Query 027578
Match_columns 221
No_of_seqs 224 out of 569
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 12:00:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027578.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027578hhsearch_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 1E-64 2.2E-69 435.5 0.4 192 2-213 1-215 (215)
2 PF00564 PB1: PB1 domain; Int 98.0 2.2E-05 4.7E-10 57.2 6.0 67 129-196 3-70 (84)
3 smart00666 PB1 PB1 domain. Pho 97.6 0.00036 7.9E-09 50.7 7.7 65 130-196 4-69 (81)
4 cd06407 PB1_NLP A PB1 domain i 97.6 0.00029 6.3E-09 53.4 6.7 55 129-185 2-57 (82)
5 cd05992 PB1 The PB1 domain is 97.5 0.00053 1.2E-08 49.5 7.6 66 129-196 2-69 (81)
6 cd06398 PB1_Joka2 The PB1 doma 97.5 0.00031 6.8E-09 54.3 6.5 67 129-197 2-72 (91)
7 cd06396 PB1_NBR1 The PB1 domai 97.4 0.00066 1.4E-08 52.0 6.7 53 130-184 3-55 (81)
8 cd06403 PB1_Par6 The PB1 domai 97.3 0.00099 2.1E-08 51.1 6.9 71 130-200 3-75 (80)
9 cd06409 PB1_MUG70 The MUG70 pr 96.8 0.0027 5.8E-08 49.1 4.9 49 137-185 7-60 (86)
10 cd06397 PB1_UP1 Uncharacterize 96.2 0.016 3.6E-07 44.6 6.2 66 130-197 3-69 (82)
11 cd06404 PB1_aPKC PB1 domain is 95.9 0.024 5.3E-07 43.7 6.0 55 130-186 3-58 (83)
12 cd06401 PB1_TFG The PB1 domain 95.9 0.055 1.2E-06 41.6 7.8 69 130-200 3-78 (81)
13 cd06402 PB1_p62 The PB1 domain 95.2 0.097 2.1E-06 40.5 7.1 58 129-186 2-65 (87)
14 cd06408 PB1_NoxR The PB1 domai 94.9 0.1 2.2E-06 40.5 6.3 65 128-196 3-68 (86)
15 cd06406 PB1_P67 A PB1 domain i 85.9 3.5 7.7E-05 31.6 6.4 70 128-200 3-75 (80)
16 cd06399 PB1_P40 The PB1 domain 80.2 3 6.5E-05 32.9 4.1 41 143-185 22-62 (92)
17 KOG3606 Cell polarity protein 69.2 8.6 0.00019 36.3 4.8 93 127-219 18-116 (358)
18 KOG3938 RGS-GAIP interacting p 58.1 17 0.00037 34.2 4.6 73 135-210 62-142 (334)
19 PF10411 DsbC_N: Disulfide bon 53.8 11 0.00024 26.4 2.1 17 170-186 34-50 (57)
20 PF00788 RA: Ras association ( 53.4 56 0.0012 23.3 5.9 67 128-194 3-77 (93)
21 cd06395 PB1_Map2k5 PB1 domain 52.9 27 0.00059 27.4 4.3 51 135-186 9-59 (91)
22 COG0219 CspR Predicted rRNA me 44.3 10 0.00022 32.5 0.8 70 135-204 48-127 (155)
23 PF09840 DUF2067: Uncharacteri 37.8 14 0.00031 32.1 0.8 27 168-198 99-125 (190)
24 cd01789 Alp11_N Ubiquitin-like 36.0 1.8E+02 0.0039 21.5 6.6 42 136-179 12-53 (84)
25 PF14560 Ubiquitin_2: Ubiquiti 33.8 1.7E+02 0.0036 21.5 5.9 40 140-181 17-56 (87)
26 PRK11509 hydrogenase-1 operon 33.8 62 0.0013 26.7 3.8 53 127-197 70-122 (132)
27 PF11576 DUF3236: Protein of u 33.2 15 0.00033 31.4 0.2 9 10-18 101-109 (154)
28 PF00588 SpoU_methylase: SpoU 32.6 47 0.001 26.2 2.9 64 142-219 55-118 (142)
29 cd06410 PB1_UP2 Uncharacterize 31.7 1.6E+02 0.0034 23.0 5.6 52 140-192 24-80 (97)
30 cd00491 4Oxalocrotonate_Tautom 28.6 99 0.0021 20.4 3.6 36 150-185 19-54 (58)
31 PRK02220 4-oxalocrotonate taut 28.4 77 0.0017 21.4 3.0 39 150-188 20-58 (61)
32 KOG1637 Threonyl-tRNA syntheta 27.0 22 0.00048 35.7 0.2 47 126-179 369-423 (560)
33 COG3816 Uncharacterized protei 26.6 46 0.001 29.4 2.0 32 133-184 56-87 (205)
34 cd00771 ThrRS_core Threonyl-tR 24.2 20 0.00043 32.4 -0.7 46 127-179 209-262 (298)
35 cd02965 HyaE HyaE family; HyaE 22.6 2E+02 0.0043 23.0 4.8 37 156-192 73-109 (111)
36 PRK02289 4-oxalocrotonate taut 22.5 1.3E+02 0.0028 20.7 3.3 37 152-188 22-58 (60)
37 PRK13361 molybdenum cofactor b 22.5 2.3E+02 0.0049 25.8 5.8 70 133-203 188-266 (329)
38 PF06463 Mob_synth_C: Molybden 22.0 1.4E+02 0.003 24.0 3.9 60 143-203 17-83 (128)
39 smart00213 UBQ Ubiquitin homol 21.8 2.4E+02 0.0052 18.3 4.6 45 129-175 2-46 (64)
40 COG3286 Uncharacterized protei 21.5 74 0.0016 28.5 2.3 27 168-198 102-128 (204)
41 PF14688 DUF4461: Domain of un 21.5 60 0.0013 30.2 1.9 24 173-196 91-117 (313)
42 TIGR00013 taut 4-oxalocrotonat 21.4 1.6E+02 0.0034 19.9 3.5 38 151-189 21-59 (63)
43 PRK14763 coenzyme PQQ biosynth 20.1 34 0.00073 21.3 -0.0 8 6-13 7-14 (26)
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=1e-64 Score=435.47 Aligned_cols=192 Identities=53% Similarity=0.850 Sum_probs=6.0
Q ss_pred CCCcccccccCCCCCCCCCCCCCCCCCCCCccccCccCCCCCCCcchhhhhhcccCCCCCCCc-cccccccCCccCc-CC
Q 027578 2 INFEATELRLGLPGGNGGSSEGGGGGGGGEKAKNNNINGMKRGFADTVVDLKLNLSTKESGGI-DVIEKTKGKSASA-TG 79 (221)
Q Consensus 2 lnlk~TELrLGLPG~~~~~~~~~~~~~~~~~~~~~~~~~~KRgfset~idl~~~ls~~~~~~~-~~~~~~~~~~~~~-~~ 79 (221)
||||+|||||||||+.+++. ..........+++||+|+++ |+............. ............. ..
