Query 023104
Match_columns 287
No_of_seqs 247 out of 563
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 08:28:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023104.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023104hhsearch_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 1.9E-63 4E-68 443.7 0.4 210 24-275 1-215 (215)
2 PF00564 PB1: PB1 domain; Int 97.4 0.00041 8.9E-09 52.4 6.1 67 173-258 3-70 (84)
3 cd06398 PB1_Joka2 The PB1 doma 97.2 0.0012 2.7E-08 53.0 6.9 68 173-259 2-72 (91)
4 cd06407 PB1_NLP A PB1 domain i 97.1 0.0025 5.4E-08 50.2 7.1 55 174-247 3-57 (82)
5 smart00666 PB1 PB1 domain. Pho 96.9 0.0053 1.2E-07 46.3 7.6 65 174-258 4-69 (81)
6 cd05992 PB1 The PB1 domain is 96.8 0.0066 1.4E-07 45.5 7.4 66 173-258 2-69 (81)
7 cd06396 PB1_NBR1 The PB1 domai 96.6 0.0077 1.7E-07 47.9 6.6 53 174-246 3-55 (81)
8 cd06409 PB1_MUG70 The MUG70 pr 95.8 0.02 4.3E-07 46.0 5.2 51 181-246 7-59 (86)
9 cd06401 PB1_TFG The PB1 domain 95.6 0.061 1.3E-06 43.0 7.2 72 174-262 3-78 (81)
10 cd06403 PB1_Par6 The PB1 domai 95.5 0.075 1.6E-06 42.4 7.4 67 174-258 3-70 (80)
11 cd06404 PB1_aPKC PB1 domain is 95.4 0.052 1.1E-06 43.5 6.1 56 174-248 3-58 (83)
12 cd06402 PB1_p62 The PB1 domain 94.5 0.17 3.7E-06 40.7 7.0 59 173-248 2-65 (87)
13 cd06397 PB1_UP1 Uncharacterize 92.5 0.47 1E-05 38.1 6.2 66 174-259 3-69 (82)
14 cd06408 PB1_NoxR The PB1 domai 90.9 0.9 2E-05 36.6 6.4 54 173-248 4-57 (86)
15 cd06399 PB1_P40 The PB1 domain 64.0 12 0.00026 30.8 4.1 37 187-243 22-58 (92)
16 cd06395 PB1_Map2k5 PB1 domain 51.1 25 0.00054 28.7 3.9 49 180-247 10-58 (91)
17 PF10411 DsbC_N: Disulfide bon 51.0 13 0.00028 27.1 2.2 17 232-248 34-50 (57)
18 cd06406 PB1_P67 A PB1 domain i 49.5 80 0.0017 25.3 6.5 70 172-262 3-75 (80)
19 KOG3938 RGS-GAIP interacting p 33.3 73 0.0016 31.3 4.7 76 179-272 62-142 (334)
20 PF00788 RA: Ras association ( 24.6 2.2E+02 0.0047 21.1 5.2 69 172-256 3-77 (93)
21 KOG3957 Predicted L-carnitine 23.8 1.1E+02 0.0025 30.8 4.3 78 183-267 177-254 (387)
22 PRK13361 molybdenum cofactor b 23.2 2.6E+02 0.0055 26.6 6.5 78 176-265 187-266 (329)
23 COG0219 CspR Predicted rRNA me 21.8 37 0.0008 30.3 0.5 70 179-264 48-125 (155)
24 PF04809 HupH_C: HupH hydrogen 20.9 70 0.0015 27.0 2.0 33 229-261 71-113 (120)
25 KOG3579 Predicted E3 ubiquitin 20.2 40 0.00086 33.3 0.4 58 193-258 18-80 (352)
26 PF09582 AnfO_nitrog: Iron onl 20.2 1.1E+02 0.0024 28.0 3.3 47 229-278 19-83 (202)
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=1.9e-63 Score=443.68 Aligned_cols=210 Identities=45% Similarity=0.680 Sum_probs=6.0
Q ss_pred CCCccceeeccccccCCCCC--ccccccccCCCCCCCccccccccccCCccccccCccCCCCCCCCCCCcccccCcccCC
Q 023104 24 SSPVESELELGLGLSLGGGG--FIKAQQQASGGGGGGGQYARILTAKDFSSVVSSSSCLSSSSSSLSRGDYVAAGTKRSS 101 (287)
Q Consensus 24 ~~~~etEL~LGLpg~~gg~~--~~~~~~~~~~~krgfset~dlL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kr~~ 101 (287)
++|++|||||||||+..... .........+.||+|+++++.-....... .... ..... .... .........
