Query 032077
Match_columns 147
No_of_seqs 131 out of 661
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 09:18:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032077.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032077hhsearch_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 1.2E-37 2.6E-42 228.4 10.3 99 1-107 1-100 (100)
2 PLN03090 auxin-responsive fami 100.0 3.3E-35 7.1E-40 217.6 10.4 91 4-106 12-103 (104)
3 PLN03219 uncharacterized prote 100.0 9.3E-32 2E-36 200.1 9.7 69 37-105 32-104 (108)
4 PLN03220 uncharacterized prote 100.0 1E-31 2.2E-36 199.0 9.8 67 38-104 29-101 (105)
5 PRK02899 adaptor protein; Prov 85.0 0.75 1.6E-05 37.3 2.5 25 68-92 38-62 (197)
6 PF02214 BTB_2: BTB/POZ domain 82.2 0.68 1.5E-05 32.1 1.1 54 56-109 7-63 (94)
7 PRK02315 adaptor protein; Prov 79.8 1.4 2.9E-05 36.6 2.2 25 68-92 38-62 (233)
8 PF05389 MecA: Negative regula 75.0 0.94 2E-05 36.6 0.0 25 68-92 38-62 (220)
9 smart00666 PB1 PB1 domain. Pho 72.8 7.1 0.00015 26.1 3.9 51 52-107 8-69 (81)
10 cd05992 PB1 The PB1 domain is 71.6 9 0.00019 25.4 4.2 52 52-107 7-69 (81)
11 PF00651 BTB: BTB/POZ domain; 55.6 31 0.00066 23.4 4.6 56 50-109 14-74 (111)
12 cd06407 PB1_NLP A PB1 domain i 54.0 24 0.00052 24.8 3.9 49 50-102 5-65 (82)
13 PF07429 Glyco_transf_56: 4-al 52.6 67 0.0015 28.9 7.2 62 43-107 180-264 (360)
14 PF14317 YcxB: YcxB-like prote 49.3 32 0.00069 21.0 3.5 32 45-76 28-59 (62)
15 COG1759 5-formaminoimidazole-4 40.6 14 0.0003 33.1 1.1 78 41-120 87-199 (361)
16 PF08948 DUF1859: Domain of un 40.4 13 0.00028 28.4 0.8 28 45-72 86-123 (126)
17 cd06396 PB1_NBR1 The PB1 domai 37.7 1E+02 0.0022 22.0 5.0 56 50-108 5-69 (81)
18 cd06397 PB1_UP1 Uncharacterize 35.5 88 0.0019 22.6 4.3 46 52-101 7-63 (82)
19 cd06401 PB1_TFG The PB1 domain 34.6 74 0.0016 22.9 3.8 43 50-95 5-61 (81)
20 PF00564 PB1: PB1 domain; Int 33.7 65 0.0014 21.3 3.4 43 52-98 8-62 (84)
21 PF02209 VHP: Villin headpiece 33.0 18 0.0004 22.1 0.5 19 65-83 1-19 (36)
22 PF06849 DUF1246: Protein of u 32.6 2.2 4.8E-05 32.9 -4.5 23 41-63 67-92 (124)
23 smart00153 VHP Villin headpiec 32.1 24 0.00051 21.5 0.9 19 65-83 1-19 (36)
24 PF12058 DUF3539: Protein of u 32.0 7.4 0.00016 28.4 -1.6 14 64-77 4-17 (88)
25 cd06398 PB1_Joka2 The PB1 doma 31.6 89 0.0019 22.4 3.9 52 52-103 7-71 (91)
26 COG4923 Predicted nuclease (RN 30.8 70 0.0015 27.1 3.7 14 89-102 88-101 (245)
27 PF00191 Annexin: Annexin; In 30.5 77 0.0017 20.1 3.2 37 68-120 29-65 (66)
28 PF11834 DUF3354: Domain of un 30.4 40 0.00086 23.3 1.9 17 69-85 26-42 (69)
29 COG4862 MecA Negative regulato 29.3 37 0.00081 28.7 1.8 27 67-93 37-63 (224)
30 PF11822 DUF3342: Domain of un 27.2 69 0.0015 28.3 3.2 52 56-110 13-69 (317)
31 PRK13277 5-formaminoimidazole- 27.1 27 0.00058 31.3 0.7 26 41-68 87-115 (366)
32 PF04332 DUF475: Protein of un 25.2 45 0.00097 29.2 1.7 16 2-17 6-21 (294)
33 KOG1290 Serine/threonine prote 24.1 44 0.00096 31.7 1.5 19 44-62 62-83 (590)
34 PRK02797 4-alpha-L-fucosyltran 23.0 1.7E+02 0.0037 25.9 4.9 62 43-107 141-225 (322)
35 cd04751 Commd3 COMM_Domain con 22.1 96 0.0021 22.1 2.7 29 87-116 64-92 (95)
36 cd04395 RhoGAP_ARHGAP21 RhoGAP 21.9 2E+02 0.0044 22.5 4.8 42 69-110 19-60 (196)
37 COG2899 Uncharacterized protei 21.2 47 0.001 29.5 1.1 16 2-17 56-71 (346)
38 cd01406 SIR2-like Sir2-like: P 20.8 1.7E+02 0.0036 23.4 4.1 34 47-87 1-36 (242)
39 PF05194 UreE_C: UreE urease a 20.7 1.4E+02 0.003 20.7 3.2 28 46-78 24-51 (87)
40 cd06404 PB1_aPKC PB1 domain is 20.3 2E+02 0.0042 20.8 3.9 38 51-92 6-43 (83)
41 cd06080 MUM1_like Mutated mela 20.1 1.5E+02 0.0033 20.9 3.3 39 45-83 28-74 (80)
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=1.2e-37 Score=228.37 Aligned_cols=99 Identities=40% Similarity=0.730 Sum_probs=87.3
