Query 032912
Match_columns 130
No_of_seqs 104 out of 490
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 07:29:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032912.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032912hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02309 AUX_IAA: AUX/IAA fami 100.0 2E-53 4.4E-58 335.8 0.5 125 3-129 80-213 (215)
2 PF00564 PB1: PB1 domain; Int 98.0 2.5E-05 5.5E-10 52.1 6.1 67 36-114 3-70 (84)
3 cd06407 PB1_NLP A PB1 domain i 97.7 0.00018 3.9E-09 49.9 6.9 54 37-102 3-56 (82)
4 smart00666 PB1 PB1 domain. Pho 97.7 0.00026 5.7E-09 47.1 7.3 65 37-114 4-69 (81)
5 cd06398 PB1_Joka2 The PB1 doma 97.7 0.00018 3.9E-09 50.9 6.7 59 36-104 2-63 (91)
6 cd05992 PB1 The PB1 domain is 97.6 0.00053 1.1E-08 45.3 7.4 65 37-114 3-69 (81)
7 cd06396 PB1_NBR1 The PB1 domai 97.4 0.00076 1.7E-08 47.2 6.3 53 37-102 3-55 (81)
8 cd06401 PB1_TFG The PB1 domain 97.3 0.0014 3E-08 46.0 7.2 73 37-119 3-79 (81)
9 cd06409 PB1_MUG70 The MUG70 pr 97.1 0.0016 3.4E-08 46.0 5.7 51 44-102 7-59 (86)
10 cd06403 PB1_Par6 The PB1 domai 96.9 0.0027 5.9E-08 44.5 5.4 67 37-114 3-70 (80)
11 cd06404 PB1_aPKC PB1 domain is 96.7 0.0048 1E-07 43.5 5.7 55 37-103 3-57 (83)
12 cd06397 PB1_UP1 Uncharacterize 96.7 0.0059 1.3E-07 43.0 6.0 66 37-115 3-69 (82)
13 cd06402 PB1_p62 The PB1 domain 96.6 0.013 2.9E-07 41.4 7.0 58 36-103 2-64 (87)
14 cd06408 PB1_NoxR The PB1 domai 95.1 0.089 1.9E-06 37.2 6.0 54 36-104 4-57 (86)
15 cd06399 PB1_P40 The PB1 domain 89.3 0.7 1.5E-05 33.2 4.0 38 51-101 23-60 (92)
16 cd06406 PB1_P67 A PB1 domain i 81.3 8.1 0.00018 27.0 6.2 66 35-114 3-69 (80)
17 cd06395 PB1_Map2k5 PB1 domain 66.5 13 0.00028 26.5 4.2 49 42-102 9-57 (91)
18 PF10411 DsbC_N: Disulfide bon 63.1 6.8 0.00015 24.9 2.1 17 88-104 34-50 (57)
19 KOG3938 RGS-GAIP interacting p 56.1 19 0.00042 30.9 4.2 76 40-128 60-142 (334)
20 cd06410 PB1_UP2 Uncharacterize 52.4 57 0.0012 23.2 5.6 26 47-72 24-49 (97)
21 PF00788 RA: Ras association ( 50.9 57 0.0012 21.1 5.2 69 35-112 3-77 (93)
22 PRK11430 putative CoA-transfer 45.4 20 0.00044 30.8 2.8 67 46-115 196-268 (381)
23 PF06463 Mob_synth_C: Molybden 43.0 74 0.0016 23.2 5.2 66 50-122 17-84 (128)
24 KOG3606 Cell polarity protein 41.9 35 0.00076 29.5 3.7 78 35-125 19-102 (358)
25 PF02013 CBM_10: Cellulose or 38.6 8.4 0.00018 23.1 -0.4 12 88-99 16-27 (36)
26 PF04809 HupH_C: HupH hydrogen 34.0 37 0.00081 25.0 2.3 71 47-117 25-113 (120)
27 COG0219 CspR Predicted rRNA me 33.4 23 0.00049 27.7 1.2 79 39-127 45-132 (155)
28 cd01789 Alp11_N Ubiquitin-like 31.8 1.6E+02 0.0035 19.7 6.4 27 45-73 14-40 (84)
29 PRK13361 molybdenum cofactor b 28.9 2.3E+02 0.0051 23.4 6.5 77 39-122 187-267 (329)
30 PF09840 DUF2067: Uncharacteri 26.8 35 0.00076 27.1 1.2 30 83-116 96-125 (190)
31 PF07929 PRiA4_ORF3: Plasmid p 26.7 87 0.0019 23.6 3.4 38 35-72 5-44 (179)
32 PF09676 TraV: Type IV conjuga 26.4 46 0.001 23.5 1.7 20 85-104 91-110 (119)
33 PF14560 Ubiquitin_2: Ubiquiti 26.3 1.5E+02 0.0032 19.7 4.1 25 46-72 16-40 (87)
34 PF14688 DUF4461: Domain of un 25.8 45 0.00098 28.3 1.8 30 85-114 80-117 (313)
35 smart00537 DCX Domain in the D 24.7 1.4E+02 0.0031 20.4 3.8 33 35-67 6-42 (89)
36 PRK00745 4-oxalocrotonate taut 24.3 1E+02 0.0022 18.9 2.9 35 58-102 21-55 (62)
37 TIGR00013 taut 4-oxalocrotonat 24.1 1.4E+02 0.003 18.3 3.4 39 58-107 21-59 (63)
38 PF13665 DUF4150: Domain of un 24.0 41 0.0009 24.4 1.1 23 36-58 83-105 (110)
39 PRK02220 4-oxalocrotonate taut 23.9 1.3E+02 0.0027 18.4 3.2 15 58-72 21-35 (61)
40 PF12108 SF3a60_bindingd: Spli 22.7 11 0.00024 21.5 -1.7 17 101-117 4-20 (28)
41 PF07521 RMMBL: RNA-metabolisi 22.7 82 0.0018 18.7 2.1 20 49-68 11-30 (43)
42 PF02777 Sod_Fe_C: Iron/mangan 22.3 1.8E+02 0.0039 20.2 4.1 16 84-99 34-49 (106)
43 PF03625 DUF302: Domain of unk 21.8 44 0.00096 21.1 0.8 17 86-102 46-62 (65)
44 cd05141 Barstar_evA4336-like B 21.2 1.2E+02 0.0026 20.3 2.9 25 48-72 1-25 (81)
45 COG3286 Uncharacterized protei 20.9 49 0.0011 27.0 1.0 30 83-116 99-128 (204)
46 PF08340 DUF1732: Domain of un 20.8 39 0.00085 24.0 0.4 12 42-53 34-45 (87)
47 PF15306 LIN37: LIN37 20.8 49 0.0011 24.8 1.0 23 46-69 21-43 (148)
48 PF12426 DUF3674: RNA dependen 20.1 62 0.0014 20.1 1.1 11 61-71 6-16 (41)
No 1
>PF02309 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The Aux/IAA family of genes are key regulators of auxin-modified gene expression []. The plant hormone auxin (indole-3-acetic acid, IAA) regulates diverse cellular and developmental responses in plants, including cell division, expansion, differentiation and patterning of embryo responses []. Auxin can regulate the gene expression of several families, including GH3 and SAUR, as well as Aux/IAA itself. The Aux/IAA proteins act as repressors of auxin-induced gene expression, possibly through modulating the activity of DNA-binding auxin response factors (ARFs) (IPR010525 from INTERPRO). Aux/IAA and ARF are thought to interact through C-terminal protein-protein interaction domains found in both Aux/IAA and ARF. Recent evidence suggests that Aux/IAA proteins can also mediate light responses []. Some members of the AUX/IAA family are longer and contain an N-terminal DNA binding domain [] and may have an early function in the establishment of vascular and body patterns in embryonic and post-embryonic development in some plants.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P1N_F 2P1Q_C 2P1O_C.