T Consensus 1 ln~~~TELrLGLPG~~~~~~~~~~~~~~~~~~~kR~F~~aid~~~~~~~~~---~~~~-~~~~~--~~~~-~~~~~~~~~ 73 (215)
T PF02309_consen 1 LNLKATELRLGLPGSESPDASSSSSSKKSSSGNKRGFSEAIDSSSSNSQSS---SSSS-SDSSS--SSSS-SSTSSSSSD 73 (215)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCchhhhhcccCCCCCCCCcccccccccccCcccccchhhhhhcccccccc---cccc-cccCc--cccc-ccccccccc
Confidence 47899999999999632110 01222345688999999988843211110 0000 00000 0000 000111111
Q ss_pred CCc-cCCCCCCCcccCCcchhhhhhhccccccccchhhhhhhhhhcccccccccccccccccccccCCCCCCceEEEecC
Q 023104 102 DSV-AAANGSSQVVGWPPIRAYRMNSMVNQAKSVASEEYNSMMENKRKNSLVEKTTDVCSKNSASAKGRTSPFVKVNMDG 180 (287)
Q Consensus 102 ~~~-~~p~akaqVVGWPPVRS~RkN~~~~q~~~~~~e~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~VKV~MdG 180 (287)
.+. ..|.+++|||||||||+||+|++...+. ....+||||+|||
T Consensus 74 ~~~~~~p~~~~~~vgwpp~~s~r~n~~~~~~~-----------------------------------~~~~~~vKV~mdG 118 (215)
T PF02309_consen 74 SSSSSPPASKAQVVGWPPVRSFRKNSLSEKQS-----------------------------------SSSRSYVKVNMDG 118 (215)
T ss_dssp ------------BTTBS----S----------------------------------------------------------
T ss_pred cccCCCCcccccccCCCccccccccccccccc-----------------------------------ccCCceeEEEecC
Confidence 122 2345789999999999999999872110 1125799999999
Q ss_pred cccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCC--CCCCeEEEEEeCCCCeEEccCCChHHHhhccc
Q 023104 181 IPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLD--GTSDYVLTYEDKEGDWMLVGDVPWGMFLGSVK 258 (287)
Q Consensus 181 ~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d--~~seyvltYeDkeGDwMLVGDvPW~mFv~svK 258 (287)
+||||||||++|+||++|+.+|++||.+|.++..+.+..++.++++ ++++|+|||||+||||||||||||+|||++||
T Consensus 119 ~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~Y~D~egd~mlvGD~PW~~F~~~vk 198 (215)
T PF02309_consen 119 VPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGSHGLNESGLLDLLNGSEYVLVYEDKEGDWMLVGDVPWEEFVKSVK 198 (215)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccceecCHHHhhCHHHHHHHHHHhcCCCCccccccccccchhhccccCCcceeEEEECCCCCEEEecCCCHHHHHHHhh
Confidence 9999999999999999999999999988766433323334444444 45799999999999999999999999999999
Q ss_pred eeEEecCccccCCcchh
Q 023104 259 RLRIMRTSEATGLAPRL 275 (287)
Q Consensus 259 RLrImk~sea~gl~~r~ 275 (287)
|||||+.+|++||+||+
T Consensus 199 Rl~I~~~~e~~~~~~r~ 215 (215)
T PF02309_consen 199 RLRIMKSSEAKGLAPRA 215 (215)
T ss_dssp -----------------
T ss_pred ccEEecHHHhcccCCCC
Confidence 99999999999999986
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=97.43 E-value=0.00041 Score=52.39 Aligned_cols=67 Identities=27% Similarity=0.419 Sum_probs=53.8
Q ss_pred ceEEEecCcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEcc-CCChH
Q 023104 173 FVKVNMDGIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVG-DVPWG 251 (287)
Q Consensus 173 ~VKV~MdG~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVG-DvPW~ 251 (287)
-|||...|. +=|.+.+..--+|.+|...+++.|. .. ...+.+.|.|.||||..+- |.=|.
T Consensus 3 ~vK~~~~~~-~~~~~~~~~~~s~~~L~~~i~~~~~-----~~-------------~~~~~l~Y~D~dgD~V~i~sd~Dl~ 63 (84)
T PF00564_consen 3 RVKVRYGGD-IRRIISLPSDVSFDDLRSKIREKFG-----LL-------------DEDFQLKYKDEDGDLVTISSDEDLQ 63 (84)
T ss_dssp EEEEEETTE-EEEEEEECSTSHHHHHHHHHHHHHT-----TS-------------TSSEEEEEEETTSSEEEESSHHHHH
T ss_pred EEEEEECCe-eEEEEEcCCCCCHHHHHHHHHHHhC-----CC-------------CccEEEEeeCCCCCEEEeCCHHHHH
Confidence 478999886 3345888888899999999999994 21 2579999999999999887 44578
Q ss_pred HHhhccc
Q 023104 252 MFLGSVK 258 (287)
Q Consensus 252 mFv~svK 258 (287)
+.+..++
T Consensus 64 ~a~~~~~ 70 (84)
T PF00564_consen 64 EAIEQAK 70 (84)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 7777775
No 3
>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=97.22 E-value=0.0012 Score=52.98 Aligned_cols=68 Identities=22% Similarity=0.310 Sum_probs=52.5
Q ss_pred ceEEEecCcccceeeecC---CCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccCCC
Q 023104 173 FVKVNMDGIPIGRKIDLN---AHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGDVP 249 (287)
Q Consensus 173 ~VKV~MdG~pigRKVDL~---~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGDvP 249 (287)
-|||..+|.-+=-++++. ..-+|++|.+.+.+.|. + ....+|+|.|.|.||||..+-..