Q ss_pred CCChHHHHHHHHHHhhhhhcccCcccCCCCCCCCCCCCcCCCccCCCeEEEEecC-ceeeeEeccCcCcHHHHHHHHHhH
Q 032077 1 MISPKKLIKMSKKWQKLAASKQKRISFPTTGPVDAESCRTSSVCEKGHFVVYATD-EKRFVIPLAYLKNNVIRELFKMAE 79 (147)
Q Consensus 1 m~~~~kL~~~akKWqk~aa~~rkr~s~~~~~~~~~~~~~~~~~vpkG~~~VYVGe-~~RfvVp~~yLnhP~F~~LL~~ae 79 (147)
||+.+|..+.++||++.++..+++.+..+.. ...++|+||||||||+ ++||+||++|||||+|++||++||
T Consensus 1 M~~~~k~~~~~~k~~~~~~~~~~~~~~~~~~--------~~~~vp~G~~~VyVG~~~~Rfvvp~~~L~hp~f~~LL~~ae 72 (100)
T PF02519_consen 1 MASRLKSLASAKKWQSRARSKSSSSSSSRSS--------SESDVPKGHFAVYVGEERRRFVVPVSYLNHPLFQELLEQAE 72 (100)
T ss_pred CccHHHHHHHHHhhhhhhhhccccccccccc--------ccCCCCCCeEEEEeCccceEEEechHHcCchhHHHHHHHHh
Confidence 9999999999999998876665544332221 1368999999999997 899999999999999999999999
Q ss_pred HhcCCCCCCCeeecCcHHHHHHHHHHHh
Q 032077 80 DEFGLPSCGPITLPCDAVFMEYVVSLIQ 107 (147)
Q Consensus 80 eEfG~~~~G~L~IPC~~~~Fe~vl~li~ 107 (147)
|||||+++|+|+|||++++|++++|+|+
T Consensus 73 eEfG~~~~G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 73 EEFGFDQDGPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred hhcCcCCCCcEEeeCCHHHHHHHHHHhC
Confidence 9999999999999999999999999985
No 2
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=3.3e-35 Score=217.57 Aligned_cols=91 Identities=29% Similarity=0.541 Sum_probs=78.2
Q ss_pred hHHHHHHHHHHhhhhhcccCcccCCCCCCCCCCCCcCCCccCCCeEEEEecC-ceeeeEeccCcCcHHHHHHHHHhHHhc
Q 032077 4 PKKLIKMSKKWQKLAASKQKRISFPTTGPVDAESCRTSSVCEKGHFVVYATD-EKRFVIPLAYLKNNVIRELFKMAEDEF 82 (147)
Q Consensus 4 ~~kL~~~akKWqk~aa~~rkr~s~~~~~~~~~~~~~~~~~vpkG~~~VYVGe-~~RfvVp~~yLnhP~F~~LL~~aeeEf 82 (147)
..+|+++.|+|++++..+. . + . -..+.+||+||||||||+ ++||+||++|||||+|++||++|||||
T Consensus 12 ~~~~kq~l~r~~s~~~~~~--------~--~-~-~~~~~~vpkG~~aVyVG~~~~RfvVp~~~L~hP~F~~LL~~aeeEf 79 (104)
T PLN03090 12 TAMLKQILKRCSSLGKKQG--------Y--D-E-DGLPLDVPKGHFPVYVGENRSRYIVPISFLTHPEFQSLLQQAEEEF 79 (104)
T ss_pred HHHHHHHHHHHHHhcccCC--------c--c-c-ccCCCCCCCCcEEEEECCCCEEEEEEHHHcCCHHHHHHHHHHHHHh
Confidence 4678999999987753210 0 0 0 124678999999999997 589999999999999999999999999
Q ss_pred CCCCCCCeeecCcHHHHHHHHHHH
Q 032077 83 GLPSCGPITLPCDAVFMEYVVSLI 106 (147)
Q Consensus 83 G~~~~G~L~IPC~~~~Fe~vl~li 106 (147)
||+++|+|+|||++++|++++|+|
T Consensus 80 Gf~~~G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 80 GFDHDMGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred CCCCCCcEEEeCCHHHHHHHHHHh
Confidence 999999999999999999999998
No 3
>PLN03219 uncharacterized protein; Provisional
Probab=99.97 E-value=9.3e-32 Score=200.06 Aligned_cols=69 Identities=36% Similarity=0.696 Sum_probs=63.7
Q ss_pred CCcCCCccCCCeEEEEecC---ceeeeEeccCcCcHHHHHHHHHhHHhcCCCC-CCCeeecCcHHHHHHHHHH
Q 032077 37 SCRTSSVCEKGHFVVYATD---EKRFVIPLAYLKNNVIRELFKMAEDEFGLPS-CGPITLPCDAVFMEYVVSL 105 (147)
Q Consensus 37 ~~~~~~~vpkG~~~VYVGe---~~RfvVp~~yLnhP~F~~LL~~aeeEfG~~~-~G~L~IPC~~~~Fe~vl~l 105 (147)
++..+.+|||||||||||+ ++||+||++|||||+|++||++|||||||++ +|+|+|||+++.|++++..
T Consensus 32 ~~~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~~ 104 (108)
T PLN03219 32 STTTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTIPCREESFLHLITS 104 (108)
T ss_pred CCCCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEEeCCHHHHHHHHHh
Confidence 3455789999999999996 7999999999999999999999999999997 6999999999999999864
No 4
>PLN03220 uncharacterized protein; Provisional
Probab=99.97 E-value=1e-31 Score=199.00 Aligned_cols=67 Identities=33% Similarity=0.704 Sum_probs=62.3
Q ss_pred CcCCCccCCCeEEEEecC-----ceeeeEeccCcCcHHHHHHHHHhHHhcCCCC-CCCeeecCcHHHHHHHHH
Q 032077 38 CRTSSVCEKGHFVVYATD-----EKRFVIPLAYLKNNVIRELFKMAEDEFGLPS-CGPITLPCDAVFMEYVVS 104 (147)
Q Consensus 38 ~~~~~~vpkG~~~VYVGe-----~~RfvVp~~yLnhP~F~~LL~~aeeEfG~~~-~G~L~IPC~~~~Fe~vl~ 104 (147)
++.+.+|||||||||||+ ++|||||++|||||+|++||++|||||||++ +|+|+|||+++.|++++.