Probab=100.00 E-value=2e-53 Score=335.76 Aligned_cols=125 Identities=57% Similarity=0.957 Sum_probs=6.0
Q ss_pred CCCCCCccCcCCCccccccccccccccCcCCcceeEEEEcCccccceeecCCCCChHHHHHHHHhHhcc-ccccc-----
Q 032912 3 HVCRAQVVGWPPIRSYRKNSLQQKKNEGECAGIYVKVSMDGAPYLRKIDLKLYNGYPELLKALENMFKF-TVGVY----- 76 (130)
Q Consensus 3 ~~~~~~vVGWPPv~s~r~n~~~~~~~~~~~~~~~vKV~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~-~~g~~----- 76 (130)
|++++++||||||++||+|.+....+ ...++||||+|||+||||||||++|+||++|+.+|++||.+ .++++
T Consensus 80 p~~~~~~vgwpp~~s~r~n~~~~~~~--~~~~~~vKV~mdG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~~~~ 157 (215)
T PF02309_consen 80 PASKAQVVGWPPVRSFRKNSLSEKQS--SSSRSYVKVNMDGVPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGSHGL 157 (215)
T ss_dssp ------BTTBS----S----------------------------------------------------------------
T ss_pred CcccccccCCCccccccccccccccc--ccCCceeEEEecCcccceecCHHHhhCHHHHHHHHHHhcCCCCccccccccc
Confidence 45678999999999999998762222 22479999999999999999999999999999999999943 22211
Q ss_pred ---ccccCCCCCceeeEEEcCCCCeEEecCcChhhHhhceeeeEEecCCcccCCCC
Q 032912 77 ---SEREGYKGSEYEPTYEDKDGDWMLVGDVPWEMFMSSCKRLRIMKGSEARGLTA 129 (130)
Q Consensus 77 ---~~~~~~~~~~~~l~YeD~eGD~mLvGDvPW~~F~~svkrl~I~~~se~~~l~~ 129 (130)
...+..++++|+|||+|+||||||||||||+|||++||||+||+.+|+++|+|
T Consensus 158 ~~~~~~~~~~~~~~~l~Y~D~egd~mlvGD~PW~~F~~~vkRl~I~~~~e~~~~~~ 213 (215)
T PF02309_consen 158 NESGLLDLLNGSEYVLVYEDKEGDWMLVGDVPWEEFVKSVKRLRIMKSSEAKGLAP 213 (215)
T ss_dssp --------------------------------------------------------
T ss_pred cchhhccccCCcceeEEEECCCCCEEEecCCCHHHHHHHhhccEEecHHHhcccCC
Confidence 00112356799999999999999999999999999999999999999999987
No 2
>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=97.98 E-value=2.5e-05 Score=52.10 Aligned_cols=67 Identities=22% Similarity=0.373 Sum_probs=55.0
Q ss_pred eeEEEEcCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEecCc-ChhhHhhcee
Q 032912 36 YVKVSMDGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVGDV-PWEMFMSSCK 114 (130)
Q Consensus 36 ~vKV~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGDv-PW~~F~~svk 114 (130)
-+|+.-.|. +=|.+.+..--+|++|...+++.|+.. + ..+.+.|.|.||||..+-+. =|++.++.++
T Consensus 3 ~vK~~~~~~-~~~~~~~~~~~s~~~L~~~i~~~~~~~-~----------~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~ 70 (84)
T PF00564_consen 3 RVKVRYGGD-IRRIISLPSDVSFDDLRSKIREKFGLL-D----------EDFQLKYKDEDGDLVTISSDEDLQEAIEQAK 70 (84)
T ss_dssp EEEEEETTE-EEEEEEECSTSHHHHHHHHHHHHHTTS-T----------SSEEEEEEETTSSEEEESSHHHHHHHHHHHH
T ss_pred EEEEEECCe-eEEEEEcCCCCCHHHHHHHHHHHhCCC-C----------ccEEEEeeCCCCCEEEeCCHHHHHHHHHHHH
Confidence 378888887 445688888889999999999999986 1 25899999999999988754 5887777765
No 3
>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=97.71 E-value=0.00018 Score=49.92 Aligned_cols=54 Identities=26% Similarity=0.475 Sum_probs=44.2
Q ss_pred eEEEEcCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEec
Q 032912 37 VKVSMDGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVG 102 (130)
Q Consensus 37 vKV~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvG 102 (130)
|||...|. -+.+-|..--+|++|.+++.+.|.+. +.+.+.|.|.|.||||.++-
T Consensus 3 vK~~~~~d--~~r~~l~~~~~~~~L~~~i~~r~~~~----------~~~~f~LkY~Ddegd~v~lt 56 (82)
T cd06407 3 VKATYGEE--KIRFRLPPSWGFTELKQEIAKRFKLD----------DMSAFDLKYLDDDEEWVLLT 56 (82)
T ss_pred EEEEeCCe--EEEEEcCCCCCHHHHHHHHHHHhCCC----------CCCeeEEEEECCCCCeEEee
Confidence 78888887 44566666669999999999999985 13579999999999998764
No 4
>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=97.69 E-value=0.00026 Score=47.12 Aligned_cols=65 Identities=18% Similarity=0.344 Sum_probs=51.2
Q ss_pred eEEEEcCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEecC-cChhhHhhcee
Q 032912 37 VKVSMDGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVGD-VPWEMFMSSCK 114 (130)
Q Consensus 37 vKV~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGD-vPW~~F~~svk 114 (130)
+||.-.|. =|.+-+..--+|++|...+.+.|+... ..+.|.|+|.||||..+.+ .=|++.++.++
T Consensus 4 vK~~~~~~--~~~~~~~~~~s~~dL~~~i~~~~~~~~-----------~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 4 VKLRYGGE--TRRLSVPRDISFEDLRSKVAKRFGLDN-----------QSFTLKYQDEDGDLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEECCE--EEEEEECCCCCHHHHHHHHHHHhCCCC-----------CCeEEEEECCCCCEEEecCHHHHHHHHHHHH
Confidence 67777443 677888888999999999999999751 3589999999999987665 46776666555
No 5
>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=97.69 E-value=0.00018 Score=50.91 Aligned_cols=59 Identities=25% Similarity=0.334 Sum_probs=46.7
Q ss_pred eeEEEEcCccccceeecC---CCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEecCc
Q 032912 36 YVKVSMDGAPYLRKIDLK---LYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVGDV 104 (130)
Q Consensus 36 ~vKV~meG~~igRkvDL~---~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGDv 104 (130)
-|||.-+|.-+=-++++. .--+|++|..++++.|.+. ...++++.|.|.||||..+-..
T Consensus 2 ~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~----------~~~~~~l~Y~Dedgd~V~l~~D 63 (91)
T cd06398 2 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLS----------PDADLSLTYTDEDGDVVTLVDD 63 (91)
T ss_pred EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCC----------CCCcEEEEEECCCCCEEEEccH
Confidence 379999998444445543 4579999999999999876 2457999999999999988654
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=97.57 E-value=0.00053 Score=45.34 Aligned_cols=65 Identities=20% Similarity=0.390 Sum_probs=51.2
Q ss_pred eEEEEcCccccceeecC-CCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEecC-cChhhHhhcee
Q 032912 37 VKVSMDGAPYLRKIDLK-LYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVGD-VPWEMFMSSCK 114 (130)
Q Consensus 37 vKV~meG~~igRkvDL~-~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGD-vPW~~F~~svk 114 (130)
|||+-.|. =|.+=+. .--+|++|...|.+.|+... ..+.+.|.|.|||+..+.+ .=|++.++.++
T Consensus 3 vK~~~~~~--~~~~~~~~~~~s~~~L~~~i~~~~~~~~-----------~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~ 69 (81)
T cd05992 3 VKVKYGGE--IRRFVVVSRSISFEDLRSKIAEKFGLDA-----------VSFKLKYPDEDGDLVTISSDEDLEEAIEEAR 69 (81)
T ss_pred EEEEecCC--CEEEEEecCCCCHHHHHHHHHHHhCCCC-----------CcEEEEeeCCCCCEEEeCCHHHHHHHHHHHh
Confidence 68887765 3444444 88899999999999999862 2579999999999999988 56776666655
No 7
>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=97.36 E-value=0.00076 Score=47.20 Aligned_cols=53 Identities=13% Similarity=0.208 Sum_probs=45.3
Q ss_pred eEEEEcCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEec
Q 032912 37 VKVSMDGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVG 102 (130)
Q Consensus 37 vKV~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvG 102 (130)
|||.-.|.-+--+++-+..-+|++|.++++++|++. .+.|.|.|.||||.++-
T Consensus 3 vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~-------------~f~lKYlDde~e~v~ls 55 (81)
T cd06396 3 LKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN-------------DIQIKYVDEENEEVSVN 55 (81)
T ss_pred EEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC-------------cceeEEEcCCCCEEEEE
Confidence 788888886666777777889999999999999987 26799999999998863
No 8
>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=97.32 E-value=0.0014 Score=46.02 Aligned_cols=73 Identities=23% Similarity=0.435 Sum_probs=51.1
Q ss_pred eEEEEcCccccceeecCCCC-ChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEecCc---ChhhHhhc
Q 032912 37 VKVSMDGAPYLRKIDLKLYN-GYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVGDV---PWEMFMSS 112 (130)
Q Consensus 37 vKV~meG~~igRkvDL~~~~-sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGDv---PW~~F~~s 112 (130)
+|+.-+|. | |++=+..-. +|.+|...+++.|....+ ....+.+.|.|.|||+.-+.+. -|..-+..