T Consensus 2 ~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~-----l------------~~~~~~~l~Y~Dedgd~V~l~~D- 63 (91)
T cd06398 2 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFS-----L------------SPDADLSLTYTDEDGDVVTLVDD- 63 (91)
T ss_pred EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhC-----C------------CCCCcEEEEEECCCCCEEEEccH-
Confidence 489999997444455543 46799999999999994 1 12368999999999999998766
Q ss_pred hHHHhhccce
Q 023104 250 WGMFLGSVKR 259 (287)
Q Consensus 250 W~mFv~svKR 259 (287)
++|...+.+
T Consensus 64 -~DL~~a~~~ 72 (91)
T cd06398 64 -NDLTDAIQY 72 (91)
T ss_pred -HHHHHHHHH
Confidence 777776665
No 4
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=97.06 E-value=0.0025 Score=50.21 Aligned_cols=55 Identities=22% Similarity=0.354 Sum_probs=43.5
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccC
Q 023104 174 VKVNMDGIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGD 247 (287)
Q Consensus 174 VKV~MdG~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGD 247 (287)
|||...|. -+.+-|..--+|++|.+.+.++|. +. ....|.|-|.|.||||.++--
T Consensus 3 vK~~~~~d--~~r~~l~~~~~~~~L~~~i~~r~~-----~~------------~~~~f~LkY~Ddegd~v~lts 57 (82)
T cd06407 3 VKATYGEE--KIRFRLPPSWGFTELKQEIAKRFK-----LD------------DMSAFDLKYLDDDEEWVLLTC 57 (82)
T ss_pred EEEEeCCe--EEEEEcCCCCCHHHHHHHHHHHhC-----CC------------CCCeeEEEEECCCCCeEEeec
Confidence 89999886 355666666699999999999994 21 125899999999999998753
No 5
>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=96.92 E-value=0.0053 Score=46.29 Aligned_cols=65 Identities=20% Similarity=0.369 Sum_probs=50.7
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEcc-CCChHH
Q 023104 174 VKVNMDGIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVG-DVPWGM 252 (287)
Q Consensus 174 VKV~MdG~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVG-DvPW~m 252 (287)
|||.-.| --|.+-+..--+|.+|...|.+.|. .. ...+.|.|+|.||||..+. |.=|.+
T Consensus 4 vK~~~~~--~~~~~~~~~~~s~~dL~~~i~~~~~-----~~-------------~~~~~l~Y~Dedgd~v~l~sd~Dl~~ 63 (81)
T smart00666 4 VKLRYGG--ETRRLSVPRDISFEDLRSKVAKRFG-----LD-------------NQSFTLKYQDEDGDLVSLTSDEDLEE 63 (81)
T ss_pred EEEEECC--EEEEEEECCCCCHHHHHHHHHHHhC-----CC-------------CCCeEEEEECCCCCEEEecCHHHHHH
Confidence 6787754 3577888888999999999999994 11 1468999999999998766 456777
Q ss_pred Hhhccc
Q 023104 253 FLGSVK 258 (287)
Q Consensus 253 Fv~svK 258 (287)
.+..++
T Consensus 64 a~~~~~ 69 (81)
T smart00666 64 AIEEYD 69 (81)
T ss_pred HHHHHH
Confidence 777665
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=96.83 E-value=0.0066 Score=45.48 Aligned_cols=66 Identities=20% Similarity=0.312 Sum_probs=50.5
Q ss_pred ceEEEecCcccceeeecC-CCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccC-CCh
Q 023104 173 FVKVNMDGIPIGRKIDLN-AHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGD-VPW 250 (287)
Q Consensus 173 ~VKV~MdG~pigRKVDL~-~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGD-vPW 250 (287)
-|||+-.|. -|.+=+. ..-+|++|...|.+.|. .. ...+.+.|.|.||||..+.+ .=|
T Consensus 2 ~vK~~~~~~--~~~~~~~~~~~s~~~L~~~i~~~~~-----~~-------------~~~~~l~y~D~e~d~v~l~sd~Dl 61 (81)
T cd05992 2 RVKVKYGGE--IRRFVVVSRSISFEDLRSKIAEKFG-----LD-------------AVSFKLKYPDEDGDLVTISSDEDL 61 (81)
T ss_pred cEEEEecCC--CEEEEEecCCCCHHHHHHHHHHHhC-----CC-------------CCcEEEEeeCCCCCEEEeCCHHHH
Confidence 378888764 2455555 88899999999999994 11 14789999999999999887 567
Q ss_pred HHHhhccc
Q 023104 251 GMFLGSVK 258 (287)
Q Consensus 251 ~mFv~svK 258 (287)
++.++.++
T Consensus 62 ~~a~~~~~ 69 (81)
T cd05992 62 EEAIEEAR 69 (81)
T ss_pred HHHHHHHh
Confidence 77776665
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=96.60 E-value=0.0077 Score=47.88 Aligned_cols=53 Identities=19% Similarity=0.261 Sum_probs=44.9
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEcc
Q 023104 174 VKVNMDGIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVG 246 (287)
Q Consensus 174 VKV~MdG~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVG 246 (287)
