Query 046002
Match_columns 160
No_of_seqs 129 out of 498
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 07:42:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046002.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046002hhsearch_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 1.8E-43 3.9E-48 289.0 0.3 114 44-160 86-203 (215)
2 PF00564 PB1: PB1 domain; Int 97.7 0.00015 3.3E-09 50.0 7.0 66 72-155 4-70 (84)
3 cd05992 PB1 The PB1 domain is 97.4 0.001 2.2E-08 45.6 7.4 65 72-155 3-69 (81)
4 smart00666 PB1 PB1 domain. Pho 97.4 0.001 2.2E-08 45.9 7.4 65 72-155 4-69 (81)
5 cd06398 PB1_Joka2 The PB1 doma 97.3 0.0013 2.8E-08 48.5 7.4 58 72-145 3-63 (91)
6 cd06407 PB1_NLP A PB1 domain i 97.3 0.0013 2.8E-08 47.5 7.0 53 72-142 3-55 (82)
7 cd06396 PB1_NBR1 The PB1 domai 96.8 0.007 1.5E-07 44.2 7.0 53 72-143 3-55 (81)
8 cd06409 PB1_MUG70 The MUG70 pr 96.6 0.0049 1.1E-07 45.4 5.4 50 80-143 8-59 (86)
9 cd06403 PB1_Par6 The PB1 domai 96.5 0.0098 2.1E-07 43.6 6.0 68 72-156 3-71 (80)
10 cd06401 PB1_TFG The PB1 domain 96.2 0.041 8.9E-07 40.3 7.9 72 72-159 3-78 (81)
11 cd06402 PB1_p62 The PB1 domain 96.0 0.039 8.4E-07 40.7 7.2 58 71-144 2-64 (87)
12 cd06404 PB1_aPKC PB1 domain is 95.9 0.037 8.1E-07 40.7 6.4 54 72-143 3-56 (83)
13 cd06397 PB1_UP1 Uncharacterize 95.4 0.065 1.4E-06 39.5 6.1 63 72-153 3-66 (82)
14 cd06408 PB1_NoxR The PB1 domai 93.0 0.42 9E-06 35.3 6.2 53 71-144 4-56 (86)
15 cd06399 PB1_P40 The PB1 domain 84.9 1.7 3.6E-05 32.7 4.1 43 81-142 18-60 (92)
16 cd06395 PB1_Map2k5 PB1 domain 62.8 15 0.00032 27.5 4.1 49 77-143 9-57 (91)
17 PF10411 DsbC_N: Disulfide bon 52.4 13 0.00028 24.7 2.1 17 129-145 34-50 (57)
18 cd06406 PB1_P67 A PB1 domain i 49.5 73 0.0016 23.3 5.8 65 71-155 4-69 (80)
19 PF00788 RA: Ras association ( 39.1 85 0.0018 21.2 4.7 68 70-152 3-76 (93)
20 PF09840 DUF2067: Uncharacteri 34.1 26 0.00056 29.0 1.7 29 125-157 97-125 (190)
21 PF14688 DUF4461: Domain of un 33.9 29 0.00064 30.6 2.1 30 126-155 80-117 (313)
22 PF09277 Erythro-docking: Eryt 29.8 22 0.00048 24.6 0.5 16 14-29 33-48 (58)
23 PRK13361 molybdenum cofactor b 27.8 2E+02 0.0043 24.8 6.1 75 74-159 187-263 (329)
24 COG3286 Uncharacterized protei 27.4 37 0.00081 28.9 1.6 29 125-157 100-128 (204)
25 PF12108 SF3a60_bindingd: Spli 27.4 12 0.00026 22.4 -1.0 18 141-158 3-20 (28)
26 PF13665 DUF4150: Domain of un 27.3 46 0.001 25.2 1.9 23 71-93 83-105 (110)
27 PF07929 PRiA4_ORF3: Plasmid p 27.1 87 0.0019 24.6 3.5 38 71-108 6-45 (179)
28 PF06463 Mob_synth_C: Molybden 26.7 1.5E+02 0.0034 22.5 4.8 64 85-159 17-80 (128)
29 cd04052 C2B_Tricalbin-like C2 26.0 87 0.0019 22.4 3.1 26 59-84 4-29 (111)
30 PF07521 RMMBL: RNA-metabolisi 24.2 81 0.0018 19.6 2.3 21 83-103 10-30 (43)
31 COG0219 CspR Predicted rRNA me 23.7 34 0.00073 27.9 0.6 55 77-146 48-105 (155)
32 PF02013 CBM_10: Cellulose or 23.5 24 0.00051 22.2 -0.3 12 129-140 16-27 (36)
33 PF09676 TraV: Type IV conjuga 22.7 57 0.0012 24.0 1.6 19 127-145 92-110 (119)
34 PF04566 RNA_pol_Rpb2_4: RNA p 21.6 1.1E+02 0.0024 20.9 2.8 27 74-106 1-27 (63)
35 PF04809 HupH_C: HupH hydrogen 21.1 84 0.0018 24.1 2.3 31 127-157 72-112 (120)
36 PRK11430 putative CoA-transfer 20.6 94 0.002 27.8 2.9 26 130-156 240-268 (381)
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=1.8e-43 Score=289.01 Aligned_cols=114 Identities=27% Similarity=0.422 Sum_probs=4.7
Q ss_pred ccCCCCCCCcCCCCCCCCCCCCCCCCCceEEEEcCceeeeeeccCCCCCHHHHHHHHHHhhccCccc-c---cccccccc
Q 046002 44 LVNNPNNNRLQAFPGLDDDDLVSTVVPPVTVVLEGRSICQRISLHKHASYQSLAKALRQMFVEGGEA-A---AINSEQDL 119 (160)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~VKV~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~-~---~~~~~~~l 119 (160)
.++||+.++++...+. +..++..++||||+|||+||||||||++|+||++|+.+|++||.+.... + +....+.+
T Consensus 86 ~vgwpp~~s~r~n~~~--~~~~~~~~~~vKV~mdG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~~~~~~~~~~ 163 (215)
T PF02309_consen 86 VVGWPPVRSFRKNSLS--EKQSSSSRSYVKVNMDGVPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGSHGLNESGLL 163 (215)
T ss_dssp BTTBS----S----------------------------------------------------------------------
T ss_pred ccCCCccccccccccc--ccccccCCceeEEEecCcccceecCHHHhhCHHHHHHHHHHhcCCCCccccccccccchhhc
Confidence 4599999998875444 2333446999999999999999999999999999999999999554321 0 11122334
Q ss_pred ccCCCCCCcEEEEEcCCCCeEEcCCcChHHHHhccceeEeC
Q 046002 120 DLSNAVPGHLIAYEDMENDLLLAGDLNWKDFVRVLREFGYC 160 (160)
Q Consensus 120 dl~~~~~~~~l~YeD~EGD~MLVGDvPW~~Fv~sVKRLrI~ 160 (160)
+|.+ .++|+|||||+||||||||||||+|||++||||+|+
T Consensus 164 ~~~~-~~~~~l~Y~D~egd~mlvGD~PW~~F~~~vkRl~I~ 203 (215)
T PF02309_consen 164 DLLN-GSEYVLVYEDKEGDWMLVGDVPWEEFVKSVKRLRIM 203 (215)
T ss_dssp -----------------------------------------
T ss_pred cccC-CcceeEEEECCCCCEEEecCCCHHHHHHHhhccEEe
Confidence 5555 459999999999999999999999999999999996
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=97.74 E-value=0.00015 Score=49.99 Aligned_cols=66 Identities=23% Similarity=0.333 Sum_probs=54.9
Q ss_pred eEEEEcCceeeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcCC-cChHHH
Q 046002 72 VTVVLEGRSICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAGD-LNWKDF 150 (160)
Q Consensus 72 VKV~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVGD-vPW~~F 150 (160)
+|+...|. +=|.+.+..--+|++|...+++.|+... ..+.|.|.|.||||..+.+ .=|++.