T Consensus 3 iK~~~g~D-i-R~~~~~~~~~t~~~L~~~v~~~F~~~~~--------~~~~flIKYkD~dGDlVTIts~~dL~~A~~~~~ 72 (81)
T cd06401 3 LKAQLGDD-I-RRIPIHNEDITYDELLLMMQRVFRGKLG--------SSDDVLIKYKDEDGDLITIFDSSDLSFAIQCSR 72 (81)
T ss_pred EEEEeCCe-E-EEEeccCccccHHHHHHHHHHHhccccC--------CcccEEEEEECCCCCEEEeccHHHHHHHHhcCc
Confidence 56666554 5 444444323 999999999999996532 2457999999999999999875 44433445
Q ss_pred eeeeEEe
Q 032912 113 CKRLRIM 119 (130)
Q Consensus 113 vkrl~I~ 119 (130)
.++|+|.
T Consensus 73 ~~~l~~~ 79 (81)
T cd06401 73 ILKLTLF 79 (81)
T ss_pred ceEEEEe
Confidence 5566553
No 9
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. 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 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid 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
Probab=97.10 E-value=0.0016 Score=45.99 Aligned_cols=51 Identities=20% Similarity=0.212 Sum_probs=40.5
Q ss_pred ccccceeecC--CCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEec
Q 032912 44 APYLRKIDLK--LYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVG 102 (130)
Q Consensus 44 ~~igRkvDL~--~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvG 102 (130)
.|-||.+=++ ...|+.+|.++..+-|+.+.. ....+.|.|.|.||||.++-
T Consensus 7 ~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~--------~~~~~~L~YlDDEgD~VllT 59 (86)
T cd06409 7 DPKGRVHRFRLRPSESLEELRTLISQRLGDDDF--------ETHLYALSYVDDEGDIVLIT 59 (86)
T ss_pred CCCCCEEEEEecCCCCHHHHHHHHHHHhCCccc--------cCCcccEEEEcCCCCEEEEe
Confidence 4567766554 378999999999999998731 13578999999999999874
No 10
>cd06403 PB1_Par6 The PB1 domain is an essential part of Par6 protein which in complex with Par3 and aPKC proteins is crucial for establishment of apical-basal polarity of animal cells. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role 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, animals, and plants. The
Probab=96.91 E-value=0.0027 Score=44.50 Aligned_cols=67 Identities=21% Similarity=0.301 Sum_probs=50.4
Q ss_pred eEEEEcCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEec-CcChhhHhhcee
Q 032912 37 VKVSMDGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVG-DVPWEMFMSSCK 114 (130)
Q Consensus 37 vKV~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvG-DvPW~~F~~svk 114 (130)
||.+-+.+=-=-.+|.....+|+++++-|+.||.+. +..+.|-|.|.+||.+-+- |+-+..-+++++
T Consensus 3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l~-----------~~~f~i~Y~D~~gDLLPInNDdNf~kAlssa~ 70 (80)
T cd06403 3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHIP-----------NVDFLIGYTDPHGDLLPINNDDNFLKALSSAN 70 (80)
T ss_pred eecccCCeEEEEEeccccCcCHHHHHHHHHHHhCCC-----------CCcEEEEEeCCCCCEecccCcHHHHHHHHcCC
Confidence 566666552222456666799999999999999986 2358999999999999775 556666666776
No 11
>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=96.74 E-value=0.0048 Score=43.51 Aligned_cols=55 Identities=22% Similarity=0.367 Sum_probs=43.9
Q ss_pred eEEEEcCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEecC
Q 032912 37 VKVSMDGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVGD 103 (130)
Q Consensus 37 vKV~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGD 103 (130)
+|++-.|.-.-=.+|. .-+|++|.+++.+||.... ...+++.|.|.|||..-+..
T Consensus 3 ~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~~~----------~q~ft~kw~DEEGDp~tiSS 57 (83)
T cd06404 3 VKAAYNGDIMITSIDP--SISLEELCNEVRDMCRFHN----------DQPFTLKWIDEEGDPCTISS 57 (83)
T ss_pred EEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCCCC----------CCcEEEEEECCCCCceeecC
Confidence 6888899854444555 6789999999999999862 34689999999999877653
No 12
>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=96.73 E-value=0.0059 Score=42.98 Aligned_cols=66 Identities=24% Similarity=0.294 Sum_probs=51.0
Q ss_pred eEEEEcCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEecC-cChhhHhhceee
Q 032912 37 VKVSMDGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVGD-VPWEMFMSSCKR 115 (130)
Q Consensus 37 vKV~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGD-vPW~~F~~svkr 115 (130)
-||+-+|. -|++....-=+|.+|.+.|+.+|.+.. . .+.|+|.|.|||..-+-| .=-++|.+-..+
T Consensus 3 fKv~~~g~--~RRf~~~~~pt~~~L~~kl~~Lf~lp~----------~-~~~vtYiDeD~D~ITlssd~eL~d~~~~~~~ 69 (82)
T cd06397 3 FKSSFLGD--TRRIVFPDIPTWEALASKLENLYNLPE----------I-KVGVTYIDNDNDEITLSSNKELQDFYRLSHR 69 (82)
T ss_pred EEEEeCCc--eEEEecCCCccHHHHHHHHHHHhCCCh----------h-HeEEEEEcCCCCEEEecchHHHHHHHHhccc
Confidence 37877776 788888888999999999999999972 1 278999999999986554 456666553333
No 13
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The 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, animals, and plants.
Probab=96.57 E-value=0.013 Score=41.39 Aligned_cols=58 Identities=19% Similarity=0.436 Sum_probs=42.8
Q ss_pred eeEEEEcC---ccccceeec--CCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEecC
Q 032912 36 YVKVSMDG---APYLRKIDL--KLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVGD 103 (130)
Q Consensus 36 ~vKV~meG---~~igRkvDL--~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGD 103 (130)
.||.+..| .+==|++-| ...-+|++|...+.++|... .+..+++.|.|.|||..-+..
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~l----------~~~~ftlky~DeeGDlvtIss 64 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPSL----------RGKNFQLFWKDEEGDLVAFSS 64 (87)
T ss_pred eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHcccc----------CCCcEEEEEECCCCCEEeecC
Confidence 57777766 222344444 66679999999999999654 135799999999999987754
No 14
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=95.12 E-value=0.089 Score=37.21 Aligned_cols=54 Identities=24% Similarity=0.406 Sum_probs=45.2
Q ss_pred eeEEEEcCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEecCc
Q 032912 36 YVKVSMDGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVGDV 104 (130)
Q Consensus 36 ~vKV~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGDv 104 (130)
-|||+-.|. -|-|-+..-=+|++|...+.++|++. . .++|-|.|. ||..-+++.
T Consensus 4 kVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~~~-~-----------~~~iKykDE-GD~iti~sq 57 (86)
T cd06408 4 RVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFGFK-R-----------RLKIKMKDD-GDMITMGDQ 57 (86)
T ss_pred EEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhCCC-C-----------ceEEEEEcC-CCCccccCH
Confidence 478888888 56777777778999999999999985 1 478999999 999888764
No 15
>cd06399 PB1_P40 The PB1 domain is essential part of the p40 adaptor protein which plays an important role in activating phagocyte NADPH oxidase during phagocytosis. 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. The PB1 domain of p40 represents a type I PB1 domain which interacts with the PB1 domain of oxidase activator p67 w
Probab=89.26 E-value=0.7 Score=33.19 Aligned_cols=38 Identities=24% Similarity=0.355 Sum_probs=31.7
Q ss_pred ecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEe
Q 032912 51 DLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLV 101 (130)
Q Consensus 51 DL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLv 101 (130)
||+..-+|.+|..-..+-|..+ +-.|-|+|.|||..-+
T Consensus 23 ~l~~~P~~kdLl~lmr~~f~~~-------------dIaLNYrD~EGDLIRl 60 (92)
T cd06399 23 DLSSTPLLKDLLELTRREFQRE-------------DIALNYRDAEGDLIRL 60 (92)
T ss_pred ccccCccHHHHHHHHHHHhchh-------------heeeeeecCCCCEEEE
Confidence 6888899999999999989875 2368999999998644
No 16
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role 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, animals, and plants. The p67 proteins contain
Probab=81.33 E-value=8.1 Score=26.99 Aligned_cols=66 Identities=18% Similarity=0.242 Sum_probs=50.3
Q ss_pred ceeEEEEcCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCC-CeEEecCcChhhHhhce
Q 032912 35 IYVKVSMDGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDG-DWMLVGDVPWEMFMSSC 113 (130)
Q Consensus 35 ~~vKV~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eG-D~mLvGDvPW~~F~~sv 113 (130)
--|||+-++. =.|-...=-+|.+|...|.+-+.+. ++ +-+|-|.|.+. +...++|.-++.-.+.|
T Consensus 3 ~vvKV~f~~t---IaIrvp~~~~y~~L~~ki~~kLkl~-~e----------~i~LsYkde~s~~~v~l~d~dle~aws~~ 68 (80)
T cd06406 3 YVVKVHFKYT---VAIQVARGLSYATLLQKISSKLELP-AE----------HITLSYKSEASGEDVILSDTNMEDVWSQA 68 (80)
T ss_pred eEEEEEEEEE---EEEEcCCCCCHHHHHHHHHHHhCCC-ch----------hcEEEeccCCCCCccCcChHHHHHHHHhh
Confidence 3589999872 3455666678999999999999986 32 35799998774 44445999999888888
Q ss_pred e
Q 032912 114 K 114 (130)
Q Consensus 114 k 114 (130)
+
T Consensus 69 ~ 69 (80)
T cd06406 69 K 69 (80)
T ss_pred c
Confidence 7
No 17
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving 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 Map2k5 protein contains a type I PB1 domain.
