Query 026823
Match_columns 232
No_of_seqs 205 out of 588
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 13:13:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026823.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026823hhsearch_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 9E-70 1.9E-74 471.9 0.4 203 8-224 1-215 (215)
2 PF00564 PB1: PB1 domain; Int 97.6 0.00016 3.6E-09 53.0 5.4 68 116-208 3-71 (84)
3 smart00666 PB1 PB1 domain. Pho 97.2 0.0016 3.5E-08 47.7 7.2 65 117-207 4-69 (81)
4 cd06398 PB1_Joka2 The PB1 doma 97.2 0.0013 2.8E-08 51.1 6.7 68 116-208 2-72 (91)
5 cd06407 PB1_NLP A PB1 domain i 97.0 0.0025 5.5E-08 48.5 6.7 54 117-195 3-56 (82)
6 cd05992 PB1 The PB1 domain is 97.0 0.0034 7.4E-08 45.7 7.1 66 116-207 2-69 (81)
7 cd06396 PB1_NBR1 The PB1 domai 96.7 0.0055 1.2E-07 47.0 6.4 53 117-195 3-55 (81)
8 cd06403 PB1_Par6 The PB1 domai 96.5 0.01 2.2E-07 45.6 6.5 72 117-212 3-76 (80)
9 cd06401 PB1_TFG The PB1 domain 96.3 0.021 4.6E-07 43.9 7.1 73 117-212 3-79 (81)
10 cd06409 PB1_MUG70 The MUG70 pr 95.8 0.019 4.2E-07 44.5 5.0 51 124-195 7-59 (86)
11 cd06402 PB1_p62 The PB1 domain 95.7 0.046 1E-06 42.4 6.7 58 116-196 2-64 (87)
12 cd06404 PB1_aPKC PB1 domain is 95.5 0.043 9.4E-07 42.4 5.8 55 117-196 3-57 (83)
13 cd06397 PB1_UP1 Uncharacterize 94.8 0.1 2.2E-06 40.3 6.0 66 117-208 3-69 (82)
14 cd06408 PB1_NoxR The PB1 domai 92.3 0.51 1.1E-05 36.7 6.1 65 115-207 3-68 (86)
15 cd06399 PB1_P40 The PB1 domain 70.8 6.6 0.00014 31.0 3.8 37 130-192 22-58 (92)
16 cd06395 PB1_Map2k5 PB1 domain 52.7 26 0.00056 27.4 4.1 49 122-195 9-57 (91)
17 PF10411 DsbC_N: Disulfide bon 51.4 11 0.00024 26.4 1.8 17 181-197 34-50 (57)
18 PF09840 DUF2067: Uncharacteri 41.6 12 0.00025 32.9 0.8 38 169-210 89-126 (190)
19 COG0219 CspR Predicted rRNA me 40.6 14 0.00029 31.8 1.0 72 122-215 48-127 (155)
20 PF11576 DUF3236: Protein of u 38.4 12 0.00026 32.0 0.4 12 13-24 98-109 (154)
21 PF12426 DUF3674: RNA dependen 37.2 19 0.00042 24.5 1.1 15 141-155 6-21 (41)
22 cd06406 PB1_P67 A PB1 domain i 29.5 2E+02 0.0044 22.1 5.8 66 115-207 3-69 (80)
23 COG3286 Uncharacterized protei 27.2 28 0.0006 31.1 0.8 39 168-210 91-129 (204)
24 PRK13361 molybdenum cofactor b 26.9 1.7E+02 0.0038 26.8 6.0 76 120-214 188-266 (329)
25 PF09676 TraV: Type IV conjuga 24.8 45 0.00097 26.1 1.5 19 179-197 92-110 (119)
26 cd00771 ThrRS_core Threonyl-tR 24.2 24 0.00052 32.1 -0.2 54 114-190 209-262 (298)
27 PF06463 Mob_synth_C: Molybden 22.8 1.6E+02 0.0034 23.8 4.3 68 130-215 17-84 (128)
28 KOG3606 Cell polarity protein 21.8 98 0.0021 29.4 3.3 79 114-218 18-102 (358)
29 PF03589 Antiterm: Antitermina 21.7 39 0.00085 26.4 0.6 29 7-38 17-45 (95)
30 PF02013 CBM_10: Cellulose or 21.6 28 0.00061 22.9 -0.2 12 181-192 16-27 (36)
31 PF07929 PRiA4_ORF3: Plasmid p 21.1 1.2E+02 0.0025 25.4 3.4 36 115-150 5-42 (179)
32 PF14688 DUF4461: Domain of un 21.1 59 0.0013 30.5 1.7 23 185-207 92-117 (313)
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=9e-70 Score=471.91 Aligned_cols=203 Identities=53% Similarity=0.891 Sum_probs=6.0
Q ss_pred CCccccccccCCCCCCCC--------cCCcCCcCCCCchhhhhhccCCCCccc--chhhcccccCCCCCC--CCCCCCCC
Q 026823 8 MGFEETELRLGLPGNRVL--------SEGEGARKRGFSETVDLKLNLSSKDTS--EKVKSFQKEKNPLPR--ATDPPAKP 75 (232)
Q Consensus 8 ln~~~TELrLGLPG~~~~--------~~~~~~~KR~fse~~d~~~~~~~~~~~--~~~~~~~~~~~~~~~--~~~~~~~p 75 (232)
||||+|||||||||+.++ .....++||+|+++++........... ........+....+. .......|
T Consensus 1 ln~~~TELrLGLPG~~~~~~~~~~~~~~~~~~~kR~F~~aid~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p 80 (215)
T PF02309_consen 1 LNLKATELRLGLPGSESPDASSSSSSKKSSSGNKRGFSEAIDSSSSNSQSSSSSSSDSSSSSSSSSTSSSSSDSSSSSPP 80 (215)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCchhhhhcccCCCCCCCCcccccccccccCcccccchhhhhhcccccccccccccccCcccccccccccccccccCCCC
Confidence 799999999999998642 234678899999998875411100000 000000011100000 01122335
Q ss_pred CCCCCCCCCCCcchhhhcccccccCCCCcccccCCCCCcceeEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCC
Q 026823 76 PAKTQVVGWPPVRSFRKNMLGVVQKSSGEESDMAGGNNAAFVKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIG 155 (232)
Q Consensus 76 ~~k~qvVGWPPVrs~Rkn~~~~~~~~~~~~~~~~~~~~~~~VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~ 155 (232)