|||...|.-+=-+++-+..-+|++|...+.++|. + + .|.|.|-|.||||.++=
T Consensus 3 vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~-----l------------~---~f~lKYlDde~e~v~ls 55 (81)
T cd06396 3 LKVTYNGESQSFLVSDSENTTWASVEAMVKVSFG-----L------------N---DIQIKYVDEENEEVSVN 55 (81)
T ss_pred EEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhC-----C------------C---cceeEEEcCCCCEEEEE
Confidence 7899999877777777778899999999999994 1 1 57899999999998874
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=95.81 E-value=0.02 Score=45.97 Aligned_cols=51 Identities=27% Similarity=0.367 Sum_probs=38.6
Q ss_pred cccceeeecC--CCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEcc
Q 023104 181 IPIGRKIDLN--AHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVG 246 (287)
Q Consensus 181 ~pigRKVDL~--~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVG 246 (287)
.|-||.+=++ ...||.+|..++.+=|. ++.. ....|.|.|.|.||||.|+-
T Consensus 7 ~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~-----~d~~----------~~~~~~L~YlDDEgD~VllT 59 (86)
T cd06409 7 DPKGRVHRFRLRPSESLEELRTLISQRLG-----DDDF----------ETHLYALSYVDDEGDIVLIT 59 (86)
T ss_pred CCCCCEEEEEecCCCCHHHHHHHHHHHhC-----Cccc----------cCCcccEEEEcCCCCEEEEe
Confidence 4566665444 47899999999999993 3321 13579999999999999875
No 9
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=95.60 E-value=0.061 Score=42.96 Aligned_cols=72 Identities=19% Similarity=0.462 Sum_probs=47.2
Q ss_pred eEEEecCcccceeeecCCC-CChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccCC---C
Q 023104 174 VKVNMDGIPIGRKIDLNAH-GCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGDV---P 249 (287)
Q Consensus 174 VKV~MdG~pigRKVDL~~~-~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGDv---P 249 (287)
+|+...|. | |.+=+..- -+|.+|...+++.|.. .+ -....+.+.|.|.|||+.-+-+- -
T Consensus 3 iK~~~g~D-i-R~~~~~~~~~t~~~L~~~v~~~F~~--------~~-------~~~~~flIKYkD~dGDlVTIts~~dL~ 65 (81)
T cd06401 3 LKAQLGDD-I-RRIPIHNEDITYDELLLMMQRVFRG--------KL-------GSSDDVLIKYKDEDGDLITIFDSSDLS 65 (81)
T ss_pred EEEEeCCe-E-EEEeccCccccHHHHHHHHHHHhcc--------cc-------CCcccEEEEEECCCCCEEEeccHHHHH
Confidence 56666553 5 44443332 3999999999999951 00 12358999999999999999875 3
Q ss_pred hHHHhhccceeEE
Q 023104 250 WGMFLGSVKRLRI 262 (287)
Q Consensus 250 W~mFv~svKRLrI 262 (287)
|..=+...+||+|
T Consensus 66 ~A~~~~~~~~l~~ 78 (81)
T cd06401 66 FAIQCSRILKLTL 78 (81)
T ss_pred HHHhcCcceEEEE
Confidence 3322333445554
No 10
>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=95.51 E-value=0.075 Score=42.38 Aligned_cols=67 Identities=27% Similarity=0.403 Sum_probs=47.5
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEcc-CCChHH
Q 023104 174 VKVNMDGIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVG-DVPWGM 252 (287)
Q Consensus 174 VKV~MdG~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVG-DvPW~m 252 (287)
||...|.+--=-.+|.....+|++++.-|+.||. +. .-.|+|-|.|.+||.+=+- |+-+..
T Consensus 3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~-----l~-------------~~~f~i~Y~D~~gDLLPInNDdNf~k 64 (80)
T cd06403 3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHH-----IP-------------NVDFLIGYTDPHGDLLPINNDDNFLK 64 (80)
T ss_pred eecccCCeEEEEEeccccCcCHHHHHHHHHHHhC-----CC-------------CCcEEEEEeCCCCCEecccCcHHHHH
Confidence 5555655422224555566999999999999994 21 2589999999999999776 445555
Q ss_pred Hhhccc
Q 023104 253 FLGSVK 258 (287)
Q Consensus 253 Fv~svK 258 (287)
=+.+++
T Consensus 65 Alssa~ 70 (80)
T cd06403 65 ALSSAN 70 (80)
T ss_pred HHHcCC
Confidence 555666
No 11
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=95.36 E-value=0.052 Score=43.51 Aligned_cols=56 Identities=25% Similarity=0.312 Sum_probs=44.1
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccCC
Q 023104 174 VKVNMDGIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGDV 248 (287)
Q Consensus 174 VKV~MdG~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGDv 248 (287)
+|++-.|.-+--.+|. .-+|++|.+.+.+||.. .....|++.|.|.|||-.-+...
