Query 026811
Match_columns 232
No_of_seqs 207 out of 557
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 13:03:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026811.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026811hhsearch_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 1.6E-70 3.6E-75 475.9 0.4 208 8-224 1-215 (215)
2 PF00564 PB1: PB1 domain; Int 97.6 0.00024 5.2E-09 52.1 6.2 68 116-208 3-71 (84)
3 smart00666 PB1 PB1 domain. Pho 97.3 0.0016 3.5E-08 47.7 7.7 65 117-207 4-69 (81)
4 cd06398 PB1_Joka2 The PB1 doma 97.1 0.0021 4.6E-08 50.0 7.1 68 116-208 2-72 (91)
5 cd06407 PB1_NLP A PB1 domain i 97.1 0.0023 5E-08 48.8 6.9 55 117-196 3-57 (82)
6 cd05992 PB1 The PB1 domain is 97.0 0.0045 9.7E-08 45.0 7.3 65 117-207 3-69 (81)
7 cd06396 PB1_NBR1 The PB1 domai 96.6 0.0088 1.9E-07 46.0 6.7 53 117-195 3-55 (81)
8 cd06401 PB1_TFG The PB1 domain 96.3 0.025 5.5E-07 43.6 7.7 72 117-211 3-78 (81)
9 cd06403 PB1_Par6 The PB1 domai 96.2 0.021 4.6E-07 44.0 6.9 72 117-212 3-76 (80)
10 cd06402 PB1_p62 The PB1 domain 96.0 0.024 5.1E-07 44.1 6.4 60 115-197 1-65 (87)
11 cd06409 PB1_MUG70 The MUG70 pr 95.7 0.022 4.8E-07 44.2 5.0 51 124-195 7-59 (86)
12 cd06404 PB1_aPKC PB1 domain is 95.5 0.043 9.4E-07 42.5 6.0 56 117-197 3-58 (83)
13 cd06397 PB1_UP1 Uncharacterize 95.1 0.081 1.8E-06 41.0 6.1 65 117-207 3-68 (82)
14 cd06408 PB1_NoxR The PB1 domai 91.9 0.6 1.3E-05 36.4 6.1 55 115-197 3-57 (86)
15 cd06399 PB1_P40 The PB1 domain 68.9 8.2 0.00018 30.6 4.0 37 130-192 22-58 (92)
16 PF10411 DsbC_N: Disulfide bon 54.5 11 0.00023 26.6 2.1 17 181-197 34-50 (57)
17 cd06395 PB1_Map2k5 PB1 domain 52.6 28 0.0006 27.4 4.3 50 122-196 9-58 (91)
18 PF09840 DUF2067: Uncharacteri 41.7 14 0.00031 32.4 1.3 37 169-209 89-125 (190)
19 COG0219 CspR Predicted rRNA me 40.2 14 0.0003 31.8 1.0 54 122-197 48-104 (155)
20 PF12426 DUF3674: RNA dependen 34.2 22 0.00048 24.3 1.1 14 142-155 7-21 (41)
21 PRK13361 molybdenum cofactor b 32.2 1.3E+02 0.0029 27.6 6.2 77 120-214 188-266 (329)
22 PF06463 Mob_synth_C: Molybden 27.9 1.3E+02 0.0028 24.4 4.7 67 130-214 17-83 (128)
23 COG3286 Uncharacterized protei 27.4 33 0.00071 30.8 1.3 38 169-210 92-129 (204)
24 PF11576 DUF3236: Protein of u 26.5 24 0.00051 30.4 0.2 13 12-24 97-109 (154)
25 KOG3606 Cell polarity protein 25.9 82 0.0018 30.1 3.6 79 114-218 18-102 (358)
26 KOG3938 RGS-GAIP interacting p 25.2 1.1E+02 0.0023 29.2 4.2 76 121-222 61-143 (334)
27 cd00771 ThrRS_core Threonyl-tR 24.4 11 0.00025 34.3 -2.2 55 113-190 208-262 (298)
28 PF09676 TraV: Type IV conjuga 23.9 52 0.0011 25.8 1.7 19 179-197 92-110 (119)
29 PF09582 AnfO_nitrog: Iron onl 22.4 60 0.0013 28.7 2.0 49 176-227 17-83 (202)
30 PF15390 DUF4613: Domain of un 21.6 77 0.0017 33.0 2.7 58 114-190 597-658 (671)
31 PF02013 CBM_10: Cellulose or 21.1 27 0.00058 23.1 -0.4 12 181-192 16-27 (36)
32 PF03589 Antiterm: Antitermina 21.1 38 0.00081 26.6 0.4 29 7-49 17-45 (95)
33 PF07929 PRiA4_ORF3: Plasmid p 20.9 1.1E+02 0.0025 25.5 3.3 35 116-150 6-42 (179)
34 PLN02622 iron superoxide dismu 20.5 1.9E+02 0.0041 26.6 4.9 53 139-217 142-194 (261)
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=1.6e-70 Score=475.89 Aligned_cols=208 Identities=54% Similarity=0.882 Sum_probs=6.0
Q ss_pred CCccccccccCCCCCCCCCchhhhhhhcCCCCCCCCCCCCchhhhhhhhhccccccccc--ccccCCCCCCCCCCCCCCC
Q 026811 8 MDFKETELCLGLPGGGNNKKDEAAALELTPTPKASNKRGFCETAVIDLKLNLQSKESSV--DLNENFKNPPSNNKNHDKD 85 (232)
Q Consensus 8 lnl~~TELRLGLPG~~~~~~~~~~~~~~~~~~~~~~KRgfset~~~d~k~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 85 (232)
||||+|||||||||+++++.. .........+++||+|+++ ++............ ..................+
T Consensus 1 ln~~~TELrLGLPG~~~~~~~---~~~~~~~~~~~~kR~F~~a--id~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (215)
T PF02309_consen 1 LNLKATELRLGLPGSESPDAS---SSSSSKKSSSGNKRGFSEA--IDSSSSNSQSSSSSSSDSSSSSSSSSTSSSSSDSS 75 (215)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCchhhhhcccCCCCCCCCcc---cccccccccCcccccchhh--hhhcccccccccccccccCcccccccccccccccc
Confidence 799999999999999875411 1122334568899999998 66543100000000 0000000000000000122
Q ss_pred CCCCCCCCCCcccCCCCccchhhhccc-----CCceeEEEecCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCC
Q 026811 86 PAKPSANKAQVVGWPPVRSYRKNAMAE-----TAAFVKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQ 160 (232)