T Consensus 1 ln~~~TELrLGLPG~~~~~~-------~~~~~~~~~~~~~kR~F~~a-id~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 72 (215)
T PF02309_consen 1 LNLKATELRLGLPGSESPDA-------SSSSSSKKSSSGNKRGFSEA-IDSSSSNSQSSSSSSSDSSSSSSSSSTSSSSS 72 (215)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCchhhhhcccCCCCCCCCc-------ccccccccccCcccccchhh-hhhcccccccccccccccCccccccccccccc
Confidence 89999999999999987631 01112223458899999998 776541100000000 0000000000000 00
Q ss_pred -CCCCCCCCCCCCCCCCCCccchhhhhhhhcccCccccCccCCCCCCCcceEEEEEcCcccceeeccCCcCCHHHHHHHH
Q 027578 80 -ATDLSKPPAKSQVVGWPPVRSFRKNIMAVQKDNEEGDNKASSSSSSNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDAL 158 (221)
Q Consensus 80 -~~~~~~p~~k~qvVGWPPVrs~Rkn~~~~~~~~~~~~~~~~~~~~~~~~~vKV~MdG~~igRkvDL~~~~sY~eL~~~L 158 (221)
......|.+++|+||||||++||||.+.... ....++||||+|||+||||||||++|+||++|+.+|
T Consensus 73 ~~~~~~~p~~~~~~vgwpp~~s~r~n~~~~~~------------~~~~~~~vKV~mdG~~igRkVDL~~~~sY~~L~~~L 140 (215)
T PF02309_consen 73 DSSSSSPPASKAQVVGWPPVRSFRKNSLSEKQ------------SSSSRSYVKVNMDGVPIGRKVDLSAYSSYEELSSAL 140 (215)
T ss_dssp -------------BTTBS----S---------------------------------------------------------
T ss_pred ccccCCCCcccccccCCCcccccccccccccc------------cccCCceeEEEecCcccceecCHHHhhCHHHHHHHH
Confidence 0122345578999999999999999876211 122479999999999999999999999999999999
Q ss_pred Hhhh---ccC-----------------CCceEeEEecCCCCeEEecCCChHHHhhcceeeEEecCCcccCCchhh
Q 027578 159 GKMF---SSF-----------------TIDYVPTYEDKDGDWMLVGDVPWDMFVDSCKRLRIMKGSEAIGLAPRA 213 (221)
Q Consensus 159 ~~MF---~~~-----------------~~~~~l~YeD~eGD~mLVGDvPW~~Fv~svkRLrI~~~se~~gl~~~~ 213 (221)
++|| .+. ..+|+|||+|+||||||||||||+|||++||||+||+.+|++||+||+
T Consensus 141 ~~MF~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~Y~D~egd~mlvGD~PW~~F~~~vkRl~I~~~~e~~~~~~r~ 215 (215)
T PF02309_consen 141 EKMFSCFSIEQCGSHGLNESGLLDLLNGSEYVLVYEDKEGDWMLVGDVPWEEFVKSVKRLRIMKSSEAKGLAPRA 215 (215)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred HHhcCCCCccccccccccchhhccccCCcceeEEEECCCCCEEEecCCCHHHHHHHhhccEEecHHHhcccCCCC
Confidence 9999 332 128999999999999999999999999999999999999999999986
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=97.97 E-value=2.2e-05 Score=57.15 Aligned_cols=67 Identities=24% Similarity=0.382 Sum_probs=56.8
Q ss_pred eEEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecCC-ChHHHhhcce
Q 027578 129 FVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGDV-PWDMFVDSCK 196 (221)
Q Consensus 129 ~vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGDv-PW~~Fv~svk 196 (221)
-||++..|. +=|.+.+..--+|.+|...++..|+.....+++.|.|.||||..+-+. =|++.++.++
T Consensus 3 ~vK~~~~~~-~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~ 70 (84)
T PF00564_consen 3 RVKVRYGGD-IRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDEDLQEAIEQAK 70 (84)
T ss_dssp EEEEEETTE-EEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHHHHHHHHHHH
T ss_pred EEEEEECCe-eEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHHHHHHHHHHH
Confidence 479999997 444688888889999999999999987779999999999999988754 5777777765
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=97.61 E-value=0.00036 Score=50.68 Aligned_cols=65 Identities=20% Similarity=0.370 Sum_probs=53.0
Q ss_pred EEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecC-CChHHHhhcce
Q 027578 130 VKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGD-VPWDMFVDSCK 196 (221)
Q Consensus 130 vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGD-vPW~~Fv~svk 196 (221)
|||...|. -|.+-+..--+|.+|...+.+.|+.....+.|.|+|.||||..+.+ .=|.+.++.++
T Consensus 4 vK~~~~~~--~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 4 VKLRYGGE--TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEECCE--EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHHHHHHHHHHHH
Confidence 67877553 6777788888999999999999997656899999999999987665 46777776655
No 4
>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=97.56 E-value=0.00029 Score=53.41 Aligned_cols=55 Identities=22% Similarity=0.300 Sum_probs=45.3
Q ss_pred eEEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCC-CceEeEEecCCCCeEEecC
Q 027578 129 FVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFT-IDYVPTYEDKDGDWMLVGD 185 (221)
Q Consensus 129 ~vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~-~~~~l~YeD~eGD~mLVGD 185 (221)
-|||...|. .+.+-|..--+|++|.+++.++|+... ..|.|-|.|.||||.++--
T Consensus 2 ~vK~~~~~d--~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~lts 57 (82)
T cd06407 2 RVKATYGEE--KIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTC 57 (82)
T ss_pred EEEEEeCCe--EEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeec
Confidence 389999887 344555555699999999999999765 6899999999999998743
No 5
>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=97.54 E-value=0.00053 Score=49.48 Aligned_cols=66 Identities=20% Similarity=0.389 Sum_probs=52.9
Q ss_pred eEEEEEcCcccceeeccC-CcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecC-CChHHHhhcce
Q 027578 129 FVKVSMDGAPYLRKVDLK-LYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGD-VPWDMFVDSCK 196 (221)
Q Consensus 129 ~vKV~MdG~~igRkvDL~-~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGD-vPW~~Fv~svk 196 (221)
-|||+-.|. -|.+=+. .--+|.+|...|.+.|+.....+.+.|.|.||||..+.+ .=|++.++.++
T Consensus 2 ~vK~~~~~~--~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~ 69 (81)
T cd05992 2 RVKVKYGGE--IRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSDEDLEEAIEEAR 69 (81)
T ss_pred cEEEEecCC--CEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCHHHHHHHHHHHh
Confidence 378888765 3444444 888999999999999997656899999999999999987 56676666655
No 6
>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=97.52 E-value=0.00031 Score=54.33 Aligned_cols=67 Identities=25% Similarity=0.302 Sum_probs=53.9
Q ss_pred eEEEEEcCcccceeeccC---CcCCHHHHHHHHHhhhccCC-CceEeEEecCCCCeEEecCCChHHHhhccee