T Consensus 3 ~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~-----------------~~~q~ft~kw~DEEGDp~tiSS~ 58 (83)
T cd06404 3 VKAAYNGDIMITSIDP--SISLEELCNEVRDMCRF-----------------HNDQPFTLKWIDEEGDPCTISSQ 58 (83)
T ss_pred EEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCC-----------------CCCCcEEEEEECCCCCceeecCH
Confidence 7899999755555665 77899999999999951 12357999999999998877654
No 12
>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=94.50 E-value=0.17 Score=40.68 Aligned_cols=59 Identities=24% Similarity=0.375 Sum_probs=43.0
Q ss_pred ceEEEecC---cccceeeec--CCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccC
Q 023104 173 FVKVNMDG---IPIGRKIDL--NAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGD 247 (287)
Q Consensus 173 ~VKV~MdG---~pigRKVDL--~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGD 247 (287)
+||.+..| .+==|++=| ....+|++|...+.++|.. . ....|++.|.|.|||..-+..
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~----l-------------~~~~ftlky~DeeGDlvtIss 64 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPS----L-------------RGKNFQLFWKDEEGDLVAFSS 64 (87)
T ss_pred eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHccc----c-------------CCCcEEEEEECCCCCEEeecC
Confidence 57777766 222354444 6667999999999999941 1 125899999999999988765
Q ss_pred C
Q 023104 248 V 248 (287)
Q Consensus 248 v 248 (287)
.
T Consensus 65 d 65 (87)
T cd06402 65 D 65 (87)
T ss_pred H
Confidence 4
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=92.50 E-value=0.47 Score=38.11 Aligned_cols=66 Identities=21% Similarity=0.285 Sum_probs=48.8
Q ss_pred eEEEecCcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccC-CChHH
Q 023104 174 VKVNMDGIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGD-VPWGM 252 (287)
Q Consensus 174 VKV~MdG~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGD-vPW~m 252 (287)
-||.-+| -.|++-...-=+|..|...|+.+|+- . .-.+.|+|.|.|||..-+-| .=-++
T Consensus 3 fKv~~~g--~~RRf~~~~~pt~~~L~~kl~~Lf~l-----p-------------~~~~~vtYiDeD~D~ITlssd~eL~d 62 (82)
T cd06397 3 FKSSFLG--DTRRIVFPDIPTWEALASKLENLYNL-----P-------------EIKVGVTYIDNDNDEITLSSNKELQD 62 (82)
T ss_pred EEEEeCC--ceEEEecCCCccHHHHHHHHHHHhCC-----C-------------hhHeEEEEEcCCCCEEEecchHHHHH
Confidence 4777777 46888888889999999999999951 1 11388999999999886554 44555
Q ss_pred Hhhccce
Q 023104 253 FLGSVKR 259 (287)
Q Consensus 253 Fv~svKR 259 (287)
|..-..|
T Consensus 63 ~~~~~~~ 69 (82)
T cd06397 63 FYRLSHR 69 (82)
T ss_pred HHHhccc
Confidence 5554443
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=90.87 E-value=0.9 Score=36.60 Aligned_cols=54 Identities=22% Similarity=0.333 Sum_probs=43.9
Q ss_pred ceEEEecCcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccCC
Q 023104 173 FVKVNMDGIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGDV 248 (287)
Q Consensus 173 ~VKV~MdG~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGDv 248 (287)
-|||+-.|. .|-|-+..-=+|++|...+.++|. +. ..++|-|.|. ||..-+++-
T Consensus 4 kVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~-----~~--------------~~~~iKykDE-GD~iti~sq 57 (86)
T cd06408 4 RVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFG-----FK--------------RRLKIKMKDD-GDMITMGDQ 57 (86)
T ss_pred EEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhC-----CC--------------CceEEEEEcC-CCCccccCH
Confidence 489998887 566777777789999999999994 21 3789999999 999888764
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=64.03 E-value=12 Score=30.77 Aligned_cols=37 Identities=30% Similarity=0.514 Sum_probs=30.1
Q ss_pred eecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeE
Q 023104 187 IDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWM 243 (287)
Q Consensus 187 VDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwM 243 (287)
=||+.--+|.+|..-..+-|.. .+-+|-|.|.|||..
T Consensus 22 e~l~~~P~~kdLl~lmr~~f~~--------------------~dIaLNYrD~EGDLI 58 (92)
T cd06399 22 EDLSSTPLLKDLLELTRREFQR--------------------EDIALNYRDAEGDLI 58 (92)
T ss_pred cccccCccHHHHHHHHHHHhch--------------------hheeeeeecCCCCEE
Confidence 3788888999999999999941 245688999999974
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=51.07 E-value=25 Score=28.70 Aligned_cols=49 Identities=18% Similarity=0.401 Sum_probs=36.6
Q ss_pred CcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccC
Q 023104 180 GIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGD 247 (287)
Q Consensus 180 G~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGD 247 (287)
|..+--.||...+=+|.+|..++.+..-.-|. -..-|||.|||++-|--
T Consensus 10 gg~vDw~V~~~~~L~F~DvL~~I~~vlp~aT~-------------------tAFeYEDE~gDRITVRS 58 (91)
T cd06395 10 GGAVDWTVQSGPQLLFRDVLDVIGQVLPEATT-------------------TAFEYEDEDGDRITVRS 58 (91)
T ss_pred CCcccccccCcccccHHHHHHHHHHhcccccc-------------------cceeeccccCCeeEecc
Confidence 55677788888888999999999998842111 12559999999988753
No 17
>PF10411 DsbC_N: Disulfide bond isomerase protein N-terminus; InterPro: IPR018950 This is the N-terminal domain of the disulphide bond isomerase DsbC. The whole molecule is V-shaped, where each arm is a DsbC monomer of two domains linked by a hinge; and the N-termini of each monomer join to form the dimer interface at the base of the V, so are vital for dimerisation []. DsbC is required for disulphide bond formation and functions as a disulphide bond isomerase during oxidative protein-folding in bacterial periplasm. It also has chaperone activity []. ; PDB: 1EEJ_B 2IYJ_A 1TJD_A 1JZD_B 1JZO_A 1G0T_B 1T3B_A.