.+++|+|||||||+||+|.+...+ ....++||||+|||+||||||||++|+||++|+.+|++||.+|+|+
T Consensus 81 ~~~~~~vgwpp~~s~r~n~~~~~~----------~~~~~~~vKV~mdG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~ 150 (215)
T PF02309_consen 81 ASKAQVVGWPPVRSFRKNSLSEKQ----------SSSSRSYVKVNMDGVPIGRKVDLSAYSSYEELSSALEKMFSCFSIE 150 (215)
T ss_dssp -----BTTBS----S-----------------------------------------------------------------
T ss_pred cccccccCCCcccccccccccccc----------cccCCceeEEEecCcccceecCHHHhhCHHHHHHHHHHhcCCCCcc
Confidence 578999999999999999887221 1223799999999999999999999999999999999999988888
Q ss_pred CcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEccCCChhhhhhcceeeEEecCccccCcChhh
Q 026823 156 NCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVGDVPWGMFVESCKRLRIVKGTEAIGLAPRA 224 (232)
Q Consensus 156 ~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVGDvPW~mFv~svkRLrImk~sea~gl~~~~ 224 (232)
+|++++ .++..+.+++++++|+|||||+||||||||||||+|||++|||||||+.+|++||+||+
T Consensus 151 ~~~~~~----~~~~~~~~~~~~~~~~l~Y~D~egd~mlvGD~PW~~F~~~vkRl~I~~~~e~~~~~~r~ 215 (215)
T PF02309_consen 151 QCGSHG----LNESGLLDLLNGSEYVLVYEDKEGDWMLVGDVPWEEFVKSVKRLRIMKSSEAKGLAPRA 215 (215)
T ss_dssp ---------------------------------------------------------------------
T ss_pred cccccc----ccchhhccccCCcceeEEEECCCCCEEEecCCCHHHHHHHhhccEEecHHHhcccCCCC
Confidence 888754 56677788888899999999999999999999999999999999999999999999985
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=97.57 E-value=0.00016 Score=53.03 Aligned_cols=68 Identities=25% Similarity=0.388 Sum_probs=55.2
Q ss_pred eeEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEcc
Q 026823 116 FVKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 116 ~VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVG 195 (232)
-|||+..|. +=|.+.+..--+|.+|...++..|... ...+.+.|.|.||||..+-
T Consensus 3 ~vK~~~~~~-~~~~~~~~~~~s~~~L~~~i~~~~~~~------------------------~~~~~l~Y~D~dgD~V~i~ 57 (84)
T PF00564_consen 3 RVKVRYGGD-IRRIISLPSDVSFDDLRSKIREKFGLL------------------------DEDFQLKYKDEDGDLVTIS 57 (84)
T ss_dssp EEEEEETTE-EEEEEEECSTSHHHHHHHHHHHHHTTS------------------------TSSEEEEEEETTSSEEEES
T ss_pred EEEEEECCe-eEEEEEcCCCCCHHHHHHHHHHHhCCC------------------------CccEEEEeeCCCCCEEEeC
Confidence 489999997 334588888889999999999999861 2468999999999999887
Q ss_pred C-CChhhhhhccee
Q 026823 196 D-VPWGMFVESCKR 208 (232)
Q Consensus 196 D-vPW~mFv~svkR 208 (232)
+ .=|++.+..+++
T Consensus 58 sd~Dl~~a~~~~~~ 71 (84)
T PF00564_consen 58 SDEDLQEAIEQAKE 71 (84)
T ss_dssp SHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHh
Confidence 5 568888887753
No 3
>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=97.23 E-value=0.0016 Score=47.74 Aligned_cols=65 Identities=22% Similarity=0.346 Sum_probs=51.8
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEccC
Q 026823 117 VKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVGD 196 (232)
Q Consensus 117 VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVGD 196 (232)
|||.-.| --|.+-+..--+|.+|...+.+.|... ...+.|.|+|.||||..+.+
T Consensus 4 vK~~~~~--~~~~~~~~~~~s~~dL~~~i~~~~~~~------------------------~~~~~l~Y~Dedgd~v~l~s 57 (81)
T smart00666 4 VKLRYGG--ETRRLSVPRDISFEDLRSKVAKRFGLD------------------------NQSFTLKYQDEDGDLVSLTS 57 (81)
T ss_pred EEEEECC--EEEEEEECCCCCHHHHHHHHHHHhCCC------------------------CCCeEEEEECCCCCEEEecC
Confidence 6888755 367777888899999999999999851 23589999999999987655
Q ss_pred -CChhhhhhcce
Q 026823 197 -VPWGMFVESCK 207 (232)
Q Consensus 197 -vPW~mFv~svk 207 (232)
.=|.+.++.++
T Consensus 58 d~Dl~~a~~~~~ 69 (81)
T smart00666 58 DEDLEEAIEEYD 69 (81)
T ss_pred HHHHHHHHHHHH
Confidence 57777777665
No 4
>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=97.20 E-value=0.0013 Score=51.12 Aligned_cols=68 Identities=22% Similarity=0.272 Sum_probs=51.9
Q ss_pred eeEEEecCcccceeeecC---CCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeE
Q 026823 116 FVKVSMDGAPYLRKVDLR---MYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWM 192 (232)
Q Consensus 116 ~VKV~MdG~pigRKVDL~---~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwM 192 (232)
-|||.-+|.-+=-++++. .--+|++|...+.+.|.. . ...+|+|.|.|.||||.