Q 027578 129 FVKVSMDGAPYLRKVDLK---LYKSYQELSDALGKMFSSFT-IDYVPTYEDKDGDWMLVGDVPWDMFVDSCKR 197 (221)
Q Consensus 129 ~vKV~MdG~~igRkvDL~---~~~sY~eL~~~L~~MF~~~~-~~~~l~YeD~eGD~mLVGDvPW~~Fv~svkR 197 (221)
-|||..+|.-+=-++++. .--+|++|.+.+.+.|.+.. .++++.|.|.||||..+-.. .+|..++.+
T Consensus 2 ~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D--~DL~~a~~~ 72 (91)
T cd06398 2 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDD--NDLTDAIQY 72 (91)
T ss_pred EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccH--HHHHHHHHH
Confidence 489999998555555554 45799999999999999865 69999999999999999776 666665554
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=97.38 E-value=0.00066 Score=51.96 Aligned_cols=53 Identities=17% Similarity=0.183 Sum_probs=47.8
Q ss_pred EEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEec
Q 027578 130 VKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVG 184 (221)
Q Consensus 130 vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVG 184 (221)
|||...|.-+--+++.+..-+|.+|..++.++|++. .+.+.|.|.||||.++-
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 799999997777888877889999999999999976 89999999999998874
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=97.31 E-value=0.00099 Score=51.07 Aligned_cols=71 Identities=21% Similarity=0.296 Sum_probs=54.4
Q ss_pred EEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEec-CCChHHHhhccee-eEE
Q 027578 130 VKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVG-DVPWDMFVDSCKR-LRI 200 (221)
Q Consensus 130 vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVG-DvPW~~Fv~svkR-LrI 200 (221)
||...|.+--=-.+|.....+|+++++-|+.||.+..+.+.|-|.|.+||.+-+- |+-+..=++++++ |||
T Consensus 3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l~~~~f~i~Y~D~~gDLLPInNDdNf~kAlssa~plLRl 75 (80)
T cd06403 3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHIPNVDFLIGYTDPHGDLLPINNDDNFLKALSSANPLLRI 75 (80)
T ss_pred eecccCCeEEEEEeccccCcCHHHHHHHHHHHhCCCCCcEEEEEeCCCCCEecccCcHHHHHHHHcCCCceEE
Confidence 5666666633335666677999999999999999988999999999999999875 4455555567764 444
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=96.75 E-value=0.0027 Score=49.05 Aligned_cols=49 Identities=22% Similarity=0.321 Sum_probs=39.9
Q ss_pred cccceeeccC--CcCCHHHHHHHHHhhhccCC---CceEeEEecCCCCeEEecC
Q 027578 137 APYLRKVDLK--LYKSYQELSDALGKMFSSFT---IDYVPTYEDKDGDWMLVGD 185 (221)
Q Consensus 137 ~~igRkvDL~--~~~sY~eL~~~L~~MF~~~~---~~~~l~YeD~eGD~mLVGD 185 (221)
.|-||.+=++ ...|+.+|..++.+-|+... ..|+|.|.|.||||.++--
T Consensus 7 ~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~ 60 (86)
T cd06409 7 DPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITS 60 (86)
T ss_pred CCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEec
Confidence 4466665444 37899999999999999765 5899999999999998753
No 10
>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=96.22 E-value=0.016 Score=44.62 Aligned_cols=66 Identities=21% Similarity=0.278 Sum_probs=53.0
Q ss_pred EEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecC-CChHHHhhccee
Q 027578 130 VKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGD-VPWDMFVDSCKR 197 (221)
Q Consensus 130 vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGD-vPW~~Fv~svkR 197 (221)
.||...|. .|++-...-=+|..|...|+.+|.+....+.++|.|.|||..-+-| .=.++|.+-..|
T Consensus 3 fKv~~~g~--~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~eL~d~~~~~~~ 69 (82)
T cd06397 3 FKSSFLGD--TRRIVFPDIPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKELQDFYRLSHR 69 (82)
T ss_pred EEEEeCCc--eEEEecCCCccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHHHHHHHHhccc
Confidence 47888885 7888888889999999999999998776799999999999886554 455556554443
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=95.94 E-value=0.024 Score=43.75 Aligned_cols=55 Identities=20% Similarity=0.307 Sum_probs=46.0
Q ss_pred EEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCC-CceEeEEecCCCCeEEecCC
Q 027578 130 VKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFT-IDYVPTYEDKDGDWMLVGDV 186 (221)
Q Consensus 130 vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~-~~~~l~YeD~eGD~mLVGDv 186 (221)
+|++..|.-+--.+|. .-+|++|.+.+..||.... ..+++.|.|.|||---+...
T Consensus 3 ~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~tiSS~ 58 (83)
T cd06404 3 VKAAYNGDIMITSIDP--SISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPCTISSQ 58 (83)
T ss_pred EEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCceeecCH
Confidence 7899999855555665 7789999999999999755 38999999999998877654
No 12
>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=95.90 E-value=0.055 Score=41.62 Aligned_cols=69 Identities=20% Similarity=0.375 Sum_probs=48.1
Q ss_pred EEEEEcCcccceeeccCCc-CCHHHHHHHHHhhhccC---CCceEeEEecCCCCeEEecCC---ChHHHhhcceeeEE
Q 027578 130 VKVSMDGAPYLRKVDLKLY-KSYQELSDALGKMFSSF---TIDYVPTYEDKDGDWMLVGDV---PWDMFVDSCKRLRI 200 (221)
Q Consensus 130 vKV~MdG~~igRkvDL~~~-~sY~eL~~~L~~MF~~~---~~~~~l~YeD~eGD~mLVGDv---PW~~Fv~svkRLrI 200 (221)
+|+...|. | |.+-+..- =+|.+|...+.+.|... ...+.+.|.|.|||+.-+-+. -|..-+...++|+|
T Consensus 3 iK~~~g~D-i-R~~~~~~~~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~~dL~~A~~~~~~~~l~~ 78 (81)
T cd06401 3 LKAQLGDD-I-RRIPIHNEDITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDSSDLSFAIQCSRILKLTL 78 (81)
T ss_pred EEEEeCCe-E-EEEeccCccccHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccHHHHHHHHhcCcceEEEE
Confidence 56666554 4 44444432 39999999999999953 148999999999999999875 33333334445555
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=95.24 E-value=0.097 Score=40.54 Aligned_cols=58 Identities=22% Similarity=0.412 Sum_probs=44.0
Q ss_pred eEEEEEcC---ccccee--eccCCcCCHHHHHHHHHhhhccC-CCceEeEEecCCCCeEEecCC
Q 027578 129 FVKVSMDG---APYLRK--VDLKLYKSYQELSDALGKMFSSF-TIDYVPTYEDKDGDWMLVGDV 186 (221)
Q Consensus 129 ~vKV~MdG---~~igRk--vDL~~~~sY~eL~~~L~~MF~~~-~~~~~l~YeD~eGD~mLVGDv 186 (221)
.||.+..| .+=-|. ||=....+|++|...+.++|... ...+++.|.|.|||..-+...