Probab=66.53 E-value=13 Score=26.52 Aligned_cols=49 Identities=18% Similarity=0.267 Sum_probs=36.4
Q ss_pred cCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEec
Q 032912 42 DGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVG 102 (130)
Q Consensus 42 eG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvG 102 (130)
+|.++-=+||....=++.++...+.+...-. .--..-|||.|||.+-|-
T Consensus 9 ~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~a------------T~tAFeYEDE~gDRITVR 57 (91)
T cd06395 9 NGGAVDWTVQSGPQLLFRDVLDVIGQVLPEA------------TTTAFEYEDEDGDRITVR 57 (91)
T ss_pred CCCcccccccCcccccHHHHHHHHHHhcccc------------cccceeeccccCCeeEec
Confidence 4556777888877788999998888776542 112478999999998874
No 18
>PF10411 DsbC_N: Disulfide bond isomerase protein N-terminus; InterPro: IPR018950 This is the N-terminal domain of the disulphide bond isomerase DsbC. The whole molecule is V-shaped, where each arm is a DsbC monomer of two domains linked by a hinge; and the N-termini of each monomer join to form the dimer interface at the base of the V, so are vital for dimerisation []. DsbC is required for disulphide bond formation and functions as a disulphide bond isomerase during oxidative protein-folding in bacterial periplasm. It also has chaperone activity []. ; PDB: 1EEJ_B 2IYJ_A 1TJD_A 1JZD_B 1JZO_A 1G0T_B 1T3B_A.
Probab=63.08 E-value=6.8 Score=24.94 Aligned_cols=17 Identities=29% Similarity=0.698 Sum_probs=14.7
Q ss_pred eeEEEcCCCCeEEecCc
Q 032912 88 EPTYEDKDGDWMLVGDV 104 (130)
Q Consensus 88 ~l~YeD~eGD~mLvGDv 104 (130)
.+.|.|.+|+.+++|+.
T Consensus 34 ~i~Y~~~dg~yli~G~l 50 (57)
T PF10411_consen 34 GILYVDEDGRYLIQGQL 50 (57)
T ss_dssp EEEEEETTSSEEEES-E
T ss_pred eEEEEcCCCCEEEEeEE
Confidence 59999999999999974
No 19
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=56.08 E-value=19 Score=30.92 Aligned_cols=76 Identities=24% Similarity=0.344 Sum_probs=55.5
Q ss_pred EEcCccccceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEc--CCCCeEEecCcChhhHh-----hc
Q 032912 40 SMDGAPYLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYED--KDGDWMLVGDVPWEMFM-----SS 112 (130)
Q Consensus 40 ~meG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD--~eGD~mLvGDvPW~~F~-----~s 112 (130)
.-+|.|.|| +..|++-+|||+.++.-|.+...+.. -.|--+ -|=+.||-|-.-.++|+ .-
T Consensus 60 LAHGSptg~---Ie~fsnv~ELY~kIAe~F~Is~~dIl----------fcTlNshKvDM~~llgGqigleDfiFAHvkGq 126 (334)
T KOG3938|consen 60 LAHGSPTGR---IEGFSNVRELYQKIAEAFDISPDDIL----------FCTLNSHKVDMKRLLGGQIGLEDFIFAHVKGQ 126 (334)
T ss_pred eccCCccce---ecccccHHHHHHHHHHHhcCCccceE----------EEecCCCcccHHHHhcCccChhhhhhhhhcCc
Confidence 458999998 56899999999999999998622110 011111 23446888988999885 35
Q ss_pred eeeeEEecCCcccCCC
Q 032912 113 CKRLRIMKGSEARGLT 128 (130)
Q Consensus 113 vkrl~I~~~se~~~l~ 128 (130)
.|-++|++..++-||.
T Consensus 127 ~kEv~v~KsedalGlT 142 (334)
T KOG3938|consen 127 AKEVEVVKSEDALGLT 142 (334)
T ss_pred ceeEEEEecccccceE
Confidence 6789999999998875
No 20
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=52.39 E-value=57 Score=23.15 Aligned_cols=26 Identities=19% Similarity=0.318 Sum_probs=21.6
Q ss_pred cceeecCCCCChHHHHHHHHhHhccc
Q 032912 47 LRKIDLKLYNGYPELLKALENMFKFT 72 (130)
Q Consensus 47 gRkvDL~~~~sY~eL~~~L~~MF~~~ 72 (130)
-|-|.+..-=+|.+|...|.++|++.
T Consensus 24 tr~i~V~r~~s~~el~~kl~~~~~~~ 49 (97)
T cd06410 24 TRIVSVDRSISFKELVSKLSELFGAG 49 (97)
T ss_pred eEEEEEcCCCCHHHHHHHHHHHhCCC
Confidence 45666666679999999999999987
No 21
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=50.89 E-value=57 Score=21.15 Aligned_cols=69 Identities=14% Similarity=0.135 Sum_probs=50.1
Q ss_pred ceeEEEEcCccc---cceeecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeE--EEcCCCCeEEecC-cChhh
Q 032912 35 IYVKVSMDGAPY---LRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPT--YEDKDGDWMLVGD-VPWEM 108 (130)
Q Consensus 35 ~~vKV~meG~~i---gRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~--YeD~eGD~mLvGD-vPW~~ 108 (130)
.++||+.....- -+.|=++....-.+++.++.+.|++. . +..+|.|. -........|-.| .|+..
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~-~--------~~~~y~L~~~~~~~~~er~L~~~E~pl~i 73 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLA-E--------DPSDYCLVEVEESGGEERPLDDDECPLQI 73 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTS-S--------SGGGEEEEEEECTTTEEEEETTTSBHHHH
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCC-C--------CCCCEEEEEEEcCCCEEEEcCCCCchHHH
Confidence 478999987753 68899999999999999999999993 2 24579994 4455555555433 37766
Q ss_pred Hhhc
Q 032912 109 FMSS 112 (130)
Q Consensus 109 F~~s 112 (130)
+..-
T Consensus 74 ~~~~ 77 (93)
T PF00788_consen 74 QLQW 77 (93)
T ss_dssp HHTT
T ss_pred HHhC
Confidence 6543
No 22
>PRK11430 putative CoA-transferase; Provisional
Probab=45.35 E-value=20 Score=30.78 Aligned_cols=67 Identities=12% Similarity=0.179 Sum_probs=36.2
Q ss_pred ccceeecCCCCChHHHHHHHHhHhcccccccccccCC---CCCceeeEEEcCCCCeEEec---CcChhhHhhceee
Q 032912 46 YLRKIDLKLYNGYPELLKALENMFKFTVGVYSEREGY---KGSEYEPTYEDKDGDWMLVG---DVPWEMFMSSCKR 115 (130)
Q Consensus 46 igRkvDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~---~~~~~~l~YeD~eGD~mLvG---DvPW~~F~~svkr 115 (130)
-|+.||++++++--.+.....-.+... |....+.+. ...-| =+|+=+|| |+.++ |.-|+.||..+.+
T Consensus 196 ~Gq~VdvSl~~~~~~~~~~~~~~~~~~-g~~~~~~g~~~~~~~p~-~~y~~~DG-~i~i~~~~~~~w~~l~~~lg~ 268 (381)
T PRK11430 196 RGAHVDIAMFDATLSFLEHGLMAYIAT-GKSPQRLGNRHPYMAPF-DVFDTQDK-PITICCGNDKLFSALCQALEL 268 (381)
T ss_pred CeeEEEeeHHHHHHHHHHHHHHHHHhC-CCCCCCCCCCCCCCCCC-CceEcCCC-cEEEEeCCHHHHHHHHHHhCC
Confidence 389999999876443332222122211 211111110 01122 36999999 77774 4579999987664
No 23
>PF06463 Mob_synth_C: Molybdenum Cofactor Synthesis C; InterPro: IPR010505 The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cis-dithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism [, ]. In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which converts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner []. MoCF is the active co-factor in eukaryotic and some prokaryotic molybdo-enzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdo-enzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF []. Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 (Q39054 from SWISSPROT) of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) []. This entry represents MoaA, which belongs to a family of enzymes involved in the synthesis of metallo-cofactors (IPR000385 from INTERPRO). Each subunit of the MoaA dimer is comprised of an N-terminal SAM domain (IPR007197 from INTERPRO) that contains the [4Fe-4S] cluster typical for this family of enzymes, as well as an additional [4Fe-4S] cluster in the C-terminal domain that is unique to MoaA proteins []. The unique Fe site of the C-terminal [4Fe-4S] cluster is thought to be involved in the binding and activation of 5'-GTP. Mutations in the human MoCF biosynthesis proteins MOCS1, MOCS2 or GEPH cause MoCF Deficiency type A (MOCOD), causing the loss of activity of MoCF-containing enzymes, resulting in neurological abnormalities and death [].; GO: 0051539 4 iron, 4 sulfur cluster binding, 0006777 Mo-molybdopterin cofactor biosynthetic process, 0019008 molybdopterin synthase complex; PDB: 2FB2_A 2FB3_A 1TV8_B 1TV7_A.
