Query 004300
Match_columns 762
No_of_seqs 221 out of 582
Neff 3.2
Searched_HMMs 46136
Date Thu Mar 28 21:03:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004300.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004300hhsearch_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 3.1E-44 6.6E-49 354.6 0.6 118 596-727 83-214 (215)
2 PF00564 PB1: PB1 domain; Int 97.8 7E-05 1.5E-09 63.4 6.7 66 639-711 4-70 (84)
3 smart00666 PB1 PB1 domain. Pho 97.4 0.00074 1.6E-08 57.3 7.5 65 639-711 4-69 (81)
4 cd05992 PB1 The PB1 domain is 97.2 0.0016 3.5E-08 54.9 7.4 65 639-711 3-69 (81)
5 cd06407 PB1_NLP A PB1 domain i 96.7 0.0045 9.8E-08 54.9 6.8 60 639-705 3-63 (82)
6 cd06396 PB1_NBR1 The PB1 domai 96.6 0.0058 1.3E-07 54.7 6.3 60 639-707 3-64 (81)
7 cd06409 PB1_MUG70 The MUG70 pr 96.3 0.0077 1.7E-07 54.4 5.5 49 647-699 9-59 (86)
8 cd06403 PB1_Par6 The PB1 domai 96.2 0.015 3.3E-07 52.1 6.9 66 639-711 3-70 (80)
9 cd06398 PB1_Joka2 The PB1 doma 96.2 0.014 2.9E-07 52.9 6.7 67 638-712 2-72 (91)
10 cd06401 PB1_TFG The PB1 domain 96.2 0.02 4.4E-07 51.4 7.4 73 639-716 3-79 (81)
11 cd06402 PB1_p62 The PB1 domain 93.7 0.31 6.7E-06 44.3 7.6 56 638-699 2-63 (87)
12 cd06404 PB1_aPKC PB1 domain is 93.5 0.17 3.8E-06 45.8 5.7 53 639-699 3-56 (83)
13 cd06397 PB1_UP1 Uncharacterize 93.3 0.2 4.4E-06 45.3 5.8 65 640-712 4-69 (82)
14 cd06399 PB1_P40 The PB1 domain 92.2 0.23 5E-06 45.7 4.7 52 652-729 23-74 (92)
15 cd06408 PB1_NoxR The PB1 domai 91.6 0.49 1.1E-05 43.1 6.1 65 637-711 3-68 (86)
16 PF00788 RA: Ras association ( 83.2 3.3 7.1E-05 35.3 5.8 69 636-709 2-77 (93)
17 cd06406 PB1_P67 A PB1 domain i 69.1 17 0.00036 33.1 6.4 65 638-711 4-69 (80)
18 PF14847 Ras_bdg_2: Ras-bindin 52.2 48 0.001 31.3 6.6 61 638-703 2-66 (105)
19 cd06395 PB1_Map2k5 PB1 domain 50.0 33 0.00071 31.9 4.9 52 640-699 6-57 (91)
20 PF06463 Mob_synth_C: Molybden 49.6 27 0.00059 33.3 4.6 68 648-718 14-83 (128)
21 cd06410 PB1_UP2 Uncharacterize 46.2 38 0.00082 31.4 4.8 34 641-674 17-50 (97)
22 KOG3938 RGS-GAIP interacting p 45.6 28 0.0006 38.3 4.4 75 643-726 61-143 (334)
23 PF02362 B3: B3 DNA binding do 44.3 4.5 9.7E-05 35.2 -1.4 32 676-709 38-71 (100)
24 COG0219 CspR Predicted rRNA me 43.2 7.1 0.00015 39.2 -0.3 77 643-724 47-132 (155)
25 smart00314 RA Ras association 38.5 1.2E+02 0.0027 26.3 6.7 68 637-709 3-75 (90)
26 PF10411 DsbC_N: Disulfide bon 38.4 24 0.00053 29.3 2.2 17 685-701 34-50 (57)
27 COG3723 RecT Recombinational D 37.6 16 0.00034 39.6 1.1 94 647-754 93-196 (276)
28 cd01789 Alp11_N Ubiquitin-like 35.3 1.4E+02 0.003 26.4 6.5 22 653-674 19-40 (84)
29 PRK11430 putative CoA-transfer 33.3 29 0.00064 38.5 2.4 65 646-712 195-268 (381)
30 KOG3606 Cell polarity protein 33.2 53 0.0012 36.3 4.2 75 643-724 24-104 (358)
31 PRK13361 molybdenum cofactor b 33.0 97 0.0021 33.4 6.1 73 646-721 193-269 (329)
32 PHA01548 hypothetical protein 27.7 56 0.0012 32.9 3.0 64 640-703 45-140 (167)
33 PF14688 DUF4461: Domain of un 23.5 97 0.0021 34.1 4.2 29 683-711 81-117 (313)
34 COG0391 Uncharacterized conser 23.4 1.2E+02 0.0026 33.8 4.9 70 647-717 103-173 (323)
35 PF14560 Ubiquitin_2: Ubiquiti 23.2 2.2E+02 0.0047 25.0 5.6 36 653-695 20-55 (87)
36 cd05143 Barstar_SaI14_like Bar 23.1 87 0.0019 28.9 3.2 59 650-708 2-76 (88)
37 KOG0695 Serine/threonine prote 22.6 87 0.0019 35.9 3.6 114 635-762 14-140 (593)
38 PF14468 DUF4427: Protein of u 21.9 91 0.002 30.9 3.2 53 636-690 56-121 (132)
39 KOG0291 WD40-repeat-containing 21.6 56 0.0012 40.1 2.1 60 649-722 417-480 (893)
40 PF01902 ATP_bind_4: ATP-bindi 21.2 1.7E+02 0.0036 30.7 5.2 34 635-675 136-178 (218)
41 PF02762 Cbl_N3: CBL proto-onc 20.4 1.4E+02 0.003 27.8 3.8 44 655-698 7-54 (86)
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=3.1e-44 Score=354.55 Aligned_cols=118 Identities=36% Similarity=0.630 Sum_probs=5.9
Q ss_pred ccccccCCCCCCCCCCCccccccCCCcccCCcccccccCccceEEEeecC-cccceeecCCCCCHHHHHHHHHHHh---c
Q 004300 596 SSQSFAVPNIPFKPACSNEVGINEAGVLGNGLWANQTQRMRTFTKVQKRG-SVGRSIDVTRYKGYDELRHDLARMF---G 671 (762)
Q Consensus 596 kSQvVGWPPVrsyRkNS~~s~~nd~g~ln~g~~~~~~~~~r~yVKV~MdG-aVGRkVDLs~y~sY~eL~~~Le~MF---g 671 (762)
+.++||||||++||||.+... .....++||||+||| +|||||||++|+||++|+.+|++|| +
T Consensus 83 ~~~~vgwpp~~s~r~n~~~~~--------------~~~~~~~~vKV~mdG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~ 148 (215)
T PF02309_consen 83 KAQVVGWPPVRSFRKNSLSEK--------------QSSSSRSYVKVNMDGVPIGRKVDLSAYSSYEELSSALEKMFSCFS 148 (215)
T ss_dssp ---BTTBS----S-------------------------------------------------------------------
T ss_pred cccccCCCccccccccccccc--------------ccccCCceeEEEecCcccceecCHHHhhCHHHHHHHHHHhcCCCC
Confidence 789999999999999877611 112358999999999 8999999999999999999999999 6
Q ss_pred cc----------CccCCCCCCCcEEEEEeCCCCeEecCCCChhhhhhcceEeEEechhhhhhccCC
Q 004300 672 IE----------GQLEDPQSSDWKLVYVDHENDILLVGDDPWDEFVSCVQSIKILSSAEVQQMSLD 727 (762)
Q Consensus 672 ie----------g~Led~~~s~w~LvYeD~EGD~MLVGDvPWe~Fv~sVKRIrIms~sEv~~m~~~ 727 (762)
|+ +.+++.++++|+|||+|+||||||||||||+|||++|||||||+.+|+.+|++.