T Consensus 29 ~~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~ 101 (105)
T PLN03220 29 SSSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCREEVFLDLIA 101 (105)
T ss_pred ccccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCCHHHHHHHHH
Confidence 345679999999999996 6999999999999999999999999999998 699999999999999874
No 5
>PRK02899 adaptor protein; Provisional
Probab=84.97 E-value=0.75 Score=37.32 Aligned_cols=25 Identities=28% Similarity=0.693 Sum_probs=21.7
Q ss_pred cHHHHHHHHHhHHhcCCCCCCCeee
Q 032077 68 NNVIRELFKMAEDEFGLPSCGPITL 92 (147)
Q Consensus 68 hP~F~~LL~~aeeEfG~~~~G~L~I 92 (147)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 38 HQLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHHhhhccCcccCCeEEE
Confidence 4578888999999999999999864
No 6
>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=82.20 E-value=0.68 Score=32.05 Aligned_cols=54 Identities=17% Similarity=0.247 Sum_probs=40.4
Q ss_pred ceeeeEeccCcC-c--HHHHHHHHHhHHhcCCCCCCCeeecCcHHHHHHHHHHHhcC
Q 032077 56 EKRFVIPLAYLK-N--NVIRELFKMAEDEFGLPSCGPITLPCDAVFMEYVVSLIQRG 109 (147)
Q Consensus 56 ~~RfvVp~~yLn-h--P~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~li~~~ 109 (147)
+++|.++.+.|. + ..|..++........-+.+|.+-|-++...|++|+..++.+
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 47888888653232334679999999999999999999983
No 7
>PRK02315 adaptor protein; Provisional
Probab=79.82 E-value=1.4 Score=36.58 Aligned_cols=25 Identities=12% Similarity=0.324 Sum_probs=22.5
Q ss_pred cHHHHHHHHHhHHhcCCCCCCCeee
Q 032077 68 NNVIRELFKMAEDEFGLPSCGPITL 92 (147)
Q Consensus 68 hP~F~~LL~~aeeEfG~~~~G~L~I 92 (147)
+-+|.++|+++..|+||..+|||+|
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 4689999999999999999999864
No 8
>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=75.01 E-value=0.94 Score=36.62 Aligned_cols=25 Identities=24% Similarity=0.586 Sum_probs=0.0
Q ss_pred cHHHHHHHHHhHHhcCCCCCCCeee
Q 032077 68 NNVIRELFKMAEDEFGLPSCGPITL 92 (147)
Q Consensus 68 hP~F~~LL~~aeeEfG~~~~G~L~I 92 (147)
+-.|.++|+++.+|+||..+|||++
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 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=72.76 E-value=7.1 Score=26.09 Aligned_cols=51 Identities=22% Similarity=0.402 Sum_probs=35.2
Q ss_pred EecCceeeeEeccCcCcHHHHHHHHHhHHhcCCC----------CCC-CeeecCcHHHHHHHHHHHh
Q 032077 52 YATDEKRFVIPLAYLKNNVIRELFKMAEDEFGLP----------SCG-PITLPCDAVFMEYVVSLIQ 107 (147)
Q Consensus 52 YVGe~~RfvVp~~yLnhP~F~~LL~~aeeEfG~~----------~~G-~L~IPC~~~~Fe~vl~li~ 107 (147)
|.|+.+||.+|- ...|.+|..+..+.|+.. .+| .++|.++. .++..+.+..
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 445779999985 778999999999999874 234 45677755 3444444443
No 10
>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=71.63 E-value=9 Score=25.39 Aligned_cols=52 Identities=23% Similarity=0.403 Sum_probs=37.0
Q ss_pred EecCceeeeEeccCcCcHHHHHHHHHhHHhcCCC----------CCCC-eeecCcHHHHHHHHHHHh
Q 032077 52 YATDEKRFVIPLAYLKNNVIRELFKMAEDEFGLP----------SCGP-ITLPCDAVFMEYVVSLIQ 107 (147)
Q Consensus 52 YVGe~~RfvVp~~yLnhP~F~~LL~~aeeEfG~~----------~~G~-L~IPC~~~~Fe~vl~li~ 107 (147)
|-|+.+||.+|. .++.|.+|..+..+.|++. .+|- ++|.++ ..|+..+....