T Consensus 2 ~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l---~--------------------~~~~~~l~Y~Dedgd~V 58 (91)
T cd06398 2 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSL---S--------------------PDADLSLTYTDEDGDVV 58 (91)
T ss_pred EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCC---C--------------------CCCcEEEEEECCCCCEE
Confidence 489999998555555554 467999999999999986 1 13579999999999999
Q ss_pred EccCCChhhhhhccee
Q 026823 193 LVGDVPWGMFVESCKR 208 (232)
Q Consensus 193 LVGDvPW~mFv~svkR 208 (232)
.+-.. +.|...+.+
T Consensus 59 ~l~~D--~DL~~a~~~ 72 (91)
T cd06398 59 TLVDD--NDLTDAIQY 72 (91)
T ss_pred EEccH--HHHHHHHHH
Confidence 88655 555555544
No 5
>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=97.03 E-value=0.0025 Score=48.52 Aligned_cols=54 Identities=22% Similarity=0.360 Sum_probs=43.3
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEcc
Q 026823 117 VKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 117 VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVG 195 (232)
|||...|. .+.+-|..--+|++|...+.++|.. . +.+.|.|-|.|.||||.++-
T Consensus 3 vK~~~~~d--~~r~~l~~~~~~~~L~~~i~~r~~~---~--------------------~~~~f~LkY~Ddegd~v~lt 56 (82)
T cd06407 3 VKATYGEE--KIRFRLPPSWGFTELKQEIAKRFKL---D--------------------DMSAFDLKYLDDDEEWVLLT 56 (82)
T ss_pred EEEEeCCe--EEEEEcCCCCCHHHHHHHHHHHhCC---C--------------------CCCeeEEEEECCCCCeEEee
Confidence 89999887 4455555566999999999999985 1 13579999999999998764
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=97.02 E-value=0.0034 Score=45.67 Aligned_cols=66 Identities=21% Similarity=0.347 Sum_probs=51.7
Q ss_pred eeEEEecCcccceeeecC-CCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEc
Q 026823 116 FVKVSMDGAPYLRKVDLR-MYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLV 194 (232)
Q Consensus 116 ~VKV~MdG~pigRKVDL~-~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLV 194 (232)
-|||+-.|. -|.+=+. .--+|++|...|.+.|... ...+.+.|.|.||||..+
T Consensus 2 ~vK~~~~~~--~~~~~~~~~~~s~~~L~~~i~~~~~~~------------------------~~~~~l~y~D~e~d~v~l 55 (81)
T cd05992 2 RVKVKYGGE--IRRFVVVSRSISFEDLRSKIAEKFGLD------------------------AVSFKLKYPDEDGDLVTI 55 (81)
T ss_pred cEEEEecCC--CEEEEEecCCCCHHHHHHHHHHHhCCC------------------------CCcEEEEeeCCCCCEEEe
Confidence 378888765 3444444 8889999999999999861 135799999999999988
Q ss_pred cC-CChhhhhhcce
Q 026823 195 GD-VPWGMFVESCK 207 (232)
Q Consensus 195 GD-vPW~mFv~svk 207 (232)
.+ .=|++.++.++
T Consensus 56 ~sd~Dl~~a~~~~~ 69 (81)
T cd05992 56 SSDEDLEEAIEEAR 69 (81)
T ss_pred CCHHHHHHHHHHHh
Confidence 87 67777777765
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=96.73 E-value=0.0055 Score=47.04 Aligned_cols=53 Identities=21% Similarity=0.218 Sum_probs=46.2
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEcc
Q 026823 117 VKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 117 VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVG 195 (232)
|||.-.|.-+--+++-+..-+|++|...+.++|+. + .|.|.|-|.||||.++-
T Consensus 3 vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l------------------------~--~f~lKYlDde~e~v~ls 55 (81)
T cd06396 3 LKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGL------------------------N--DIQIKYVDEENEEVSVN 55 (81)
T ss_pred EEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCC------------------------C--cceeEEEcCCCCEEEEE
Confidence 79999999777788887788999999999999986 1 46899999999998863
No 8
>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=96.52 E-value=0.01 Score=45.60 Aligned_cols=72 Identities=24% Similarity=0.346 Sum_probs=52.4
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEcc-
Q 026823 117 VKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVG- 195 (232)
Q Consensus 117 VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVG- 195 (232)
||..-|..=-=-.+|.....+|+++..-|+.||.+ ....|+|-|.|.+||.+-+-
T Consensus 3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l------------------------~~~~f~i~Y~D~~gDLLPInN 58 (80)
T cd06403 3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHI------------------------PNVDFLIGYTDPHGDLLPINN 58 (80)
T ss_pred eecccCCeEEEEEeccccCcCHHHHHHHHHHHhCC------------------------CCCcEEEEEeCCCCCEecccC
Confidence 56666665222245556679999999999999986 13478999999999999775
Q ss_pred CCChhhhhhccee-eEEe
Q 026823 196 DVPWGMFVESCKR-LRIV 212 (232)
Q Consensus 196 DvPW~mFv~svkR-LrIm 212 (232)
|+-+..=++++++ |||.