T Consensus 149 i~~~~~~~~~~~~~~~~~~~~~~~l~Y~D~egd~mlvGD~PW~~F~~~vkRl~I~~~~e~~~~~~r 214 (215)
T PF02309_consen 149 IEQCGSHGLNESGLLDLLNGSEYVLVYEDKEGDWMLVGDVPWEEFVKSVKRLRIMKSSEAKGLAPR 214 (215)
T ss_dssp ------------------------------------------------------------------
T ss_pred ccccccccccchhhccccCCcceeEEEECCCCCEEEecCCCHHHHHHHhhccEEecHHHhcccCCC
Confidence 65 334455678999999999999999999999999999999999999999999873
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=97.77 E-value=7e-05 Score=63.44 Aligned_cols=66 Identities=24% Similarity=0.509 Sum_probs=56.2
Q ss_pred EEEeecCcccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecCC-CChhhhhhcce
Q 004300 639 TKVQKRGSVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGD-DPWDEFVSCVQ 711 (762)
Q Consensus 639 VKV~MdGaVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGD-vPWe~Fv~sVK 711 (762)
+||+-.|.+=|.+.+..--+|++|+.++++.|++. ...+.|.|.|.||||..+.+ .=|++.+..++
T Consensus 4 vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~-------~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~ 70 (84)
T PF00564_consen 4 VKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLL-------DEDFQLKYKDEDGDLVTISSDEDLQEAIEQAK 70 (84)
T ss_dssp EEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTS-------TSSEEEEEEETTSSEEEESSHHHHHHHHHHHH
T ss_pred EEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCC-------CccEEEEeeCCCCCEEEeCCHHHHHHHHHHHH
Confidence 78888887766789988889999999999999986 24789999999999998875 46888877765
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=97.36 E-value=0.00074 Score=57.28 Aligned_cols=65 Identities=23% Similarity=0.509 Sum_probs=52.5
Q ss_pred EEEeecCcccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecCC-CChhhhhhcce
Q 004300 639 TKVQKRGSVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGD-DPWDEFVSCVQ 711 (762)
Q Consensus 639 VKV~MdGaVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGD-vPWe~Fv~sVK 711 (762)
+||.- |.--|.+-+..--+|++|+.++.+.|++.+ ..+.|.|+|.||||..+.+ .=|++.+..++
T Consensus 4 vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~-------~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 4 VKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDN-------QSFTLKYQDEDGDLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCC-------CCeEEEEECCCCCEEEecCHHHHHHHHHHHH
Confidence 57766 555677888888999999999999999653 4689999999999987764 57877777655
No 4
>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=97.16 E-value=0.0016 Score=54.86 Aligned_cols=65 Identities=26% Similarity=0.551 Sum_probs=50.3
Q ss_pred EEEeecCcccceeecC-CCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecCC-CChhhhhhcce
Q 004300 639 TKVQKRGSVGRSIDVT-RYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGD-DPWDEFVSCVQ 711 (762)
Q Consensus 639 VKV~MdGaVGRkVDLs-~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGD-vPWe~Fv~sVK 711 (762)
|||+-.|.+ |.+=+. .--+|++|+..|++.|++.. ..+.+.|+|.||||..+.+ .=|++.++.++
T Consensus 3 vK~~~~~~~-~~~~~~~~~~s~~~L~~~i~~~~~~~~-------~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~ 69 (81)
T cd05992 3 VKVKYGGEI-RRFVVVSRSISFEDLRSKIAEKFGLDA-------VSFKLKYPDEDGDLVTISSDEDLEEAIEEAR 69 (81)
T ss_pred EEEEecCCC-EEEEEecCCCCHHHHHHHHHHHhCCCC-------CcEEEEeeCCCCCEEEeCCHHHHHHHHHHHh
Confidence 688777643 223333 88899999999999999753 3689999999999998887 57777776655
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=96.73 E-value=0.0045 Score=54.88 Aligned_cols=60 Identities=22% Similarity=0.433 Sum_probs=44.9
Q ss_pred EEEeecCcccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecC-CCChhh
Q 004300 639 TKVQKRGSVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVG-DDPWDE 705 (762)
Q Consensus 639 VKV~MdGaVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVG-DvPWe~ 705 (762)
|||...|. -+.+-|..--+|++|+.+++++|+++. ..++.|-|.|.||||.++- |.=+++
T Consensus 3 vK~~~~~d-~~r~~l~~~~~~~~L~~~i~~r~~~~~------~~~f~LkY~Ddegd~v~ltsd~DL~e 63 (82)
T cd06407 3 VKATYGEE-KIRFRLPPSWGFTELKQEIAKRFKLDD------MSAFDLKYLDDDEEWVLLTCDADLEE 63 (82)
T ss_pred EEEEeCCe-EEEEEcCCCCCHHHHHHHHHHHhCCCC------CCeeEEEEECCCCCeEEeecHHHHHH
Confidence 78888775 334555555699999999999999752 2579999999999998764 333433
No 6
>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=96.56 E-value=0.0058 Score=54.71 Aligned_cols=60 Identities=22% Similarity=0.362 Sum_probs=46.4
Q ss_pred EEEeecCc-ccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecC-CCChhhhh
Q 004300 639 TKVQKRGS-VGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVG-DDPWDEFV 707 (762)
Q Consensus 639 VKV~MdGa-VGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVG-DvPWe~Fv 707 (762)
|||.-.|. +-=+++-+..-+|++|..+++++|++. .+.|.|.|.||||.++- |.=.++.+
T Consensus 3 vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~---------~f~lKYlDde~e~v~lssd~eLeE~~ 64 (81)
T cd06396 3 LKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN---------DIQIKYVDEENEEVSVNSQGEYEEAL 64 (81)
T ss_pred EEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC---------cceeEEEcCCCCEEEEEchhhHHHHH
Confidence 68888884 444666666889999999999999986 46999999999997664 33344443
No 7
>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=96.30 E-value=0.0077 Score=54.39 Aligned_cols=49 Identities=29% Similarity=0.436 Sum_probs=39.0
Q ss_pred ccceee--cCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecC
Q 004300 647 VGRSID--VTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVG 699 (762)
Q Consensus 647 VGRkVD--Ls~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVG 699 (762)
-||.+= +....||.+|+.++++-|+++... ...+.|.|+|.||||.++-
T Consensus 9 ~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~----~~~~~L~YlDDEgD~VllT 59 (86)
T cd06409 9 KGRVHRFRLRPSESLEELRTLISQRLGDDDFE----THLYALSYVDDEGDIVLIT 59 (86)
T ss_pred CCCEEEEEecCCCCHHHHHHHHHHHhCCcccc----CCcccEEEEcCCCCEEEEe
Confidence 455444 444789999999999999987542 3589999999999998775
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=96.23 E-value=0.015 Score=52.12 Aligned_cols=66 Identities=21% Similarity=0.349 Sum_probs=50.5
Q ss_pred EEEeecCcccc-eeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecC-CCChhhhhhcce
Q 004300 639 TKVQKRGSVGR-SIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVG-DDPWDEFVSCVQ 711 (762)
Q Consensus 639 VKV~MdGaVGR-kVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVG-DvPWe~Fv~sVK 711 (762)
||..-++.+-| ++|-....+|+|++.-|++||.|.+ ..+.|-|.|.+||.+-+- |+-+..=+.+++
T Consensus 3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l~~-------~~f~i~Y~D~~gDLLPInNDdNf~kAlssa~ 70 (80)
T cd06403 3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHIPN-------VDFLIGYTDPHGDLLPINNDDNFLKALSSAN 70 (80)
T ss_pred eecccCCeEEEEEeccccCcCHHHHHHHHHHHhCCCC-------CcEEEEEeCCCCCEecccCcHHHHHHHHcCC
Confidence 55444444422 4566667999999999999999865 478999999999999876 667777666776
No 9