Q Consensus 86 ~~~p~~~k~qvVGWPPvrs~Rkn~~~~-----~~~~VKV~MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~ 160 (232)
...+|++++|+|||||||+||+|.+.. .++||||+|||+||||||||++|+||++|+.+|++||.+|+|++|+++
T Consensus 76 ~~~~p~~~~~~vgwpp~~s~r~n~~~~~~~~~~~~~vKV~mdG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~~ 155 (215)
T PF02309_consen 76 SSSPPASKAQVVGWPPVRSFRKNSLSEKQSSSSRSYVKVNMDGVPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGSH 155 (215)
T ss_dssp ----------BTTBS----S------------------------------------------------------------
T ss_pred cCCCCcccccccCCCcccccccccccccccccCCceeEEEecCcccceecCHHHhhCHHHHHHHHHHhcCCCCccccccc
Confidence 334455789999999999999998863 579999999999999999999999999999999999999999988875
Q ss_pred CcccccchhhhhhccCCCCeeeEEEcCCCCeEEecCcChhHHhhccceeEEecCccccCCChhh
Q 026811 161 GMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGDVPWEMFVDSCKRMRIMKGSEAIGLAPRA 224 (232)
Q Consensus 161 g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGDvPWemFv~s~KRLrImk~sea~gl~~~~ 224 (232)
+ .++..+.+++++++|+|||||+||||||||||||+|||++|||||||+.+|++||+||+
T Consensus 156 ~----~~~~~~~~~~~~~~~~l~Y~D~egd~mlvGD~PW~~F~~~vkRl~I~~~~e~~~~~~r~ 215 (215)
T PF02309_consen 156 G----LNESGLLDLLNGSEYVLVYEDKEGDWMLVGDVPWEEFVKSVKRLRIMKSSEAKGLAPRA 215 (215)
T ss_dssp ----------------------------------------------------------------
T ss_pred c----ccchhhccccCCcceeEEEECCCCCEEEecCCCHHHHHHHhhccEEecHHHhcccCCCC
Confidence 4 46677888888899999999999999999999999999999999999999999999986
No 2
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=97.57 E-value=0.00024 Score=52.13 Aligned_cols=68 Identities=24% Similarity=0.406 Sum_probs=55.3
Q ss_pred eeEEEecCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEec
Q 026811 116 FVKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 116 ~VKV~MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVG 195 (232)
-|||...|... |.+.+..--+|++|...+++.|... ...+.+.|.|.||||..+-
T Consensus 3 ~vK~~~~~~~~-~~~~~~~~~s~~~L~~~i~~~~~~~------------------------~~~~~l~Y~D~dgD~V~i~ 57 (84)
T PF00564_consen 3 RVKVRYGGDIR-RIISLPSDVSFDDLRSKIREKFGLL------------------------DEDFQLKYKDEDGDLVTIS 57 (84)
T ss_dssp EEEEEETTEEE-EEEEECSTSHHHHHHHHHHHHHTTS------------------------TSSEEEEEEETTSSEEEES
T ss_pred EEEEEECCeeE-EEEEcCCCCCHHHHHHHHHHHhCCC------------------------CccEEEEeeCCCCCEEEeC
Confidence 48999999843 3588888889999999999999961 3468999999999999887
Q ss_pred C-cChhHHhhccce
Q 026811 196 D-VPWEMFVDSCKR 208 (232)
Q Consensus 196 D-vPWemFv~s~KR 208 (232)
+ .=|.+.++.+++
T Consensus 58 sd~Dl~~a~~~~~~ 71 (84)
T PF00564_consen 58 SDEDLQEAIEQAKE 71 (84)
T ss_dssp SHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHh
Confidence 4 458888887753
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=97.29 E-value=0.0016 Score=47.70 Aligned_cols=65 Identities=23% Similarity=0.397 Sum_probs=51.7
Q ss_pred eEEEecCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEecC
Q 026811 117 VKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGD 196 (232)
Q Consensus 117 VKV~MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGD 196 (232)
|||.-.|. -|.+-+..--+|++|...+.+.|... ...+.|.|+|.||||..+.+
T Consensus 4 vK~~~~~~--~~~~~~~~~~s~~dL~~~i~~~~~~~------------------------~~~~~l~Y~Dedgd~v~l~s 57 (81)
T smart00666 4 VKLRYGGE--TRRLSVPRDISFEDLRSKVAKRFGLD------------------------NQSFTLKYQDEDGDLVSLTS 57 (81)
T ss_pred EEEEECCE--EEEEEECCCCCHHHHHHHHHHHhCCC------------------------CCCeEEEEECCCCCEEEecC
Confidence 78887554 67788888999999999999999851 23689999999999987654
Q ss_pred -cChhHHhhccc
Q 026811 197 -VPWEMFVDSCK 207 (232)
Q Consensus 197 -vPWemFv~s~K 207 (232)
.=|.+.++.++
T Consensus 58 d~Dl~~a~~~~~ 69 (81)
T smart00666 58 DEDLEEAIEEYD 69 (81)
T ss_pred HHHHHHHHHHHH
Confidence 56777777665
No 4
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=97.11 E-value=0.0021 Score=50.00 Aligned_cols=68 Identities=24% Similarity=0.262 Sum_probs=52.2
Q ss_pred eeEEEecCcccceeeccC---CCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeE
Q 026811 116 FVKVCMDGAPYLRKVDLK---TYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWM 192 (232)
Q Consensus 116 ~VKV~MdG~p~gRKVDL~---~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwM 192 (232)
-|||.-+|.-+==++++. .--+|++|...+.+.|... ...+|++.|.|.||||.