Probab=43.02 E-value=74 Score=23.21 Aligned_cols=66 Identities=20% Similarity=0.251 Sum_probs=31.0
Q ss_pred eecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEE--cCCCCeEEecCcChhhHhhceeeeEEecCC
Q 032912 50 IDLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYE--DKDGDWMLVGDVPWEMFMSSCKRLRIMKGS 122 (130)
Q Consensus 50 vDL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~Ye--D~eGD~mLvGDvPW~~F~~svkrl~I~~~s 122 (130)
.--..|-+++++.+.|++-|........ . .+-.-.|. +..|..=++.-+-= .||.+|.||||...-
T Consensus 17 ~~~~~~~~~~ei~~~l~~~~~~~~~~~~--~----~~pa~~y~~~g~~g~vG~I~~~s~-~FC~~CNRiRlTsdG 84 (128)
T PF06463_consen 17 WFEEEFVPAQEILERLEERYELLPSEKR--P----NGPARYYRIPGGKGRVGFISPVSN-PFCSSCNRIRLTSDG 84 (128)
T ss_dssp B-TTTB--HHHHHHHHHHHS-EEEE--S--S----T-SSEEEEETTT--EEEEE-TTTS---GGG--EEEE-TTS
T ss_pred chhhcCcCHHHHHHHHHHhCCccccccc--c----CCcceEEEECCCCcEEEEEeCCCC-CCCCcCCEEEEccCc
Confidence 3447788999999999999997422110 1 11123333 33333333333322 499999999998653
No 24
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=41.92 E-value=35 Score=29.53 Aligned_cols=78 Identities=24% Similarity=0.365 Sum_probs=54.4
Q ss_pred ceeEEEEcCcccccee--ecCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEec-CcChhhHhh
Q 032912 35 IYVKVSMDGAPYLRKI--DLKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVG-DVPWEMFMS 111 (130)
Q Consensus 35 ~~vKV~meG~~igRkv--DL~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvG-DvPW~~F~~ 111 (130)
.-||-+.+-+ =|.. +-..-.+|++++.-|++.-.+. +.++.|-|.|.-||.+-+- |+-+.--++
T Consensus 19 veVKSKFdaE--fRRfsl~r~~~~~f~~F~~Lv~~~H~i~-----------nvdvllgY~d~hgDLLPinNDDn~~ka~~ 85 (358)
T KOG3606|consen 19 VEVKSKFDAE--FRRFSLPRHSASSFDEFYSLVEHLHHIP-----------NVDVLLGYADTHGDLLPINNDDNLHKALS 85 (358)
T ss_pred EEeeccccch--hheecccccCcccHHHHHHHHHHHhcCC-----------CceEEEEEecCCCceecccCchhHHHHhh
Confidence 3455444433 3444 4455579999999999887776 3468899999999999764 566766677
Q ss_pred cee---eeEEecCCccc
Q 032912 112 SCK---RLRIMKGSEAR 125 (130)
Q Consensus 112 svk---rl~I~~~se~~ 125 (130)
+++ ||.|-+..|+.
T Consensus 86 sa~PlLR~~iQkr~ea~ 102 (358)
T KOG3606|consen 86 SARPLLRLLIQKREEAD 102 (358)
T ss_pred ccCchhhhhhhhhhhhh
Confidence 776 66677766653
No 25
>PF02013 CBM_10: Cellulose or protein binding domain; InterPro: IPR002883 This domain is found in two distinct sets of proteins with different functions. Those found in aerobic bacteria bind cellulose (or other carbohydrates); but in anaerobic fungi they are protein binding domains, referred to as dockerin domains or docking domains. They are believed to be responsible for the assembly of a multiprotein cellulase/hemicellulase complex, similar to the cellulosome found in certain anaerobic bacteria. The recycling of photosynthetically fixed carbon in plant cell walls is a key microbial process. Enzyme systems that attack the plant cell wall contain noncatalytic carbohydrate-binding modules that mediate attachment to this composite structure and play a pivotal role in maximizing the hydrolytic process. In anaerobes, the degradation is carried out by a high molecular weight, multifunctional complex termed the cellulosome. This consists of a number of independent enzyme components, each of which contains a conserved 40-residue dockerin domain, which functions to bind the enzyme to a cohesin domain within the scaffoldin protein [, ]. In anaerobic bacteria that degrade plant cell walls, exemplified by Clostridium thermocellum, the dockerin domains of the catalytic polypeptides can bind equally well to any cohesin from the same organism. More recently, anaerobic fungi, typified by Piromyces equi, have been suggested to also synthesise a cellulosome complex, although the dockerin sequences of the bacterial and fungal enzymes are completely different []. For example, the fungal enzymes contain one, two or three copies of the dockerin sequence in tandem within the catalytic polypeptide. In contrast, all the C. thermocellum cellulosome catalytic components contain a single dockerin domain. The anaerobic bacterial dockerins are homologous to EF hands (calcium-binding motifs) and require calcium for activity whereas the fungal dockerin does not require calcium. Finally, the interaction between cohesin and dockerin appears to be species specific in bacteria, there is almost no species specificity of binding within fungal species and no identified sites that distinguish different species. The structure of dockerin from P. equi contains two helical stretches and four short beta-strands which form an antiparallel sheet structure adjacent to an additional short twisted parallel strand. The N- and C-termini are adjacent to each other. Aerobic bacteria contain related regions, however these appear to function as cellulose/carbohydrate binding domains.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 2J4M_A 2J4N_A 1E8R_A 1QLD_A 1E8P_A 1E8Q_A.
Probab=38.64 E-value=8.4 Score=23.08 Aligned_cols=12 Identities=50% Similarity=1.021 Sum_probs=8.9
Q ss_pred eeEEEcCCCCeE
Q 032912 88 EPTYEDKDGDWM 99 (130)
Q Consensus 88 ~l~YeD~eGD~m 99 (130)
.+.|+|.+|+|=
T Consensus 16 ~v~y~d~~g~WG 27 (36)
T PF02013_consen 16 EVVYTDDDGGWG 27 (36)
T ss_dssp --SEEETTEEEE
T ss_pred ceEEcCCCCCEe
Confidence 689999999983
No 26
>PF04809 HupH_C: HupH hydrogenase expression protein, C-terminal conserved region; InterPro: IPR006894 This entry represents the C-terminal conserved domain found in bacterial hydrogenase expression proteins (HupH), which are necessary for hydrogenase synthesis. The precise function of HupH is unknown [].; PDB: 3SB1_A.