Probab=51.05 E-value=13 Score=27.07 Aligned_cols=17 Identities=24% Similarity=0.716 Sum_probs=14.5
Q ss_pred EEEEEeCCCCeEEccCC
Q 023104 232 VLTYEDKEGDWMLVGDV 248 (287)
Q Consensus 232 vltYeDkeGDwMLVGDv 248 (287)
.+.|.|.||+.+++|+.
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 38899999999999975
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=49.48 E-value=80 Score=25.26 Aligned_cols=70 Identities=17% Similarity=0.245 Sum_probs=51.1
Q ss_pred CceEEEecCcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCC-CeEEccCCCh
Q 023104 172 PFVKVNMDGIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEG-DWMLVGDVPW 250 (287)
Q Consensus 172 ~~VKV~MdG~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeG-DwMLVGDvPW 250 (287)
--|||+..+ .=.|-...=-+|.+|...|.+-+. +.+ .+-+|.|.|.+. +...++|.=|
T Consensus 3 ~vvKV~f~~---tIaIrvp~~~~y~~L~~ki~~kLk-----l~~-------------e~i~LsYkde~s~~~v~l~d~dl 61 (80)
T cd06406 3 YVVKVHFKY---TVAIQVARGLSYATLLQKISSKLE-----LPA-------------EHITLSYKSEASGEDVILSDTNM 61 (80)
T ss_pred eEEEEEEEE---EEEEEcCCCCCHHHHHHHHHHHhC-----CCc-------------hhcEEEeccCCCCCccCcChHHH
Confidence 358999997 345666667789999999999994 222 245688998774 4444599989
Q ss_pred HHHhhccc--eeEE
Q 023104 251 GMFLGSVK--RLRI 262 (287)
Q Consensus 251 ~mFv~svK--RLrI 262 (287)
+.-.+.|+ ||++
T Consensus 62 e~aws~~~~~~lTL 75 (80)
T cd06406 62 EDVWSQAKDGCLTL 75 (80)
T ss_pred HHHHHhhcCCeEEE
Confidence 88888887 5554
No 19
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=33.27 E-value=73 Score=31.28 Aligned_cols=76 Identities=21% Similarity=0.346 Sum_probs=52.0
Q ss_pred cCcccceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccCCChHHHhh---
Q 023104 179 DGIPIGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGDVPWGMFLG--- 255 (287)
Q Consensus 179 dG~pigRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGDvPW~mFv~--- 255 (287)
+|.|.|| +..|++-+||++.++.-|. +...+.+ .+.| | .+. .|=+.||-|-.-.++|+=
T Consensus 62 HGSptg~---Ie~fsnv~ELY~kIAe~F~-----Is~~dIl-fcTl--N--shK-----vDM~~llgGqigleDfiFAHv 123 (334)
T KOG3938|consen 62 HGSPTGR---IEGFSNVRELYQKIAEAFD-----ISPDDIL-FCTL--N--SHK-----VDMKRLLGGQIGLEDFIFAHV 123 (334)
T ss_pred cCCccce---ecccccHHHHHHHHHHHhc-----CCccceE-EEec--C--CCc-----ccHHHHhcCccChhhhhhhhh
Confidence 5888988 5678999999999999995 3221100 0000 0 111 244568888888888873
Q ss_pred --ccceeEEecCccccCCc
Q 023104 256 --SVKRLRIMRTSEATGLA 272 (287)
Q Consensus 256 --svKRLrImk~sea~gl~ 272 (287)
-.|-|+|+|..++-||.
T Consensus 124 kGq~kEv~v~KsedalGlT 142 (334)
T KOG3938|consen 124 KGQAKEVEVVKSEDALGLT 142 (334)
T ss_pred cCcceeEEEEecccccceE
Confidence 56789999999998774
No 20
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=24.56 E-value=2.2e+02 Score=21.12 Aligned_cols=69 Identities=16% Similarity=0.173 Sum_probs=49.4
Q ss_pred CceEEEecCccc---ceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEE--EEeCCCCeEEcc
Q 023104 172 PFVKVNMDGIPI---GRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLT--YEDKEGDWMLVG 246 (287)
Q Consensus 172 ~~VKV~MdG~pi---gRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvlt--YeDkeGDwMLVG 246 (287)
.++||+++..-- -+.|=+.....-.+++.++.+-|. +. +...+|.|+ -......+.|-.