T Consensus 2 ~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~-----------------------~~~~~~l~Y~Dedgd~V 58 (91)
T cd06398 2 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLS-----------------------PDADLSLTYTDEDGDVV 58 (91)
T ss_pred EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCC-----------------------CCCcEEEEEECCCCCEE
Confidence 489999999433344443 4579999999999999851 13589999999999999
Q ss_pred EecCcChhHHhhccce
Q 026811 193 LVGDVPWEMFVDSCKR 208 (232)
Q Consensus 193 LVGDvPWemFv~s~KR 208 (232)
.+-.. +.|...+.+
T Consensus 59 ~l~~D--~DL~~a~~~ 72 (91)
T cd06398 59 TLVDD--NDLTDAIQY 72 (91)
T ss_pred EEccH--HHHHHHHHH
Confidence 98776 666666655
No 5
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=97.08 E-value=0.0023 Score=48.80 Aligned_cols=55 Identities=25% Similarity=0.390 Sum_probs=44.9
Q ss_pred eEEEecCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEecC
Q 026811 117 VKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGD 196 (232)
Q Consensus 117 VKV~MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGD 196 (232)
|||+..|. .+.+-|..--+|++|...+.++|.. . +.+.|.|-|.|.||||.++--
T Consensus 3 vK~~~~~d--~~r~~l~~~~~~~~L~~~i~~r~~~---~--------------------~~~~f~LkY~Ddegd~v~lts 57 (82)
T cd06407 3 VKATYGEE--KIRFRLPPSWGFTELKQEIAKRFKL---D--------------------DMSAFDLKYLDDDEEWVLLTC 57 (82)
T ss_pred EEEEeCCe--EEEEEcCCCCCHHHHHHHHHHHhCC---C--------------------CCCeeEEEEECCCCCeEEeec
Confidence 89999887 5566666667999999999999995 1 135799999999999998743
No 6
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=96.96 E-value=0.0045 Score=45.02 Aligned_cols=65 Identities=23% Similarity=0.402 Sum_probs=51.3
Q ss_pred eEEEecCcccceeeccC-CCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEec
Q 026811 117 VKVCMDGAPYLRKVDLK-TYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 117 VKV~MdG~p~gRKVDL~-~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVG 195 (232)
|||.-.|. -|.+=+. .--+|++|...|.+.|... ...+.+.|.|.||||..+.
T Consensus 3 vK~~~~~~--~~~~~~~~~~~s~~~L~~~i~~~~~~~------------------------~~~~~l~y~D~e~d~v~l~ 56 (81)
T cd05992 3 VKVKYGGE--IRRFVVVSRSISFEDLRSKIAEKFGLD------------------------AVSFKLKYPDEDGDLVTIS 56 (81)
T ss_pred EEEEecCC--CEEEEEecCCCCHHHHHHHHHHHhCCC------------------------CCcEEEEeeCCCCCEEEeC
Confidence 78888766 3445555 8889999999999999961 1367999999999999988
Q ss_pred C-cChhHHhhccc
Q 026811 196 D-VPWEMFVDSCK 207 (232)
Q Consensus 196 D-vPWemFv~s~K 207 (232)
+ .=|++.++.++
T Consensus 57 sd~Dl~~a~~~~~ 69 (81)
T cd05992 57 SDEDLEEAIEEAR 69 (81)
T ss_pred CHHHHHHHHHHHh
Confidence 7 56777777665
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=96.59 E-value=0.0088 Score=46.03 Aligned_cols=53 Identities=19% Similarity=0.235 Sum_probs=45.3
Q ss_pred eEEEecCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEec
Q 026811 117 VKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 117 VKV~MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVG 195 (232)
|||.-.|.-+-=+++-+..-+|++|...+.++|+. + .|.+.|-|.||||.++-
T Consensus 3 vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l------------------------~--~f~lKYlDde~e~v~ls 55 (81)
T cd06396 3 LKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGL------------------------N--DIQIKYVDEENEEVSVN 55 (81)
T ss_pred EEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCC------------------------C--cceeEEEcCCCCEEEEE
Confidence 78999998766677777788999999999999996 1 46899999999998873
No 8
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=96.31 E-value=0.025 Score=43.63 Aligned_cols=72 Identities=19% Similarity=0.383 Sum_probs=48.5
Q ss_pred eEEEecCcccceeeccCCC-CCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEec
Q 026811 117 VKVCMDGAPYLRKVDLKTY-KSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 117 VKV~MdG~p~gRKVDL~~~-~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVG 195 (232)
+|+.-.|. | |++=+..- -+|.+|...+++.|... . ....++.+.|.|.|||+.-+.
T Consensus 3 iK~~~g~D-i-R~~~~~~~~~t~~~L~~~v~~~F~~~-~--------------------~~~~~flIKYkD~dGDlVTIt 59 (81)
T cd06401 3 LKAQLGDD-I-RRIPIHNEDITYDELLLMMQRVFRGK-L--------------------GSSDDVLIKYKDEDGDLITIF 59 (81)
T ss_pred EEEEeCCe-E-EEEeccCccccHHHHHHHHHHHhccc-c--------------------CCcccEEEEEECCCCCEEEec
Confidence 67777665 3 55444332 39999999999999951 1 123478999999999999998
Q ss_pred Cc---ChhHHhhccceeEE
Q 026811 196 DV---PWEMFVDSCKRMRI 211 (232)
Q Consensus 196 Dv---PWemFv~s~KRLrI 211 (232)
+- -|..=+...+||+|
T Consensus 60 s~~dL~~A~~~~~~~~l~~ 78 (81)
T cd06401 60 DSSDLSFAIQCSRILKLTL 78 (81)
T ss_pred cHHHHHHHHhcCcceEEEE
Confidence 75 33333334445554
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=96.25 E-value=0.021 Score=43.97 Aligned_cols=72 Identities=19% Similarity=0.296 Sum_probs=51.6
Q ss_pred eEEEecCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEec-
Q 026811 117 VKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVG- 195 (232)
Q Consensus 117 VKV~MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVG- 195 (232)
||..-|..=-==.+|.....+|+++++-|+.||.. .+..|+|-|.|.+||.+-+-
T Consensus 3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l------------------------~~~~f~i~Y~D~~gDLLPInN 58 (80)
T cd06403 3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHI------------------------PNVDFLIGYTDPHGDLLPINN 58 (80)
T ss_pred eecccCCeEEEEEeccccCcCHHHHHHHHHHHhCC------------------------CCCcEEEEEeCCCCCEecccC
Confidence 66666666211245555669999999999999996 13478999999999999775
Q ss_pred CcChhHHhhccce-eEEe
Q 026811 196 DVPWEMFVDSCKR-MRIM 212 (232)
Q Consensus 196 DvPWemFv~s~KR-LrIm 212 (232)
|+-+..=++++++ |||.