T Consensus 59 DdNf~kAlssa~plLRl~ 76 (80)
T cd06403 59 DDNFLKALSSANPLLRIF 76 (80)
T ss_pred cHHHHHHHHcCCCceEEE
Confidence 4566666677775 5554
No 9
>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=96.28 E-value=0.021 Score=43.90 Aligned_cols=73 Identities=21% Similarity=0.419 Sum_probs=49.5
Q ss_pred eEEEecCcccceeeecCCC-CChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEcc
Q 026823 117 VKVSMDGAPYLRKVDLRMY-NTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 117 VKV~MdG~pigRKVDL~~~-~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVG 195 (232)
+|+.-+|. | |.+=+..- -+|.+|...+++.|..- .. ....+.+.|.|.|||+.-+-
T Consensus 3 iK~~~g~D-i-R~~~~~~~~~t~~~L~~~v~~~F~~~----~~-----------------~~~~flIKYkD~dGDlVTIt 59 (81)
T cd06401 3 LKAQLGDD-I-RRIPIHNEDITYDELLLMMQRVFRGK----LG-----------------SSDDVLIKYKDEDGDLITIF 59 (81)
T ss_pred EEEEeCCe-E-EEEeccCccccHHHHHHHHHHHhccc----cC-----------------CcccEEEEEECCCCCEEEec
Confidence 67766655 4 44444432 39999999999999851 11 13478999999999999998
Q ss_pred CC---ChhhhhhcceeeEEe
Q 026823 196 DV---PWGMFVESCKRLRIV 212 (232)
Q Consensus 196 Dv---PW~mFv~svkRLrIm 212 (232)
+- -|..-....+||+|.
T Consensus 60 s~~dL~~A~~~~~~~~l~~~ 79 (81)
T cd06401 60 DSSDLSFAIQCSRILKLTLF 79 (81)
T ss_pred cHHHHHHHHhcCcceEEEEe
Confidence 74 444444445555553
No 10
>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=95.82 E-value=0.019 Score=44.46 Aligned_cols=51 Identities=20% Similarity=0.311 Sum_probs=38.2
Q ss_pred cccceeeecC--CCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEcc
Q 026823 124 APYLRKVDLR--MYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 124 ~pigRKVDL~--~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVG 195 (232)
.|-||.+=++ ...|+.+|..++.+=|+.-.. ....|.|.|.|.||||.|.-
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 4566665544 478999999999999976110 13578999999999999864
No 11
>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=95.69 E-value=0.046 Score=42.43 Aligned_cols=58 Identities=24% Similarity=0.460 Sum_probs=43.8
Q ss_pred eeEEEecC---cccceee--ecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCC
Q 026823 116 FVKVSMDG---APYLRKV--DLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGD 190 (232)
Q Consensus 116 ~VKV~MdG---~pigRKV--DL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGD 190 (232)
.||.+..| .+=-|++ |=....+|++|...+.++|.. +.+..|++.|.|.|||
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~-----------------------l~~~~ftlky~DeeGD 58 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPS-----------------------LRGKNFQLFWKDEEGD 58 (87)
T ss_pred eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHccc-----------------------cCCCcEEEEEECCCCC
Confidence 67888877 3333444 446677999999999999975 1245799999999999
Q ss_pred eEEccC
Q 026823 191 WMLVGD 196 (232)
Q Consensus 191 wMLVGD 196 (232)
..-+..
T Consensus 59 lvtIss 64 (87)
T cd06402 59 LVAFSS 64 (87)
T ss_pred EEeecC
Confidence 887654
No 12
>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=95.46 E-value=0.043 Score=42.40 Aligned_cols=55 Identities=18% Similarity=0.326 Sum_probs=44.3
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEccC
Q 026823 117 VKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVGD 196 (232)
Q Consensus 117 VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVGD 196 (232)
||++-.|.-+--.+|. .-+|++|.+.+.+||... .+..|++.|.|.|||---+..