T Consensus 4 vK~~~~~~-~~~~~~~~~~~s~~~L~~~i~~~~~~~~-----------------~~~~l~Y~D~dgD~V~i~sd~Dl~~a 65 (84)
T PF00564_consen 4 VKVRYGGD-IRRIISLPSDVSFDDLRSKIREKFGLLD-----------------EDFQLKYKDEDGDLVTISSDEDLQEA 65 (84)
T ss_dssp EEEEETTE-EEEEEEECSTSHHHHHHHHHHHHHTTST-----------------SSEEEEEEETTSSEEEESSHHHHHHH
T ss_pred EEEEECCe-eEEEEEcCCCCCHHHHHHHHHHHhCCCC-----------------ccEEEEeeCCCCCEEEeCCHHHHHHH
Confidence 78999995 4446888888899999999999999862 2578999999999998874 558888
Q ss_pred Hhccc
Q 046002 151 VRVLR 155 (160)
Q Consensus 151 v~sVK 155 (160)
+..++
T Consensus 66 ~~~~~ 70 (84)
T PF00564_consen 66 IEQAK 70 (84)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 88875
No 3
>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=97.42 E-value=0.001 Score=45.60 Aligned_cols=65 Identities=18% Similarity=0.315 Sum_probs=52.0
Q ss_pred eEEEEcCceeeeeeccC-CCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcCC-cChHH
Q 046002 72 VTVVLEGRSICQRISLH-KHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAGD-LNWKD 149 (160)
Q Consensus 72 VKV~MeG~~IGRKVDL~-~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVGD-vPW~~ 149 (160)
|||.-.|. -|.+-+. ..-+|++|...|.+.|+... ..+.+.|.|.||||..+.+ .=|++
T Consensus 3 vK~~~~~~--~~~~~~~~~~~s~~~L~~~i~~~~~~~~-----------------~~~~l~y~D~e~d~v~l~sd~Dl~~ 63 (81)
T cd05992 3 VKVKYGGE--IRRFVVVSRSISFEDLRSKIAEKFGLDA-----------------VSFKLKYPDEDGDLVTISSDEDLEE 63 (81)
T ss_pred EEEEecCC--CEEEEEecCCCCHHHHHHHHHHHhCCCC-----------------CcEEEEeeCCCCCEEEeCCHHHHHH
Confidence 78888874 3445555 88999999999999998752 2468999999999998887 77777
Q ss_pred HHhccc
Q 046002 150 FVRVLR 155 (160)
Q Consensus 150 Fv~sVK 155 (160)
-++.++
T Consensus 64 a~~~~~ 69 (81)
T cd05992 64 AIEEAR 69 (81)
T ss_pred HHHHHh
Confidence 777765
No 4
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=97.41 E-value=0.001 Score=45.86 Aligned_cols=65 Identities=18% Similarity=0.330 Sum_probs=52.1
Q ss_pred eEEEEcCceeeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcC-CcChHHH
Q 046002 72 VTVVLEGRSICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAG-DLNWKDF 150 (160)
Q Consensus 72 VKV~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVG-DvPW~~F 150 (160)
|||.-.| --|.+-+..--+|++|..++.+.|+... ..+.|.|+|.||||..+. |.=|++-
T Consensus 4 vK~~~~~--~~~~~~~~~~~s~~dL~~~i~~~~~~~~-----------------~~~~l~Y~Dedgd~v~l~sd~Dl~~a 64 (81)
T smart00666 4 VKLRYGG--ETRRLSVPRDISFEDLRSKVAKRFGLDN-----------------QSFTLKYQDEDGDLVSLTSDEDLEEA 64 (81)
T ss_pred EEEEECC--EEEEEEECCCCCHHHHHHHHHHHhCCCC-----------------CCeEEEEECCCCCEEEecCHHHHHHH
Confidence 7888855 4677888889999999999999998642 357899999999998665 4677777
Q ss_pred Hhccc
Q 046002 151 VRVLR 155 (160)
Q Consensus 151 v~sVK 155 (160)
+..++
T Consensus 65 ~~~~~ 69 (81)
T smart00666 65 IEEYD 69 (81)
T ss_pred HHHHH
Confidence 77665
No 5
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=97.31 E-value=0.0013 Score=48.47 Aligned_cols=58 Identities=16% Similarity=0.170 Sum_probs=46.4
Q ss_pred eEEEEcCceeeeeeccC---CCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcCCc
Q 046002 72 VTVVLEGRSICQRISLH---KHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAGDL 145 (160)
Q Consensus 72 VKV~MeG~~IGRKVDL~---~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVGDv 145 (160)
|||.-+|.-+==++++. ..-+|++|...+++.|.+.. ..+++|.|.|.||||..+-.+
T Consensus 3 vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~----------------~~~~~l~Y~Dedgd~V~l~~D 63 (91)
T cd06398 3 VKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSP----------------DADLSLTYTDEDGDVVTLVDD 63 (91)
T ss_pred EEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCC----------------CCcEEEEEECCCCCEEEEccH
Confidence 89999997544455553 46799999999999998753 247899999999999987654
No 6
>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=97.28 E-value=0.0013 Score=47.46 Aligned_cols=53 Identities=15% Similarity=0.221 Sum_probs=43.5
Q ss_pred eEEEEcCceeeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEc
Q 046002 72 VTVVLEGRSICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLA 142 (160)
Q Consensus 72 VKV~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLV 142 (160)
|||...|. -+.+-|..--+|++|..++.++|.... ...+.|-|.|.||||.++
T Consensus 3 vK~~~~~d--~~r~~l~~~~~~~~L~~~i~~r~~~~~----------------~~~f~LkY~Ddegd~v~l 55 (82)