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~l~~~~ftlky~DeeGDlvtIssd 65 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPSLRGKNFQLFWKDEEGDLVAFSSD 65 (87)
T ss_pred eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHccccCCCcEEEEEECCCCCEEeecCH
Confidence 56767666 223344 34466779999999999999754 459999999999999888765
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=94.89 E-value=0.1 Score=40.50 Aligned_cols=65 Identities=22% Similarity=0.330 Sum_probs=51.4
Q ss_pred ceEEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecCC-ChHHHhhcce
Q 027578 128 AFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGDV-PWDMFVDSCK 196 (221)
Q Consensus 128 ~~vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGDv-PW~~Fv~svk 196 (221)
.-|||+-.|. .|-|-+..--+|++|...+..+|++ ...+++-|.|. ||..-+++. =-++-+.++|
T Consensus 3 ikVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~~-~~~~~iKykDE-GD~iti~sq~DLd~Ai~~a~ 68 (86)
T cd06408 3 IRVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFGF-KRRLKIKMKDD-GDMITMGDQDDLDMAIDTAR 68 (86)
T ss_pred EEEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhCC-CCceEEEEEcC-CCCccccCHHHHHHHHHHHH
Confidence 4589999887 6777777777899999999999996 46999999999 999988875 2334444444
No 15
>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=85.92 E-value=3.5 Score=31.64 Aligned_cols=70 Identities=14% Similarity=0.145 Sum_probs=55.2
Q ss_pred ceEEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCC-CeEEecCCChHHHhhcce--eeEE
Q 027578 128 AFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDG-DWMLVGDVPWDMFVDSCK--RLRI 200 (221)
Q Consensus 128 ~~vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eG-D~mLVGDvPW~~Fv~svk--RLrI 200 (221)
--|||+..+ .=.|-...=-+|.+|+..|.+-++....+-+|-|.|.+. +...++|.-++.-.+.|+ ||++
T Consensus 3 ~vvKV~f~~---tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~s~~~v~l~d~dle~aws~~~~~~lTL 75 (80)
T cd06406 3 YVVKVHFKY---TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSEASGEDVILSDTNMEDVWSQAKDGCLTL 75 (80)
T ss_pred eEEEEEEEE---EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCCCCCccCcChHHHHHHHHhhcCCeEEE
Confidence 358999997 345566666789999999999999876789999999885 443449999998888887 4544
No 16
>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=80.25 E-value=3 Score=32.91 Aligned_cols=41 Identities=22% Similarity=0.291 Sum_probs=34.3
Q ss_pred eccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecC
Q 027578 143 VDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGD 185 (221)
Q Consensus 143 vDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGD 185 (221)
=||+.--+|.+|..-..+-|... +..|-|.|.|||..-+=|
T Consensus 22 e~l~~~P~~kdLl~lmr~~f~~~--dIaLNYrD~EGDLIRlld 62 (92)
T cd06399 22 EDLSSTPLLKDLLELTRREFQRE--DIALNYRDAEGDLIRLLS 62 (92)
T ss_pred cccccCccHHHHHHHHHHHhchh--heeeeeecCCCCEEEEcc
Confidence 37888899999999999999854 789999999999865433
No 17
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=69.17 E-value=8.6 Score=36.31 Aligned_cols=93 Identities=19% Similarity=0.166 Sum_probs=64.4
Q ss_pred cceEEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEec-CCChHHHhhcce---eeEEec
Q 027578 127 VAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVG-DVPWDMFVDSCK---RLRIMK 202 (221)
Q Consensus 127 ~~~vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVG-DvPW~~Fv~svk---RLrI~~ 202 (221)
..-||-..|-+=---.++-..-.+|++++.-|++.-.+...++.+-|.|.-||.+-+- |+-+..-+++++ ||.|-+
T Consensus 18 ~veVKSKFdaEfRRfsl~r~~~~~f~~F~~Lv~~~H~i~nvdvllgY~d~hgDLLPinNDDn~~ka~~sa~PlLR~~iQk 97 (358)
T KOG3606|consen 18 TVEVKSKFDAEFRRFSLPRHSASSFDEFYSLVEHLHHIPNVDVLLGYADTHGDLLPINNDDNLHKALSSARPLLRLLIQK 97 (358)
T ss_pred eEEeeccccchhheecccccCcccHHHHHHHHHHHhcCCCceEEEEEecCCCceecccCchhHHHHhhccCchhhhhhhh
Confidence 4566655555422224555566799999999999999999999999999999999775 555555566666 677777
Q ss_pred CCccc--CCchhhhhhhcc
Q 027578 203 GSEAI--GLAPRAVEKCKN 219 (221)
Q Consensus 203 ~se~~--gl~~~~~~~~k~ 219 (221)
..|+. +++-.++.-|++
T Consensus 98 r~ea~~~~~~fgt~sl~rr 116 (358)
T KOG3606|consen 98 REEADEEKYGFGTDSLQRR 116 (358)
T ss_pred hhhhhhhccCcccccHHHH
Confidence 76665 234334444443
No 18
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=58.11 E-value=17 Score=34.23 Aligned_cols=73 Identities=23% Similarity=0.413 Sum_probs=54.5
Q ss_pred cCcccceeeccCCcCCHHHHHHHHHhhhccCCCceE-eEEec--CCCCeEEecCCChHHHh-----hcceeeEEecCCcc
Q 027578 135 DGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYV-PTYED--KDGDWMLVGDVPWDMFV-----DSCKRLRIMKGSEA 206 (221)
Q Consensus 135 dG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~-l~YeD--~eGD~mLVGDvPW~~Fv-----~svkRLrI~~~se~ 206 (221)
+|.|.|| +..|++-+|||+.++.-|.+...+.. .|--+ .|=+-||-|-.-.++|+ .-.|.++|+|..++
T Consensus 62 HGSptg~---Ie~fsnv~ELY~kIAe~F~Is~~dIlfcTlNshKvDM~~llgGqigleDfiFAHvkGq~kEv~v~Kseda 138 (334)
T KOG3938|consen 62 HGSPTGR---IEGFSNVRELYQKIAEAFDISPDDILFCTLNSHKVDMKRLLGGQIGLEDFIFAHVKGQAKEVEVVKSEDA 138 (334)
T ss_pred cCCccce---ecccccHHHHHHHHHHHhcCCccceEEEecCCCcccHHHHhcCccChhhhhhhhhcCcceeEEEEecccc
Confidence 5667777 45799999999999999998654221 12222 34455899999999988 45677999999999
Q ss_pred cCCc
Q 027578 207 IGLA 210 (221)
Q Consensus 207 ~gl~ 210 (221)
-||+
T Consensus 139 lGlT 142 (334)
T KOG3938|consen 139 LGLT 142 (334)
T ss_pred cceE
Confidence 9875
No 19
>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=53.80 E-value=11 Score=26.39 Aligned_cols=17 Identities=29% Similarity=0.649 Sum_probs=14.4
Q ss_pred EeEEecCCCCeEEecCC
Q 027578 170 VPTYEDKDGDWMLVGDV 186 (221)
Q Consensus 170 ~l~YeD~eGD~mLVGDv 186 (221)
.+.|.|.+|+.+++|+.