T Consensus 59 DdNf~kAlssa~plLRl~ 76 (80)
T cd06403 59 DDNFLKALSSANPLLRIF 76 (80)
T ss_pred cHHHHHHHHcCCCceEEE
Confidence 4555555667775 5554
No 10
>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=96.04 E-value=0.024 Score=44.15 Aligned_cols=60 Identities=25% Similarity=0.433 Sum_probs=45.4
Q ss_pred ceeEEEecC---ccccee--eccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCC
Q 026811 115 AFVKVCMDG---APYLRK--VDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDG 189 (232)
Q Consensus 115 ~~VKV~MdG---~p~gRK--VDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdG 189 (232)
+.||.+..| .+==|+ ||=....+|++|...+.++|.. +.+..|.+.|.|.||
T Consensus 1 ~~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~-----------------------l~~~~ftlky~DeeG 57 (87)
T cd06402 1 LTVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPS-----------------------LRGKNFQLFWKDEEG 57 (87)
T ss_pred CeEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHccc-----------------------cCCCcEEEEEECCCC
Confidence 368888877 233344 4446677999999999999974 124689999999999
Q ss_pred CeEEecCc
Q 026811 190 DWMLVGDV 197 (232)
Q Consensus 190 DwMLVGDv 197 (232)
|..-+...
T Consensus 58 DlvtIssd 65 (87)
T cd06402 58 DLVAFSSD 65 (87)
T ss_pred CEEeecCH
Confidence 99877654
No 11
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=95.71 E-value=0.022 Score=44.22 Aligned_cols=51 Identities=22% Similarity=0.367 Sum_probs=38.5
Q ss_pred cccceeeccC--CCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEec
Q 026811 124 APYLRKVDLK--TYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVG 195 (232)
Q Consensus 124 ~p~gRKVDL~--~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVG 195 (232)
+|-||.+=++ ...|+.+|..++.+=|+.-. .....|.|.|.|.||||.+.-
T Consensus 7 ~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~---------------------~~~~~~~L~YlDDEgD~VllT 59 (86)
T cd06409 7 DPKGRVHRFRLRPSESLEELRTLISQRLGDDD---------------------FETHLYALSYVDDEGDIVLIT 59 (86)
T ss_pred CCCCCEEEEEecCCCCHHHHHHHHHHHhCCcc---------------------ccCCcccEEEEcCCCCEEEEe
Confidence 4567765554 37899999999999888510 013478999999999999874
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=95.54 E-value=0.043 Score=42.53 Aligned_cols=56 Identities=21% Similarity=0.325 Sum_probs=45.4
Q ss_pred eEEEecCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEecC
Q 026811 117 VKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGD 196 (232)
Q Consensus 117 VKV~MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGD 196 (232)
||++-.|.-+--.+|. .-+|++|.+.+.+||.. ..+..|++.|.|.|||---+..
T Consensus 3 ~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~-----------------------~~~q~ft~kw~DEEGDp~tiSS 57 (83)
T cd06404 3 VKAAYNGDIMITSIDP--SISLEELCNEVRDMCRF-----------------------HNDQPFTLKWIDEEGDPCTISS 57 (83)
T ss_pred EEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCC-----------------------CCCCcEEEEEECCCCCceeecC
Confidence 7899999866656666 67899999999999995 1245799999999999877655
Q ss_pred c
Q 026811 197 V 197 (232)
Q Consensus 197 v 197 (232)
.
T Consensus 58 ~ 58 (83)
T cd06404 58 Q 58 (83)
T ss_pred H
Confidence 3
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=95.06 E-value=0.081 Score=40.97 Aligned_cols=65 Identities=17% Similarity=0.247 Sum_probs=49.6
Q ss_pred eEEEecCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEecC
Q 026811 117 VKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGD 196 (232)
Q Consensus 117 VKV~MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGD 196 (232)
-||.-+|. .|++--..-=+|..|.+.|+.+|.... . .+.+||.|.|||-.-+-|
T Consensus 3 fKv~~~g~--~RRf~~~~~pt~~~L~~kl~~Lf~lp~-----------------------~-~~~vtYiDeD~D~ITlss 56 (82)
T cd06397 3 FKSSFLGD--TRRIVFPDIPTWEALASKLENLYNLPE-----------------------I-KVGVTYIDNDNDEITLSS 56 (82)
T ss_pred EEEEeCCc--eEEEecCCCccHHHHHHHHHHHhCCCh-----------------------h-HeEEEEEcCCCCEEEecc
Confidence 48888887 899988889999999999999999621 1 278999999999875544
Q ss_pred -cChhHHhhccc
Q 026811 197 -VPWEMFVDSCK 207 (232)
Q Consensus 197 -vPWemFv~s~K 207 (232)
.=-+.|..-..
T Consensus 57 d~eL~d~~~~~~ 68 (82)
T cd06397 57 NKELQDFYRLSH 68 (82)
T ss_pred hHHHHHHHHhcc
Confidence 34445544333
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=91.86 E-value=0.6 Score=36.38 Aligned_cols=55 Identities=20% Similarity=0.305 Sum_probs=45.3
Q ss_pred ceeEEEecCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEe
Q 026811 115 AFVKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLV 194 (232)
Q Consensus 115 ~~VKV~MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLV 194 (232)
.=|||+-.|. .|-|-+..--+|++|...+.++|+. ...+.+-|.|. ||..-+
T Consensus 3 ikVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~~-------------------------~~~~~iKykDE-GD~iti 54 (86)
T cd06408 3 IRVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFGF-------------------------KRRLKIKMKDD-GDMITM 54 (86)
T ss_pred EEEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhCC-------------------------CCceEEEEEcC-CCCccc
Confidence 3489998888 6777777777899999999999995 12678999999 999888
Q ss_pred cCc
Q 026811 195 GDV 197 (232)
Q Consensus 195 GDv 197 (232)
++-
T Consensus 55 ~sq 57 (86)
T cd06408 55 GDQ 57 (86)
T ss_pred cCH
Confidence 764
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=68.91 E-value=8.2 Score=30.57 Aligned_cols=37 Identities=24% Similarity=0.397 Sum_probs=30.1
Q ss_pred eccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeE
Q 026811 130 VDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWM 192 (232)
Q Consensus 130 VDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwM 192 (232)
=||+..-+|.+|..-..+-|... +-+|-|.|.|||..