T cd06407 3 VKATYGEE--KIRFRLPPSWGFTELKQEIAKRFKLDD----------------MSAFDLKYLDDDEEWVLL 55 (82)
T ss_pred EEEEeCCe--EEEEEcCCCCCHHHHHHHHHHHhCCCC----------------CCeeEEEEECCCCCeEEe
Confidence 89999886 445666666699999999999999742 246899999999999876
No 7
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=96.79 E-value=0.007 Score=44.20 Aligned_cols=53 Identities=21% Similarity=0.254 Sum_probs=46.1
Q ss_pred eEEEEcCceeeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcC
Q 046002 72 VTVVLEGRSICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAG 143 (160)
Q Consensus 72 VKV~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVG 143 (160)
|||.-.|.-+--+++-+..-+|++|..++.++|++. .+.|.|-|.||||.++-
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 799999988877888877889999999999999986 24689999999998763
No 8
>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=96.65 E-value=0.0049 Score=45.36 Aligned_cols=50 Identities=18% Similarity=0.155 Sum_probs=38.7
Q ss_pred eeeeee--ccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcC
Q 046002 80 SICQRI--SLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAG 143 (160)
Q Consensus 80 ~IGRKV--DL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVG 143 (160)
|-||.+ -+....|+.+|..++.+-|+.... ....+.|.|.|.||||.++-
T Consensus 8 ~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~--------------~~~~~~L~YlDDEgD~VllT 59 (86)
T cd06409 8 PKGRVHRFRLRPSESLEELRTLISQRLGDDDF--------------ETHLYALSYVDDEGDIVLIT 59 (86)
T ss_pred CCCCEEEEEecCCCCHHHHHHHHHHHhCCccc--------------cCCcccEEEEcCCCCEEEEe
Confidence 456544 444578999999999999988653 13578999999999998764
No 9
>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=96.49 E-value=0.0098 Score=43.56 Aligned_cols=68 Identities=19% Similarity=0.215 Sum_probs=49.6
Q ss_pred eEEEEcCceeeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcC-CcChHHH
Q 046002 72 VTVVLEGRSICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAG-DLNWKDF 150 (160)
Q Consensus 72 VKV~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVG-DvPW~~F 150 (160)
||..-+++=-=-.+|.....+|+++++-|+.|+.+.. -.++|-|.|.+||++-+- |+-...=
T Consensus 3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l~~-----------------~~f~i~Y~D~~gDLLPInNDdNf~kA 65 (80)
T cd06403 3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHIPN-----------------VDFLIGYTDPHGDLLPINNDDNFLKA 65 (80)
T ss_pred eecccCCeEEEEEeccccCcCHHHHHHHHHHHhCCCC-----------------CcEEEEEeCCCCCEecccCcHHHHHH
Confidence 6666666432234555666999999999999999864 258999999999999764 4555555
Q ss_pred Hhccce
Q 046002 151 VRVLRE 156 (160)
Q Consensus 151 v~sVKR 156 (160)
+.+++.
T Consensus 66 lssa~p 71 (80)
T cd06403 66 LSSANP 71 (80)
T ss_pred HHcCCC
Confidence 555554
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=96.18 E-value=0.041 Score=40.33 Aligned_cols=72 Identities=21% Similarity=0.320 Sum_probs=50.3
Q ss_pred eEEEEcCceeeeeeccCCC-CCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcCCc---Ch
Q 046002 72 VTVVLEGRSICQRISLHKH-ASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAGDL---NW 147 (160)
Q Consensus 72 VKV~MeG~~IGRKVDL~~~-~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVGDv---PW 147 (160)
+|+.-+| .| |++-+..- -+|.+|...+++.|...-. ....+.|.|.|.|||+.-+.+. -|
T Consensus 3 iK~~~g~-Di-R~~~~~~~~~t~~~L~~~v~~~F~~~~~--------------~~~~flIKYkD~dGDlVTIts~~dL~~ 66 (81)
T cd06401 3 LKAQLGD-DI-RRIPIHNEDITYDELLLMMQRVFRGKLG--------------SSDDVLIKYKDEDGDLITIFDSSDLSF 66 (81)
T ss_pred EEEEeCC-eE-EEEeccCccccHHHHHHHHHHHhccccC--------------CcccEEEEEECCCCCEEEeccHHHHHH
Confidence 6777766 45 44555543 3999999999999996421 1457899999999999999873 34
Q ss_pred HHHHhccceeEe
Q 046002 148 KDFVRVLREFGY 159 (160)
Q Consensus 148 ~~Fv~sVKRLrI 159 (160)
-.=+...+||+|
T Consensus 67 A~~~~~~~~l~~ 78 (81)
T cd06401 67 AIQCSRILKLTL 78 (81)
T ss_pred HHhcCcceEEEE
Confidence 433444455544
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=96.03 E-value=0.039 Score=40.70 Aligned_cols=58 Identities=21% Similarity=0.293 Sum_probs=43.2
Q ss_pred ceEEEEcC---ceeeeeecc--CCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcCC
Q 046002 71 PVTVVLEG---RSICQRISL--HKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAGD 144 (160)
Q Consensus 71 ~VKV~MeG---~~IGRKVDL--~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVGD 144 (160)
.||.+..| .+==|++-| ....+|++|...++++|.... ...+.|.|.|.|||..-+..