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 47899999999999974
No 20
>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=53.37 E-value=56 Score=23.33 Aligned_cols=67 Identities=13% Similarity=0.147 Sum_probs=49.0
Q ss_pred ceEEEEEcCccc---ceeeccCCcCCHHHHHHHHHhhhccCC--CceEeE--EecCCCCeEEecC-CChHHHhhc
Q 027578 128 AFVKVSMDGAPY---LRKVDLKLYKSYQELSDALGKMFSSFT--IDYVPT--YEDKDGDWMLVGD-VPWDMFVDS 194 (221)
Q Consensus 128 ~~vKV~MdG~~i---gRkvDL~~~~sY~eL~~~L~~MF~~~~--~~~~l~--YeD~eGD~mLVGD-vPW~~Fv~s 194 (221)
.++||+++...- -+.|=++....-.+++..+.+.|++.. .+|.|+ -........|-.| .|+..+..-
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~ 77 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQLQW 77 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHHHTT
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhC
Confidence 578999987742 688889999999999999999999822 389994 4444555555433 377766543
No 21
>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=52.95 E-value=27 Score=27.41 Aligned_cols=51 Identities=24% Similarity=0.343 Sum_probs=38.1
Q ss_pred cCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecCC
Q 027578 135 DGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGDV 186 (221)
Q Consensus 135 dG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGDv 186 (221)
+|..+--.||....=+|.+++.++.+..-.-+ --.+-|||.+||.+-|--+
T Consensus 9 ~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~aT-~tAFeYEDE~gDRITVRSD 59 (91)
T cd06395 9 NGGAVDWTVQSGPQLLFRDVLDVIGQVLPEAT-TTAFEYEDEDGDRITVRSD 59 (91)
T ss_pred CCCcccccccCcccccHHHHHHHHHHhccccc-ccceeeccccCCeeEecch
Confidence 34456677888778899999999998776432 3456699999999888543
No 22
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=44.27 E-value=10 Score=32.50 Aligned_cols=70 Identities=23% Similarity=0.318 Sum_probs=46.1
Q ss_pred cCcccceeeccCCcCCHHHHHHHH---HhhhccCCC--ceEeEEecCCCCeEEecCCChH---HHhhc--ceeeEEecCC
Q 027578 135 DGAPYLRKVDLKLYKSYQELSDAL---GKMFSSFTI--DYVPTYEDKDGDWMLVGDVPWD---MFVDS--CKRLRIMKGS 204 (221)
Q Consensus 135 dG~~igRkvDL~~~~sY~eL~~~L---~~MF~~~~~--~~~l~YeD~eGD~mLVGDvPW~---~Fv~s--vkRLrI~~~s 204 (221)
-|-.|.-+++|..|++|++...+. .++|-..+. ....-+....||++|-|-++=. .++.. -++|||=...
T Consensus 48 AGlDY~~~~~l~~h~s~e~fl~~~~~~~rl~~~tt~~~~~~~~~~f~~~d~llFG~Es~GLP~~i~~~~~~~~irIPm~~ 127 (155)
T COG0219 48 AGLDYHEKASLTEHDSLEAFLEAEPIGGRLFALTTKGTTTYTDVSFQKGDYLLFGPESRGLPEEILDAAPDRCIRIPMRP 127 (155)
T ss_pred cccchHhhcceEEeCCHHHHHhhccCCceEEEEEeccccccccccCCCCCEEEECCCCCCCCHHHHHhCccceEEeccCC
Confidence 466788999999999999999998 567765432 1111144466999999976322 33332 2358874443
No 23
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=37.81 E-value=14 Score=32.13 Aligned_cols=27 Identities=26% Similarity=0.572 Sum_probs=24.0
Q ss_pred ceEeEEecCCCCeEEecCCChHHHhhcceee
Q 027578 168 DYVPTYEDKDGDWMLVGDVPWDMFVDSCKRL 198 (221)
Q Consensus 168 ~~~l~YeD~eGD~mLVGDvPW~~Fv~svkRL 198 (221)
+|..-|.+. .|..|.||+.+++.+++|
T Consensus 99 G~~ae~~~~----~i~T~a~~eev~~l~~~L 125 (190)
T PF09840_consen 99 GYKAEYRED----VIKTDAPLEEVVELAERL 125 (190)
T ss_pred CCeeEEeCC----eEEecCCHHHHHHHHHHH
Confidence 888888665 888999999999999986
No 24
>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=36.01 E-value=1.8e+02 Score=21.53 Aligned_cols=42 Identities=14% Similarity=0.057 Sum_probs=30.2
Q ss_pred CcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCC
Q 027578 136 GAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGD 179 (221)
Q Consensus 136 G~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD 179 (221)
....-|+++ ..-...+|...|+.+|++.-..-+|.|.|.+|.