Probab=33.96 E-value=37 Score=24.96 Aligned_cols=71 Identities=30% Similarity=0.308 Sum_probs=36.1
Q ss_pred cceeecCCCCChHHHHHHHHhHhcc-cc-------cccccccCCCCCceeeEEEcCCC----CeEEecCcChh------h
Q 032912 47 LRKIDLKLYNGYPELLKALENMFKF-TV-------GVYSEREGYKGSEYEPTYEDKDG----DWMLVGDVPWE------M 108 (130)
Q Consensus 47 gRkvDL~~~~sY~eL~~~L~~MF~~-~~-------g~~~~~~~~~~~~~~l~YeD~eG----D~mLvGDvPW~------~ 108 (130)
.+.|||+..-==.+=...|.+..|- ++ |.+.-.+-.-..-|.+.|.|.+| |.+-||++|=- +
T Consensus 25 ~~~I~L~~lPLs~~D~~~L~~~LGeGeVsi~~~g~g~~ri~eT~~~gVWrV~~~n~~~~~i~d~iEV~~vP~~v~aa~eD 104 (120)
T PF04809_consen 25 PHVINLTLLPLSPADRALLDETLGEGEVSILSRGYGNCRIQETVFAGVWRVRYFNSDGRLILDTIEVGDVPEVVRAAPED 104 (120)
T ss_dssp -EEEEGGGS---HHHHHHHHHHH---SEEEEEE---EEEEEE-SSTTEEEEEEE-TTS-EEEEEEEESSS-GGGS--HHH
T ss_pred CeEEEecCCCCCHHHHHHHHHHcCCCcEEEEEcCCCCEEEEEecCCCEEEEEEECCCCCEeeeeEEEeCCcHHHhccHhh
Confidence 4678888765333335556666663 11 11100111124579999999996 66789999953 4
Q ss_pred HhhceeeeE
Q 032912 109 FMSSCKRLR 117 (130)
Q Consensus 109 F~~svkrl~ 117 (130)
|..++.||+
T Consensus 105 ~~ds~~rL~ 113 (120)
T PF04809_consen 105 LADSAARLR 113 (120)
T ss_dssp HHHHHHHH-
T ss_pred HHHHHHHHh
Confidence 555555543
No 27
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=33.38 E-value=23 Score=27.67 Aligned_cols=79 Identities=22% Similarity=0.312 Sum_probs=50.4
Q ss_pred EEEcCccccceeecCCCCChHHHHHHH---HhHhccc-ccccccccCCCCCceeeEEEcCCCCeEEecCcChh---hHhh
Q 032912 39 VSMDGAPYLRKIDLKLYNGYPELLKAL---ENMFKFT-VGVYSEREGYKGSEYEPTYEDKDGDWMLVGDVPWE---MFMS 111 (130)
Q Consensus 39 V~meG~~igRkvDL~~~~sY~eL~~~L---~~MF~~~-~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGDvPW~---~F~~ 111 (130)
+..-|-.+--+++|..|+|+++...+. .++|.++ .|.. . -.-+....||+++-|-++=. +++.
T Consensus 45 lkRAGlDY~~~~~l~~h~s~e~fl~~~~~~~rl~~~tt~~~~--------~--~~~~~f~~~d~llFG~Es~GLP~~i~~ 114 (155)
T COG0219 45 LKRAGLDYHEKASLTEHDSLEAFLEAEPIGGRLFALTTKGTT--------T--YTDVSFQKGDYLLFGPESRGLPEEILD 114 (155)
T ss_pred hhhcccchHhhcceEEeCCHHHHHhhccCCceEEEEEecccc--------c--cccccCCCCCEEEECCCCCCCCHHHHH
Confidence 334577888899999999999999998 5677764 2211 0 11144456999999976422 2333
Q ss_pred --ceeeeEEecCCcccCC
Q 032912 112 --SCKRLRIMKGSEARGL 127 (130)
Q Consensus 112 --svkrl~I~~~se~~~l 127 (130)
.-++|+|=-..++..|
T Consensus 115 ~~~~~~irIPm~~~~RSL 132 (155)
T COG0219 115 AAPDRCIRIPMRPGVRSL 132 (155)
T ss_pred hCccceEEeccCCCCccc
Confidence 2235777555554444
No 28
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=31.77 E-value=1.6e+02 Score=19.72 Aligned_cols=27 Identities=22% Similarity=0.116 Sum_probs=20.5
Q ss_pred cccceeecCCCCChHHHHHHHHhHhcccc
Q 032912 45 PYLRKIDLKLYNGYPELLKALENMFKFTV 73 (130)
Q Consensus 45 ~igRkvDL~~~~sY~eL~~~L~~MF~~~~ 73 (130)
..-|+++ ..-.-.+|...|+.+||+..
T Consensus 14 ~~ekr~~--~~~Tv~~lK~kl~~~~G~~~ 40 (84)
T cd01789 14 SFEKKYS--RGLTIAELKKKLELVVGTPA 40 (84)
T ss_pred eeeEecC--CCCcHHHHHHHHHHHHCCCc
Confidence 3445554 55689999999999999863
No 29
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=28.87 E-value=2.3e+02 Score=23.40 Aligned_cols=77 Identities=16% Similarity=0.185 Sum_probs=46.5
Q ss_pred EEEcCccccceee--cCCCCChHHHHHHHHhHhcccccccccccCCCCCceeeEEE--cCCCCeEEecCcChhhHhhcee
Q 032912 39 VSMDGAPYLRKID--LKLYNGYPELLKALENMFKFTVGVYSEREGYKGSEYEPTYE--DKDGDWMLVGDVPWEMFMSSCK 114 (130)
Q Consensus 39 V~meG~~igRkvD--L~~~~sY~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~Ye--D~eGD~mLvGDvPW~~F~~svk 114 (130)
.+.+-.|+|+.-+ -..+=+.+++...|++.+....-.. ..+ +..-.|+ |..|-.=++.-+-.. ||.+|.
T Consensus 187 ~~ie~mP~g~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~--~~~----~~~~~~~~~~~~~~ig~I~~~s~~-fC~~Cn 259 (329)
T PRK13361 187 AFIEEMPLGEIDERRRARHCSSDEVRAIIETRYPLTPSNK--RTG----GPARYYTMADSPIHIGFISPHSHN-FCHECN 259 (329)
T ss_pred EEEecccCCCccchhhccCcCHHHHHHHHHHhCCcccCCC--CCC----CCCeEEEECCCCeEEEEEcCCCcc-ccccCC
Confidence 3566778887322 3456688999999999886421110 011 1112343 444445455555554 999999
Q ss_pred eeEEecCC
Q 032912 115 RLRIMKGS 122 (130)
Q Consensus 115 rl~I~~~s 122 (130)
||||...-
T Consensus 260 r~rlt~~G 267 (329)
T PRK13361 260 RVRVTAEG 267 (329)
T ss_pred eEEEccCC
Confidence 99998753
No 30
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=26.80 E-value=35 Score=27.07 Aligned_cols=30 Identities=27% Similarity=0.463 Sum_probs=25.5
Q ss_pred CCCceeeEEEcCCCCeEEecCcChhhHhhceeee
Q 032912 83 KGSEYEPTYEDKDGDWMLVGDVPWEMFMSSCKRL 116 (130)
Q Consensus 83 ~~~~~~l~YeD~eGD~mLvGDvPW~~F~~svkrl 116 (130)
...++..-|.+. .+..|.||+++++.+++|
T Consensus 96 ~~~G~~ae~~~~----~i~T~a~~eev~~l~~~L 125 (190)
T PF09840_consen 96 KLLGYKAEYRED----VIKTDAPLEEVVELAERL 125 (190)
T ss_pred HhCCCeeEEeCC----eEEecCCHHHHHHHHHHH
Confidence 346888888876 788999999999999886
No 31
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=26.67 E-value=87 Score=23.63 Aligned_cols=38 Identities=24% Similarity=0.459 Sum_probs=30.3
Q ss_pred ceeEEEEcCc--cccceeecCCCCChHHHHHHHHhHhccc
Q 032912 35 IYVKVSMDGA--PYLRKIDLKLYNGYPELLKALENMFKFT 72 (130)
Q Consensus 35 ~~vKV~meG~--~igRkvDL~~~~sY~eL~~~L~~MF~~~ 72 (130)
--+||...|. +|=|.|.+..--+..+|-..|...|+..
T Consensus 5 y~lkV~L~~~~p~iwRri~Vp~~~tl~~Lh~~Iq~afgw~ 44 (179)
T PF07929_consen 5 YQLKVSLKGSKPPIWRRIEVPADITLADLHEVIQAAFGWD 44 (179)
T ss_dssp EEEEEEETT-SS-EEEEEEEETT-BHHHHHHHHHHHTT--
T ss_pred EEEEEEEcCCCCCeEEEEEECCCCCHHHHHHHHHHHhCcC
Confidence 3578888874 8999999999999999999999999964
No 32
>PF09676 TraV: Type IV conjugative transfer system lipoprotein (TraV); InterPro: IPR014118 This entry represents TraV, a component of a conjugative type IV secretion system. TraV is an outer membrane lipoprotein that is believed to interact with the secretin TraK [, , ]. This protein contains three conserved cysteines in the N-terminal half.