T Consensus 3 ~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~~-----------------------~~q~ft~kw~DEEGDp~tiSS 57 (83)
T cd06404 3 VKAAYNGDIMITSIDP--SISLEELCNEVRDMCRFH-----------------------NDQPFTLKWIDEEGDPCTISS 57 (83)
T ss_pred EEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCCC-----------------------CCCcEEEEEECCCCCceeecC
Confidence 7899999866666666 678999999999999861 245799999999999766543
No 13
>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=94.76 E-value=0.1 Score=40.27 Aligned_cols=66 Identities=21% Similarity=0.224 Sum_probs=49.9
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEcc-
Q 026823 117 VKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVG- 195 (232)
Q Consensus 117 VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVG- 195 (232)
-||+-+|. .|++-...-=+|..|...|+.+|.+.. . .+.|||.|.|||..-+-
T Consensus 3 fKv~~~g~--~RRf~~~~~pt~~~L~~kl~~Lf~lp~-----------------------~-~~~vtYiDeD~D~ITlss 56 (82)
T cd06397 3 FKSSFLGD--TRRIVFPDIPTWEALASKLENLYNLPE-----------------------I-KVGVTYIDNDNDEITLSS 56 (82)
T ss_pred EEEEeCCc--eEEEecCCCccHHHHHHHHHHHhCCCh-----------------------h-HeEEEEEcCCCCEEEecc
Confidence 47888885 788888888999999999999998721 1 27899999999987544
Q ss_pred CCChhhhhhccee
Q 026823 196 DVPWGMFVESCKR 208 (232)
Q Consensus 196 DvPW~mFv~svkR 208 (232)
|.=-+.|.+-..|
T Consensus 57 d~eL~d~~~~~~~ 69 (82)
T cd06397 57 NKELQDFYRLSHR 69 (82)
T ss_pred hHHHHHHHHhccc
Confidence 4555566554443
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=92.26 E-value=0.51 Score=36.66 Aligned_cols=65 Identities=18% Similarity=0.269 Sum_probs=48.7
Q ss_pred ceeEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEc
Q 026823 115 AFVKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLV 194 (232)
Q Consensus 115 ~~VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLV 194 (232)
.=|||+-.|. .|-|-+..-=+|++|...+.++|+. ...+.+-|.|. ||..-+
T Consensus 3 ikVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~~-------------------------~~~~~iKykDE-GD~iti 54 (86)
T cd06408 3 IRVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFGF-------------------------KRRLKIKMKDD-GDMITM 54 (86)
T ss_pred EEEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhCC-------------------------CCceEEEEEcC-CCCccc
Confidence 3589998888 5667777777899999999999986 12578999999 999888
Q ss_pred cCC-Chhhhhhcce
Q 026823 195 GDV-PWGMFVESCK 207 (232)
Q Consensus 195 GDv-PW~mFv~svk 207 (232)
++- =-++-+.++|
T Consensus 55 ~sq~DLd~Ai~~a~ 68 (86)
T cd06408 55 GDQDDLDMAIDTAR 68 (86)
T ss_pred cCHHHHHHHHHHHH
Confidence 763 3334444443
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=70.80 E-value=6.6 Score=30.96 Aligned_cols=37 Identities=27% Similarity=0.385 Sum_probs=29.9
Q ss_pred eecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeE
Q 026823 130 VDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWM 192 (232)
Q Consensus 130 VDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwM 192 (232)
=||+..-+|.+|..-..+-|... +-+|-|.|.|||..
T Consensus 22 e~l~~~P~~kdLl~lmr~~f~~~--------------------------dIaLNYrD~EGDLI 58 (92)
T cd06399 22 EDLSSTPLLKDLLELTRREFQRE--------------------------DIALNYRDAEGDLI 58 (92)
T ss_pred cccccCccHHHHHHHHHHHhchh--------------------------heeeeeecCCCCEE
Confidence 37888889999998888888752 23688999999974
No 16
>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=52.66 E-value=26 Score=27.45 Aligned_cols=49 Identities=24% Similarity=0.367 Sum_probs=34.6
Q ss_pred cCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEcc
Q 026823 122 DGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 122 dG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVG 195 (232)
+|..+--.||....=++.+++.++.+....-|. -..-|||.|||..-|-
T Consensus 9 ~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~aT~-------------------------tAFeYEDE~gDRITVR 57 (91)
T cd06395 9 NGGAVDWTVQSGPQLLFRDVLDVIGQVLPEATT-------------------------TAFEYEDEDGDRITVR 57 (91)
T ss_pred CCCcccccccCcccccHHHHHHHHHHhcccccc-------------------------cceeeccccCCeeEec
Confidence 344466677777778899999888876654222 1356999999988763
No 17
>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=51.39 E-value=11 Score=26.40 Aligned_cols=17 Identities=29% Similarity=0.649 Sum_probs=14.5
Q ss_pred eeEEEcCCCCeEEccCC
Q 026823 181 VPTYEDKDGDWMLVGDV 197 (232)
Q Consensus 181 ~ltYeDkeGDwMLVGDv 197 (232)
-+.|.|.||+++++|+.
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 48899999999999974
No 18
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=41.61 E-value=12 Score=32.87 Aligned_cols=38 Identities=29% Similarity=0.434 Sum_probs=31.9
Q ss_pred hhhhhccCCCCceeEEEcCCCCeEEccCCChhhhhhcceeeE
Q 026823 169 SKLMDLLNGSDYVPTYEDKDGDWMLVGDVPWGMFVESCKRLR 210 (232)
Q Consensus 169 ~~l~d~~~~sey~ltYeDkeGDwMLVGDvPW~mFv~svkRLr 210 (232)
.-|.|.+.-.+|..-|.+. .|..|.||+.+++.++||.
T Consensus 89 d~L~~~L~~~G~~ae~~~~----~i~T~a~~eev~~l~~~Ls 126 (190)
T PF09840_consen 89 DLLVDALKLLGYKAEYRED----VIKTDAPLEEVVELAERLS 126 (190)
T ss_pred HHHHHHHHhCCCeeEEeCC----eEEecCCHHHHHHHHHHHH
Confidence 3567777778999999766 8899999999999999973
No 19
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=40.55 E-value=14 Score=31.81 Aligned_cols=72 Identities=24% Similarity=0.399 Sum_probs=46.2
Q ss_pred cCcccceeeecCCCCChHHHHHHH---HHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEccCC-
Q 026823 122 DGAPYLRKVDLRMYNTYQDLYHAL---GKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVGDV- 197 (232)
Q Consensus 122 dG~pigRKVDL~~~~sY~~L~~aL---e~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVGDv- 197 (232)
-|-.|.-+++|..|++|++...+. .++|...|-+. .-|. -+....|||+|-|-.
