-HHHHHHh
Confidence 35899999999999999999644 4666653
No 27
>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=30.42 E-value=37 Score=23.19 Aligned_cols=17 Identities=35% Similarity=0.739 Sum_probs=15.3
Q ss_pred HHHHHHHHhhhhhcCCC
Q 044019 64 SVFIELLRMSEEEFGLP 80 (142)
Q Consensus 64 p~F~~LL~~seeEfG~~ 80 (142)
-.++|||+.|++.||+.
T Consensus 26 ~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFS 42 (69)
T ss_pred ccHHHHHHHHHHHhCCC
Confidence 36999999999999985
No 28
>COG3769 Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=30.35 E-value=74 Score=27.26 Aligned_cols=74 Identities=15% Similarity=0.025 Sum_probs=46.0
Q ss_pred cchHHHHHHHHHHhhhhhccccccccCccccccCCcCCCCCeEEEEecCCe--eeeeecccCCcHHHHHHHHhhhhhcCC
Q 044019 2 INSIRLVQLASKWQKIVATKRKRISFPRSVATQKSSVANKGHFVVYTTDNT--RFTVPLEYLSRSVFIELLRMSEEEFGL 79 (142)
Q Consensus 2 ~~~kkL~~~~kKWq~~a~~~r~~~s~~~~~~~~~~~~vpkG~~~VyVGe~~--RfvVp~~yL~hp~F~~LL~~seeEfG~ 79 (142)
.|+|-..+|.-=|.++..-++ |--..++...-.|+|++|.=++-+. =+.+-.-=+---.++++|++.||-|||
T Consensus 45 ~SSKT~aE~~~l~~~l~v~~~-----p~iaEnG~aI~~p~~~~~~~~~~r~~~g~~~~elg~~l~~ire~l~kLee~~g~ 119 (274)
T COG3769 45 CSSKTRAEMLYLQKSLGVQGL-----PLIAENGAAIYLPKGWFPFDGKPREISGISHIELGKVLEKIREKLDKLEEHFGF 119 (274)
T ss_pred eccchHHHHHHHHHhcCCCCC-----ceeecCCceEEecccccccCCCCceecceEeeehhhhHHHHHHHHHHHHHHhCe
Confidence 367788899988988765442 2222333455689999987665321 111111112224589999999999998
Q ss_pred C
Q 044019 80 P 80 (142)
Q Consensus 80 ~ 80 (142)
.
T Consensus 120 ~ 120 (274)
T COG3769 120 T 120 (274)
T ss_pred e
Confidence 5
No 29
>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=27.69 E-value=9.9 Score=27.55 Aligned_cols=14 Identities=36% Similarity=0.562 Sum_probs=10.1
Q ss_pred ccCCcHHHHHHHHh
Q 044019 59 EYLSRSVFIELLRM 72 (142)
Q Consensus 59 ~yL~hp~F~~LL~~ 72 (142)
.|||||.|.-|-.-
T Consensus 4 ~YLNHPtFGlLy~V 17 (88)
T PF12058_consen 4 TYLNHPTFGLLYRV 17 (88)
T ss_dssp -EEEETTTEEEEEE
T ss_pred ccccCCccchheee
Confidence 58999999876543
No 30
>COG4923 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=26.94 E-value=93 Score=26.12 Aligned_cols=14 Identities=14% Similarity=0.726 Sum_probs=11.1
Q ss_pred CeeecCcHHHHHHH
Q 044019 84 PITLPCDSTFFKYV 97 (142)
Q Consensus 84 ~L~iPC~~~~Fe~v 97 (142)
..++||.+.++...
T Consensus 88 vF~vPcR~A~Y~~~ 101 (245)
T COG4923 88 VFSVPCRAALYSDI 101 (245)
T ss_pred eeccchHHHHHHHH
Confidence 35799999888766
No 31
>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=26.84 E-value=41 Score=29.24 Aligned_cols=16 Identities=25% Similarity=0.571 Sum_probs=14.5
Q ss_pred cchHHHHHHHHHHhhh
Q 044019 2 INSIRLVQLASKWQKI 17 (142)
Q Consensus 2 ~~~kkL~~~~kKWq~~ 17 (142)
+|++.|+.|..+||++
T Consensus 6 VNA~vLk~Ms~~Wq~~ 21 (294)
T PF04332_consen 6 VNATVLKRMSPFWQRR 21 (294)
T ss_pred hhHHHHHhhhHHHHHH
Confidence 6899999999999973
No 32
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=26.29 E-value=51 Score=27.65 Aligned_cols=27 Identities=19% Similarity=0.416 Sum_probs=23.9
Q ss_pred CcHHHHHHHHhhhhhcCCCCCCCeeec
Q 044019 62 SRSVFIELLRMSEEEFGLPSDGPITLP 88 (142)
Q Consensus 62 ~hp~F~~LL~~seeEfG~~~~G~L~iP 88 (142)
.+-+|.++++.+.+|-+|..+|||.|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 477999999999999999999999763
No 33
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=25.99 E-value=33 Score=30.51 Aligned_cols=80 Identities=28% Similarity=0.459 Sum_probs=47.6
Q ss_pred CcCCCCCeEEEEec-C--Ceeeeeec---------ccCCcHHHHHHHHhhh----hhcCCC--CCCCee-----------
Q 044019 36 SSVANKGHFVVYTT-D--NTRFTVPL---------EYLSRSVFIELLRMSE----EEFGLP--SDGPIT----------- 86 (142)
Q Consensus 36 ~~~vpkG~~~VyVG-e--~~RfvVp~---------~yL~hp~F~~LL~~se----eEfG~~--~~G~L~----------- 86 (142)
..-+|.|-|++||| | ...|.||+ +- ..-.-..||++|- +.|.=+ .||++.