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~l~----------------~~~ftlky~DeeGDlvtIss 64 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPSLR----------------GKNFQLFWKDEEGDLVAFSS 64 (87)
T ss_pred eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHccccC----------------CCcEEEEEECCCCCEEeecC
Confidence 57888877 223344444 666799999999999996532 24689999999999987654
No 12
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=95.86 E-value=0.037 Score=40.73 Aligned_cols=54 Identities=19% Similarity=0.178 Sum_probs=44.3
Q ss_pred eEEEEcCceeeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcC
Q 046002 72 VTVVLEGRSICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAG 143 (160)
Q Consensus 72 VKV~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVG 143 (160)
+|+.-.|.-.--.+|. .-+|++|.+.+++||.... ...+++.|.|.|||.--+.
T Consensus 3 ~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~~~----------------~q~ft~kw~DEEGDp~tiS 56 (83)
T cd06404 3 VKAAYNGDIMITSIDP--SISLEELCNEVRDMCRFHN----------------DQPFTLKWIDEEGDPCTIS 56 (83)
T ss_pred EEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCCCC----------------CCcEEEEEECCCCCceeec
Confidence 7999999766666666 6789999999999999853 2468999999999986554
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=95.36 E-value=0.065 Score=39.46 Aligned_cols=63 Identities=21% Similarity=0.306 Sum_probs=49.7
Q ss_pred eEEEEcCceeeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcC-CcChHHH
Q 046002 72 VTVVLEGRSICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAG-DLNWKDF 150 (160)
Q Consensus 72 VKV~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVG-DvPW~~F 150 (160)
-||.-+| --|++....-=+|.+|.+.|+.+|.+... .+.|+|.|.|||..-+- |.--++|
T Consensus 3 fKv~~~g--~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~-----------------~~~vtYiDeD~D~ITlssd~eL~d~ 63 (82)
T cd06397 3 FKSSFLG--DTRRIVFPDIPTWEALASKLENLYNLPEI-----------------KVGVTYIDNDNDEITLSSNKELQDF 63 (82)
T ss_pred EEEEeCC--ceEEEecCCCccHHHHHHHHHHHhCCChh-----------------HeEEEEEcCCCCEEEecchHHHHHH
Confidence 4888888 57999999999999999999999999742 16799999999987544 4555555
Q ss_pred Hhc
Q 046002 151 VRV 153 (160)
Q Consensus 151 v~s 153 (160)
.+-
T Consensus 64 ~~~ 66 (82)
T cd06397 64 YRL 66 (82)
T ss_pred HHh
Confidence 543
No 14
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=92.98 E-value=0.42 Score=35.29 Aligned_cols=53 Identities=19% Similarity=0.265 Sum_probs=43.6
Q ss_pred ceEEEEcCceeeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcCC
Q 046002 71 PVTVVLEGRSICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAGD 144 (160)
Q Consensus 71 ~VKV~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVGD 144 (160)
-|||+-.|. -|-|-+..-=+|++|...+.++|+... .+.|-|.|. ||..-+++
T Consensus 4 kVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~~~~------------------~~~iKykDE-GD~iti~s 56 (86)
T cd06408 4 RVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFGFKR------------------RLKIKMKDD-GDMITMGD 56 (86)
T ss_pred EEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhCCCC------------------ceEEEEEcC-CCCccccC
Confidence 489998887 566666667779999999999998742 467999999 99988876
No 15
>cd06399 PB1_P40 The PB1 domain is essential part of the p40 adaptor protein which plays an important role in activating phagocyte NADPH oxidase during phagocytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes , such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domain of p40 represents a type I PB1 domain which interacts with the PB1 domain of oxidase activator p67 w
Probab=84.92 E-value=1.7 Score=32.72 Aligned_cols=43 Identities=23% Similarity=0.302 Sum_probs=34.4
Q ss_pred eeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEc
Q 046002 81 ICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLA 142 (160)
Q Consensus 81 IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLV 142 (160)
|+=.=||+.--+|.+|.....+-|..... .|-|.|.|||+.-+
T Consensus 18 i~vee~l~~~P~~kdLl~lmr~~f~~~dI-------------------aLNYrD~EGDLIRl 60 (92)
T cd06399 18 IAVEEDLSSTPLLKDLLELTRREFQREDI-------------------ALNYRDAEGDLIRL 60 (92)
T ss_pred eEeecccccCccHHHHHHHHHHHhchhhe-------------------eeeeecCCCCEEEE
Confidence 44444788889999999999999988643 47899999998744
No 16
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=62.79 E-value=15 Score=27.52 Aligned_cols=49 Identities=14% Similarity=0.267 Sum_probs=36.0
Q ss_pred cCceeeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcC
Q 046002 77 EGRSICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAG 143 (160)
Q Consensus 77 eG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVG 143 (160)
+|.++--.||...+=++.++..++.+....... =.+-|||.+||..-|-
T Consensus 9 ~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~aT~------------------tAFeYEDE~gDRITVR 57 (91)
T cd06395 9 NGGAVDWTVQSGPQLLFRDVLDVIGQVLPEATT------------------TAFEYEDEDGDRITVR 57 (91)
T ss_pred CCCcccccccCcccccHHHHHHHHHHhcccccc------------------cceeeccccCCeeEec
Confidence 455677778877778899999988876554332 1368999999998774
No 17
>PF10411 DsbC_N: Disulfide bond isomerase protein N-terminus; InterPro: IPR018950 This is the N-terminal domain of the disulphide bond isomerase DsbC. The whole molecule is V-shaped, where each arm is a DsbC monomer of two domains linked by a hinge; and the N-termini of each monomer join to form the dimer interface at the base of the V, so are vital for dimerisation []. DsbC is required for disulphide bond formation and functions as a disulphide bond isomerase during oxidative protein-folding in bacterial periplasm. It also has chaperone activity []. ; PDB: 1EEJ_B 2IYJ_A 1TJD_A 1JZD_B 1JZO_A 1G0T_B 1T3B_A.