T Consensus 48 AGlDY~~~~~l~~h~s~e~fl~~~~~~~rl~~~tt~~~---------------------~~~~-~~~f~~~d~llFG~Es 105 (155)
T COG0219 48 AGLDYHEKASLTEHDSLEAFLEAEPIGGRLFALTTKGT---------------------TTYT-DVSFQKGDYLLFGPES 105 (155)
T ss_pred cccchHhhcceEEeCCHHHHHhhccCCceEEEEEeccc---------------------cccc-cccCCCCCEEEECCCC
Confidence 477799999999999999999999 46776533321 0111 144456999999975
Q ss_pred ---Chhhhhh-cceeeEEecCc
Q 026823 198 ---PWGMFVE-SCKRLRIVKGT 215 (232)
Q Consensus 198 ---PW~mFv~-svkRLrImk~s 215 (232)
|=+.--. .-++|||=-..
T Consensus 106 ~GLP~~i~~~~~~~~irIPm~~ 127 (155)
T COG0219 106 RGLPEEILDAAPDRCIRIPMRP 127 (155)
T ss_pred CCCCHHHHHhCccceEEeccCC
Confidence 5332222 22358874433
No 20
>PF11576 DUF3236: Protein of unknown function (DUF3236); InterPro: IPR012019 This family of proteins with unknown function appears to be restricted to Methanobacteria. ; PDB: 3BRC_B.
Probab=38.42 E-value=12 Score=31.99 Aligned_cols=12 Identities=42% Similarity=0.744 Sum_probs=7.7
Q ss_pred cccccCCCCCCC
Q 026823 13 TELRLGLPGNRV 24 (232)
Q Consensus 13 TELrLGLPG~~~ 24 (232)
.-=|||.||+++
T Consensus 98 ARGRLGvPGSGS 109 (154)
T PF11576_consen 98 ARGRLGVPGSGS 109 (154)
T ss_dssp EEEE-SSTTS-E
T ss_pred EcccccCCCCcc
Confidence 334999999986
No 21
>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=37.18 E-value=19 Score=24.51 Aligned_cols=15 Identities=47% Similarity=0.618 Sum_probs=11.2
Q ss_pred HHHHHHHhhcc-ccCC
Q 026823 141 LYHALGKMFSS-FTIG 155 (232)
Q Consensus 141 L~~aLe~MF~~-~~~~ 155 (232)
=..+||.||+. |.++
T Consensus 6 ER~aLEAMFNLKFhi~ 21 (41)
T PF12426_consen 6 ERSALEAMFNLKFHIG 21 (41)
T ss_pred HHHHHHHHhceeeeeC
Confidence 46899999995 5554
No 22
>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=29.52 E-value=2e+02 Score=22.07 Aligned_cols=66 Identities=12% Similarity=0.132 Sum_probs=47.8
Q ss_pred ceeEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCC-CeEE
Q 026823 115 AFVKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDG-DWML 193 (232)
Q Consensus 115 ~~VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeG-DwML 193 (232)
.-|||+-.+ .=-|-...=-+|++|...|.+=+... +.+-+|.|.|.+. +...
T Consensus 3 ~vvKV~f~~---tIaIrvp~~~~y~~L~~ki~~kLkl~------------------------~e~i~LsYkde~s~~~v~ 55 (80)
T cd06406 3 YVVKVHFKY---TVAIQVARGLSYATLLQKISSKLELP------------------------AEHITLSYKSEASGEDVI 55 (80)
T ss_pred eEEEEEEEE---EEEEEcCCCCCHHHHHHHHHHHhCCC------------------------chhcEEEeccCCCCCccC
Confidence 358999997 34455666678999999999988761 1234788988774 4444
Q ss_pred ccCCChhhhhhcce
Q 026823 194 VGDVPWGMFVESCK 207 (232)
Q Consensus 194 VGDvPW~mFv~svk 207 (232)
++|-=|+.-.+.|+
T Consensus 56 l~d~dle~aws~~~ 69 (80)
T cd06406 56 LSDTNMEDVWSQAK 69 (80)
T ss_pred cChHHHHHHHHhhc
Confidence 48888888877776
No 23
>COG3286 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.19 E-value=28 Score=31.15 Aligned_cols=39 Identities=26% Similarity=0.355 Sum_probs=31.4
Q ss_pred hhhhhhccCCCCceeEEEcCCCCeEEccCCChhhhhhcceeeE
Q 026823 168 ESKLMDLLNGSDYVPTYEDKDGDWMLVGDVPWGMFVESCKRLR 210 (232)
Q Consensus 168 e~~l~d~~~~sey~ltYeDkeGDwMLVGDvPW~mFv~svkRLr 210 (232)
..-|.|.+..-+|.+-|.+ || |--+.||+.|++.+++|.