T Consensus 12 ~~~~ekr~~--~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~ 53 (84)
T cd01789 12 SFSFEKKYS--RGLTIAELKKKLELVVGTPASSMRLQLFDGDDK 53 (84)
T ss_pred ceeeeEecC--CCCcHHHHHHHHHHHHCCCccceEEEEEcCCCC
Confidence 333445555 556889999999999998777777766566543
No 25
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=33.85 E-value=1.7e+02 Score=21.46 Aligned_cols=40 Identities=15% Similarity=0.067 Sum_probs=28.4
Q ss_pred ceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeE
Q 027578 140 LRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWM 181 (221)
Q Consensus 140 gRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~m 181 (221)
-|++++ .-.-.+|...|+.+|++....-+|.|.+.+++-+
T Consensus 17 ekr~~~--~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~ 56 (87)
T PF14560_consen 17 EKRFPK--SITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSK 56 (87)
T ss_dssp EEEEET--TSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSE
T ss_pred EEEcCC--CCCHHHHHHHHHHHhCCCcccEEEEEEecCCCcc
Confidence 345544 4567899999999999988888898885554433
No 26
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=33.80 E-value=62 Score=26.74 Aligned_cols=53 Identities=15% Similarity=0.325 Sum_probs=44.2
Q ss_pred cceEEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecCCChHHHhhccee
Q 027578 127 VAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGDVPWDMFVDSCKR 197 (221)
Q Consensus 127 ~~~vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGDvPW~~Fv~svkR 197 (221)
-.++||..|-. .+|..-|++..+--.++|.|-+==.-++|-.||+.+.+-.+.
T Consensus 70 v~~akVDiD~~------------------~~LA~~fgV~siPTLl~FkdGk~v~~i~G~~~k~~l~~~I~~ 122 (132)
T PRK11509 70 WQVAIADLEQS------------------EAIGDRFGVFRFPATLVFTGGNYRGVLNGIHPWAELINLMRG 122 (132)
T ss_pred eEEEEEECCCC------------------HHHHHHcCCccCCEEEEEECCEEEEEEeCcCCHHHHHHHHHH
Confidence 45888887765 689999999888888889988888889999999999876664
No 27
>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=33.24 E-value=15 Score=31.40 Aligned_cols=9 Identities=56% Similarity=1.202 Sum_probs=6.2
Q ss_pred ccCCCCCCC
Q 027578 10 RLGLPGGNG 18 (221)
Q Consensus 10 rLGLPG~~~ 18 (221)
|||.||+++
T Consensus 101 RLGvPGSGS 109 (154)
T PF11576_consen 101 RLGVPGSGS 109 (154)
T ss_dssp E-SSTTS-E
T ss_pred cccCCCCcc
Confidence 999999874
No 28
>PF00588 SpoU_methylase: SpoU rRNA Methylase family; InterPro: IPR001537 The spoU gene of Escherichia coli codes for a protein that shows strong similarities to previously characterised 2'-O-methyltransferases [, ]. The Pet56 protein of Saccharomyces cerevisiae has been shown to be required for ribose methylation at a universally conserved nucleotide in the peptidyl transferase centre of the mitochondrial large ribosomal RNA (21S rRNA). Cells reduced in this activity were deficient in formation of functional large subunits of the mitochondrial ribosome. The Pet56 protein catalyzes the site-specific formation of 2'-O-methylguanosine on in vitro transcripts of both mitochondrial 21S rRNA and E. coli 23S rRNA providing evidence for an essential modified nucleotide in rRNA [].; GO: 0003723 RNA binding, 0008173 RNA methyltransferase activity, 0006396 RNA processing; PDB: 3N4J_A 3N4K_A 1IPA_A 3ONP_A 3NK6_A 3NK7_A 3IC6_A 1GZ0_D 1MXI_A 1J85_A ....
Probab=32.62 E-value=47 Score=26.17 Aligned_cols=64 Identities=16% Similarity=0.331 Sum_probs=44.7
Q ss_pred eeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecCCChHHHhhcceeeEEecCCcccCCchhhhhhhcc
Q 027578 142 KVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGDVPWDMFVDSCKRLRIMKGSEAIGLAPRAVEKCKN 219 (221)
Q Consensus 142 kvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGDvPW~~Fv~svkRLrI~~~se~~gl~~~~~~~~k~ 219 (221)
.+++..+.+.++++..|..- +|.++=.+..++-+. |+.|. +++-|+=+.|..||.+..++.|..
T Consensus 55 ~~~~~~~~~~~~~l~~~~~~------g~~i~~~~~~~~~~~--~~~~~------~~~~lv~G~E~~Gls~~~~~~~d~ 118 (142)
T PF00588_consen 55 HLPIRRVDDLEEALKDLKEN------GYTIVATSPGATPLY--ELDFP------KKVALVFGNESRGLSEEVLELCDH 118 (142)
T ss_dssp CSHEEEESSHHHHHHHHHHT------TEEEEEESTTSCEGG--GSHTT------SSEEEEEEBTTTBS-HHHHHTSSE
T ss_pred hhheeeeehhhhhccccccc------ccccceeeecccccc--ccccc------cceEEEEcCcCCCCCcccccccce
Confidence 34455567777776666543 466666666555433 66555 889999999999999999999864
No 29
>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=31.66 E-value=1.6e+02 Score=23.01 Aligned_cols=52 Identities=25% Similarity=0.302 Sum_probs=33.6
Q ss_pred ceeeccCCcCCHHHHHHHHHhhhccCC---CceEeEEecCCCCeEEecCC--ChHHHh
Q 027578 140 LRKVDLKLYKSYQELSDALGKMFSSFT---IDYVPTYEDKDGDWMLVGDV--PWDMFV 192 (221)
Q Consensus 140 gRkvDL~~~~sY~eL~~~L~~MF~~~~---~~~~l~YeD~eGD~mLVGDv--PW~~Fv 192 (221)
-|-|.+..--+|.+|...|..+|++.. +.|++-++|.+ -..-|-++ =|.|+-
T Consensus 24 tr~i~V~r~~s~~el~~kl~~~~~~~~~~~lky~Lp~edld-~Lisv~~DeDl~~M~~ 80 (97)
T cd06410 24 TRIVSVDRSISFKELVSKLSELFGAGVVVTLKYQLPDEDLD-ALISVSNDEDLKNMME 80 (97)
T ss_pred eEEEEEcCCCCHHHHHHHHHHHhCCCCceEEEEEcCCCCcc-eeEEecCcHHHHHHHH
Confidence 455555556799999999999999754 36666665554 24444443 344443
No 30
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=28.60 E-value=99 Score=20.43 Aligned_cols=36 Identities=8% Similarity=0.166 Sum_probs=23.5
Q ss_pred CHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecC
Q 027578 150 SYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGD 185 (221)
Q Consensus 150 sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGD 185 (221)
=|++|.++|.+.|+.......+.+++.+-+-+-+|.