T Consensus 7 ~~~~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~ 69 (81)
T cd05992 7 YGGEIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEAR 69 (81)
T ss_pred ecCCCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHh
Confidence 446889999997 7889999999999998874 2343 455554 45555555554
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=55.61 E-value=31 Score=23.40 Aligned_cols=56 Identities=21% Similarity=0.352 Sum_probs=40.2
Q ss_pred EEEecCceeeeEeccCc--CcHHHHHHHHHhHHhcCCCCCC--Ceeec-CcHHHHHHHHHHHhcC
Q 032077 50 VVYATDEKRFVIPLAYL--KNNVIRELFKMAEDEFGLPSCG--PITLP-CDAVFMEYVVSLIQRG 109 (147)
Q Consensus 50 ~VYVGe~~RfvVp~~yL--nhP~F~~LL~~aeeEfG~~~~G--~L~IP-C~~~~Fe~vl~li~~~ 109 (147)
.+.||++++|-+.-..| ..|.|+.+++.. +....+ .+.++ ++...|+.++..+-.+
T Consensus 14 ~i~v~d~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~ 74 (111)
T PF00651_consen 14 TIRVGDGKTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMYTG 74 (111)
T ss_dssp EEEETTTEEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHHHS
T ss_pred EEEECCCEEEeechhhhhccchhhhhccccc----ccccccccccccccccccccccccccccCC
Confidence 45566688888887777 469999999888 222333 35555 7799999999988755
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=54.01 E-value=24 Score=24.80 Aligned_cols=49 Identities=27% Similarity=0.379 Sum_probs=34.4
Q ss_pred EEEecCceeeeEeccCcCcHHHHHHHHHhHHhcCCCC------------CCCeeecCcHHHHHHH
Q 032077 50 VVYATDEKRFVIPLAYLKNNVIRELFKMAEDEFGLPS------------CGPITLPCDAVFMEYV 102 (147)
Q Consensus 50 ~VYVGe~~RfvVp~~yLnhP~F~~LL~~aeeEfG~~~------------~G~L~IPC~~~~Fe~v 102 (147)
+.|-||-.||-+|.. .-|++|.++-.+-|+++. +..++|.|+.++=|-+
T Consensus 5 ~~~~~d~~r~~l~~~----~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai 65 (82)
T cd06407 5 ATYGEEKIRFRLPPS----WGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECI 65 (82)
T ss_pred EEeCCeEEEEEcCCC----CCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHH
Confidence 456677899998853 368999998888887643 2346778887765543
No 13
>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=52.62 E-value=67 Score=28.91 Aligned_cols=62 Identities=15% Similarity=0.387 Sum_probs=38.9
Q ss_pred ccCCCeEEEEecC---------------------ceeeeEeccCcC--cHHHHHHHHHhHHhcCCCCCCCeeecCcHHHH
Q 032077 43 VCEKGHFVVYATD---------------------EKRFVIPLAYLK--NNVIRELFKMAEDEFGLPSCGPITLPCDAVFM 99 (147)
Q Consensus 43 ~vpkG~~~VYVGe---------------------~~RfvVp~~yLn--hP~F~~LL~~aeeEfG~~~~G~L~IPC~~~~F 99 (147)
..++|-+.|.||. ..|++||++|=. .--..++.+.+++-||- +-+.+-=+.--|
T Consensus 180 ~~~~~~ltILvGNSgd~sNnHieaL~~L~~~~~~~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~~---~~~~iL~e~mpf 256 (360)
T PF07429_consen 180 KKNKGKLTILVGNSGDPSNNHIEALEALKQQFGDDVKIIVPLSYGANNQAYIQQVIQAGKELFGA---ENFQILTEFMPF 256 (360)
T ss_pred cCCCCceEEEEcCCCCCCccHHHHHHHHHHhcCCCeEEEEECCCCCchHHHHHHHHHHHHHhcCc---cceeEhhhhCCH
Confidence 3456778888872 389999999974 45666777777777882 333333333445
Q ss_pred HHHHHHHh
Q 032077 100 EYVVSLIQ 107 (147)
Q Consensus 100 e~vl~li~ 107 (147)
+..+.+|.
T Consensus 257 ~eYl~lL~ 264 (360)
T PF07429_consen 257 DEYLALLS 264 (360)
T ss_pred HHHHHHHH
Confidence 55555554
No 14
>PF14317 YcxB: YcxB-like protein
Probab=49.32 E-value=32 Score=20.98 Aligned_cols=32 Identities=22% Similarity=0.389 Sum_probs=25.2
Q ss_pred CCCeEEEEecCceeeeEeccCcCcHHHHHHHH
Q 032077 45 EKGHFVVYATDEKRFVIPLAYLKNNVIRELFK 76 (147)
Q Consensus 45 pkG~~~VYVGe~~RfvVp~~yLnhP~F~~LL~ 76 (147)
-+.++.+|+++..-++||-+.++.--..++.+
T Consensus 28 ~~~~~~l~~~~~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 28 TKDYFYLYLGKNQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred eCCEEEEEECCCeEEEEEHHHCCHhHHHHHHH
Confidence 36888899999999999999998555555443
No 15
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=40.58 E-value=14 Score=33.14 Aligned_cols=78 Identities=26% Similarity=0.469 Sum_probs=46.8
Q ss_pred CCccCCCeEEEEec-C--ceeeeEeccCcCc----------HHHHHHHHHhH----HhcCCC--CCCC------------
Q 032077 41 SSVCEKGHFVVYAT-D--EKRFVIPLAYLKN----------NVIRELFKMAE----DEFGLP--SCGP------------ 89 (147)
Q Consensus 41 ~~~vpkG~~~VYVG-e--~~RfvVp~~yLnh----------P~F~~LL~~ae----eEfG~~--~~G~------------ 89 (147)
..-+|.|-|++||| | .+.|.||+ +++ -.-..||++|. +.|--. -||+
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 45689999999999 4 36677773 332 23457888874 122200 1232
Q ss_pred -eeecCcH-HHHHHHHHHHhcCch--HHHHHHHHh