T Consensus 22 e~l~~~P~~kdLl~lmr~~f~~~--------------------------dIaLNYrD~EGDLI 58 (92)
T cd06399 22 EDLSSTPLLKDLLELTRREFQRE--------------------------DIALNYRDAEGDLI 58 (92)
T ss_pred cccccCccHHHHHHHHHHHhchh--------------------------heeeeeecCCCCEE
Confidence 37888889999999888888852 23678999999974
No 16
>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=54.54 E-value=11 Score=26.61 Aligned_cols=17 Identities=29% Similarity=0.649 Sum_probs=14.6
Q ss_pred eeEEEcCCCCeEEecCc
Q 026811 181 VPTYEDKDGDWMLVGDV 197 (232)
Q Consensus 181 vltYeDkdGDwMLVGDv 197 (232)
-+.|.|.||+++++|+.
T Consensus 34 ~i~Y~~~dg~yli~G~l 50 (57)
T PF10411_consen 34 GILYVDEDGRYLIQGQL 50 (57)
T ss_dssp EEEEEETTSSEEEES-E
T ss_pred eEEEEcCCCCEEEEeEE
Confidence 47899999999999985
No 17
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=52.57 E-value=28 Score=27.42 Aligned_cols=50 Identities=22% Similarity=0.340 Sum_probs=35.3
Q ss_pred cCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEecC
Q 026811 122 DGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGD 196 (232)
Q Consensus 122 dG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGD 196 (232)
+|..+--.||...+=++.+++.++.+..-.-|. -..-|||.|||..-|--
T Consensus 9 ~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~aT~-------------------------tAFeYEDE~gDRITVRS 58 (91)
T cd06395 9 NGGAVDWTVQSGPQLLFRDVLDVIGQVLPEATT-------------------------TAFEYEDEDGDRITVRS 58 (91)
T ss_pred CCCcccccccCcccccHHHHHHHHHHhcccccc-------------------------cceeeccccCCeeEecc
Confidence 345566677777778889998888876553221 13579999999988743
No 18
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=41.66 E-value=14 Score=32.38 Aligned_cols=37 Identities=27% Similarity=0.488 Sum_probs=30.9
Q ss_pred hhhhhccCCCCeeeEEEcCCCCeEEecCcChhHHhhcccee
Q 026811 169 SKLMDLLNSSDYVPTYEDKDGDWMLVGDVPWEMFVDSCKRM 209 (232)
Q Consensus 169 ~~l~d~~~~se~vltYeDkdGDwMLVGDvPWemFv~s~KRL 209 (232)
.-|.|.++-.+|..-|.+. -|..|.||+.+++.++||
T Consensus 89 d~L~~~L~~~G~~ae~~~~----~i~T~a~~eev~~l~~~L 125 (190)
T PF09840_consen 89 DLLVDALKLLGYKAEYRED----VIKTDAPLEEVVELAERL 125 (190)
T ss_pred HHHHHHHHhCCCeeEEeCC----eEEecCCHHHHHHHHHHH
Confidence 3566777778899998654 889999999999999996
No 19
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=40.16 E-value=14 Score=31.84 Aligned_cols=54 Identities=26% Similarity=0.452 Sum_probs=38.7
Q ss_pred cCcccceeeccCCCCCHHHHHHHH---HHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEecCc
Q 026811 122 DGAPYLRKVDLKTYKSYQELSDAL---AKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGDV 197 (232)
Q Consensus 122 dG~p~gRKVDL~~~~sY~eL~~aL---e~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGDv 197 (232)
-|-.|.-+++|..|++|++...+. .++|...|.+. .-|. -+....|||+|-|-.
T Consensus 48 AGlDY~~~~~l~~h~s~e~fl~~~~~~~rl~~~tt~~~---------------------~~~~-~~~f~~~d~llFG~E 104 (155)
T COG0219 48 AGLDYHEKASLTEHDSLEAFLEAEPIGGRLFALTTKGT---------------------TTYT-DVSFQKGDYLLFGPE 104 (155)
T ss_pred cccchHhhcceEEeCCHHHHHhhccCCceEEEEEeccc---------------------cccc-cccCCCCCEEEECCC
Confidence 477799999999999999999998 46777544331 0111 134456999999975
No 20
>PF12426 DUF3674: RNA dependent RNA polymerase; InterPro: IPR024378 This domain is found in the RNA-directed RNA polymerase. It is located towards the N terminus and is approximately 40 amino acids in length. There is a conserved MFNLKF sequence motif. There are two completely conserved residues (E and P) that may be functionally important.
Probab=34.19 E-value=22 Score=24.33 Aligned_cols=14 Identities=43% Similarity=0.766 Sum_probs=10.8
Q ss_pred HHHHHHhhcc-ccCC
Q 026811 142 SDALAKMFSS-FTMG 155 (232)
Q Consensus 142 ~~aLe~MF~~-~~~~ 155 (232)
..+||.||+. |.|+
T Consensus 7 R~aLEAMFNLKFhi~ 21 (41)
T PF12426_consen 7 RSALEAMFNLKFHIG 21 (41)
T ss_pred HHHHHHHhceeeeeC
Confidence 6899999994 5554
No 21
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=32.20 E-value=1.3e+02 Score=27.57 Aligned_cols=77 Identities=12% Similarity=0.128 Sum_probs=42.3
Q ss_pred EecCcccceeec--cCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEecCc
Q 026811 120 CMDGAPYLRKVD--LKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGDV 197 (232)
Q Consensus 120 ~MdG~p~gRKVD--L~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGDv 197 (232)
+.+=.|+|+--+ -..+=+.+++...|++.|....+.. . .++.-....+.|..|-.=++.-+
T Consensus 188 ~ie~mP~g~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~-~----------------~~~~~~~~~~~~~~~~ig~I~~~ 250 (329)
T PRK13361 188 FIEEMPLGEIDERRRARHCSSDEVRAIIETRYPLTPSNK-R----------------TGGPARYYTMADSPIHIGFISPH 250 (329)
T ss_pred EEecccCCCccchhhccCcCHHHHHHHHHHhCCcccCCC-C----------------CCCCCeEEEECCCCeEEEEEcCC
Confidence 556677776222 3456678888888888776422210 0 01111111122333444444444
Q ss_pred ChhHHhhccceeEEecC
Q 026811 198 PWEMFVDSCKRMRIMKG 214 (232)
Q Consensus 198 PWemFv~s~KRLrImk~ 214 (232)
-.. ||.+|.||||-..