Probab=52.42 E-value=13 Score=24.71 Aligned_cols=17 Identities=35% Similarity=0.548 Sum_probs=14.6
Q ss_pred EEEEEcCCCCeEEcCCc
Q 046002 129 LIAYEDMENDLLLAGDL 145 (160)
Q Consensus 129 ~l~YeD~EGD~MLVGDv 145 (160)
-+.|.|.+|+.+++|+.
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 48999999999999974
No 18
>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=49.47 E-value=73 Score=23.27 Aligned_cols=65 Identities=17% Similarity=0.211 Sum_probs=46.8
Q ss_pred ceEEEEcCceeeeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCC-CeEEcCCcChHH
Q 046002 71 PVTVVLEGRSICQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMEN-DLLLAGDLNWKD 149 (160)
Q Consensus 71 ~VKV~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EG-D~MLVGDvPW~~ 149 (160)
-|||+-++ .=.|-...=-+|.+|...|.+-+....+ +=+|-|.|.+. +...++|.-++.
T Consensus 4 vvKV~f~~---tIaIrvp~~~~y~~L~~ki~~kLkl~~e-----------------~i~LsYkde~s~~~v~l~d~dle~ 63 (80)
T cd06406 4 VVKVHFKY---TVAIQVARGLSYATLLQKISSKLELPAE-----------------HITLSYKSEASGEDVILSDTNMED 63 (80)
T ss_pred EEEEEEEE---EEEEEcCCCCCHHHHHHHHHHHhCCCch-----------------hcEEEeccCCCCCccCcChHHHHH
Confidence 38999998 3345566667899999999999988632 12578887764 444448888887
Q ss_pred HHhccc
Q 046002 150 FVRVLR 155 (160)
Q Consensus 150 Fv~sVK 155 (160)
=.+.|+
T Consensus 64 aws~~~ 69 (80)
T cd06406 64 VWSQAK 69 (80)
T ss_pred HHHhhc
Confidence 777665
No 19
>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=39.14 E-value=85 Score=21.16 Aligned_cols=68 Identities=10% Similarity=0.012 Sum_probs=48.3
Q ss_pred CceEEEEcCcee---eeeeccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEE--EEEcCCCCeEEcCC
Q 046002 70 PPVTVVLEGRSI---CQRISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLI--AYEDMENDLLLAGD 144 (160)
Q Consensus 70 ~~VKV~MeG~~I---GRKVDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l--~YeD~EGD~MLVGD 144 (160)
.++||++....- -+.|-++....-.+++.++.+.|++... ...|.| .-........|-.|
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~---------------~~~y~L~~~~~~~~~er~L~~~ 67 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAED---------------PSDYCLVEVEESGGEERPLDDD 67 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSS---------------GGGEEEEEEECTTTEEEEETTT
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCC---------------CCCEEEEEEEcCCCEEEEcCCC
Confidence 368899887653 6888999999999999999999999321 246888 44455556666543
Q ss_pred -cChHHHHh
Q 046002 145 -LNWKDFVR 152 (160)
Q Consensus 145 -vPW~~Fv~ 152 (160)
.|+.....
T Consensus 68 E~pl~i~~~ 76 (93)
T PF00788_consen 68 ECPLQIQLQ 76 (93)
T ss_dssp SBHHHHHHT
T ss_pred CchHHHHHh
Confidence 56665544
No 20
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=34.13 E-value=26 Score=29.00 Aligned_cols=29 Identities=14% Similarity=0.290 Sum_probs=25.1
Q ss_pred CCCcEEEEEcCCCCeEEcCCcChHHHHhcccee
Q 046002 125 VPGHLIAYEDMENDLLLAGDLNWKDFVRVLREF 157 (160)
Q Consensus 125 ~~~~~l~YeD~EGD~MLVGDvPW~~Fv~sVKRL 157 (160)
..||..-|.+. -+..|.||+++++.++||
T Consensus 97 ~~G~~ae~~~~----~i~T~a~~eev~~l~~~L 125 (190)
T PF09840_consen 97 LLGYKAEYRED----VIKTDAPLEEVVELAERL 125 (190)
T ss_pred hCCCeeEEeCC----eEEecCCHHHHHHHHHHH
Confidence 36788888766 889999999999999987
No 21
>PF14688 DUF4461: Domain of unknown function (DUF4461)
Probab=33.87 E-value=29 Score=30.61 Aligned_cols=30 Identities=23% Similarity=0.734 Sum_probs=22.1
Q ss_pred CCcEEEEE-----cCCCCeEE-cCCcC--hHHHHhccc
Q 046002 126 PGHLIAYE-----DMENDLLL-AGDLN--WKDFVRVLR 155 (160)
Q Consensus 126 ~~~~l~Ye-----D~EGD~ML-VGDvP--W~~Fv~sVK 155 (160)
.|.+|++- |.+|++|| +|||| |..|++.+.
T Consensus 80 ~G~tvvF~~~sGv~~~G~v~L~~~Dv~~~W~~~l~~l~ 117 (313)
T PF14688_consen 80 KGRTVVFGDFSGVSLDGHVMLGTGDVPHQWTSFLERLP 117 (313)
T ss_pred CCCEEEecCCCccCCCCCEEecCCCcHHHHHHHHHhCC
Confidence 46677775 67888887 67877 888887654
No 22
>PF09277 Erythro-docking: Erythronolide synthase, docking; InterPro: IPR015357 Docking domains are found in prokaryotic erythronolide synthase. They adopt a structure consisting of a bundle of four alpha-helices, and mediate homodimerisation of the protein, stabilising the resulting complex []. ; PDB: 1PZQ_A.