Q 032077 90 -ITLPCDA-VFMEYVVSLIQRGAA--KDVEKALLM 120 (147)
Q Consensus 90 -L~IPC~~-~~Fe~vl~li~~~~~--~d~e~~~l~ 120 (147)
--+.=+. ++.|.+-++++++.- +|+++|-+-
T Consensus 165 GyFiA~s~eef~ek~e~l~~~gvi~~edlkna~Ie 199 (361)
T COG1759 165 GYFIASSPEEFYEKAERLLKRGVITEEDLKNARIE 199 (361)
T ss_pred eEEEEcCHHHHHHHHHHHHHcCCcchhhhhhceee
Confidence 2344454 455666678887755 788777543
No 16
>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=40.35 E-value=13 Score=28.39 Aligned_cols=28 Identities=21% Similarity=0.593 Sum_probs=9.0
Q ss_pred CCCeEEEEecCceeee----------EeccCcCcHHHH
Q 032077 45 EKGHFVVYATDEKRFV----------IPLAYLKNNVIR 72 (147)
Q Consensus 45 pkG~~~VYVGe~~Rfv----------Vp~~yLnhP~F~ 72 (147)
..|||||.|-.+.+|+ +|+-|||.|+-+
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 688888887643
No 17
>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=37.69 E-value=1e+02 Score=22.00 Aligned_cols=56 Identities=18% Similarity=0.296 Sum_probs=39.4
Q ss_pred EEEecCceeeeEeccCcCcHHHHHHHHHhHHhcCCC---------CCCCeeecCcHHHHHHHHHHHhc
Q 032077 50 VVYATDEKRFVIPLAYLKNNVIRELFKMAEDEFGLP---------SCGPITLPCDAVFMEYVVSLIQR 108 (147)
Q Consensus 50 ~VYVGe~~RfvVp~~yLnhP~F~~LL~~aeeEfG~~---------~~G~L~IPC~~~~Fe~vl~li~~ 108 (147)
|-|-||..||.+|- -.++-|.+|..+-+.-|+++ .+-+++|.|+.++=|. +++.++
T Consensus 5 aty~~d~~rf~~~~--~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~e~v~lssd~eLeE~-~rl~~~ 69 (81)
T cd06396 5 VTYNGESQSFLVSD--SENTTWASVEAMVKVSFGLNDIQIKYVDEENEEVSVNSQGEYEEA-LKSAVR 69 (81)
T ss_pred EEECCeEEEEEecC--CCCCCHHHHHHHHHHHhCCCcceeEEEcCCCCEEEEEchhhHHHH-HHHHHh
Confidence 44668889999874 22567999999999999854 3356799998776544 334443
No 18
>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=35.48 E-value=88 Score=22.63 Aligned_cols=46 Identities=24% Similarity=0.400 Sum_probs=34.3
Q ss_pred EecCceeeeEeccCcCcHHHHHHHHHhHHhcCCC----------CC-CCeeecCcHHHHHH
Q 032077 52 YATDEKRFVIPLAYLKNNVIRELFKMAEDEFGLP----------SC-GPITLPCDAVFMEY 101 (147)
Q Consensus 52 YVGe~~RfvVp~~yLnhP~F~~LL~~aeeEfG~~----------~~-G~L~IPC~~~~Fe~ 101 (147)
|-|+.+||.+|. -|.+.+|-++-+.-|-+. .| ..|||.=+.++.+.
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 557889999998 899999999998877665 33 34677666555544
No 19
>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=34.57 E-value=74 Score=22.86 Aligned_cols=43 Identities=21% Similarity=0.183 Sum_probs=28.4
Q ss_pred EEEecCceeeeEeccCcCcHHHHHHHHHhHHhcCCC-------------CCCCe-eecCc
Q 032077 50 VVYATDEKRFVIPLAYLKNNVIRELFKMAEDEFGLP-------------SCGPI-TLPCD 95 (147)
Q Consensus 50 ~VYVGe~~RfvVp~~yLnhP~F~~LL~~aeeEfG~~-------------~~G~L-~IPC~ 95 (147)
+||-||-||+-+|. +.-.|.+|.++....|... .+|-+ ||.++
T Consensus 5 ~~~g~DiR~~~~~~---~~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~ 61 (81)
T cd06401 5 AQLGDDIRRIPIHN---EDITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDS 61 (81)
T ss_pred EEeCCeEEEEeccC---ccccHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccH
Confidence 46666778866663 2236888999988777622 45664 67775
No 20
>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=33.71 E-value=65 Score=21.28 Aligned_cols=43 Identities=26% Similarity=0.492 Sum_probs=29.0
Q ss_pred EecCcee-eeEeccCcCcHHHHHHHHHhHHhcCCC----------CCCC-eeecCcHHH
Q 032077 52 YATDEKR-FVIPLAYLKNNVIRELFKMAEDEFGLP----------SCGP-ITLPCDAVF 98 (147)
Q Consensus 52 YVGe~~R-fvVp~~yLnhP~F~~LL~~aeeEfG~~----------~~G~-L~IPC~~~~ 98 (147)
|.|+.+| +.+| ..+.|.+|..+.++.||.. .+|- ++|.++.++
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 3345555 4444 5679999999999999983 4453 566666543
No 21
>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=33.01 E-value=18 Score=22.09 Aligned_cols=19 Identities=32% Similarity=0.658 Sum_probs=15.1
Q ss_pred CcCcHHHHHHHHHhHHhcC
Q 032077 65 YLKNNVIRELFKMAEDEFG 83 (147)
Q Consensus 65 yLnhP~F~~LL~~aeeEfG 83 (147)
||+.-.|.+++.++.+||.
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 7889999999999999983
No 22
>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=32.58 E-value=2.2 Score=32.89 Aligned_cols=23 Identities=35% Similarity=0.746 Sum_probs=13.6
Q ss_pred CCccCCCeEEEEec-C--ceeeeEec
Q 032077 41 SSVCEKGHFVVYAT-D--EKRFVIPL 63 (147)
Q Consensus 41 ~~~vpkG~~~VYVG-e--~~RfvVp~ 63 (147)
..-||.|-|++||| | .++|-||+
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 45689999999999 4 35577774
No 23
>smart00153 VHP Villin headpiece domain.