T Consensus 251 s~~-fC~~Cnr~rlt~~ 266 (329)
T PRK13361 251 SHN-FCHECNRVRVTAE 266 (329)
T ss_pred Ccc-ccccCCeEEEccC
Confidence 444 9999999999654
No 22
>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=27.94 E-value=1.3e+02 Score=24.36 Aligned_cols=67 Identities=16% Similarity=0.251 Sum_probs=28.9
Q ss_pred eccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEecCcChhHHhhcccee
Q 026811 130 VDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGDVPWEMFVDSCKRM 209 (232)
Q Consensus 130 VDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGDvPWemFv~s~KRL 209 (232)
+--..|-+++++...|++-|....... . . ++.-......+..|..=++.-+- +.||.+|.||
T Consensus 17 ~~~~~~~~~~ei~~~l~~~~~~~~~~~---~------------~--~~pa~~y~~~g~~g~vG~I~~~s-~~FC~~CNRi 78 (128)
T PF06463_consen 17 WFEEEFVPAQEILERLEERYELLPSEK---R------------P--NGPARYYRIPGGKGRVGFISPVS-NPFCSSCNRI 78 (128)
T ss_dssp B-TTTB--HHHHHHHHHHHS-EEEE-----S------------S--T-SSEEEEETTT--EEEEE-TTT-S--GGG--EE
T ss_pred chhhcCcCHHHHHHHHHHhCCcccccc---c------------c--CCcceEEEECCCCcEEEEEeCCC-CCCCCcCCEE
Confidence 334678889999999999888632210 0 0 12111122233333333333222 2499999999
Q ss_pred EEecC
Q 026811 210 RIMKG 214 (232)
Q Consensus 210 rImk~ 214 (232)
||-..
T Consensus 79 RlTsd 83 (128)
T PF06463_consen 79 RLTSD 83 (128)
T ss_dssp EE-TT
T ss_pred EEccC
Confidence 99553
No 23
>COG3286 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.42 E-value=33 Score=30.79 Aligned_cols=38 Identities=24% Similarity=0.426 Sum_probs=30.7
Q ss_pred hhhhhccCCCCeeeEEEcCCCCeEEecCcChhHHhhccceeE
Q 026811 169 SKLMDLLNSSDYVPTYEDKDGDWMLVGDVPWEMFVDSCKRMR 210 (232)
Q Consensus 169 ~~l~d~~~~se~vltYeDkdGDwMLVGDvPWemFv~s~KRLr 210 (232)
.-|.|.+..-+|.+-|. ||| |=-+.||+.|++.+++|-
T Consensus 92 ~vl~daLk~~GyrVevr---~~~-l~T~ap~~ev~E~vreLs 129 (204)
T COG3286 92 DVLIDALKLLGYRVEVR---GGE-LKTNAPWSEVVELVRELS 129 (204)
T ss_pred HHHHHHHHhCCceEEee---Cce-eecCCCHHHHHHHHHHHH
Confidence 34667777789999886 455 889999999999999863
No 24
>PF11576 DUF3236: Protein of unknown function (DUF3236); InterPro: IPR012019 This family of proteins with unknown function appears to be restricted to Methanobacteria. ; PDB: 3BRC_B.
Probab=26.53 E-value=24 Score=30.36 Aligned_cols=13 Identities=38% Similarity=0.672 Sum_probs=7.8
Q ss_pred ccccccCCCCCCC
Q 026811 12 ETELCLGLPGGGN 24 (232)
Q Consensus 12 ~TELRLGLPG~~~ 24 (232)
..-=|||.||+.+
T Consensus 97 IARGRLGvPGSGS 109 (154)
T PF11576_consen 97 IARGRLGVPGSGS 109 (154)
T ss_dssp EEEEE-SSTTS-E
T ss_pred EEcccccCCCCcc
Confidence 3344999999853
No 25
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=25.90 E-value=82 Score=30.06 Aligned_cols=79 Identities=24% Similarity=0.342 Sum_probs=53.2
Q ss_pred CceeEEEecCcccceeecc--CCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCe
Q 026811 114 AAFVKVCMDGAPYLRKVDL--KTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDW 191 (232)
Q Consensus 114 ~~~VKV~MdG~p~gRKVDL--~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDw 191 (232)
..-||-..|-. =|..-| ..-.+|++++.-|++.-.+ .+.++.|-|.|.-||.
T Consensus 18 ~veVKSKFdaE--fRRfsl~r~~~~~f~~F~~Lv~~~H~i------------------------~nvdvllgY~d~hgDL 71 (358)
T KOG3606|consen 18 TVEVKSKFDAE--FRRFSLPRHSASSFDEFYSLVEHLHHI------------------------PNVDVLLGYADTHGDL 71 (358)
T ss_pred eEEeeccccch--hheecccccCcccHHHHHHHHHHHhcC------------------------CCceEEEEEecCCCce
Confidence 34455444443 344444 3446899999988888775 2347889999999999
Q ss_pred EEec-CcChhHHhhccc---eeEEecCcccc
Q 026811 192 MLVG-DVPWEMFVDSCK---RMRIMKGSEAI 218 (232)
Q Consensus 192 MLVG-DvPWemFv~s~K---RLrImk~sea~ 218 (232)
+-+- |.-+.--+++++ ||-|-|..||.
T Consensus 72 LPinNDDn~~ka~~sa~PlLR~~iQkr~ea~ 102 (358)
T KOG3606|consen 72 LPINNDDNLHKALSSARPLLRLLIQKREEAD 102 (358)
T ss_pred ecccCchhHHHHhhccCchhhhhhhhhhhhh
Confidence 8664 555666666776 56677776664
No 26
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.18 E-value=1.1e+02 Score=29.15 Aligned_cols=76 Identities=25% Similarity=0.342 Sum_probs=53.3
Q ss_pred ecCcccceeeccCCCCCHHHHHHHHHHhhccccC--CCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEecCcC
Q 026811 121 MDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTM--GNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGDVP 198 (232)
Q Consensus 121 MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~--~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGDvP 198 (232)
-+|.|.|| +..|++-+||++.+..-|.+... --|. +| .|. -|=+.||-|-.-
T Consensus 61 AHGSptg~---Ie~fsnv~ELY~kIAe~F~Is~~dIlfcT----------------lN--shK-----vDM~~llgGqig 114 (334)
T KOG3938|consen 61 AHGSPTGR---IEGFSNVRELYQKIAEAFDISPDDILFCT----------------LN--SHK-----VDMKRLLGGQIG 114 (334)
T ss_pred ccCCccce---ecccccHHHHHHHHHHHhcCCccceEEEe----------------cC--CCc-----ccHHHHhcCccC
Confidence 47999998 56799999999999999986221 0010 01 011 234457888888
Q ss_pred hhHHhh-----ccceeEEecCccccCCCh
Q 026811 199 WEMFVD-----SCKRMRIMKGSEAIGLAP 222 (232)
Q Consensus 199 WemFv~-----s~KRLrImk~sea~gl~~ 222 (232)
.+.|+= -.|-++|+|..++.||..