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~-----l~-----------~~~~~y~L~~~~~~~~~er~L~~ 66 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFG-----LA-----------EDPSDYCLVEVEESGGEERPLDD 66 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTT-----TS-----------SSGGGEEEEEEECTTTEEEEETT
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhC-----CC-----------CCCCCEEEEEEEcCCCEEEEcCC
Confidence 489999987652 688899999999999999999994 31 134689994 445555666654
Q ss_pred -CCChHHHhhc
Q 023104 247 -DVPWGMFLGS 256 (287)
Q Consensus 247 -DvPW~mFv~s 256 (287)
+.|+..+..-
T Consensus 67 ~E~pl~i~~~~ 77 (93)
T PF00788_consen 67 DECPLQIQLQW 77 (93)
T ss_dssp TSBHHHHHHTT
T ss_pred CCchHHHHHhC
Confidence 3477766554
No 21
>KOG3957 consensus Predicted L-carnitine dehydratase/alpha-methylacyl-CoA racemase [Lipid transport and metabolism]
Probab=23.82 E-value=1.1e+02 Score=30.76 Aligned_cols=78 Identities=23% Similarity=0.266 Sum_probs=56.6
Q ss_pred cceeeecCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccCCChHHHhhccceeEE
Q 023104 183 IGRKIDLNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGDVPWGMFLGSVKRLRI 262 (287)
Q Consensus 183 igRKVDL~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGDvPW~mFv~svKRLrI 262 (287)
-|-.||-+|..+-.-|+.-|..-+....-. . ..-.+.+++.-+-=||+-+||-.|.||-.- .-|.+.|+++..
T Consensus 177 kGqviD~~m~eg~ayl~S~v~~~y~~s~~e-----a-~R~~~~~G~~~~Y~tykTkDG~fmavga~e-pQF~~~l~~ll~ 249 (387)
T KOG3957|consen 177 KGQVIDCNMLEGVAYLLSFVQKNYLQSLWE-----A-DRYGTAHGSIPPYQTYKTKDGYFMAVGALE-PQFYELLKKLLG 249 (387)
T ss_pred CceEEEechhHhHHHHHHHHHHHhhhhhcc-----c-cccccccCCCccceeeeccCceEEEecccc-HHHHHHHHHhhC
Confidence 467899999998888888888777421110 0 112345666666678999999999999773 369999998887
Q ss_pred ecCcc
Q 023104 263 MRTSE 267 (287)
Q Consensus 263 mk~se 267 (287)
++..+
T Consensus 250 ~~~d~ 254 (387)
T KOG3957|consen 250 LKLDE 254 (387)
T ss_pred ccccc
Confidence 77654
No 22
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=23.21 E-value=2.6e+02 Score=26.61 Aligned_cols=78 Identities=14% Similarity=0.267 Sum_probs=44.2
Q ss_pred EEecCcccceeee--cCCCCChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccCCChHHH
Q 023104 176 VNMDGIPIGRKID--LNAHGCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGDVPWGMF 253 (287)
Q Consensus 176 V~MdG~pigRKVD--L~~~~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGDvPW~mF 253 (287)
.+++=.|+|+--+ ...+=+++++...|++.|..... .. . ..+...| ..+.|..|-.=++.-+-+. |
T Consensus 187 ~~ie~mP~g~~~~~~~~~~~~~~e~~~~l~~~~~~~~~--~~-------~-~~~~~~~-~~~~~~~~~ig~I~~~s~~-f 254 (329)
T PRK13361 187 AFIEEMPLGEIDERRRARHCSSDEVRAIIETRYPLTPS--NK-------R-TGGPARY-YTMADSPIHIGFISPHSHN-F 254 (329)
T ss_pred EEEecccCCCccchhhccCcCHHHHHHHHHHhCCcccC--CC-------C-CCCCCeE-EEECCCCeEEEEEcCCCcc-c
Confidence 3566778887322 44567889999999998742111 00 0 1111222 1122333444455444444 9
Q ss_pred hhccceeEEecC
Q 023104 254 LGSVKRLRIMRT 265 (287)
Q Consensus 254 v~svKRLrImk~ 265 (287)
|.+|-||||-..
T Consensus 255 C~~Cnr~rlt~~ 266 (329)
T PRK13361 255 CHECNRVRVTAE 266 (329)
T ss_pred cccCCeEEEccC
Confidence 999999999554
No 23
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=21.79 E-value=37 Score=30.31 Aligned_cols=70 Identities=23% Similarity=0.403 Sum_probs=45.2
Q ss_pred cCcccceeeecCCCCChHHHHHHH---HHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeCCCCeEEccCCChH---H
Q 023104 179 DGIPIGRKIDLNAHGCYESLVQTL---EDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDKEGDWMLVGDVPWG---M 252 (287)
Q Consensus 179 dG~pigRKVDL~~~~sY~eL~~aL---e~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDkeGDwMLVGDvPW~---m 252 (287)
-|-.|.-+++|..|++|++...+. .++|...+.|.. -|.- +....|||+|-|-..=. .