Probab=29.75 E-value=22 Score=24.62 Aligned_cols=16 Identities=63% Similarity=1.010 Sum_probs=12.5
Q ss_pred hhhHHHHhhhhhcCCC
Q 046002 14 QRQESLKRRWQERRAV 29 (160)
Q Consensus 14 ~~~~~~~~~~~~~~~~ 29 (160)
+|-+.|-||||..+++
T Consensus 33 aRLeaLLR~Wq~~r~~ 48 (58)
T PF09277_consen 33 ARLEALLRRWQDRRAP 48 (58)
T ss_dssp HHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHhccCC
Confidence 5678999999986654
No 23
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=27.77 E-value=2e+02 Score=24.82 Aligned_cols=75 Identities=7% Similarity=0.017 Sum_probs=44.5
Q ss_pred EEEcCceeeeeec--cCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcCCcChHHHH
Q 046002 74 VVLEGRSICQRIS--LHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAGDLNWKDFV 151 (160)
Q Consensus 74 V~MeG~~IGRKVD--L~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVGDvPW~~Fv 151 (160)
.+.+-.|+|+--+ -..+=+.+++...|++.+....... .. ++.+.| ....|..|-+=++.-+-.. ||
T Consensus 187 ~~ie~mP~g~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~--------~~-~~~~~~-~~~~~~~~~ig~I~~~s~~-fC 255 (329)
T PRK13361 187 AFIEEMPLGEIDERRRARHCSSDEVRAIIETRYPLTPSNK--------RT-GGPARY-YTMADSPIHIGFISPHSHN-FC 255 (329)
T ss_pred EEEecccCCCccchhhccCcCHHHHHHHHHHhCCcccCCC--------CC-CCCCeE-EEECCCCeEEEEEcCCCcc-cc
Confidence 3566778887322 3456678888888988876432210 00 111111 1223445556566666666 99
Q ss_pred hccceeEe
Q 046002 152 RVLREFGY 159 (160)
Q Consensus 152 ~sVKRLrI 159 (160)
.+|.||||
T Consensus 256 ~~Cnr~rl 263 (329)
T PRK13361 256 HECNRVRV 263 (329)
T ss_pred ccCCeEEE
Confidence 99999998
No 24
>COG3286 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.41 E-value=37 Score=28.86 Aligned_cols=29 Identities=24% Similarity=0.480 Sum_probs=24.7
Q ss_pred CCCcEEEEEcCCCCeEEcCCcChHHHHhcccee
Q 046002 125 VPGHLIAYEDMENDLLLAGDLNWKDFVRVLREF 157 (160)
Q Consensus 125 ~~~~~l~YeD~EGD~MLVGDvPW~~Fv~sVKRL 157 (160)
.-||.+-|.+.+ |=-+.||++|++.|++|
T Consensus 100 ~~GyrVevr~~~----l~T~ap~~ev~E~vreL 128 (204)
T COG3286 100 LLGYRVEVRGGE----LKTNAPWSEVVELVREL 128 (204)
T ss_pred hCCceEEeeCce----eecCCCHHHHHHHHHHH
Confidence 358889888665 88999999999999886
No 25
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=27.35 E-value=12 Score=22.41 Aligned_cols=18 Identities=22% Similarity=0.493 Sum_probs=11.9
Q ss_pred EcCCcChHHHHhccceeE
Q 046002 141 LAGDLNWKDFVRVLREFG 158 (160)
Q Consensus 141 LVGDvPW~~Fv~sVKRLr 158 (160)
+-|..||++|-+-.|.|+
T Consensus 3 is~~d~f~eFY~rlk~Ik 20 (28)
T PF12108_consen 3 ISGGDPFSEFYERLKEIK 20 (28)
T ss_dssp --S--HHHHHHHHHHHHH
T ss_pred CCCCChHHHHHHHHHHHH
Confidence 348899999998888764
No 26
>PF13665 DUF4150: Domain of unknown function (DUF4150)
Probab=27.29 E-value=46 Score=25.21 Aligned_cols=23 Identities=22% Similarity=0.235 Sum_probs=20.3
Q ss_pred ceEEEEcCceeeeeeccCCCCCH
Q 046002 71 PVTVVLEGRSICQRISLHKHASY 93 (160)
Q Consensus 71 ~VKV~MeG~~IGRKVDL~~~~sY 93 (160)
-.+|..||.++.|--|+...++.
T Consensus 83 S~~V~ieG~p~~R~~d~~~~N~~ 105 (110)
T PF13665_consen 83 SFTVKIEGKPATRLTDLTWMNNK 105 (110)
T ss_pred CCeEEECCEEEEEcCCCccccCC
Confidence 36899999999999999988764
No 27
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=27.07 E-value=87 Score=24.63 Aligned_cols=38 Identities=21% Similarity=0.341 Sum_probs=29.7
Q ss_pred ceEEEEcCc--eeeeeeccCCCCCHHHHHHHHHHhhccCc
Q 046002 71 PVTVVLEGR--SICQRISLHKHASYQSLAKALRQMFVEGG 108 (160)
Q Consensus 71 ~VKV~MeG~--~IGRKVDL~~~~sY~eL~~~L~~MF~~~~ 108 (160)
-+||...|. +|=|+|-+..-.+..+|...|...|+-..