T Consensus 115 leDfiFAHvkGq~kEv~v~KsedalGlTI 143 (334)
T KOG3938|consen 115 LEDFIFAHVKGQAKEVEVVKSEDALGLTI 143 (334)
T ss_pred hhhhhhhhhcCcceeEEEEecccccceEE
Confidence 888774 566799999999998763
No 27
>cd00771 ThrRS_core Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.
Probab=24.41 E-value=11 Score=34.27 Aligned_cols=55 Identities=22% Similarity=0.309 Sum_probs=37.4
Q ss_pred CCceeEEEecCcccceeeccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCC
Q 026811 113 TAAFVKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGD 190 (232)
Q Consensus 113 ~~~~VKV~MdG~p~gRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGD 190 (232)
+-.|...-=||+-||-|||..+.++ |.+-+.|-|+. .|.....-|-|+|.|+||.
T Consensus 208 ~~~~~~~~g~~afygpkid~~~~d~-------~gr~~q~~t~q----------------ld~~~~~~f~l~y~~~~~~ 262 (298)
T cd00771 208 GLPYEINEGEGAFYGPKIDFHVKDA-------LGREWQCSTIQ----------------LDFNLPERFDLTYIGEDGE 262 (298)
T ss_pred CCCceECCCCcccccceEEEEEEeC-------CCCeeecceeE----------------eeccChhhcCCEEEccCCC
Confidence 4567777788999999999988764 33444443321 1222345788999999986
No 28
>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=23.93 E-value=52 Score=25.79 Aligned_cols=19 Identities=37% Similarity=0.548 Sum_probs=16.2
Q ss_pred CeeeEEEcCCCCeEEecCc
Q 026811 179 DYVPTYEDKDGDWMLVGDV 197 (232)
Q Consensus 179 e~vltYeDkdGDwMLVGDv 197 (232)
=|+.-|+|.+||+..-|.|
T Consensus 92 iwiaP~~D~~g~l~~~~~V 110 (119)
T PF09676_consen 92 IWIAPWEDADGDLHDPGYV 110 (119)
T ss_pred EEEeeeECCCCCEeccceE
Confidence 4788999999999887766
No 29
>PF09582 AnfO_nitrog: Iron only nitrogenase protein AnfO (AnfO_nitrog); InterPro: IPR014287 Proteins in this entry include Anf1 from Rhodobacter capsulatus (Rhodopseudomonas capsulata) and AnfO from Azotobacter vinelandii. They are found exclusively in species which contain the iron-only nitrogenase, and are encoded immediately downstream of the structural genes for the nitrogenase enzyme in these species.
Probab=22.41 E-value=60 Score=28.74 Aligned_cols=49 Identities=29% Similarity=0.766 Sum_probs=36.4
Q ss_pred CCCCeeeEEEcCCCCeEEecCcChhH------------------HhhccceeEEecCccccCCChhhhhh
Q 026811 176 NSSDYVPTYEDKDGDWMLVGDVPWEM------------------FVDSCKRMRIMKGSEAIGLAPRAMEK 227 (232)
Q Consensus 176 ~~se~vltYeDkdGDwMLVGDvPWem------------------Fv~s~KRLrImk~sea~gl~~~~~~~ 227 (232)
...+++.+|+..+|+|-++.+.|.++ |+..| ||.-.+++.|+.--..++
T Consensus 17 ~e~G~v~vy~~~~g~W~~~~e~~f~~~~~~~l~~iR~~~~~li~~L~dC---kifV~~~v~Gi~y~~Le~ 83 (202)
T PF09582_consen 17 YEPGFVRVYEKDDGKWKVIREIPFELCDAKGLAEIRQKISELIEFLGDC---KIFVAKSVSGIPYSLLEK 83 (202)
T ss_pred CCCcEEEEEECCCCceEEeEEEEeccCCCCCHHHHHHHHHHHHHHhCCc---EEEEEccccCccHHHHHH
Confidence 46789999999999999999999982 44444 455666777776554443
No 30
>PF15390 DUF4613: Domain of unknown function (DUF4613)
Probab=21.56 E-value=77 Score=32.99 Aligned_cols=58 Identities=14% Similarity=0.235 Sum_probs=36.1
Q ss_pred CceeEEEecCcccceee----ccCCCCCHHHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCC
Q 026811 114 AAFVKVCMDGAPYLRKV----DLKTYKSYQELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDG 189 (232)
Q Consensus 114 ~~~VKV~MdG~p~gRKV----DL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdG 189 (232)
..||-|.-+-.-+.-+| ..-..+|-=. +.++++||+.. |.+++.++.|++.--|+||
T Consensus 597 ppyVhItyQk~~~~~~vvekRavLLC~GkLr-Ls~VQq~FgLs------------------lVEM~h~s~WIlLsADseG 657 (671)
T PF15390_consen 597 PPYVHITYQKPYSVGPVVEKRAVLLCDGKLR-LSTVQQTFGLS------------------LVEMLHGSHWILLSADSEG 657 (671)
T ss_pred CCeEEEEEecccCCCCcceeeeEEEeCCeec-HHHHHHHhCcc------------------hhhhhhCCeEEEEecCCCC
Confidence 45777765433222222 1222233323 46899999973 3466789999999999998
Q ss_pred C
Q 026811 190 D 190 (232)
Q Consensus 190 D 190 (232)
=
T Consensus 658 F 658 (671)
T PF15390_consen 658 F 658 (671)
T ss_pred e
Confidence 4
No 31
>PF02013 CBM_10: Cellulose or protein binding domain; InterPro: IPR002883 This domain is found in two distinct sets of proteins with different functions. Those found in aerobic bacteria bind cellulose (or other carbohydrates); but in anaerobic fungi they are protein binding domains, referred to as dockerin domains or docking domains. They are believed to be responsible for the assembly of a multiprotein cellulase/hemicellulase complex, similar to the cellulosome found in certain anaerobic bacteria. The recycling of photosynthetically fixed carbon in plant cell walls is a key microbial process. Enzyme systems that attack the plant cell wall contain noncatalytic carbohydrate-binding modules that mediate attachment to this composite structure and play a pivotal role in maximizing the hydrolytic process. In anaerobes, the degradation is carried out by a high molecular weight, multifunctional complex termed the cellulosome. This consists of a number of independent enzyme components, each of which contains a conserved 40-residue dockerin domain, which functions to bind the enzyme to a cohesin domain within the scaffoldin protein [, ]. In anaerobic bacteria that degrade plant cell walls, exemplified by Clostridium thermocellum, the dockerin domains of the catalytic polypeptides can bind equally well to any cohesin from the same organism. More recently, anaerobic fungi, typified by Piromyces equi, have been suggested to also synthesise a cellulosome complex, although the dockerin sequences of the bacterial and fungal enzymes are completely different []. For example, the fungal enzymes contain one, two or three copies of the dockerin sequence in tandem within the catalytic polypeptide. In contrast, all the C. thermocellum cellulosome catalytic components contain a single dockerin domain. The anaerobic bacterial dockerins are homologous to EF hands (calcium-binding motifs) and require calcium for activity whereas the fungal dockerin does not require calcium. Finally, the interaction between cohesin and dockerin appears to be species specific in bacteria, there is almost no species specificity of binding within fungal species and no identified sites that distinguish different species. The structure of dockerin from P. equi contains two helical stretches and four short beta-strands which form an antiparallel sheet structure adjacent to an additional short twisted parallel strand. The N- and C-termini are adjacent to each other. Aerobic bacteria contain related regions, however these appear to function as cellulose/carbohydrate binding domains.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 2J4M_A 2J4N_A 1E8R_A 1QLD_A 1E8P_A 1E8Q_A.