T Consensus 19 l~~~i~~~l~~~~g~~~~~v~V~i~e~~~~~~~~gg 54 (58)
T cd00491 19 LIERVTEAVSEILGAPEATIVVIIDEMPKENWGIGG 54 (58)
T ss_pred HHHHHHHHHHHHhCcCcccEEEEEEEeCchhceECC
Confidence 367888888999987665555556665544444443
No 31
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=28.37 E-value=77 Score=21.40 Aligned_cols=39 Identities=10% Similarity=0.054 Sum_probs=24.3
Q ss_pred CHHHHHHHHHhhhccCCCceEeEEecCCCCeEEecCCCh
Q 027578 150 SYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGDVPW 188 (221)
Q Consensus 150 sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGDvPW 188 (221)
=|..|.++|...|++......+++++.+-+-+-+|...|
T Consensus 20 l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~~~~gG~~~ 58 (61)
T PRK02220 20 LVKDVTAAVSKNTGAPAEHIHVIINEMSKNHYAVGGKRL 58 (61)
T ss_pred HHHHHHHHHHHHhCcChhhEEEEEEEeChhHeEECCEEC
Confidence 367888899999998655555555555544444444433
No 32
>KOG1637 consensus Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=27.00 E-value=22 Score=35.73 Aligned_cols=47 Identities=40% Similarity=0.550 Sum_probs=38.8
Q ss_pred CcceEEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCC--------ceEeEEecCCCC
Q 027578 126 NVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI--------DYVPTYEDKDGD 179 (221)
Q Consensus 126 ~~~~vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~--------~~~l~YeD~eGD 179 (221)
+..++=+.=||+=||-|||+... ++|.+-+.+-++ .+.|.|++.+||
T Consensus 369 g~pw~lN~GDGAFYGPKIDi~l~-------Dal~r~hQcaTIQLDFqLP~rFdL~y~~~~g~ 423 (560)
T KOG1637|consen 369 GEPWVLNPGDGAFYGPKIDITLD-------DALGRKHQCATIQLDFQLPIRFDLEYETEDGD 423 (560)
T ss_pred CCCceecCCCcccccceeeeEhh-------hhcCcccceeeeeecccChhhcCceeeccccc
Confidence 34677778899999999998765 488888887554 889999999999
No 33
>COG3816 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.61 E-value=46 Score=29.35 Aligned_cols=32 Identities=38% Similarity=0.463 Sum_probs=24.1
Q ss_pred EEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEecCCCCeEEec
Q 027578 133 SMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYEDKDGDWMLVG 184 (221)
Q Consensus 133 ~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVG 184 (221)
+..|.||||+ .|-++|+. +.-.|.||+.+||-
T Consensus 56 FylGTPIGR~--------------plVrLFSt------vlRkD~Dg~tyLVT 87 (205)
T COG3816 56 FYLGTPIGRK--------------PLVRLFST------VLRKDEDGKTYLVT 87 (205)
T ss_pred EEecCccchH--------------HHHHHHHH------HheECCCCCEEEEe
Confidence 5679999996 78889984 33567888888763
No 34
>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=24.19 E-value=20 Score=32.41 Aligned_cols=46 Identities=28% Similarity=0.468 Sum_probs=31.8
Q ss_pred cceEEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCC--------ceEeEEecCCCC
Q 027578 127 VAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI--------DYVPTYEDKDGD 179 (221)
Q Consensus 127 ~~~vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~--------~~~l~YeD~eGD 179 (221)
-.|...-=+|+-||-|||..+.++ |.+.+.+-|+ .|-++|+|.||.
T Consensus 209 ~~~~~~~g~~afygpkid~~~~d~-------~gr~~q~~t~qld~~~~~~f~l~y~~~~~~ 262 (298)
T cd00771 209 LPYEINEGEGAFYGPKIDFHVKDA-------LGREWQCSTIQLDFNLPERFDLTYIGEDGE 262 (298)
T ss_pred CCceECCCCcccccceEEEEEEeC-------CCCeeecceeEeeccChhhcCCEEEccCCC
Confidence 346666667888899999888753 4444444332 788999999986
No 35
>cd02965 HyaE HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the sole energy source. The E. coli HyaE protein is a chaperone that specifically interacts with the twin-arginine translocation (Tat) signal peptide of the [NiFe] hydrogenase-1 beta subunit precursor. Tat signal peptides target precursor proteins to the Tat protein export system, which facilitates the transport of fully folded proteins across the inner membrane. HyaE may be involved in regulating the traffic of [NiFe] hydrogenase-1 on the Tat transport pathway.
Probab=22.60 E-value=2e+02 Score=22.98 Aligned_cols=37 Identities=24% Similarity=0.333 Sum_probs=31.8
Q ss_pred HHHHhhhccCCCceEeEEecCCCCeEEecCCChHHHh
Q 027578 156 DALGKMFSSFTIDYVPTYEDKDGDWMLVGDVPWDMFV 192 (221)
Q Consensus 156 ~~L~~MF~~~~~~~~l~YeD~eGD~mLVGDvPW~~Fv 192 (221)
.+|..-|++..+--.+.|.|..==..++|..+|.+.+
T Consensus 73 ~~la~~f~V~sIPTli~fkdGk~v~~~~G~~~~~e~~ 109 (111)
T cd02965 73 QALAARFGVLRTPALLFFRDGRYVGVLAGIRDWDEYV 109 (111)
T ss_pred HHHHHHcCCCcCCEEEEEECCEEEEEEeCccCHHHHh
Confidence 4888999998888888899887777889999999875
No 36
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=22.53 E-value=1.3e+02 Score=20.74 Aligned_cols=37 Identities=5% Similarity=-0.069 Sum_probs=24.6
Q ss_pred HHHHHHHHhhhccCCCceEeEEecCCCCeEEecCCCh
Q 027578 152 QELSDALGKMFSSFTIDYVPTYEDKDGDWMLVGDVPW 188 (221)
Q Consensus 152 ~eL~~~L~~MF~~~~~~~~l~YeD~eGD~mLVGDvPW 188 (221)
+.+.+++.+.|+.......+.+.|.+-|-..+|...|
T Consensus 22 ~~it~a~~~~~~~p~~~v~V~i~ev~~~~~~~~g~~~ 58 (60)
T PRK02289 22 REVTEVVSRIAKAPKEAIHVFINDMPEGTYYPQGEMK 58 (60)
T ss_pred HHHHHHHHHHhCcCcceEEEEEEEeChhheEECCEEc
Confidence 4577888889998665666666666665555555544
No 37
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=22.48 E-value=2.3e+02 Score=25.83 Aligned_cols=70 Identities=13% Similarity=0.130 Sum_probs=42.9
Q ss_pred EEcCcccceeec--cCCcCCHHHHHHHHHhhhccCCC-----ceEeEEe--cCCCCeEEecCCChHHHhhcceeeEEecC
Q 027578 133 SMDGAPYLRKVD--LKLYKSYQELSDALGKMFSSFTI-----DYVPTYE--DKDGDWMLVGDVPWDMFVDSCKRLRIMKG 203 (221)
Q Consensus 133 ~MdG~~igRkvD--L~~~~sY~eL~~~L~~MF~~~~~-----~~~l~Ye--D~eGD~mLVGDvPW~~Fv~svkRLrI~~~ 203 (221)
+++-.|+|+--+ ...+=+.+++...|+..|..... .-.-.|. |..|-+=++.-+-. .||.+|-||||-..