>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=96.21 E-value=0.014 Score=52.93 Aligned_cols=67 Identities=24% Similarity=0.433 Sum_probs=48.7
Q ss_pred eEEEeecCc-ccceeecC---CCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecCCCChhhhhhcceE
Q 004300 638 FTKVQKRGS-VGRSIDVT---RYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGDDPWDEFVSCVQS 712 (762)
Q Consensus 638 yVKV~MdGa-VGRkVDLs---~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGDvPWe~Fv~sVKR 712 (762)
-|||.-+|. +==++++. .--+|++|..++++.|.+.. ..+|.|.|.|.||||..+-++ ++|..++.+
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 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSP------DADLSLTYTDEDGDVVTLVDD--NDLTDAIQY 72 (91)
T ss_pred EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCC------CCcEEEEEECCCCCEEEEccH--HHHHHHHHH
Confidence 378888875 23344443 45799999999999998743 358999999999999888543 445544443
No 10
>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=96.16 E-value=0.02 Score=51.44 Aligned_cols=73 Identities=23% Similarity=0.306 Sum_probs=50.6
Q ss_pred EEEeecCcccceeecCCC-CCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecCCC---ChhhhhhcceEeE
Q 004300 639 TKVQKRGSVGRSIDVTRY-KGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGDD---PWDEFVSCVQSIK 714 (762)
Q Consensus 639 VKV~MdGaVGRkVDLs~y-~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGDv---PWe~Fv~sVKRIr 714 (762)
+|+.-.|.|=| +=+..- -+|.+|+..+.+.|... .+....+.+.|.|.|||+.-+.+. -|..=+...++|+
T Consensus 3 iK~~~g~DiR~-~~~~~~~~t~~~L~~~v~~~F~~~----~~~~~~flIKYkD~dGDlVTIts~~dL~~A~~~~~~~~l~ 77 (81)
T cd06401 3 LKAQLGDDIRR-IPIHNEDITYDELLLMMQRVFRGK----LGSSDDVLIKYKDEDGDLITIFDSSDLSFAIQCSRILKLT 77 (81)
T ss_pred EEEEeCCeEEE-EeccCccccHHHHHHHHHHHhccc----cCCcccEEEEEECCCCCEEEeccHHHHHHHHhcCcceEEE
Confidence 57666566644 444332 39999999999999943 123467899999999999998875 4444444455665
Q ss_pred Ee
Q 004300 715 IL 716 (762)
Q Consensus 715 Im 716 (762)
|.
T Consensus 78 ~~ 79 (81)
T cd06401 78 LF 79 (81)
T ss_pred Ee
Confidence 53
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=93.65 E-value=0.31 Score=44.35 Aligned_cols=56 Identities=23% Similarity=0.319 Sum_probs=41.6
Q ss_pred eEEEeecC----cccce--eecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecC
Q 004300 638 FTKVQKRG----SVGRS--IDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVG 699 (762)
Q Consensus 638 yVKV~MdG----aVGRk--VDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVG 699 (762)
.||.|-.| +==|+ ||-....+|++|+..+.++|..- . +..+.|.|.|.|||..-+.
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~l---~---~~~ftlky~DeeGDlvtIs 63 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPSL---R---GKNFQLFWKDEEGDLVAFS 63 (87)
T ss_pred eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHcccc---C---CCcEEEEEECCCCCEEeec
Confidence 57888766 32344 45577779999999999999532 1 2579999999999995443
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=93.46 E-value=0.17 Score=45.83 Aligned_cols=53 Identities=23% Similarity=0.353 Sum_probs=41.6
Q ss_pred EEEeecCccc-ceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecC
Q 004300 639 TKVQKRGSVG-RSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVG 699 (762)
Q Consensus 639 VKV~MdGaVG-RkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVG 699 (762)
+|++-.|.|- -.+|. .-+|++|..++++||... .+..+++.|.|.|||---+.
T Consensus 3 ~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~~------~~q~ft~kw~DEEGDp~tiS 56 (83)
T cd06404 3 VKAAYNGDIMITSIDP--SISLEELCNEVRDMCRFH------NDQPFTLKWIDEEGDPCTIS 56 (83)
T ss_pred EEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCCC------CCCcEEEEEECCCCCceeec
Confidence 6888899643 34454 778999999999999963 23579999999999985544
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=93.30 E-value=0.2 Score=45.31 Aligned_cols=65 Identities=15% Similarity=0.278 Sum_probs=48.7
Q ss_pred EEeecCcccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecC-CCChhhhhhcceE
Q 004300 640 KVQKRGSVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVG-DDPWDEFVSCVQS 712 (762)
Q Consensus 640 KV~MdGaVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVG-DvPWe~Fv~sVKR 712 (762)
||. -|.--|++-...-=+|.+|+..|+.+|.+... .+.|+|.|.|||..-+- |+=.++|.+-..|
T Consensus 4 Kv~-~~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~-------~~~vtYiDeD~D~ITlssd~eL~d~~~~~~~ 69 (82)
T cd06397 4 KSS-FLGDTRRIVFPDIPTWEALASKLENLYNLPEI-------KVGVTYIDNDNDEITLSSNKELQDFYRLSHR 69 (82)
T ss_pred EEE-eCCceEEEecCCCccHHHHHHHHHHHhCCChh-------HeEEEEEcCCCCEEEecchHHHHHHHHhccc
Confidence 774 44456777788888999999999999998531 27999999999986554 4566666654444
No 14
>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=92.24 E-value=0.23 Score=45.72 Aligned_cols=52 Identities=31% Similarity=0.376 Sum_probs=45.3
Q ss_pred ecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecCCCChhhhhhcceEeEEechhhhhhccCCCC
Q 004300 652 DVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGDDPWDEFVSCVQSIKILSSAEVQQMSLDGD 729 (762)
Q Consensus 652 DLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGDvPWe~Fv~sVKRIrIms~sEv~~m~~~~~ 729 (762)
||+.--.|.+|.....+-|..+ +-.|-|.|.|||. ||||+.+||.=|-.+++
T Consensus 23 ~l~~~P~~kdLl~lmr~~f~~~---------dIaLNYrD~EGDL-----------------IRllddeDv~LMV~~~r 74 (92)
T cd06399 23 DLSSTPLLKDLLELTRREFQRE---------DIALNYRDAEGDL-----------------IRLLSDEDVALMVRQSR 74 (92)
T ss_pred ccccCccHHHHHHHHHHHhchh---------heeeeeecCCCCE-----------------EEEcchhhHHHHHHHHh
Confidence 6788889999999999999854 3489999999999 99999999999977654
No 15
>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=91.63 E-value=0.49 Score=43.11 Aligned_cols=65 Identities=20% Similarity=0.378 Sum_probs=48.2
Q ss_pred ceEEEeecCcccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecCCC-Chhhhhhcce
Q 004300 637 TFTKVQKRGSVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGDD-PWDEFVSCVQ 711 (762)
Q Consensus 637 ~yVKV~MdGaVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGDv-PWe~Fv~sVK 711 (762)
.=|||+-.|. -|-|-+..-=+|++|..++.++|++. ..++|-|.|. ||..-++|. =-++=+.++|
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-TRYIMIGPDTGFADFEDKIRDKFGFK--------RRLKIKMKDD-GDMITMGDQDDLDMAIDTAR 68 (86)
T ss_pred EEEEEEecCc-EEEEEcCCCCCHHHHHHHHHHHhCCC--------CceEEEEEcC-CCCccccCHHHHHHHHHHHH
Confidence 3478887775 45566666667999999999999984 2679999999 999888763 4444444444
No 16
>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=83.23 E-value=3.3 Score=35.33 Aligned_cols=69 Identities=19% Similarity=0.170 Sum_probs=51.7
Q ss_pred cceEEEeecCcc----cceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEE-E-EeCCCCeEecCC-CChhhhhh
Q 004300 636 RTFTKVQKRGSV----GRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLV-Y-VDHENDILLVGD-DPWDEFVS 708 (762)
Q Consensus 636 r~yVKV~MdGaV----GRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~Lv-Y-eD~EGD~MLVGD-vPWe~Fv~ 708 (762)
+.++|||....- -++|=++....-.|++..+.+.|++.+ +..+|.|+ + .....+..|-.| .|+..+..