Probab=21.09 E-value=27 Score=23.12 Aligned_cols=12 Identities=42% Similarity=0.869 Sum_probs=8.9
Q ss_pred eeEEEcCCCCeE
Q 026811 181 VPTYEDKDGDWM 192 (232)
Q Consensus 181 vltYeDkdGDwM 192 (232)
.+.|.|.+|+|=
T Consensus 16 ~v~y~d~~g~WG 27 (36)
T PF02013_consen 16 EVVYTDDDGGWG 27 (36)
T ss_dssp --SEEETTEEEE
T ss_pred ceEEcCCCCCEe
Confidence 578999999983
No 32
>PF03589 Antiterm: Antitermination protein; InterPro: IPR003222 This entry consists of antitermination proteins found in bacteriophages, such as protein Q from phage lambda, and some bacterial homologues. Protein Q positively regulates expression of the phage late gene operon by binding to the bacterial host RNA polymerase (RNAP) and modifying it. The modified RNAP transcribes through termination sites that otherwise prevent expression of the regulated genes [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=21.05 E-value=38 Score=26.55 Aligned_cols=29 Identities=21% Similarity=0.428 Sum_probs=22.3
Q ss_pred CCCccccccccCCCCCCCCCchhhhhhhcCCCCCCCCCCCCch
Q 026811 7 KMDFKETELCLGLPGGGNNKKDEAAALELTPTPKASNKRGFCE 49 (232)
Q Consensus 7 ~lnl~~TELRLGLPG~~~~~~~~~~~~~~~~~~~~~~KRgfse 49 (232)
.|++++|++++|+|=-.. -..++||||+.
T Consensus 17 al~~~~s~~~~G~pvfk~--------------c~rcgg~G~sr 45 (95)
T PF03589_consen 17 ALDMKQSKAQFGVPVFKD--------------CERCGGRGYSR 45 (95)
T ss_pred eccHHHhHhccCCchhhh--------------hhhhcCCCCCC
Confidence 489999999999996421 23478999995
No 33
>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=20.93 E-value=1.1e+02 Score=25.50 Aligned_cols=35 Identities=20% Similarity=0.503 Sum_probs=30.0
Q ss_pred eeEEEecCc--ccceeeccCCCCCHHHHHHHHHHhhc
Q 026811 116 FVKVCMDGA--PYLRKVDLKTYKSYQELSDALAKMFS 150 (232)
Q Consensus 116 ~VKV~MdG~--p~gRKVDL~~~~sY~eL~~aLe~MF~ 150 (232)
-+||..+|. +|=|.|.+..--+..+|..+++..|+
T Consensus 6 ~lkV~L~~~~p~iwRri~Vp~~~tl~~Lh~~Iq~afg 42 (179)
T PF07929_consen 6 QLKVSLKGSKPPIWRRIEVPADITLADLHEVIQAAFG 42 (179)
T ss_dssp EEEEEETT-SS-EEEEEEEETT-BHHHHHHHHHHHTT
T ss_pred EEEEEEcCCCCCeEEEEEECCCCCHHHHHHHHHHHhC
Confidence 478999885 89999999999999999999999997
No 34
>PLN02622 iron superoxide dismutase
Probab=20.49 E-value=1.9e+02 Score=26.64 Aligned_cols=53 Identities=28% Similarity=0.401 Sum_probs=29.7
Q ss_pred HHHHHHHHHhhccccCCCcCCCCcccccchhhhhhccCCCCeeeEEEcCCCCeEEecCcChhHHhhccceeEEecCccc
Q 026811 139 QELSDALAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPTYEDKDGDWMLVGDVPWEMFVDSCKRMRIMKGSEA 217 (232)
Q Consensus 139 ~eL~~aLe~MF~~~~~~~~~~~g~~~~~~e~~l~d~~~~se~vltYeDkdGDwMLVGDvPWemFv~s~KRLrImk~sea 217 (232)
..|..++++=|+.|. . +...+.+..+ . +.||+|+..+.|.++ +||+|+....+
T Consensus 142 g~L~~aI~~~FGS~d--~-----Fk~~F~~aA~-s-~fGSGW~WLv~d~~~-----------------g~L~I~~t~N~ 194 (261)
T PLN02622 142 LGVLEQIEKDFGSFT--N-----FREKFTEAAL-T-LFGSGWVWLVLKREE-----------------RRLEVVKTSNA 194 (261)
T ss_pred HHHHHHHHHHhcCHH--H-----HHHHHHHHHh-h-cCCceEEEEEEeCCC-----------------CeEEEEecCCC
Confidence 357777777777642 1 1100111111 1 358899998888754 36777766554
Done!