T Consensus 48 AGlDY~~~~~l~~h~s~e~fl~~~~~~~rl~~~tt~~~~---------------~~~~-~~f~~~d~llFG~Es~GLP~~ 111 (155)
T COG0219 48 AGLDYHEKASLTEHDSLEAFLEAEPIGGRLFALTTKGTT---------------TYTD-VSFQKGDYLLFGPESRGLPEE 111 (155)
T ss_pred cccchHhhcceEEeCCHHHHHhhccCCceEEEEEecccc---------------cccc-ccCCCCCEEEECCCCCCCCHH
Confidence 378899999999999999999998 567753332211 1111 34456999999976321 3
Q ss_pred Hhhcc--ceeEEec
Q 023104 253 FLGSV--KRLRIMR 264 (287)
Q Consensus 253 Fv~sv--KRLrImk 264 (287)
+++.. ++|||=-
T Consensus 112 i~~~~~~~~irIPm 125 (155)
T COG0219 112 ILDAAPDRCIRIPM 125 (155)
T ss_pred HHHhCccceEEecc
Confidence 34332 2588833
No 24
>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=20.85 E-value=70 Score=26.97 Aligned_cols=33 Identities=36% Similarity=0.495 Sum_probs=23.2
Q ss_pred CCeEEEEEeCCC----CeEEccCCChH------HHhhccceeE
Q 023104 229 SDYVLTYEDKEG----DWMLVGDVPWG------MFLGSVKRLR 261 (287)
Q Consensus 229 seyvltYeDkeG----DwMLVGDvPW~------mFv~svKRLr 261 (287)
.=|.+.|.|.+| |.+-||++|=- +|..++.||+
T Consensus 71 gVWrV~~~n~~~~~i~d~iEV~~vP~~v~aa~eD~~ds~~rL~ 113 (120)
T PF04809_consen 71 GVWRVRYFNSDGRLILDTIEVGDVPEVVRAAPEDLADSAARLR 113 (120)
T ss_dssp TEEEEEEE-TTS-EEEEEEEESSS-GGGS--HHHHHHHHHHH-
T ss_pred CEEEEEEECCCCCEeeeeEEEeCCcHHHhccHhhHHHHHHHHh
Confidence 369999999986 66789999953 5777777764
No 25
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.24 E-value=40 Score=33.26 Aligned_cols=58 Identities=22% Similarity=0.374 Sum_probs=37.5
Q ss_pred CChHHHHHHHHHhhCCCCCCCCCCCCCCCCcCCCCCCCeEEEEEeC--CCCeEEccCCChH---HHhhccc
Q 023104 193 GCYESLVQTLEDMFHQPTTRSSVQEPTRPSKLLDGTSDYVLTYEDK--EGDWMLVGDVPWG---MFLGSVK 258 (287)
Q Consensus 193 ~sY~eL~~aLe~MF~~~~~g~~g~~~~~~~kL~d~~seyvltYeDk--eGDwMLVGDvPW~---mFv~svK 258 (287)
+.|.-.+..++.||..... + +...|...+.-| +-||.+ +|+|.+.||.+|. .|.+.|-
T Consensus 18 n~ya~~~~~aaa~~~~al~-----~--~G~~l~ss~~a~-le~e~~~~~~~~rq~gdll~~~v~~f~e~~~ 80 (352)
T KOG3579|consen 18 NVYAAVSGVAAAMNADALA-----D--NGRSLSSSGFAY-LEYENRHGSGLWRQLGDLLTAAVRDFAEPVP 80 (352)
T ss_pred chhhhhHHHHHhhhhhhhh-----c--cCcccccchhhh-hhhhhcccccchhhhccchHHHHHhhccccc
Confidence 4788889999999964221 1 112233333344 457765 5799999999996 4766654
No 26
>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=20.16 E-value=1.1e+02 Score=27.96 Aligned_cols=47 Identities=30% Similarity=0.742 Sum_probs=35.3
Q ss_pred CCeEEEEEeCCCCeEEccCCChHH------------------HhhccceeEEecCccccCCcchhHhh
Q 023104 229 SDYVLTYEDKEGDWMLVGDVPWGM------------------FLGSVKRLRIMRTSEATGLAPRLQES 278 (287)
Q Consensus 229 seyvltYeDkeGDwMLVGDvPW~m------------------Fv~svKRLrImk~sea~gl~~r~~ek 278 (287)
.+++.+|+..+|+|-++.+.|..+ |+..|| |+-..++.|+.--..++
T Consensus 19 ~G~v~vy~~~~g~W~~~~e~~f~~~~~~~l~~iR~~~~~li~~L~dCk---ifV~~~v~Gi~y~~Le~ 83 (202)
T PF09582_consen 19 PGFVRVYEKDDGKWKVIREIPFELCDAKGLAEIRQKISELIEFLGDCK---IFVAKSVSGIPYSLLEK 83 (202)
T ss_pred CcEEEEEECCCCceEEeEEEEeccCCCCCHHHHHHHHHHHHHHhCCcE---EEEEccccCccHHHHHH
Confidence 578999999999999999999983 555554 55556677776554444
Done!