T Consensus 87 ~I~IP~gSfv~Y~G~d~ie~~~~vP~fGnR~lLrwE~-~~~~~~~lLekAgi~~P~~~~~PeeIdr~VIVK~pgAkggRG 165 (361)
T COG1759 87 AIFIPHGSFVAYVGYDGIENEFEVPMFGNRELLRWEE-DRKLEYKLLEKAGLRIPKKYKSPEEIDRPVIVKLPGAKGGRG 165 (361)
T ss_pred eEEecCCceEEEecchhhhhcccCcccccHhHhhhhc-chhhHHHHHHHcCCCCCcccCChHHcCCceEEecCCccCCce
Confidence 45689999999999 4 36677764 11 2233457888775 222211 244432
Q ss_pred --ecCcHHHH-HHHHHHHhccCh--HHHHHHHHhh
Q 044019 87 --LPCDSTFF-KYVMSLVKGCIP--EDLVKALLTS 116 (142)
Q Consensus 87 --iPC~~~~F-e~vl~~l~~~~~--~~~e~~~l~s 116 (142)
+.=+...| |.+-.+++++.- +|+++|-+--
T Consensus 166 yFiA~s~eef~ek~e~l~~~gvi~~edlkna~IeE 200 (361)
T COG1759 166 YFIASSPEEFYEKAERLLKRGVITEEDLKNARIEE 200 (361)
T ss_pred EEEEcCHHHHHHHHHHHHHcCCcchhhhhhceeeE
Confidence 33344444 556678887764 8888776543
No 34
>cd01406 SIR2-like Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation.
Probab=25.23 E-value=1.2e+02 Score=24.10 Aligned_cols=56 Identities=20% Similarity=0.223 Sum_probs=35.2
Q ss_pred CeEEEEecCC--eeeeeecccCCcHHHHHHHHhhhhhcCCCCCCCeeecCcHHHHHHHHHHHhcc
Q 044019 42 GHFVVYTTDN--TRFTVPLEYLSRSVFIELLRMSEEEFGLPSDGPITLPCDSTFFKYVMSLVKGC 104 (142)
Q Consensus 42 G~~~VyVGe~--~RfvVp~~yL~hp~F~~LL~~seeEfG~~~~G~L~iPC~~~~Fe~vl~~l~~~ 104 (142)
|.+++++|-+ .+ .+-|.+.+|++...+++|.+.+....-.=+...+..+..++.+.
T Consensus 1 g~lvlFiGAG~S~~-------~glP~W~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 58 (242)
T cd01406 1 GRVVIFVGAGVSVS-------SGLPDWKTLLDEIASELGLEIDGYSVEAKDENDYLELAELLEKE 58 (242)
T ss_pred CCEEEEecCccccc-------cCCCChHHHHHHHHHHcCCccchhhccccchhhHHHHHHHHHHH
Confidence 6788899864 33 57889999999999999865442111000234455555555544
No 35
>KOG1290 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=25.22 E-value=41 Score=31.67 Aligned_cols=19 Identities=26% Similarity=0.321 Sum_probs=16.0
Q ss_pred CCCCeEEEEecC---Ceeeeee
Q 044019 39 ANKGHFVVYTTD---NTRFTVP 57 (142)
Q Consensus 39 vpkG~~~VyVGe---~~RfvVp 57 (142)
.+-||.||++|| ..||+|-
T Consensus 62 ~kGGYHpV~IGD~F~~gRY~v~ 83 (590)
T KOG1290|consen 62 RKGGYHPVRIGDVFNGGRYHVQ 83 (590)
T ss_pred hcCCCceeeccccccCceEEEE
Confidence 467999999998 4899884
No 36
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=24.10 E-value=1.7e+02 Score=25.76 Aligned_cols=64 Identities=17% Similarity=0.375 Sum_probs=41.4
Q ss_pred CCCCCeEEEEecC---------------------Ceeeeeeccc--CCcHHHHHHHHhhhhhcCCCCCCCeeecCcHHHH
Q 044019 38 VANKGHFVVYTTD---------------------NTRFTVPLEY--LSRSVFIELLRMSEEEFGLPSDGPITLPCDSTFF 94 (142)
Q Consensus 38 ~vpkG~~~VyVGe---------------------~~RfvVp~~y--L~hp~F~~LL~~seeEfG~~~~G~L~iPC~~~~F 94 (142)
..++|-+.+.||. .-|+.||+.| =|..-.++..+.+.+-|| .+.+++-=+---|
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 3466788998872 2499999999 454455555555666676 2345555555556
Q ss_pred HHHHHHHhcc
Q 044019 95 KYVMSLVKGC 104 (142)
Q Consensus 95 e~vl~~l~~~ 104 (142)