Probab=32.07 E-value=24 Score=21.50 Aligned_cols=19 Identities=37% Similarity=0.691 Sum_probs=16.9
Q ss_pred CcCcHHHHHHHHHhHHhcC
Q 032077 65 YLKNNVIRELFKMAEDEFG 83 (147)
Q Consensus 65 yLnhP~F~~LL~~aeeEfG 83 (147)
||+.-.|+.++.++.+||-
T Consensus 1 yLsdeeF~~vfgmsr~eF~ 19 (36)
T smart00153 1 YLSDEDFEEVFGMTREEFY 19 (36)
T ss_pred CCCHHHHHHHHCCCHHHHH
Confidence 7889999999999999983
No 24
>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=32.04 E-value=7.4 Score=28.45 Aligned_cols=14 Identities=21% Similarity=0.574 Sum_probs=9.8
Q ss_pred cCcCcHHHHHHHHH
Q 032077 64 AYLKNNVIRELFKM 77 (147)
Q Consensus 64 ~yLnhP~F~~LL~~ 77 (147)
.|||||.|..|-.-
T Consensus 4 ~YLNHPtFGlLy~V 17 (88)
T PF12058_consen 4 TYLNHPTFGLLYRV 17 (88)
T ss_dssp -EEEETTTEEEEEE
T ss_pred ccccCCccchheee
Confidence 58999998776543
No 25
>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=31.61 E-value=89 Score=22.38 Aligned_cols=52 Identities=25% Similarity=0.337 Sum_probs=35.0
Q ss_pred EecCceeeeEeccC-cCcHHHHHHHHHhHHhcCCCC-----------CCC-eeecCcHHHHHHHH
Q 032077 52 YATDEKRFVIPLAY-LKNNVIRELFKMAEDEFGLPS-----------CGP-ITLPCDAVFMEYVV 103 (147)
Q Consensus 52 YVGe~~RfvVp~~y-LnhP~F~~LL~~aeeEfG~~~-----------~G~-L~IPC~~~~Fe~vl 103 (147)
|-|+-+||-+|.+= -.+.-|..|.++-++-|.... +|- ++|.|+.++-+-+-
T Consensus 7 y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~ 71 (91)
T cd06398 7 YGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQ 71 (91)
T ss_pred eCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHH
Confidence 44678999999740 114578888888888876653 343 57888876655543
No 26
>COG4923 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=30.76 E-value=70 Score=27.08 Aligned_cols=14 Identities=21% Similarity=0.622 Sum_probs=11.3
Q ss_pred CeeecCcHHHHHHH
Q 032077 89 PITLPCDAVFMEYV 102 (147)
Q Consensus 89 ~L~IPC~~~~Fe~v 102 (147)
..++||.+..+..+
T Consensus 88 vF~vPcR~A~Y~~~ 101 (245)
T COG4923 88 VFSVPCRAALYSDI 101 (245)
T ss_pred eeccchHHHHHHHH
Confidence 35799999888776
No 27
>PF00191 Annexin: Annexin; InterPro: IPR018502 The annexins (or lipocortins) are a family of proteins that bind to phospholipids in a calcium-dependent manner []. They are distributed ubiquitously in different tissues and cell types of higher and lower eukaryotes, including mammals, fish, birds, Drosophila melanogaster (Fruit fly), Xenopus laevis (African clawed frog), Caenorhabditis elegans , Dictyostelium discoideum (Slime mold) and Neurospora crassa [, ]. Annexins are absent from yeasts and prokaryotes []. The plant annexins are somewhat distinct from those found in other taxa []. Most eukaryotic species have 1-20 annexin (ANX) genes. All annexins share a core domain made up of four similar repeats, each approximately 70 amino acids long []. Each individual annexin repeat (sometimes referred to as endonexin folds) is folded into five alpha-helices, and in turn are wound into a right-handed super-helix; they usually contain a characteristic 'type 2' motif for binding calcium ions with the sequence 'GxGT-[38 residues]-D/E'. Animal and fungal annexins also have variable amino-terminal domains. The core domains of most vertebrate annexins have been analysed by X-ray crystallography, revealing conservation of their secondary and tertiary structures despite only 45-55% amino-acid identity among individual members. The four repeats pack into a structure that resembles a flattened disc, with a slightly convex surface on which the Ca 2+ -binding loops are located and a concave surface at which the amino and carboxyl termini come into close apposition. Annexins are traditionally thought of as calcium-dependent phospholipid-binding proteins, but recent work suggests a more complex set of functions. The famiy has been linked with inhibition of phospholipase activity, exocytosis and endoctyosis, signal transduction, organisation of the extracellular matrix, resistance to reactive oxygen species and DNA replication [].; GO: 0005509 calcium ion binding, 0005544 calcium-dependent phospholipid binding; PDB: 1N44_A 1BC1_A 2IE6_A 2H0M_A 1A8B_A 2H0K_A 1BCW_A 1BCZ_A 1N42_A 1BC0_A ....
Probab=30.50 E-value=77 Score=20.07 Aligned_cols=37 Identities=22% Similarity=0.341 Sum_probs=23.8
Q ss_pred cHHHHHHHHHhHHhcCCCCCCCeeecCcHHHHHHHHHHHhcCchHHHHHHHHh
Q 032077 68 NNVIRELFKMAEDEFGLPSCGPITLPCDAVFMEYVVSLIQRGAAKDVEKALLM 120 (147)
Q Consensus 68 hP~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~li~~~~~~d~e~~~l~ 120 (147)
.+-.+++.+.-+..|| ..+...|+++.+.|++++||+
T Consensus 29 ~~ql~~i~~~Y~~~~g----------------~~L~~~i~~e~sGd~~~~Ll~ 65 (66)
T PF00191_consen 29 PAQLRAIKQAYKKKYG----------------KDLEEDIKKETSGDFEKLLLA 65 (66)
T ss_dssp HHHHHHHHHHHHHHHS----------------S-HHHHHHHHSTHHHHHHHHH
T ss_pred ccccceeehhhhhhhH----------------HHHHHHHHHhCCHHHHHHHHh
Confidence 3445555555555666 235567788888899988874
No 28
>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=30.43 E-value=40 Score=23.26 Aligned_cols=17 Identities=35% Similarity=0.827 Sum_probs=15.3
Q ss_pred HHHHHHHHHhHHhcCCC
Q 032077 69 NVIRELFKMAEDEFGLP 85 (147)
Q Consensus 69 P~F~~LL~~aeeEfG~~ 85 (147)
-.+++||+.|++.||+.