T Consensus 91 ~~vl~daLk~~GyrVevr~---~~-l~T~ap~~ev~E~vreLs 129 (204)
T COG3286 91 PDVLIDALKLLGYRVEVRG---GE-LKTNAPWSEVVELVRELS 129 (204)
T ss_pred HHHHHHHHHhCCceEEeeC---ce-eecCCCHHHHHHHHHHHH
Confidence 3456777777899999865 45 888999999999999873
No 24
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=26.92 E-value=1.7e+02 Score=26.81 Aligned_cols=76 Identities=12% Similarity=0.175 Sum_probs=43.3
Q ss_pred EecCcccceeee--cCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCC-CCceeEEEcCCCCeEEccC
Q 026823 120 SMDGAPYLRKVD--LRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNG-SDYVPTYEDKDGDWMLVGD 196 (232)
Q Consensus 120 ~MdG~pigRKVD--L~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~-sey~ltYeDkeGDwMLVGD 196 (232)
+.+-.|+|+--+ ...+=+.+++...|+..|....+.. . .++ ..| ..+.|..|-.=++.-
T Consensus 188 ~ie~mP~g~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~-~----------------~~~~~~~-~~~~~~~~~ig~I~~ 249 (329)
T PRK13361 188 FIEEMPLGEIDERRRARHCSSDEVRAIIETRYPLTPSNK-R----------------TGGPARY-YTMADSPIHIGFISP 249 (329)
T ss_pred EEecccCCCccchhhccCcCHHHHHHHHHHhCCcccCCC-C----------------CCCCCeE-EEECCCCeEEEEEcC
Confidence 566678887222 3456678888888888876422210 0 011 111 112333344444444
Q ss_pred CChhhhhhcceeeEEecC
Q 026823 197 VPWGMFVESCKRLRIVKG 214 (232)
Q Consensus 197 vPW~mFv~svkRLrImk~ 214 (232)
+-.. ||.+|-||||...
T Consensus 250 ~s~~-fC~~Cnr~rlt~~ 266 (329)
T PRK13361 250 HSHN-FCHECNRVRVTAE 266 (329)
T ss_pred CCcc-ccccCCeEEEccC
Confidence 4454 9999999999765
No 25
>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=24.85 E-value=45 Score=26.13 Aligned_cols=19 Identities=37% Similarity=0.548 Sum_probs=16.4
Q ss_pred CceeEEEcCCCCeEEccCC
Q 026823 179 DYVPTYEDKDGDWMLVGDV 197 (232)
Q Consensus 179 ey~ltYeDkeGDwMLVGDv 197 (232)
=|+.-|+|.+||+..-|.|
T Consensus 92 iwiaP~~D~~g~l~~~~~V 110 (119)
T PF09676_consen 92 IWIAPWEDADGDLHDPGYV 110 (119)
T ss_pred EEEeeeECCCCCEeccceE
Confidence 4789999999999888765
No 26
>cd00771 ThrRS_core Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.
Probab=24.15 E-value=24 Score=32.14 Aligned_cols=54 Identities=26% Similarity=0.409 Sum_probs=31.6
Q ss_pred cceeEEEecCcccceeeecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCC
Q 026823 114 AAFVKVSMDGAPYLRKVDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGD 190 (232)
Q Consensus 114 ~~~VKV~MdG~pigRKVDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGD 190 (232)
-.|.-.-=||+-||-|||..+.++ |.+-+.+-|+ . .|.....-|-|+|.|+||.
T Consensus 209 ~~~~~~~g~~afygpkid~~~~d~-------~gr~~q~~t~---------------q-ld~~~~~~f~l~y~~~~~~ 262 (298)
T cd00771 209 LPYEINEGEGAFYGPKIDFHVKDA-------LGREWQCSTI---------------Q-LDFNLPERFDLTYIGEDGE 262 (298)
T ss_pred CCceECCCCcccccceEEEEEEeC-------CCCeeeccee---------------E-eeccChhhcCCEEEccCCC
Confidence 345555566777777777776543 2333333222 1 1222345788999999986
No 27
>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=22.76 E-value=1.6e+02 Score=23.82 Aligned_cols=68 Identities=16% Similarity=0.244 Sum_probs=29.5
Q ss_pred eecCCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCeEEccCCChhhhhhcceee
Q 026823 130 VDLRMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDWMLVGDVPWGMFVESCKRL 209 (232)
Q Consensus 130 VDL~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDwMLVGDvPW~mFv~svkRL 209 (232)
+--..|-+++++...|++-|....... . + ++.-......+..|..=++.-+- +.||.+|-||
T Consensus 17 ~~~~~~~~~~ei~~~l~~~~~~~~~~~---~------------~--~~pa~~y~~~g~~g~vG~I~~~s-~~FC~~CNRi 78 (128)
T PF06463_consen 17 WFEEEFVPAQEILERLEERYELLPSEK---R------------P--NGPARYYRIPGGKGRVGFISPVS-NPFCSSCNRI 78 (128)
T ss_dssp B-TTTB--HHHHHHHHHHHS-EEEE-----S------------S--T-SSEEEEETTT--EEEEE-TTT-S--GGG--EE
T ss_pred chhhcCcCHHHHHHHHHHhCCcccccc---c------------c--CCcceEEEECCCCcEEEEEeCCC-CCCCCcCCEE
Confidence 344678889999999999988632210 0 0 11111112233333333333222 2599999999
Q ss_pred EEecCc
Q 026823 210 RIVKGT 215 (232)
Q Consensus 210 rImk~s 215 (232)
||...-
T Consensus 79 RlTsdG 84 (128)
T PF06463_consen 79 RLTSDG 84 (128)
T ss_dssp EE-TTS
T ss_pred EEccCc
Confidence 997643
No 28
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=21.82 E-value=98 Score=29.45 Aligned_cols=79 Identities=24% Similarity=0.364 Sum_probs=54.0
Q ss_pred cceeEEEecCcccceeeec--CCCCChHHHHHHHHHhhccccCCCcCCCCCcccchhhhhhhccCCCCceeEEEcCCCCe
Q 026823 114 AAFVKVSMDGAPYLRKVDL--RMYNTYQDLYHALGKMFSSFTIGNCGSQGMKDFMNESKLMDLLNGSDYVPTYEDKDGDW 191 (232)
Q Consensus 114 ~~~VKV~MdG~pigRKVDL--~~~~sY~~L~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~sey~ltYeDkeGDw 191 (232)
..-||-..|-. -|..-| ..-.+|++++.-|+++-.+ .+.++.|-|.|.-||.