Probab=26.44 E-value=46 Score=23.49 Aligned_cols=20 Identities=35% Similarity=0.439 Sum_probs=16.7
Q ss_pred CceeeEEEcCCCCeEEecCc
Q 032912 85 SEYEPTYEDKDGDWMLVGDV 104 (130)
Q Consensus 85 ~~~~l~YeD~eGD~mLvGDv 104 (130)
.-|+.-|+|.+||+..-|.|
T Consensus 91 RiwiaP~~D~~g~l~~~~~V 110 (119)
T PF09676_consen 91 RIWIAPWEDADGDLHDPGYV 110 (119)
T ss_pred EEEEeeeECCCCCEeccceE
Confidence 46999999999999877654
No 33
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=26.34 E-value=1.5e+02 Score=19.72 Aligned_cols=25 Identities=16% Similarity=0.119 Sum_probs=18.4
Q ss_pred ccceeecCCCCChHHHHHHHHhHhccc
Q 032912 46 YLRKIDLKLYNGYPELLKALENMFKFT 72 (130)
Q Consensus 46 igRkvDL~~~~sY~eL~~~L~~MF~~~ 72 (130)
+-|+++. .-.-.+|...|+.+||+.
T Consensus 16 ~ekr~~~--~~Tv~eLK~kl~~~~Gi~ 40 (87)
T PF14560_consen 16 VEKRFPK--SITVSELKQKLEKLTGIP 40 (87)
T ss_dssp EEEEEET--TSBHHHHHHHHHHHHTS-
T ss_pred EEEEcCC--CCCHHHHHHHHHHHhCCC
Confidence 3355554 357889999999999986
No 34
>PF14688 DUF4461: Domain of unknown function (DUF4461)
Probab=25.78 E-value=45 Score=28.25 Aligned_cols=30 Identities=33% Similarity=0.637 Sum_probs=20.7
Q ss_pred CceeeEE-----EcCCCCeEE-ecCcC--hhhHhhcee
Q 032912 85 SEYEPTY-----EDKDGDWML-VGDVP--WEMFMSSCK 114 (130)
Q Consensus 85 ~~~~l~Y-----eD~eGD~mL-vGDvP--W~~F~~svk 114 (130)
.+.+|+| .|.+|+.|| +|||| |..|++.+.
T Consensus 80 ~G~tvvF~~~sGv~~~G~v~L~~~Dv~~~W~~~l~~l~ 117 (313)
T PF14688_consen 80 KGRTVVFGDFSGVSLDGHVMLGTGDVPHQWTSFLERLP 117 (313)
T ss_pred CCCEEEecCCCccCCCCCEEecCCCcHHHHHHHHHhCC
Confidence 3455655 467888887 67776 888877654
No 35
>smart00537 DCX Domain in the Doublecortin (DCX) gene product. Tandemly-repeated domain in doublin, the Doublecortin gene product. Proposed to bind tubulin. Doublecortin (DCX) is mutated in human X-linked neuronal migration defects.
Probab=24.71 E-value=1.4e+02 Score=20.42 Aligned_cols=33 Identities=12% Similarity=0.331 Sum_probs=27.3
Q ss_pred ceeEEEEcCccc--cceeecC--CCCChHHHHHHHHh
Q 032912 35 IYVKVSMDGAPY--LRKIDLK--LYNGYPELLKALEN 67 (130)
Q Consensus 35 ~~vKV~meG~~i--gRkvDL~--~~~sY~eL~~~L~~ 67 (130)
.-|.|+.+|.+. |+++=++ .+.+++.|...|.+
T Consensus 6 k~i~~~rNGD~~~~g~~~~v~~~~~~s~d~lL~~lt~ 42 (89)
T smart00537 6 KRIRFYRNGDRFFKGVRLVVNRKRFKSFEALLQDLTE 42 (89)
T ss_pred eEEEEEeCCCCCCCCEEEEEChhhcCCHHHHHHHHhh
Confidence 357899999996 6666665 69999999999988
No 36
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=24.33 E-value=1e+02 Score=18.85 Aligned_cols=35 Identities=14% Similarity=0.100 Sum_probs=20.9
Q ss_pred hHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEec
Q 032912 58 YPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVG 102 (130)
Q Consensus 58 Y~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvG 102 (130)
|+.|...|.+.|++.. ..-+++..+=..++|..-|
T Consensus 21 ~~~it~~l~~~~~~p~----------~~v~V~i~e~~~~~w~~gG 55 (62)
T PRK00745 21 VEEITRVTVETLGCPP----------ESVDIIITDVKRENWATGG 55 (62)
T ss_pred HHHHHHHHHHHcCCCh----------hHEEEEEEEcChHHeeECC
Confidence 5566666777777652 2235566666666776644
No 37
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=24.11 E-value=1.4e+02 Score=18.29 Aligned_cols=39 Identities=10% Similarity=0.023 Sum_probs=21.2
Q ss_pred hHHHHHHHHhHhcccccccccccCCCCCceeeEEEcCCCCeEEecCcChh
Q 032912 58 YPELLKALENMFKFTVGVYSEREGYKGSEYEPTYEDKDGDWMLVGDVPWE 107 (130)
Q Consensus 58 Y~eL~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mLvGDvPW~ 107 (130)
+.+|.+.|.+.|+... ..-++++.+=...||.. |..+..
T Consensus 21 ~~~it~~l~~~lg~~~----------~~v~V~i~e~~~~~w~~-gG~~~~ 59 (63)
T TIGR00013 21 IEGVTEAMAETLGANL----------ESIVVIIDEMPKNNYGI-GGELVS 59 (63)
T ss_pred HHHHHHHHHHHhCCCc----------ccEEEEEEEcCHHHeeE-CCEEhh
Confidence 4556666666666641 23355555555556655 555443
No 38
>PF13665 DUF4150: Domain of unknown function (DUF4150)
Probab=23.97 E-value=41 Score=24.39 Aligned_cols=23 Identities=30% Similarity=0.426 Sum_probs=20.3
Q ss_pred eeEEEEcCccccceeecCCCCCh
Q 032912 36 YVKVSMDGAPYLRKIDLKLYNGY 58 (130)
Q Consensus 36 ~vKV~meG~~igRkvDL~~~~sY 58 (130)
-.+|+.||.++.|--|+...|++
T Consensus 83 S~~V~ieG~p~~R~~d~~~~N~~ 105 (110)
T PF13665_consen 83 SFTVKIEGKPATRLTDLTWMNNK 105 (110)
T ss_pred CCeEEECCEEEEEcCCCccccCC
Confidence 35899999999999999988864
No 39
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=23.91 E-value=1.3e+02 Score=18.38 Aligned_cols=15 Identities=7% Similarity=-0.028 Sum_probs=11.1
Q ss_pred hHHHHHHHHhHhccc
Q 032912 58 YPELLKALENMFKFT 72 (130)
Q Consensus 58 Y~eL~~~L~~MF~~~ 72 (130)
|..|..+|.+.|++.
T Consensus 21 ~~~it~~l~~~~~~p 35 (61)
T PRK02220 21 VKDVTAAVSKNTGAP 35 (61)
T ss_pred HHHHHHHHHHHhCcC
Confidence 567777777778775
No 40
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=22.73 E-value=11 Score=21.46 Aligned_cols=17 Identities=24% Similarity=0.522 Sum_probs=10.9
Q ss_pred ecCcChhhHhhceeeeE
Q 032912 101 VGDVPWEMFMSSCKRLR 117 (130)
Q Consensus 101 vGDvPW~~F~~svkrl~ 117 (130)
-|..||++|-+-.|.|+
T Consensus 4 s~~d~f~eFY~rlk~Ik 20 (28)
T PF12108_consen 4 SGGDPFSEFYERLKEIK 20 (28)
T ss_dssp -S--HHHHHHHHHHHHH
T ss_pred CCCChHHHHHHHHHHHH
Confidence 47899999988776653
No 41
>PF07521 RMMBL: RNA-metabolising metallo-beta-lactamase; InterPro: IPR011108 The metallo-beta-lactamase fold contains five sequence motifs. The first four motifs are found in IPR001279 from INTERPRO and are common to all metallo-beta-lactamases. The fifth motif appears to be specific to function. This entry represents the fifth motif from metallo-beta-lactamases involved in RNA metabolism [].; PDB: 3ZQ4_D 2I7T_A 2I7V_A 2YCB_B 3BK1_A 3T3N_A 3BK2_A 3T3O_A 3AF5_A 3AF6_A ....