T Consensus 26 ~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFS 42 (69)
T ss_pred ccHHHHHHHHHHHhCCC
Confidence 36999999999999985
No 29
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=29.35 E-value=37 Score=28.67 Aligned_cols=27 Identities=15% Similarity=0.247 Sum_probs=24.2
Q ss_pred CcHHHHHHHHHhHHhcCCCCCCCeeec
Q 032077 67 KNNVIRELFKMAEDEFGLPSCGPITLP 93 (147)
Q Consensus 67 nhP~F~~LL~~aeeEfG~~~~G~L~IP 93 (147)
.|-+|-++++.+..|-+|..+|||.|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 478999999999999999999999763
No 30
>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=27.23 E-value=69 Score=28.31 Aligned_cols=52 Identities=15% Similarity=0.336 Sum_probs=40.1
Q ss_pred ceeeeEeccCcC--cHHHHHHHHH---hHHhcCCCCCCCeeecCcHHHHHHHHHHHhcCc
Q 032077 56 EKRFVIPLAYLK--NNVIRELFKM---AEDEFGLPSCGPITLPCDAVFMEYVVSLIQRGA 110 (147)
Q Consensus 56 ~~RfvVp~~yLn--hP~F~~LL~~---aeeEfG~~~~G~L~IPC~~~~Fe~vl~li~~~~ 110 (147)
.+=|..|.+.|- ..-|++.|.. ...+. .+=.|.+-||+..|+.++..+++..
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 577889988874 4679999976 33332 2456889999999999999999854
No 31
>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional
Probab=27.14 E-value=27 Score=31.34 Aligned_cols=26 Identities=27% Similarity=0.535 Sum_probs=19.6
Q ss_pred CCccCCCeEEEEec-Cc--eeeeEeccCcCc
Q 032077 41 SSVCEKGHFVVYAT-DE--KRFVIPLAYLKN 68 (147)
Q Consensus 41 ~~~vpkG~~~VYVG-e~--~RfvVp~~yLnh 68 (147)
..-||.|-|++||| |+ ..|-|| ++++
T Consensus 87 ~i~iPh~sf~~y~g~~~ie~~~~vp--~fGn 115 (366)
T PRK13277 87 AIFVPNRSFAVYVGYDAIENEFKVP--IFGN 115 (366)
T ss_pred eEEecCCCeEEEecHHHHhhcCCCC--cccC
Confidence 45689999999999 42 478888 4444
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=25.23 E-value=45 Score=29.23 Aligned_cols=16 Identities=31% Similarity=0.569 Sum_probs=14.6
Q ss_pred CChHHHHHHHHHHhhh
Q 032077 2 ISPKKLIKMSKKWQKL 17 (147)
Q Consensus 2 ~~~~kL~~~akKWqk~ 17 (147)
+|++.|+.|..+|||+
T Consensus 6 VNA~vLk~Ms~~Wq~~ 21 (294)
T PF04332_consen 6 VNATVLKRMSPFWQRR 21 (294)
T ss_pred hhHHHHHhhhHHHHHH
Confidence 7899999999999974
No 33
>KOG1290 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=24.14 E-value=44 Score=31.74 Aligned_cols=19 Identities=21% Similarity=0.240 Sum_probs=16.0
Q ss_pred cCCCeEEEEecC---ceeeeEe
Q 032077 44 CEKGHFVVYATD---EKRFVIP 62 (147)
Q Consensus 44 vpkG~~~VYVGe---~~RfvVp 62 (147)
.+-||.||++|| ..||+|-
T Consensus 62 ~kGGYHpV~IGD~F~~gRY~v~ 83 (590)
T KOG1290|consen 62 RKGGYHPVRIGDVFNGGRYHVQ 83 (590)
T ss_pred hcCCCceeeccccccCceEEEE
Confidence 578999999998 4899874
No 34
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=22.96 E-value=1.7e+02 Score=25.95 Aligned_cols=62 Identities=13% Similarity=0.312 Sum_probs=37.8
Q ss_pred ccCCCeEEEEecC---------------------ceeeeEeccCc-CcHHHH-HHHHHhHHhcCCCCCCCeeecCcHHHH
Q 032077 43 VCEKGHFVVYATD---------------------EKRFVIPLAYL-KNNVIR-ELFKMAEDEFGLPSCGPITLPCDAVFM 99 (147)
Q Consensus 43 ~vpkG~~~VYVGe---------------------~~RfvVp~~yL-nhP~F~-~LL~~aeeEfG~~~~G~L~IPC~~~~F 99 (147)
..++|-+.|.||. .-|++||++|= |+.... +..+.+.+-||- +-+.+-=+---|
T Consensus 141 ~~~~~~~tIlvGNSgd~SN~Hie~L~~l~~~~~~~v~ii~PlsYp~gn~~Yi~~V~~~~~~lF~~---~~~~~L~e~l~f 217 (322)
T PRK02797 141 RQRAGKMTILVGNSGDRSNRHIEALRALHQQFGDNVKIIVPMGYPANNQAYIEEVRQAGLALFGA---ENFQILTEKLPF 217 (322)
T ss_pred ccCCCceEEEEeCCCCCcccHHHHHHHHHHHhCCCeEEEEECCcCCCCHHHHHHHHHHHHHhcCc---ccEEehhhhCCH
Confidence 4467789999972 25999999994 455554 455555555762 334444444445
Q ss_pred HHHHHHHh
Q 032077 100 EYVVSLIQ 107 (147)
Q Consensus 100 e~vl~li~ 107 (147)
+..+.+|.