T Consensus 2 ~~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~-----~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~ 76 (93)
T PF00788_consen 2 SGVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAE-----DPSDYCLVEVEESGGEERPLDDDECPLQIQLQ 76 (93)
T ss_dssp EEEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSS-----SGGGEEEEEEECTTTEEEEETTTSBHHHHHHT
T ss_pred CeEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCC-----CCCCEEEEEEEcCCCEEEEcCCCCchHHHHHh
Confidence 358999988633 889999999999999999999999932 24589995 4 455555666544 48877765
Q ss_pred c
Q 004300 709 C 709 (762)
Q Consensus 709 s 709 (762)
-
T Consensus 77 ~ 77 (93)
T PF00788_consen 77 W 77 (93)
T ss_dssp T
T ss_pred C
Confidence 4
No 17
>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=69.09 E-value=17 Score=33.12 Aligned_cols=65 Identities=17% Similarity=0.274 Sum_probs=48.9
Q ss_pred eEEEeecCcccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCC-CeEecCCCChhhhhhcce
Q 004300 638 FTKVQKRGSVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHEN-DILLVGDDPWDEFVSCVQ 711 (762)
Q Consensus 638 yVKV~MdGaVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EG-D~MLVGDvPWe~Fv~sVK 711 (762)
-|||+-.+- =.|-...=-+|.+|+..|.+-|.+-++ +-+|-|.|.++ +...+||.=||.-.+.||
T Consensus 4 vvKV~f~~t--IaIrvp~~~~y~~L~~ki~~kLkl~~e-------~i~LsYkde~s~~~v~l~d~dle~aws~~~ 69 (80)
T cd06406 4 VVKVHFKYT--VAIQVARGLSYATLLQKISSKLELPAE-------HITLSYKSEASGEDVILSDTNMEDVWSQAK 69 (80)
T ss_pred EEEEEEEEE--EEEEcCCCCCHHHHHHHHHHHhCCCch-------hcEEEeccCCCCCccCcChHHHHHHHHhhc
Confidence 589998882 234444555799999999999998532 34899988774 444449999999888888
No 18
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=52.15 E-value=48 Score=31.30 Aligned_cols=61 Identities=10% Similarity=0.230 Sum_probs=40.3
Q ss_pred eEEEeecCcccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeC----CCCeEecCCCCh
Q 004300 638 FTKVQKRGSVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDH----ENDILLVGDDPW 703 (762)
Q Consensus 638 yVKV~MdGaVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~----EGD~MLVGDvPW 703 (762)
.++|.-++..-|+||++...+.+|+....-+-||+.+. ...|.+.+.|. ++..-+++|+=.
T Consensus 2 vi~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~~-----~~~~~~~v~d~~~~~~~~~~~LsD~EL 66 (105)
T PF14847_consen 2 VIRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPEH-----PRNYCFYVLDGESPDPSNCRPLSDVEL 66 (105)
T ss_dssp EEEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS-------CCCEEEEEE-S-----SSEEEE-SSHH
T ss_pred EEEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCccc-----cccceEEEecccccccccceECcHHHH
Confidence 36777778888999999999999999999999999872 34566666665 566667777633
No 19
>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=49.97 E-value=33 Score=31.85 Aligned_cols=52 Identities=13% Similarity=0.236 Sum_probs=37.9
Q ss_pred EEeecCcccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecC
Q 004300 640 KVQKRGSVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVG 699 (762)
Q Consensus 640 KV~MdGaVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVG 699 (762)
|+--.|++--.||....=+|.+++.++.+..--. .--.+-|||.|||.+-|-
T Consensus 6 k~p~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~a--------T~tAFeYEDE~gDRITVR 57 (91)
T cd06395 6 KIPNGGAVDWTVQSGPQLLFRDVLDVIGQVLPEA--------TTTAFEYEDEDGDRITVR 57 (91)
T ss_pred eCCCCCcccccccCcccccHHHHHHHHHHhcccc--------cccceeeccccCCeeEec
Confidence 4433357888999888889999999998876521 122567999999985553
No 20
>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=49.64 E-value=27 Score=33.27 Aligned_cols=68 Identities=13% Similarity=0.156 Sum_probs=32.9
Q ss_pred cceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEE--eCCCCeEecCCCChhhhhhcceEeEEech
Q 004300 648 GRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYV--DHENDILLVGDDPWDEFVSCVQSIKILSS 718 (762)
Q Consensus 648 GRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYe--D~EGD~MLVGDvPWe~Fv~sVKRIrIms~ 718 (762)
|+.+--..|-+|++++..|++.|++........ +-.-.|. +..|.+=++.-+-= .||..|.||||-+.
T Consensus 14 ~~~~~~~~~~~~~ei~~~l~~~~~~~~~~~~~~--~pa~~y~~~g~~g~vG~I~~~s~-~FC~~CNRiRlTsd 83 (128)
T PF06463_consen 14 GNNWFEEEFVPAQEILERLEERYELLPSEKRPN--GPARYYRIPGGKGRVGFISPVSN-PFCSSCNRIRLTSD 83 (128)
T ss_dssp TSSB-TTTB--HHHHHHHHHHHS-EEEE--SST---SSEEEEETTT--EEEEE-TTTS---GGG--EEEE-TT
T ss_pred CCCchhhcCcCHHHHHHHHHHhCCccccccccC--CcceEEEECCCCcEEEEEeCCCC-CCCCcCCEEEEccC
Confidence 444455788999999999999998643211112 2233333 33334444433322 39999999998763
No 21
>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=46.20 E-value=38 Score=31.45 Aligned_cols=34 Identities=26% Similarity=0.420 Sum_probs=25.8
Q ss_pred EeecCcccceeecCCCCCHHHHHHHHHHHhcccC
Q 004300 641 VQKRGSVGRSIDVTRYKGYDELRHDLARMFGIEG 674 (762)
Q Consensus 641 V~MdGaVGRkVDLs~y~sY~eL~~~Le~MFgieg 674 (762)
+.--|.--|-|.+.+--+|.||..+|.++|++..