T Consensus 18 ~veVKSKFdaE--fRRfsl~r~~~~~f~~F~~Lv~~~H~i------------------------~nvdvllgY~d~hgDL 71 (358)
T KOG3606|consen 18 TVEVKSKFDAE--FRRFSLPRHSASSFDEFYSLVEHLHHI------------------------PNVDVLLGYADTHGDL 71 (358)
T ss_pred eEEeeccccch--hheecccccCcccHHHHHHHHHHHhcC------------------------CCceEEEEEecCCCce
Confidence 45566555543 344444 4446899999988888765 2357889999999999
Q ss_pred EEcc-CCChhhhhhcce---eeEEecCcccc
Q 026823 192 MLVG-DVPWGMFVESCK---RLRIVKGTEAI 218 (232)
Q Consensus 192 MLVG-DvPW~mFv~svk---RLrImk~sea~ 218 (232)
+-+- |.-+.--+++++ ||-|-|..||.
T Consensus 72 LPinNDDn~~ka~~sa~PlLR~~iQkr~ea~ 102 (358)
T KOG3606|consen 72 LPINNDDNLHKALSSARPLLRLLIQKREEAD 102 (358)
T ss_pred ecccCchhHHHHhhccCchhhhhhhhhhhhh
Confidence 9764 566666667776 55666766664
No 29
>PF03589 Antiterm: Antitermination protein; InterPro: IPR003222 This entry consists of antitermination proteins found in bacteriophages, such as protein Q from phage lambda, and some bacterial homologues. Protein Q positively regulates expression of the phage late gene operon by binding to the bacterial host RNA polymerase (RNAP) and modifying it. The modified RNAP transcribes through termination sites that otherwise prevent expression of the regulated genes [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=21.71 E-value=39 Score=26.40 Aligned_cols=29 Identities=21% Similarity=0.455 Sum_probs=22.3
Q ss_pred CCCccccccccCCCCCCCCcCCcCCcCCCCch
Q 026823 7 NMGFEETELRLGLPGNRVLSEGEGARKRGFSE 38 (232)
Q Consensus 7 ~ln~~~TELrLGLPG~~~~~~~~~~~KR~fse 38 (232)
-|++++|++++|.|=-.. -...+||||+.
T Consensus 17 al~~~~s~~~~G~pvfk~---c~rcgg~G~sr 45 (95)
T PF03589_consen 17 ALDMKQSKAQFGVPVFKD---CERCGGRGYSR 45 (95)
T ss_pred eccHHHhHhccCCchhhh---hhhhcCCCCCC
Confidence 389999999999997421 23578999985
No 30
>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=21.60 E-value=28 Score=22.92 Aligned_cols=12 Identities=42% Similarity=0.869 Sum_probs=8.9
Q ss_pred eeEEEcCCCCeE
Q 026823 181 VPTYEDKDGDWM 192 (232)
Q Consensus 181 ~ltYeDkeGDwM 192 (232)
.+.|.|.+|+|=
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 578999999983
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=21.11 E-value=1.2e+02 Score=25.42 Aligned_cols=36 Identities=28% Similarity=0.447 Sum_probs=30.3
Q ss_pred ceeEEEecCc--ccceeeecCCCCChHHHHHHHHHhhc
Q 026823 115 AFVKVSMDGA--PYLRKVDLRMYNTYQDLYHALGKMFS 150 (232)
Q Consensus 115 ~~VKV~MdG~--pigRKVDL~~~~sY~~L~~aLe~MF~ 150 (232)
.-+||..+|. +|=|.|-+..--+..+|-.+|+..|+
T Consensus 5 y~lkV~L~~~~p~iwRri~Vp~~~tl~~Lh~~Iq~afg 42 (179)
T PF07929_consen 5 YQLKVSLKGSKPPIWRRIEVPADITLADLHEVIQAAFG 42 (179)
T ss_dssp EEEEEEETT-SS-EEEEEEEETT-BHHHHHHHHHHHTT
T ss_pred EEEEEEEcCCCCCeEEEEEECCCCCHHHHHHHHHHHhC
Confidence 4579999885 89999999999999999999999997
No 32
>PF14688 DUF4461: Domain of unknown function (DUF4461)
Probab=21.08 E-value=59 Score=30.48 Aligned_cols=23 Identities=48% Similarity=0.840 Sum_probs=17.9
Q ss_pred EcCCCCeEE-ccCCC--hhhhhhcce
Q 026823 185 EDKDGDWML-VGDVP--WGMFVESCK 207 (232)
Q Consensus 185 eDkeGDwML-VGDvP--W~mFv~svk 207 (232)
.|-+|+.|| +|||| |..|++.+.
T Consensus 92 v~~~G~v~L~~~Dv~~~W~~~l~~l~ 117 (313)
T PF14688_consen 92 VSLDGHVMLGTGDVPHQWTSFLERLP 117 (313)
T ss_pred cCCCCCEEecCCCcHHHHHHHHHhCC
Confidence 577899888 68887 888887655
Done!