+..+.+|.+-
T Consensus 218 ~eYl~lL~~~ 227 (322)
T PRK02797 218 DDYLALLRQC 227 (322)
T ss_pred HHHHHHHHhC
Confidence 6666666554
No 37
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=22.46 E-value=2.9e+02 Score=23.24 Aligned_cols=61 Identities=18% Similarity=0.183 Sum_probs=42.1
Q ss_pred CCeEEEEecC-CeeeeeecccCCcHHHHHHHHhhhhhcCCCCC---------------CCeeecCcHHHHHHHHHHH
Q 044019 41 KGHFVVYTTD-NTRFTVPLEYLSRSVFIELLRMSEEEFGLPSD---------------GPITLPCDSTFFKYVMSLV 101 (142)
Q Consensus 41 kG~~~VyVGe-~~RfvVp~~yL~hp~F~~LL~~seeEfG~~~~---------------G~L~iPC~~~~Fe~vl~~l 101 (142)
.|.+.|.-.. +.++.+.+..-.-+...+++.+...-||++.| -+|++|...+.||-+++.|
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 4555555433 45566665554445666788888887877654 4589999999999999876
No 38
>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=21.52 E-value=4.8 Score=30.82 Aligned_cols=23 Identities=35% Similarity=0.728 Sum_probs=13.7
Q ss_pred CcCCCCCeEEEEec-C--Ceeeeeec
Q 044019 36 SSVANKGHFVVYTT-D--NTRFTVPL 58 (142)
Q Consensus 36 ~~~vpkG~~~VyVG-e--~~RfvVp~ 58 (142)
..-||.|-|++|+| | ..+|.||+
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 56699999999999 4 35577775
No 39
>COG2899 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.12 E-value=49 Score=29.14 Aligned_cols=16 Identities=31% Similarity=0.557 Sum_probs=14.4
Q ss_pred cchHHHHHHHHHHhhh
Q 044019 2 INSIRLVQLASKWQKI 17 (142)
Q Consensus 2 ~~~kkL~~~~kKWq~~ 17 (142)
+|+.+|+.|..+||++
T Consensus 56 vNA~iLk~MS~~Wqk~ 71 (346)
T COG2899 56 VNAAILKDMSPFWQKR 71 (346)
T ss_pred hhHHHHHhccHHHHHH
Confidence 6889999999999984
No 40
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=20.93 E-value=1.3e+02 Score=21.05 Aligned_cols=39 Identities=18% Similarity=0.204 Sum_probs=32.6
Q ss_pred CCCeEEEEecCC-----eeeeeecccCCcHHH---HHHHHhhhhhcC
Q 044019 40 NKGHFVVYTTDN-----TRFTVPLEYLSRSVF---IELLRMSEEEFG 78 (142)
Q Consensus 40 pkG~~~VyVGe~-----~RfvVp~~yL~hp~F---~~LL~~seeEfG 78 (142)
++-+.+.+.|+. .++-+...|+.|+.+ +.|++++.|.|.
T Consensus 28 ~~k~~V~FfG~~~~~a~~~~~~l~p~~~~~~~~ek~~~~~k~ke~~~ 74 (80)
T cd06080 28 KQKARVNFIGDNMQSEKKGIRVVKRWLKHFDCTEKQKLTNKAKESYE 74 (80)
T ss_pred CCEEEEEEeCCCCceeccchhhcccccccHHHHHHHHHHHHHHHHHH
Confidence 556778888874 788888999999999 489999999875
No 41
>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=20.12 E-value=1.4e+02 Score=20.57 Aligned_cols=27 Identities=30% Similarity=0.525 Sum_probs=17.2
Q ss_pred CeEEEEecCCeeeeeecccCCcHHHHHHHHhh
Q 044019 42 GHFVVYTTDNTRFTVPLEYLSRSVFIELLRMS 73 (142)
Q Consensus 42 G~~~VyVGe~~RfvVp~~yL~hp~F~~LL~~s 73 (142)
-|+|+++++. +..|| ..+...+||++.
T Consensus 25 rH~p~~i~~~-~l~v~----~d~~l~~~L~~l 51 (87)
T PF05194_consen 25 RHWPLFIEED-ELYVP----YDHVLEELLRKL 51 (87)
T ss_dssp TT--EEEETT-EEEEE------HHHHHHHHHT
T ss_pred CccceEEcCC-EEEec----CcHHHHHHHHHC
Confidence 4888999877 77777 667777777764
Done!