Probab=22.72 E-value=82 Score=18.74 Aligned_cols=20 Identities=30% Similarity=0.394 Sum_probs=17.3
Q ss_pred eeecCCCCChHHHHHHHHhH
Q 032912 49 KIDLKLYNGYPELLKALENM 68 (130)
Q Consensus 49 kvDL~~~~sY~eL~~~L~~M 68 (130)
.+|+|.|.++++|..-++.+
T Consensus 11 ~~~fSgHad~~~L~~~i~~~ 30 (43)
T PF07521_consen 11 QIDFSGHADREELLEFIEQL 30 (43)
T ss_dssp ESGCSSS-BHHHHHHHHHHH
T ss_pred EEeecCCCCHHHHHHHHHhc
Confidence 67899999999999998888
No 42
>PF02777 Sod_Fe_C: Iron/manganese superoxide dismutases, C-terminal domain Note: SCOP classifies the two domains separately.; InterPro: IPR019832 Superoxide dismutases (SODs) (1.15.1.1 from EC) catalyse the conversion of superoxide radicals to molecular oxygen. Their function is to destroy the radicals that are normally produced within cells and are toxic to biological systems. Three evolutionarily distinct families of SODs are known, of which the Mn/Fe-binding family is one [, , ]. This family includes both single metal-binding SODs and cambialistic SOD, which can bind either Mn or Fe. Fe/MnSODs are ubiquitous enzymes that are responsible for the majority of SOD activity in prokaryotes, fungi, blue-green algae and mitochondria. Fe/MnSODs are found as homodimers or homotetramers. The structure of Fe/MnSODs can be divided into two domains, an alpha N-terminal domain and an alpha/beta C-terminal domain, connected by a loop. The structure of the N-terminal domain consists of a two helices in an antiparallel hairpin, with a left-handed twist []. The structure of the C-terminal domain is of the alpha/beta type, and consists of a three-stranded antiparallel beta-sheet in the order 213, along with four helices in the arrangement alpha/beta(2)/alpha/beta/alpha(2) []. This entry represents the C-terminal domain of Manganese/iron superoxide dismutase. ; GO: 0004784 superoxide dismutase activity, 0046872 metal ion binding, 0006801 superoxide metabolic process, 0055114 oxidation-reduction process; PDB: 1KKC_Y 2GOJ_B 1UES_C 1UER_C 1QNN_A 1MY6_A 1MA1_F 1P7G_Q 3EVK_D 2GPC_A ....
Probab=22.26 E-value=1.8e+02 Score=20.16 Aligned_cols=16 Identities=19% Similarity=0.090 Sum_probs=10.9
Q ss_pred CCceeeEEEcCCCCeE
Q 032912 84 GSEYEPTYEDKDGDWM 99 (130)
Q Consensus 84 ~~~~~l~YeD~eGD~m 99 (130)
+++|+....|.+...|
T Consensus 34 GsGW~wLv~d~~~~~L 49 (106)
T PF02777_consen 34 GSGWVWLVYDPSDGKL 49 (106)
T ss_dssp SSEEEEEEEETTTTEE
T ss_pred CCCeeeeeecccccee
Confidence 6789988888444333
No 43
>PF03625 DUF302: Domain of unknown function DUF302 ; InterPro: IPR005180 This domain is found in an undescribed set of proteins. It normally occurs uniquely within a sequence, but is found as a tandem repeat (Q9X8B8 from SWISSPROT). It has an interesting phylogenetic distribution with the majority of examples in bacteria and archaea, but it is also found in Drosophila melanogaster (e.g. Q9VA18 from SWISSPROT). The hypothetical protein TT1751 from Thermus thermophilus has a beta-alpha-beta(4)-alpha structural fold [].; PDB: 1Q9U_A 1J3M_B.
Probab=21.80 E-value=44 Score=21.06 Aligned_cols=17 Identities=29% Similarity=0.262 Sum_probs=12.5
Q ss_pred ceeeEEEcCCCCeEEec
Q 032912 86 EYEPTYEDKDGDWMLVG 102 (130)
Q Consensus 86 ~~~l~YeD~eGD~mLvG 102 (130)
--+++|||++|...+.=
T Consensus 46 crv~vye~~~G~~~v~~ 62 (65)
T PF03625_consen 46 CRVLVYEDEDGKVWVSY 62 (65)
T ss_dssp EEEEEEE-ETTEEEEEE
T ss_pred eEEEEEEecCCeEEEEE
Confidence 45899999999877653
No 44
>cd05141 Barstar_evA4336-like Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=21.22 E-value=1.2e+02 Score=20.26 Aligned_cols=25 Identities=28% Similarity=0.320 Sum_probs=22.6
Q ss_pred ceeecCCCCChHHHHHHHHhHhccc
Q 032912 48 RKIDLKLYNGYPELLKALENMFKFT 72 (130)
Q Consensus 48 RkvDL~~~~sY~eL~~~L~~MF~~~ 72 (130)
+.||.+.-.+.++|..+|.+-|++.
T Consensus 1 ~~idg~~i~~~~~~~~~l~~~l~fP 25 (81)
T cd05141 1 IVLDLSGIADKAALLDALAAALDFP 25 (81)
T ss_pred CEEecccCCCHHHHHHHHHHHcCCC
Confidence 4689999999999999999999874
No 45
>COG3286 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.88 E-value=49 Score=26.95 Aligned_cols=30 Identities=20% Similarity=0.375 Sum_probs=25.0
Q ss_pred CCCceeeEEEcCCCCeEEecCcChhhHhhceeee
Q 032912 83 KGSEYEPTYEDKDGDWMLVGDVPWEMFMSSCKRL 116 (130)
Q Consensus 83 ~~~~~~l~YeD~eGD~mLvGDvPW~~F~~svkrl 116 (130)
..-+|.+-|.+.+ +=-+.||++|++.|++|
T Consensus 99 k~~GyrVevr~~~----l~T~ap~~ev~E~vreL 128 (204)
T COG3286 99 KLLGYRVEVRGGE----LKTNAPWSEVVELVREL 128 (204)
T ss_pred HhCCceEEeeCce----eecCCCHHHHHHHHHHH
Confidence 3568999988665 88899999999998876
No 46
>PF08340 DUF1732: Domain of unknown function (DUF1732); InterPro: IPR013551 This domain of unknown function is found at the C terminus of bacterial proteins, many of which are hypothetical and include proteins of the YicC family.
Probab=20.79 E-value=39 Score=23.96 Aligned_cols=12 Identities=42% Similarity=0.742 Sum_probs=9.6
Q ss_pred cCccccceeecC
Q 032912 42 DGAPYLRKIDLK 53 (130)
Q Consensus 42 eG~~igRkvDL~ 53 (130)
+|.|+|||+|--
T Consensus 34 ~~~~vGrkLdFl 45 (87)
T PF08340_consen 34 EGEPVGRKLDFL 45 (87)
T ss_pred CCCCCCCCCccc
Confidence 456999999974
No 47
>PF15306 LIN37: LIN37
Probab=20.77 E-value=49 Score=24.81 Aligned_cols=23 Identities=22% Similarity=0.388 Sum_probs=18.4
Q ss_pred ccceeecCCCCChHHHHHHHHhHh
Q 032912 46 YLRKIDLKLYNGYPELLKALENMF 69 (130)
Q Consensus 46 igRkvDL~~~~sY~eL~~~L~~MF 69 (130)
.+|+|||+.|+.=..||. |.+--
T Consensus 21 fdRsvdLa~f~~~tpLY~-lCRaW 43 (148)
T PF15306_consen 21 FDRSVDLAQFSENTPLYP-LCRAW 43 (148)
T ss_pred eCceeeecccCCCCcHHH-HHHHH
Confidence 689999999998788887 54433
No 48
>PF12426 DUF3674: RNA dependent RNA polymerase; InterPro: IPR024378 This domain is found in the RNA-directed RNA polymerase. It is located towards the N terminus and is approximately 40 amino acids in length. There is a conserved MFNLKF sequence motif. There are two completely conserved residues (E and P) that may be functionally important.
Probab=20.06 E-value=62 Score=20.06 Aligned_cols=11 Identities=45% Similarity=0.573 Sum_probs=9.2
Q ss_pred HHHHHHhHhcc
Q 032912 61 LLKALENMFKF 71 (130)
Q Consensus 61 L~~~L~~MF~~ 71 (130)
=..+||.||..
T Consensus 6 ER~aLEAMFNL 16 (41)
T PF12426_consen 6 ERSALEAMFNL 16 (41)
T ss_pred HHHHHHHHhce
Confidence 36799999996
Done!