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~ 50 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFGAGV 50 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCC
Confidence 3333555566777777799999999999999764
No 22
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=45.55 E-value=28 Score=38.28 Aligned_cols=75 Identities=19% Similarity=0.349 Sum_probs=55.2
Q ss_pred ecC-cccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEe--CCCCeEecCCCChhhhh-----hcceEeE
Q 004300 643 KRG-SVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVD--HENDILLVGDDPWDEFV-----SCVQSIK 714 (762)
Q Consensus 643 MdG-aVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD--~EGD~MLVGDvPWe~Fv-----~sVKRIr 714 (762)
-+| ++|| +..|++-+|||..+++-|+|.-. | -.-.|.-+ -|=+.||-|-.-.++|+ .-.|.++
T Consensus 61 AHGSptg~---Ie~fsnv~ELY~kIAe~F~Is~~--d----IlfcTlNshKvDM~~llgGqigleDfiFAHvkGq~kEv~ 131 (334)
T KOG3938|consen 61 AHGSPTGR---IEGFSNVRELYQKIAEAFDISPD--D----ILFCTLNSHKVDMKRLLGGQIGLEDFIFAHVKGQAKEVE 131 (334)
T ss_pred ccCCccce---ecccccHHHHHHHHHHHhcCCcc--c----eEEEecCCCcccHHHHhcCccChhhhhhhhhcCcceeEE
Confidence 457 6887 56899999999999999998532 0 00111112 23445899999999987 4578999
Q ss_pred EechhhhhhccC
Q 004300 715 ILSSAEVQQMSL 726 (762)
Q Consensus 715 Ims~sEv~~m~~ 726 (762)
|++.+++-+++.
T Consensus 132 v~KsedalGlTI 143 (334)
T KOG3938|consen 132 VVKSEDALGLTI 143 (334)
T ss_pred EEecccccceEE
Confidence 999999998865
No 23
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=44.28 E-value=4.5 Score=35.15 Aligned_cols=32 Identities=28% Similarity=0.667 Sum_probs=23.3
Q ss_pred cCCCCCCCcEEEE--EeCCCCeEecCCCChhhhhhc
Q 004300 676 LEDPQSSDWKLVY--VDHENDILLVGDDPWDEFVSC 709 (762)
Q Consensus 676 Led~~~s~w~LvY--eD~EGD~MLVGDvPWe~Fv~s 709 (762)
|.|+.+..|.+.| ..+.+..+|-+ =|..||..
T Consensus 38 l~~~~g~~W~v~~~~~~~~~~~~l~~--GW~~Fv~~ 71 (100)
T PF02362_consen 38 LKDPDGRSWPVKLKYRKNSGRYYLTG--GWKKFVRD 71 (100)
T ss_dssp EEETTTEEEEEEEEEECCTTEEEEET--THHHHHHH
T ss_pred EEeCCCCEEEEEEEEEccCCeEEECC--CHHHHHHH
Confidence 4566788999999 66666666652 29999963
No 24
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=43.20 E-value=7.1 Score=39.25 Aligned_cols=77 Identities=16% Similarity=0.255 Sum_probs=49.1
Q ss_pred ecC-cccceeecCCCCCHHHHHHHH---HHHhcccCccCCCCCCCcEEEEEeCCCCeEecCCCCh---hhhhhc--ceEe
Q 004300 643 KRG-SVGRSIDVTRYKGYDELRHDL---ARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGDDPW---DEFVSC--VQSI 713 (762)
Q Consensus 643 MdG-aVGRkVDLs~y~sY~eL~~~L---e~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGDvPW---e~Fv~s--VKRI 713 (762)
+-| .|.-+|+|..|++|++...+. .|+|.++-.-.. .-+. +...+||++|.|-+.= +++++. -++|
T Consensus 47 RAGlDY~~~~~l~~h~s~e~fl~~~~~~~rl~~~tt~~~~---~~~~--~~f~~~d~llFG~Es~GLP~~i~~~~~~~~i 121 (155)
T COG0219 47 RAGLDYHEKASLTEHDSLEAFLEAEPIGGRLFALTTKGTT---TYTD--VSFQKGDYLLFGPESRGLPEEILDAAPDRCI 121 (155)
T ss_pred hcccchHhhcceEEeCCHHHHHhhccCCceEEEEEecccc---cccc--ccCCCCCEEEECCCCCCCCHHHHHhCccceE
Confidence 347 799999999999999999998 577776533111 1111 4446699999997632 234433 3357
Q ss_pred EEechhhhhhc
Q 004300 714 KILSSAEVQQM 724 (762)
Q Consensus 714 rIms~sEv~~m 724 (762)
||=-..++.-|
T Consensus 122 rIPm~~~~RSL 132 (155)
T COG0219 122 RIPMRPGVRSL 132 (155)
T ss_pred EeccCCCCccc
Confidence 77443444433
No 25
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=38.47 E-value=1.2e+02 Score=26.30 Aligned_cols=68 Identities=13% Similarity=0.169 Sum_probs=48.7
Q ss_pred ceEEEeecC---cccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEe-CCCCeEecC-CCChhhhhhc
Q 004300 637 TFTKVQKRG---SVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVD-HENDILLVG-DDPWDEFVSC 709 (762)
Q Consensus 637 ~yVKV~MdG---aVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD-~EGD~MLVG-DvPWe~Fv~s 709 (762)
..+||+... .--+.|-++....-.+++..+.+-|++++. -.+|.|+=+= .+.+..|-. +-||..+..-
T Consensus 3 ~~lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~-----~~~y~L~e~~~~~~er~L~~~e~Pl~~~~~~ 75 (90)
T smart00314 3 FVLRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHLTDD-----PEEYVLVEVLPDGKERVLPDDENPLQLQKLW 75 (90)
T ss_pred eEEEEecccCCCCcEEEEEECCCCCHHHHHHHHHHHhCCCCC-----cccEEEEEEeCCcEEEEeCCCCcceEehhhC
Confidence 478999877 567899999999999999999999998753 2467765442 222344444 3477766543
No 26
>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=38.36 E-value=24 Score=29.32 Aligned_cols=17 Identities=29% Similarity=0.602 Sum_probs=14.8
Q ss_pred EEEEEeCCCCeEecCCC
Q 004300 685 KLVYVDHENDILLVGDD 701 (762)
Q Consensus 685 ~LvYeD~EGD~MLVGDv 701 (762)
.++|.|.||+.+++|+.