T Consensus 218 ~eYl~lL~ 225 (322)
T PRK02797 218 DDYLALLR 225 (322)
T ss_pred HHHHHHHH
Confidence 55555554
No 35
>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=22.14 E-value=96 Score=22.15 Aligned_cols=29 Identities=21% Similarity=0.400 Sum_probs=22.8
Q ss_pred CCCeeecCcHHHHHHHHHHHhcCchHHHHH
Q 032077 87 CGPITLPCDAVFMEYVVSLIQRGAAKDVEK 116 (147)
Q Consensus 87 ~G~L~IPC~~~~Fe~vl~li~~~~~~d~e~ 116 (147)
.+.+.+-|+++-|.+++.-|+.. .+.+|+
T Consensus 64 ~~~i~f~c~~e~L~~Li~~Lk~A-~~~~e~ 92 (95)
T cd04751 64 KPDINFTCTLEQLQDLVNKLKDA-AKNIER 92 (95)
T ss_pred cceEEEEeCHHHHHHHHHHHHHH-HHHHHH
Confidence 35899999999999999998543 456664
No 36
>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=21.93 E-value=2e+02 Score=22.51 Aligned_cols=42 Identities=19% Similarity=0.276 Sum_probs=34.2
Q ss_pred HHHHHHHHHhHHhcCCCCCCCeeecCcHHHHHHHHHHHhcCc
Q 032077 69 NVIRELFKMAEDEFGLPSCGPITLPCDAVFMEYVVSLIQRGA 110 (147)
Q Consensus 69 P~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~li~~~~ 110 (147)
|.|.+..-..-++.|.+.+|--++|.+...-+.+...++++.
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 455544445567889999999999999999999999999875
No 37
>COG2899 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.19 E-value=47 Score=29.46 Aligned_cols=16 Identities=38% Similarity=0.515 Sum_probs=14.6
Q ss_pred CChHHHHHHHHHHhhh
Q 032077 2 ISPKKLIKMSKKWQKL 17 (147)
Q Consensus 2 ~~~~kL~~~akKWqk~ 17 (147)
+|+.+|+.|..+|||+
T Consensus 56 vNA~iLk~MS~~Wqk~ 71 (346)
T COG2899 56 VNAAILKDMSPFWQKR 71 (346)
T ss_pred hhHHHHHhccHHHHHH
Confidence 6899999999999985
No 38
>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=20.82 E-value=1.7e+02 Score=23.42 Aligned_cols=34 Identities=18% Similarity=0.204 Sum_probs=27.1
Q ss_pred CeEEEEecCc--eeeeEeccCcCcHHHHHHHHHhHHhcCCCCC
Q 032077 47 GHFVVYATDE--KRFVIPLAYLKNNVIRELFKMAEDEFGLPSC 87 (147)
Q Consensus 47 G~~~VYVGe~--~RfvVp~~yLnhP~F~~LL~~aeeEfG~~~~ 87 (147)
|++++++|-+ .+ .+-|.+.+|++...+++|.+.+
T Consensus 1 g~lvlFiGAG~S~~-------~glP~W~~Ll~~l~~~~~~~~~ 36 (242)
T cd01406 1 GRVVIFVGAGVSVS-------SGLPDWKTLLDEIASELGLEID 36 (242)
T ss_pred CCEEEEecCccccc-------cCCCChHHHHHHHHHHcCCccc
Confidence 7888999853 22 4788999999999999987644
No 39
>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=20.71 E-value=1.4e+02 Score=20.71 Aligned_cols=28 Identities=18% Similarity=0.579 Sum_probs=17.8
Q ss_pred CCeEEEEecCceeeeEeccCcCcHHHHHHHHHh
Q 032077 46 KGHFVVYATDEKRFVIPLAYLKNNVIRELFKMA 78 (147)
Q Consensus 46 kG~~~VYVGe~~RfvVp~~yLnhP~F~~LL~~a 78 (147)
.=|+|+++++. ++.|| ..+...+||++.
T Consensus 24 NrH~p~~i~~~-~l~v~----~d~~l~~~L~~l 51 (87)
T PF05194_consen 24 NRHWPLFIEED-ELYVP----YDHVLEELLRKL 51 (87)
T ss_dssp HTT--EEEETT-EEEEE------HHHHHHHHHT
T ss_pred CCccceEEcCC-EEEec----CcHHHHHHHHHC
Confidence 45888998876 77777 566777777774
No 40
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. 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. The PB1 domain module is conserved in amoebas, fungi,
Probab=20.33 E-value=2e+02 Score=20.79 Aligned_cols=38 Identities=24% Similarity=0.199 Sum_probs=29.0
Q ss_pred EEecCceeeeEeccCcCcHHHHHHHHHhHHhcCCCCCCCeee
Q 032077 51 VYATDEKRFVIPLAYLKNNVIRELFKMAEDEFGLPSCGPITL 92 (147)
Q Consensus 51 VYVGe~~RfvVp~~yLnhP~F~~LL~~aeeEfG~~~~G~L~I 92 (147)
-|-||-.++-++. ...|.+|.++-++-|.|..++++++
T Consensus 6 ~y~gdi~it~~d~----~~s~e~L~~~v~~~c~~~~~q~ft~ 43 (83)
T cd06404 6 AYNGDIMITSIDP----SISLEELCNEVRDMCRFHNDQPFTL 43 (83)
T ss_pred EecCcEEEEEcCC----CcCHHHHHHHHHHHhCCCCCCcEEE
Confidence 3556655555554 4559999999999999998888876
No 41
>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=20.07 E-value=1.5e+02 Score=20.88 Aligned_cols=39 Identities=18% Similarity=0.237 Sum_probs=31.8
Q ss_pred CCCeEEEEecCc-----eeeeEeccCcCcHHH---HHHHHHhHHhcC
Q 032077 45 EKGHFVVYATDE-----KRFVIPLAYLKNNVI---RELFKMAEDEFG 83 (147)
Q Consensus 45 pkG~~~VYVGe~-----~RfvVp~~yLnhP~F---~~LL~~aeeEfG 83 (147)
++-+.+.+.|+. .++-+...|+.|+.+ +.|++++.|.|.
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 455667778864 778888899999999 489999999886
Done!