T Consensus 188 ~ie~mP~g~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ig~I~~~s~-~fC~~Cnr~rlt~~ 266 (329)
T PRK13361 188 FIEEMPLGEIDERRRARHCSSDEVRAIIETRYPLTPSNKRTGGPARYYTMADSPIHIGFISPHSH-NFCHECNRVRVTAE 266 (329)
T ss_pred EEecccCCCccchhhccCcCHHHHHHHHHHhCCcccCCCCCCCCCeEEEECCCCeEEEEEcCCCc-cccccCCeEEEccC
Confidence 566678887322 34567889999999998763211 1112343 33333434443334 49999999999654
No 38
>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=22.00 E-value=1.4e+02 Score=23.97 Aligned_cols=60 Identities=22% Similarity=0.292 Sum_probs=28.8
Q ss_pred eccCCcCCHHHHHHHHHhhhccCC-----CceEeEEecCCCCeEEecCC-ChH-HHhhcceeeEEecC
Q 027578 143 VDLKLYKSYQELSDALGKMFSSFT-----IDYVPTYEDKDGDWMLVGDV-PWD-MFVDSCKRLRIMKG 203 (221)
Q Consensus 143 vDL~~~~sY~eL~~~L~~MF~~~~-----~~~~l~YeD~eGD~mLVGDv-PW~-~Fv~svkRLrI~~~ 203 (221)
+--..|-+++++...|++.|.... ..-.-.|.=..|. --||=+ |+. .||.+|-||||-..
T Consensus 17 ~~~~~~~~~~ei~~~l~~~~~~~~~~~~~~~pa~~y~~~g~~-g~vG~I~~~s~~FC~~CNRiRlTsd 83 (128)
T PF06463_consen 17 WFEEEFVPAQEILERLEERYELLPSEKRPNGPARYYRIPGGK-GRVGFISPVSNPFCSSCNRIRLTSD 83 (128)
T ss_dssp B-TTTB--HHHHHHHHHHHS-EEEE--SST-SSEEEEETTT---EEEEE-TTTS--GGG--EEEE-TT
T ss_pred chhhcCcCHHHHHHHHHHhCCccccccccCCcceEEEECCCC-cEEEEEeCCCCCCCCcCCEEEEccC
Confidence 344778899999999999988521 1222223222222 223333 222 59999999999553
No 39
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=21.81 E-value=2.4e+02 Score=18.34 Aligned_cols=45 Identities=11% Similarity=0.083 Sum_probs=33.0
Q ss_pred eEEEEEcCcccceeeccCCcCCHHHHHHHHHhhhccCCCceEeEEec
Q 027578 129 FVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTIDYVPTYED 175 (221)
Q Consensus 129 ~vKV~MdG~~igRkvDL~~~~sY~eL~~~L~~MF~~~~~~~~l~YeD 175 (221)
.|.|...+. -..+++.....-.+|...|+..|++......+.|..
T Consensus 2 ~i~vk~~~~--~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g 46 (64)
T smart00213 2 ELTVKTLDG--TITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKG 46 (64)
T ss_pred EEEEEECCc--eEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECC
Confidence 355666662 345677777899999999999999765567777753
No 40
>COG3286 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.48 E-value=74 Score=28.48 Aligned_cols=27 Identities=22% Similarity=0.409 Sum_probs=22.4
Q ss_pred ceEeEEecCCCCeEEecCCChHHHhhcceee
Q 027578 168 DYVPTYEDKDGDWMLVGDVPWDMFVDSCKRL 198 (221)
Q Consensus 168 ~~~l~YeD~eGD~mLVGDvPW~~Fv~svkRL 198 (221)
+|.+-|.+. | |=-+.||+.|++.+++|
T Consensus 102 GyrVevr~~---~-l~T~ap~~ev~E~vreL 128 (204)
T COG3286 102 GYRVEVRGG---E-LKTNAPWSEVVELVREL 128 (204)
T ss_pred CceEEeeCc---e-eecCCCHHHHHHHHHHH
Confidence 788888654 4 88899999999999876
No 41
>PF14688 DUF4461: Domain of unknown function (DUF4461)
Probab=21.45 E-value=60 Score=30.24 Aligned_cols=24 Identities=42% Similarity=0.753 Sum_probs=18.2
Q ss_pred EecCCCCeEE-ecCCC--hHHHhhcce
Q 027578 173 YEDKDGDWML-VGDVP--WDMFVDSCK 196 (221)
Q Consensus 173 YeD~eGD~mL-VGDvP--W~~Fv~svk 196 (221)
-.|.+|+.|| +|||| |..|++.+.
T Consensus 91 Gv~~~G~v~L~~~Dv~~~W~~~l~~l~ 117 (313)
T PF14688_consen 91 GVSLDGHVMLGTGDVPHQWTSFLERLP 117 (313)
T ss_pred ccCCCCCEEecCCCcHHHHHHHHHhCC
Confidence 3577898887 68887 888887665
No 42
>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=21.35 E-value=1.6e+02 Score=19.92 Aligned_cols=38 Identities=11% Similarity=0.113 Sum_probs=23.4
Q ss_pred HHHHHHHHHhhhccCCCc-eEeEEecCCCCeEEecCCChH
Q 027578 151 YQELSDALGKMFSSFTID-YVPTYEDKDGDWMLVGDVPWD 189 (221)
Q Consensus 151 Y~eL~~~L~~MF~~~~~~-~~l~YeD~eGD~mLVGDvPW~ 189 (221)
+.+|.++|...|+..... ++++.+=...+|.. |..+..
T Consensus 21 ~~~it~~l~~~lg~~~~~v~V~i~e~~~~~w~~-gG~~~~ 59 (63)
T TIGR00013 21 IEGVTEAMAETLGANLESIVVIIDEMPKNNYGI-GGELVS 59 (63)
T ss_pred HHHHHHHHHHHhCCCcccEEEEEEEcCHHHeeE-CCEEhh
Confidence 677888888888876544 44544444555555 545443
No 43
>PRK14763 coenzyme PQQ biosynthesis protein A; Provisional
Probab=20.12 E-value=34 Score=21.31 Aligned_cols=8 Identities=63% Similarity=1.107 Sum_probs=6.4
Q ss_pred ccccccCC
Q 027578 6 ATELRLGL 13 (221)
Q Consensus 6 ~TELrLGL 13 (221)
.||||||+
T Consensus 7 ~~d~R~Gf 14 (26)
T PRK14763 7 ATEMRFGF 14 (26)
T ss_pred eeeeeeee
Confidence 57899986
Done!