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 69999999999999974
No 27
>COG3723 RecT Recombinational DNA repair protein (RecE pathway) [DNA replication, recombination, and repair]
Probab=37.59 E-value=16 Score=39.60 Aligned_cols=94 Identities=21% Similarity=0.378 Sum_probs=60.4
Q ss_pred ccceeec-CCCCCHHHHHHHHHHHhcc------cCcc--CCCCCCCcEEEEEeCCCCeEecCCCChhhhhhcceEeEEec
Q 004300 647 VGRSIDV-TRYKGYDELRHDLARMFGI------EGQL--EDPQSSDWKLVYVDHENDILLVGDDPWDEFVSCVQSIKILS 717 (762)
Q Consensus 647 VGRkVDL-s~y~sY~eL~~~Le~MFgi------eg~L--ed~~~s~w~LvYeD~EGD~MLVGDvPWe~Fv~sVKRIrIms 717 (762)
|||++-+ --|+||-.|..+-...-+| ||++ .|+.+.+-.|.|..+|.+ -.+|-.-.-+|.+.-++..|++
T Consensus 93 Yg~~aQFQigYkG~IqLA~Rsgq~~~Ina~vV~EgE~~~~~~l~eeleldf~~~~s~-~ViGy~A~~~L~ngf~kt~~wt 171 (276)
T COG3723 93 YGDKAQFQIGYKGYIQLALRSGQYASINAIVVREGEFLKWDKLTEELELDFGNNESG-PVIGYYASFELKNGFTKTEYWT 171 (276)
T ss_pred cCCeeeEEeehhHHHHHHHhhcccceeeeEEEeecceecccCCcceEEecccccCCc-ceeEEEEEEEEccCceeEEEee
Confidence 4555554 3488999888877766665 3443 234444555555544433 2455566667888889999999
Q ss_pred hhhhhhccCCCCCCCCCCCCCCcccCCCCCccc-ccCC
Q 004300 718 SAEVQQMSLDGDLGNLPVPNQACSGSDSGNAWR-HYDD 754 (762)
Q Consensus 718 ~sEv~~m~~~~~~~~~~~~~qacs~sd~gnaWr-~~d~ 754 (762)
.++|..-.. ++.. +++| .|| |+|.
T Consensus 172 keqIe~h~k--k~sk----------s~nG-pw~~~~d~ 196 (276)
T COG3723 172 KEQIEAHKK--KSSK----------SNNG-PWRTHWDA 196 (276)
T ss_pred HHHHHHHHH--Hhhc----------ccCC-ccccchHH
Confidence 999986555 3321 4556 899 8874
No 28
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=35.27 E-value=1.4e+02 Score=26.44 Aligned_cols=22 Identities=23% Similarity=0.271 Sum_probs=18.4
Q ss_pred cCCCCCHHHHHHHHHHHhcccC
Q 004300 653 VTRYKGYDELRHDLARMFGIEG 674 (762)
Q Consensus 653 Ls~y~sY~eL~~~Le~MFgieg 674 (762)
+...-...+|+..|+++||+.-
T Consensus 19 ~~~~~Tv~~lK~kl~~~~G~~~ 40 (84)
T cd01789 19 YSRGLTIAELKKKLELVVGTPA 40 (84)
T ss_pred cCCCCcHHHHHHHHHHHHCCCc
Confidence 4466689999999999999864
No 29
>PRK11430 putative CoA-transferase; Provisional
Probab=33.27 E-value=29 Score=38.51 Aligned_cols=65 Identities=8% Similarity=0.176 Sum_probs=37.1
Q ss_pred cccceeecCCCCCHHHHHHHHHHHhcccCccCCC--CC----CCcEEEEEeCCCCeEecC---CCChhhhhhcceE
Q 004300 646 SVGRSIDVTRYKGYDELRHDLARMFGIEGQLEDP--QS----SDWKLVYVDHENDILLVG---DDPWDEFVSCVQS 712 (762)
Q Consensus 646 aVGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~--~~----s~w~LvYeD~EGD~MLVG---DvPWe~Fv~sVKR 712 (762)
..|+.||++++.+.-.+.....-.+...|..... +. .-| =+|+-+|| |+.|+ |.-|+.||+.+.+
T Consensus 195 G~Gq~VdvSl~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~~~~p~-~~y~~~DG-~i~i~~~~~~~w~~l~~~lg~ 268 (381)
T PRK11430 195 QRGAHVDIAMFDATLSFLEHGLMAYIATGKSPQRLGNRHPYMAPF-DVFDTQDK-PITICCGNDKLFSALCQALEL 268 (381)
T ss_pred CCeeEEEeeHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCC-CceEcCCC-cEEEEeCCHHHHHHHHHHhCC
Confidence 3599999999876544333222222222321111 11 112 46999999 76663 4579999887664
No 30
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=33.25 E-value=53 Score=36.31 Aligned_cols=75 Identities=23% Similarity=0.301 Sum_probs=57.4
Q ss_pred ecCcccceeecCC--CCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecC-CCChhhhhhcce---EeEEe
Q 004300 643 KRGSVGRSIDVTR--YKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVG-DDPWDEFVSCVQ---SIKIL 716 (762)
Q Consensus 643 MdGaVGRkVDLs~--y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVG-DvPWe~Fv~sVK---RIrIm 716 (762)
|=||-=|+.-|.+ -.+|++.+.-|+..-.|.+ .++.|-|.|.-||.+-+- |+-+..-+++++ ||.|-
T Consensus 24 KFdaEfRRfsl~r~~~~~f~~F~~Lv~~~H~i~n-------vdvllgY~d~hgDLLPinNDDn~~ka~~sa~PlLR~~iQ 96 (358)
T KOG3606|consen 24 KFDAEFRRFSLPRHSASSFDEFYSLVEHLHHIPN-------VDVLLGYADTHGDLLPINNDDNLHKALSSARPLLRLLIQ 96 (358)
T ss_pred cccchhheecccccCcccHHHHHHHHHHHhcCCC-------ceEEEEEecCCCceecccCchhHHHHhhccCchhhhhhh
Confidence 4455445554444 4699999999999988865 468999999999999765 678877777777 78888
Q ss_pred chhhhhhc
Q 004300 717 SSAEVQQM 724 (762)
Q Consensus 717 s~sEv~~m 724 (762)
+.+|+..-
T Consensus 97 kr~ea~~~ 104 (358)
T KOG3606|consen 97 KREEADEE 104 (358)
T ss_pred hhhhhhhh
Confidence 88887643
No 31
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=33.03 E-value=97 Score=33.39 Aligned_cols=73 Identities=12% Similarity=0.186 Sum_probs=44.6
Q ss_pred cccce--eecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEE--eCCCCeEecCCCChhhhhhcceEeEEechhhh
Q 004300 646 SVGRS--IDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYV--DHENDILLVGDDPWDEFVSCVQSIKILSSAEV 721 (762)
Q Consensus 646 aVGRk--VDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYe--D~EGD~MLVGDvPWe~Fv~sVKRIrIms~sEv 721 (762)
++|+. ..-..+-+++|++..|++.|.+....... .+..-.|. |..|-+=++.-+-+. ||..|.||||-+...+
T Consensus 193 P~g~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~ig~I~~~s~~-fC~~Cnr~rlt~~G~l 269 (329)
T PRK13361 193 PLGEIDERRRARHCSSDEVRAIIETRYPLTPSNKRT--GGPARYYTMADSPIHIGFISPHSHN-FCHECNRVRVTAEGQL 269 (329)
T ss_pred cCCCccchhhccCcCHHHHHHHHHHhCCcccCCCCC--CCCCeEEEECCCCeEEEEEcCCCcc-ccccCCeEEEccCCcE
Confidence 56652 22446778999999999998743221111 22233453 444555555544454 9999999999775443
No 32
>PHA01548 hypothetical protein
Probab=27.66 E-value=56 Score=32.85 Aligned_cols=64 Identities=23% Similarity=0.357 Sum_probs=42.5
Q ss_pred EEeecC--cccceeecCCCCCHHHHHHHHHHHhcc----------cCccCCC----CCCCcEEEEEeCCCCeEe------
Q 004300 640 KVQKRG--SVGRSIDVTRYKGYDELRHDLARMFGI----------EGQLEDP----QSSDWKLVYVDHENDILL------ 697 (762)
Q Consensus 640 KV~MdG--aVGRkVDLs~y~sY~eL~~~Le~MFgi----------eg~Led~----~~s~w~LvYeD~EGD~ML------ 697 (762)
|||-.. .-.||--+++|+-...-..+|++.-|- +..|+|. .....++|..|+||.-.+
T Consensus 45 ~vFFssiq~~drksa~k~ynainsSenal~dhrGevleItDmVahaitl~D~~TkE~vdalrvvlidKdGkayha~SQgV 124 (167)
T PHA01548 45 KVFFSSIQKKDRKSAIKVYNAINSSENALKDHRGEVLEITDMVAHAITLEDEDTKEVVDALRVVLIDKDGKAYHAVSQGV 124 (167)
T ss_pred eeEEeeecccchhhhhhhhhhhccchhhHHHhcCcEEEEEEEEEEeeeecccccccceeeeEEEEEccCCCEeeeehHHH
Confidence 555555 467787788887766666667666551 1223332 223457999999998764
Q ss_pred ----------cCCCCh
Q 004300 698 ----------VGDDPW 703 (762)
Q Consensus 698 ----------VGDvPW 703 (762)
||++||
T Consensus 125 VssIQkiisIvGpapw 140 (167)
T PHA01548 125 VSSIQKIISIVGPAPW 140 (167)
T ss_pred HHHHHHHHHHhCCCCC
Confidence 799999
No 33
>PF14688 DUF4461: Domain of unknown function (DUF4461)
Probab=23.54 E-value=97 Score=34.07 Aligned_cols=29 Identities=28% Similarity=0.725 Sum_probs=21.1
Q ss_pred CcEEEE-----EeCCCCeEe-cCCCC--hhhhhhcce
Q 004300 683 DWKLVY-----VDHENDILL-VGDDP--WDEFVSCVQ 711 (762)
Q Consensus 683 ~w~LvY-----eD~EGD~ML-VGDvP--We~Fv~sVK 711 (762)
|.+|+| +|.+|++|| +|||| |..|++.+.