T Consensus 6 ~lkV~L~~~~p~iwRri~Vp~~~tl~~Lh~~Iq~afgw~~ 45 (179)
T PF07929_consen 6 QLKVSLKGSKPPIWRRIEVPADITLADLHEVIQAAFGWDD 45 (179)
T ss_dssp EEEEEETT-SS-EEEEEEEETT-BHHHHHHHHHHHTT---
T ss_pred EEEEEEcCCCCCeEEEEEECCCCCHHHHHHHHHHHhCcCC
Confidence 368888884 89999999999999999999999998643
No 28
>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=26.74 E-value=1.5e+02 Score=22.46 Aligned_cols=64 Identities=6% Similarity=0.005 Sum_probs=30.7
Q ss_pred eccCCCCCHHHHHHHHHHhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcCCcChHHHHhccceeEe
Q 046002 85 ISLHKHASYQSLAKALRQMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAGDLNWKDFVRVLREFGY 159 (160)
Q Consensus 85 VDL~~~~sY~eL~~~L~~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVGDvPW~~Fv~sVKRLrI 159 (160)
+--..|-+++++...|++.+....... +. . .+--.....+..|..=++.-+-=. ||.+|.||||
T Consensus 17 ~~~~~~~~~~ei~~~l~~~~~~~~~~~-----~~---~--~pa~~y~~~g~~g~vG~I~~~s~~-FC~~CNRiRl 80 (128)
T PF06463_consen 17 WFEEEFVPAQEILERLEERYELLPSEK-----RP---N--GPARYYRIPGGKGRVGFISPVSNP-FCSSCNRIRL 80 (128)
T ss_dssp B-TTTB--HHHHHHHHHHHS-EEEE-------SS---T---SSEEEEETTT--EEEEE-TTTS---GGG--EEEE
T ss_pred chhhcCcCHHHHHHHHHHhCCcccccc-----cc---C--CcceEEEECCCCcEEEEEeCCCCC-CCCcCCEEEE
Confidence 344778889999999999888754311 00 1 111112223444445555554444 9999999998
No 29
>cd04052 C2B_Tricalbin-like C2 domain second repeat present in Tricalbin-like proteins. 5 to 6 copies of the C2 domain are present in Tricalbin, a yeast homolog of Synaptotagmin, which is involved in membrane trafficking and sorting. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules that bind a wide variety of substances including bind phospholipids, inositol polyphosphates, and intracellular proteins. Most C2 domain proteins are either signal transduction enzymes that contain a single C2 domain, such as protein kinase C, or membrane trafficking proteins which contain at least two C2 domains, such as synaptotagmin 1. However, there are a few exceptions to this including RIM isoforms and some splice variants of piccolo/aczonin and intersectin which only have a single C2 domain.
Probab=25.95 E-value=87 Score=22.37 Aligned_cols=26 Identities=12% Similarity=0.222 Sum_probs=18.7
Q ss_pred CCCCCCCCCCCCceEEEEcCceeeee
Q 046002 59 LDDDDLVSTVVPPVTVVLEGRSICQR 84 (160)
Q Consensus 59 ~~~~~~~~~~~~~VKV~MeG~~IGRK 84 (160)
+..+.+.+...+||+|.+.|...+|+
T Consensus 4 ~~~~~~~G~~dPYv~v~v~~~~~~kT 29 (111)
T cd04052 4 DTSESKTGLLSPYAELYLNGKLVYTT 29 (111)
T ss_pred ccccccCCCCCceEEEEECCEEEEEE
Confidence 44555667778899999988655553
No 30
>PF07521 RMMBL: RNA-metabolising metallo-beta-lactamase; InterPro: IPR011108 The metallo-beta-lactamase fold contains five sequence motifs. The first four motifs are found in IPR001279 from INTERPRO and are common to all metallo-beta-lactamases. The fifth motif appears to be specific to function. This entry represents the fifth motif from metallo-beta-lactamases involved in RNA metabolism [].; PDB: 3ZQ4_D 2I7T_A 2I7V_A 2YCB_B 3BK1_A 3T3N_A 3BK2_A 3T3O_A 3AF5_A 3AF6_A ....
Probab=24.16 E-value=81 Score=19.65 Aligned_cols=21 Identities=24% Similarity=0.442 Sum_probs=18.0
Q ss_pred eeeccCCCCCHHHHHHHHHHh
Q 046002 83 QRISLHKHASYQSLAKALRQM 103 (160)
Q Consensus 83 RKVDL~~~~sY~eL~~~L~~M 103 (160)
..+|++.|.++++|..-++.|
T Consensus 10 ~~~~fSgHad~~~L~~~i~~~ 30 (43)
T PF07521_consen 10 EQIDFSGHADREELLEFIEQL 30 (43)
T ss_dssp EESGCSSS-BHHHHHHHHHHH
T ss_pred EEEeecCCCCHHHHHHHHHhc
Confidence 368999999999999999888
No 31
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=23.70 E-value=34 Score=27.94 Aligned_cols=55 Identities=20% Similarity=0.239 Sum_probs=38.5
Q ss_pred cCceeeeeeccCCCCCHHHHHHHHH---HhhccCccccccccccccccCCCCCCcEEEEEcCCCCeEEcCCcC
Q 046002 77 EGRSICQRISLHKHASYQSLAKALR---QMFVEGGEAAAINSEQDLDLSNAVPGHLIAYEDMENDLLLAGDLN 146 (160)
Q Consensus 77 eG~~IGRKVDL~~~~sY~eL~~~L~---~MF~~~~~~~~~~~~~~ldl~~~~~~~~l~YeD~EGD~MLVGDvP 146 (160)
-|-.+--+++|..|+++++...+.. ++|-...... .-| .-+....||++|-|-++
T Consensus 48 AGlDY~~~~~l~~h~s~e~fl~~~~~~~rl~~~tt~~~--------------~~~-~~~~f~~~d~llFG~Es 105 (155)
T COG0219 48 AGLDYHEKASLTEHDSLEAFLEAEPIGGRLFALTTKGT--------------TTY-TDVSFQKGDYLLFGPES 105 (155)
T ss_pred cccchHhhcceEEeCCHHHHHhhccCCceEEEEEeccc--------------ccc-ccccCCCCCEEEECCCC
Confidence 5778999999999999999999984 5666544311 001 11344568999999754
No 32
>PF02013 CBM_10: Cellulose or protein binding domain; InterPro: IPR002883 This domain is found in two distinct sets of proteins with different functions. Those found in aerobic bacteria bind cellulose (or other carbohydrates); but in anaerobic fungi they are protein binding domains, referred to as dockerin domains or docking domains. They are believed to be responsible for the assembly of a multiprotein cellulase/hemicellulase complex, similar to the cellulosome found in certain anaerobic bacteria. The recycling of photosynthetically fixed carbon in plant cell walls is a key microbial process. Enzyme systems that attack the plant cell wall contain noncatalytic carbohydrate-binding modules that mediate attachment to this composite structure and play a pivotal role in maximizing the hydrolytic process. In anaerobes, the degradation is carried out by a high molecular weight, multifunctional complex termed the cellulosome. This consists of a number of independent enzyme components, each of which contains a conserved 40-residue dockerin domain, which functions to bind the enzyme to a cohesin domain within the scaffoldin protein [, ]. In anaerobic bacteria that degrade plant cell walls, exemplified by Clostridium thermocellum, the dockerin domains of the catalytic polypeptides can bind equally well to any cohesin from the same organism. More recently, anaerobic fungi, typified by Piromyces equi, have been suggested to also synthesise a cellulosome complex, although the dockerin sequences of the bacterial and fungal enzymes are completely different []. For example, the fungal enzymes contain one, two or three copies of the dockerin sequence in tandem within the catalytic polypeptide. In contrast, all the C. thermocellum cellulosome catalytic components contain a single dockerin domain. The anaerobic bacterial dockerins are homologous to EF hands (calcium-binding motifs) and require calcium for activity whereas the fungal dockerin does not require calcium. Finally, the interaction between cohesin and dockerin appears to be species specific in bacteria, there is almost no species specificity of binding within fungal species and no identified sites that distinguish different species. The structure of dockerin from P. equi contains two helical stretches and four short beta-strands which form an antiparallel sheet structure adjacent to an additional short twisted parallel strand. The N- and C-termini are adjacent to each other. Aerobic bacteria contain related regions, however these appear to function as cellulose/carbohydrate binding domains.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 2J4M_A 2J4N_A 1E8R_A 1QLD_A 1E8P_A 1E8Q_A.