T Consensus 81 G~tvvF~~~sGv~~~G~v~L~~~Dv~~~W~~~l~~l~ 117 (313)
T PF14688_consen 81 GRTVVFGDFSGVSLDGHVMLGTGDVPHQWTSFLERLP 117 (313)
T ss_pred CCEEEecCCCccCCCCCEEecCCCcHHHHHHHHHhCC
Confidence 456665 578999888 57775 888887654
No 34
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=23.38 E-value=1.2e+02 Score=33.83 Aligned_cols=70 Identities=13% Similarity=0.237 Sum_probs=52.6
Q ss_pred ccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecCCCChhhhhhc-ceEeEEec
Q 004300 647 VGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGDDPWDEFVSC-VQSIKILS 717 (762)
Q Consensus 647 VGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGDvPWe~Fv~s-VKRIrIms 717 (762)
+.|..++-. .++.+-..+|.++|++.|.+--.....-.|+=++.||+.+..|+.=-..--.. |+|+++..
T Consensus 103 ~l~a~~~~~-~~~~~Ai~~~~~~l~v~~~vlP~sdd~v~l~a~~~dG~~~v~gE~~i~~~~~~~v~~V~~~~ 173 (323)
T COG0391 103 MLAALSLIS-GSLSEAIDALSKLLGVKGRVLPMSDDPVDLVAETEDGRRIVFGESWIAELGGPPVHRVRLEG 173 (323)
T ss_pred HHHHHHhhc-CCHHHHHHHHHHHhCCCceEeecCCCceeEEEEcCCCcEEEeeeechhhcCCCcceEEEEec
Confidence 567777777 88999999999999999875211122456777889999899998654554455 99999884
No 35
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=23.20 E-value=2.2e+02 Score=24.99 Aligned_cols=36 Identities=22% Similarity=0.368 Sum_probs=24.6
Q ss_pred cCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCe
Q 004300 653 VTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDI 695 (762)
Q Consensus 653 Ls~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~ 695 (762)
+...-.-.+|...|+++||+... .-+|.|.+.+++-
T Consensus 20 ~~~~~Tv~eLK~kl~~~~Gi~~~-------~m~L~l~~~~~~~ 55 (87)
T PF14560_consen 20 FPKSITVSELKQKLEKLTGIPPS-------DMRLQLKSDKDDS 55 (87)
T ss_dssp EETTSBHHHHHHHHHHHHTS-TT-------TEEEEEE-TSSSS
T ss_pred cCCCCCHHHHHHHHHHHhCCCcc-------cEEEEEEecCCCc
Confidence 33456789999999999998643 3477777555443
No 36
>cd05143 Barstar_SaI14_like Barstar_SaI14_like contains sequences that are similar to SaI14, an RNAase inhibitor, which are members of the Barstar family. Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. The sequences in this subfamily are mostly uncharacterized, but believed to have a similar function and role.
Probab=23.06 E-value=87 Score=28.86 Aligned_cols=59 Identities=20% Similarity=0.373 Sum_probs=40.9
Q ss_pred eeecCCCCCHHHHHHHHHHHhccc----Cc----cCC--------CCCCCcEEEEEeCCCCeEecCCCChhhhhh
Q 004300 650 SIDVTRYKGYDELRHDLARMFGIE----GQ----LED--------PQSSDWKLVYVDHENDILLVGDDPWDEFVS 708 (762)
Q Consensus 650 kVDLs~y~sY~eL~~~Le~MFgie----g~----Led--------~~~s~w~LvYeD~EGD~MLVGDvPWe~Fv~ 708 (762)
.||.+...++++++.+|++-|+.. |. |-| +.....+|++++.+--...+|++=|+..++
T Consensus 2 ~iDg~~i~~~~~f~~~l~~~l~~p~~~fG~NlDAL~D~Ltgg~g~~~~~p~~i~w~~~~~sk~~LG~~~t~~~~e 76 (88)
T cd05143 2 VIDGASINTLADFFCEIGEAINGEGGYFGPNLDALADCLRGGYGAPDDGPFRLVWRNHAHSRTALGEDETARQLE 76 (88)
T ss_pred EEeCCcCCCHHHHHHHHHHHHCCCccccCCCHHHHHHHhccCCCCCCCCCeEEEEcchHHHHHHhChHHHHHHHH
Confidence 488999999999999999999876 21 111 112244777777777777777777765543
No 37
>KOG0695 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=22.61 E-value=87 Score=35.93 Aligned_cols=114 Identities=25% Similarity=0.384 Sum_probs=69.4
Q ss_pred ccceEEEeecCc-ccceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecCCCChhhhhhcceEe
Q 004300 635 MRTFTKVQKRGS-VGRSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGDDPWDEFVSCVQSI 713 (762)
Q Consensus 635 ~r~yVKV~MdGa-VGRkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGDvPWe~Fv~sVKRI 713 (762)
.+.-+|.+-.|. +--.+|-. -++++|..++.+|-....+ -.+.+.+.|.|||-.-|.. =-+.-+.+|.+
T Consensus 14 ~~vrlka~y~g~i~i~~~~p~--~~~e~~~~~vrd~c~~h~~------q~~t~kwideegdp~tv~s--qmeleea~r~~ 83 (593)
T KOG0695|consen 14 GRVRLKAHYGGDIFITSVDPA--TTFEELCEEVRDMCRLHQQ------QPLTLKWIDEEGDPCTVSS--QMELEEAFRLA 83 (593)
T ss_pred ccEEEEEeecCcEEEEeccCc--ccHHHHHHHHHHHHHHhhc------CCceeEeecCCCCcceech--hhhHHHHHHHH
Confidence 344567777773 44444443 4799999999999876532 3578999999999877742 11222334444
Q ss_pred EEechhhhhhccCCCCCCCCC-CCCCCcccCC------CCCccc-ccCCc----cccccCC
Q 004300 714 KILSSAEVQQMSLDGDLGNLP-VPNQACSGSD------SGNAWR-HYDDN----SAASFNR 762 (762)
Q Consensus 714 rIms~sEv~~m~~~~~~~~~~-~~~qacs~sd------~gnaWr-~~d~n----sa~sfn~ 762 (762)
+..+.+|..-- -|...| +|.--|-+.| |.-.|| -|-.| -|..|||
T Consensus 84 ~~~~d~el~ih----vf~~~pe~pglpc~gedksiyrrgarrwrkly~~ngh~fqakr~nr 140 (593)
T KOG0695|consen 84 RQCRDEELIIH----VFPSTPEQPGLPCPGEDKSIYRRGARRWRKLYRANGHLFQAKRFNR 140 (593)
T ss_pred HhccccceEEE----EccCCCCCCCCCCCCCcchHHHhHHHHHHHHHhhcCcchhhhhhcc
Confidence 44444443311 111222 4445566555 456788 68778 4888997
No 38
>PF14468 DUF4427: Protein of unknown function (DUF4427)
Probab=21.90 E-value=91 Score=30.90 Aligned_cols=53 Identities=23% Similarity=0.239 Sum_probs=31.8
Q ss_pred cceEEEeecCcccceeecCCCCC------H----HHHHHHHHHHhcccCc---cCCCCCCCcEEEEEe
Q 004300 636 RTFTKVQKRGSVGRSIDVTRYKG------Y----DELRHDLARMFGIEGQ---LEDPQSSDWKLVYVD 690 (762)
Q Consensus 636 r~yVKV~MdGaVGRkVDLs~y~s------Y----~eL~~~Le~MFgieg~---Led~~~s~w~LvYeD 690 (762)
+.-|||.++|-|+=+||+ +++ = ..|...|..-|++|.- +.+..+.+-+..|++
T Consensus 56 ~grV~v~~eGRYLl~l~~--~~s~~plr~kE~~ak~vA~~L~~rF~vea~yfSV~gs~~~D~IP~Y~~ 121 (132)
T PF14468_consen 56 AGRVKVNKEGRYLLDLDL--FDSDWPLRKKEAMAKHVAGWLRHRFGVEAGYFSVLGSQDYDGIPSYNG 121 (132)
T ss_pred cCceeeccCceeeeeccc--ccCCCchHHHHHHHHHHHHHHHHHhCcceeEEEecCCCCCCcCcccCC
Confidence 346999999999877775 344 1 2455566777887631 122233444566653
No 39
>KOG0291 consensus WD40-repeat-containing subunit of the 18S rRNA processing complex [RNA processing and modification]
Probab=21.65 E-value=56 Score=40.14 Aligned_cols=60 Identities=32% Similarity=0.577 Sum_probs=46.5
Q ss_pred ceeecCCCCCHHHHHHHHHHHhcccCccCCCCCCCcEEEEEeCCCCeEecCC-CChhhhhhcceE---eEEechhhhh
Q 004300 649 RSIDVTRYKGYDELRHDLARMFGIEGQLEDPQSSDWKLVYVDHENDILLVGD-DPWDEFVSCVQS---IKILSSAEVQ 722 (762)
Q Consensus 649 RkVDLs~y~sY~eL~~~Le~MFgieg~Led~~~s~w~LvYeD~EGD~MLVGD-vPWe~Fv~sVKR---IrIms~sEv~ 722 (762)
|.-||.+|++|.. |.+ |.+..+.-+-+|.-||+..+|+ +-++-||=++++ |-|+++-|..
T Consensus 417 RAwDlkRYrNfRT--------ft~------P~p~QfscvavD~sGelV~AG~~d~F~IfvWS~qTGqllDiLsGHEgP 480 (893)
T KOG0291|consen 417 RAWDLKRYRNFRT--------FTS------PEPIQFSCVAVDPSGELVCAGAQDSFEIFVWSVQTGQLLDILSGHEGP 480 (893)
T ss_pred Eeeeecccceeee--------ecC------CCceeeeEEEEcCCCCEEEeeccceEEEEEEEeecCeeeehhcCCCCc
Confidence 8899999999965 333 3355677788899999999998 689999988775 5567766643
No 40
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=21.18 E-value=1.7e+02 Score=30.66 Aligned_cols=34 Identities=29% Similarity=0.497 Sum_probs=21.9
Q ss_pred ccceEEEeecC--c--ccceeecCCCCCHHHHHHHHHHH-----hcccCc
Q 004300 635 MRTFTKVQKRG--S--VGRSIDVTRYKGYDELRHDLARM-----FGIEGQ 675 (762)
Q Consensus 635 ~r~yVKV~MdG--a--VGRkVDLs~y~sY~eL~~~Le~M-----Fgieg~ 675 (762)
....|||..+| . +||+|| ++++.+|.++ |+.+|+
T Consensus 136 ~aiIv~V~~~~L~~~~LGr~l~-------~e~i~~L~~~~~~~gvdp~GE 178 (218)
T PF01902_consen 136 EAIIVKVDADGLDESFLGRELD-------RELIEELPELNKKYGVDPCGE 178 (218)
T ss_dssp EEEEEEEESTT--GGGTT-B---------HHHHHHHHHHHHHH---TT-T
T ss_pred eEEEEEEeccCCChHHCCCCcc-------HHHHHHHHHHHhhcCccccCC
Confidence 34689999888 2 899999 5888888887 777775
No 41
>PF02762 Cbl_N3: CBL proto-oncogene N-terminus, SH2-like domain; InterPro: IPR014742 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the SH2-like domain.; PDB: 3PFV_A 3VGO_A 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B 3BUW_B ....
Probab=20.41 E-value=1.4e+02 Score=27.76 Aligned_cols=44 Identities=25% Similarity=0.483 Sum_probs=31.3
Q ss_pred CCCCHHHHHHHHHHHhcccCc----cCCCCCCCcEEEEEeCCCCeEec
Q 004300 655 RYKGYDELRHDLARMFGIEGQ----LEDPQSSDWKLVYVDHENDILLV 698 (762)
Q Consensus 655 ~y~sY~eL~~~Le~MFgieg~----Led~~~s~w~LvYeD~EGD~MLV 698 (762)
+|=.|+|...+|+.--...|. |..-.-..|.+-|+..||.++-.
T Consensus 7 AFlTYdevk~~L~~~~~kpGsYiFRlSCTrLGQWAIGyV~~dg~I~QT 54 (86)
T PF02762_consen 7 AFLTYDEVKARLQHYRDKPGSYIFRLSCTRLGQWAIGYVTQDGKILQT 54 (86)
T ss_dssp TT--HHHHHHHHGGGTTSTTEEEEEEESSSTTSEEEEEEETTSEEEEE
T ss_pred EEEeHHHHHHHHHHHhCCcccEEEeeccccccceeEEEEcCCCcEEEe
Confidence 677899999999988776553 11112358999999999998643
Done!