Probab=23.46 E-value=24 Score=22.18 Aligned_cols=12 Identities=17% Similarity=0.221 Sum_probs=8.9
Q ss_pred EEEEEcCCCCeE
Q 046002 129 LIAYEDMENDLL 140 (160)
Q Consensus 129 ~l~YeD~EGD~M 140 (160)
.+.|+|.+|+|=
T Consensus 16 ~v~y~d~~g~WG 27 (36)
T PF02013_consen 16 EVVYTDDDGGWG 27 (36)
T ss_dssp --SEEETTEEEE
T ss_pred ceEEcCCCCCEe
Confidence 589999999983
No 33
>PF09676 TraV: Type IV conjugative transfer system lipoprotein (TraV); InterPro: IPR014118 This entry represents TraV, a component of a conjugative type IV secretion system. TraV is an outer membrane lipoprotein that is believed to interact with the secretin TraK [, , ]. This protein contains three conserved cysteines in the N-terminal half.
Probab=22.67 E-value=57 Score=23.98 Aligned_cols=19 Identities=26% Similarity=0.361 Sum_probs=16.1
Q ss_pred CcEEEEEcCCCCeEEcCCc
Q 046002 127 GHLIAYEDMENDLLLAGDL 145 (160)
Q Consensus 127 ~~~l~YeD~EGD~MLVGDv 145 (160)
=|+.-|+|.+||+-.-|.|
T Consensus 92 iwiaP~~D~~g~l~~~~~V 110 (119)
T PF09676_consen 92 IWIAPWEDADGDLHDPGYV 110 (119)
T ss_pred EEEeeeECCCCCEeccceE
Confidence 4899999999999877654
No 34
>PF04566 RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; InterPro: IPR007646 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 4, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=21.64 E-value=1.1e+02 Score=20.91 Aligned_cols=27 Identities=33% Similarity=0.388 Sum_probs=22.1
Q ss_pred EEEcCceeeeeeccCCCCCHHHHHHHHHHhhcc
Q 046002 74 VVLEGRSICQRISLHKHASYQSLAKALRQMFVE 106 (160)
Q Consensus 74 V~MeG~~IGRKVDL~~~~sY~eL~~~L~~MF~~ 106 (160)
|+..|..||- ++..++|...|.+|=..
T Consensus 1 VFlNG~~iG~------~~~p~~l~~~lr~~RR~ 27 (63)
T PF04566_consen 1 VFLNGVWIGI------HSDPEELVKTLRNLRRS 27 (63)
T ss_dssp EEETTEEEEE------ESSHHHHHHHHHHHHHT
T ss_pred CEECCEEEEE------EcCHHHHHHHHHHHhhc
Confidence 7889999994 56779999999998554
No 35
>PF04809 HupH_C: HupH hydrogenase expression protein, C-terminal conserved region; InterPro: IPR006894 This entry represents the C-terminal conserved domain found in bacterial hydrogenase expression proteins (HupH), which are necessary for hydrogenase synthesis. The precise function of HupH is unknown [].; PDB: 3SB1_A.
Probab=21.12 E-value=84 Score=24.11 Aligned_cols=31 Identities=16% Similarity=0.246 Sum_probs=21.3
Q ss_pred CcEEEEEcCCC----CeEEcCCcCh------HHHHhcccee
Q 046002 127 GHLIAYEDMEN----DLLLAGDLNW------KDFVRVLREF 157 (160)
Q Consensus 127 ~~~l~YeD~EG----D~MLVGDvPW------~~Fv~sVKRL 157 (160)
=|.+.|.|.+| |.+-||++|= +++..++.||
T Consensus 72 VWrV~~~n~~~~~i~d~iEV~~vP~~v~aa~eD~~ds~~rL 112 (120)
T PF04809_consen 72 VWRVRYFNSDGRLILDTIEVGDVPEVVRAAPEDLADSAARL 112 (120)
T ss_dssp EEEEEEE-TTS-EEEEEEEESSS-GGGS--HHHHHHHHHHH
T ss_pred EEEEEEECCCCCEeeeeEEEeCCcHHHhccHhhHHHHHHHH
Confidence 49999999997 5677999994 4455555555
No 36
>PRK11430 putative CoA-transferase; Provisional
Probab=20.63 E-value=94 Score=27.84 Aligned_cols=26 Identities=8% Similarity=0.176 Sum_probs=19.5
Q ss_pred EEEEcCCCCeEEc---CCcChHHHHhccce
Q 046002 130 IAYEDMENDLLLA---GDLNWKDFVRVLRE 156 (160)
Q Consensus 130 l~YeD~EGD~MLV---GDvPW~~Fv~sVKR 156 (160)
=+|+=+|| |+.+ .|--|+.||+.+.|
T Consensus 240 ~~y~~~DG-~i~i~~~~~~~w~~l~~~lg~ 268 (381)
T PRK11430 240 DVFDTQDK-PITICCGNDKLFSALCQALEL 268 (381)
T ss_pred CceEcCCC-cEEEEeCCHHHHHHHHHHhCC
Confidence 36999999 7766 45579999987654
Done!