Query psy5165
Match_columns 169
No_of_seqs 84 out of 86
Neff 2.9
Searched_HMMs 46136
Date Fri Aug 16 19:02:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5165.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5165hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06404 PB1_aPKC PB1 domain is 100.0 1.7E-40 3.6E-45 244.6 7.8 83 80-162 1-83 (83)
2 KOG0695|consensus 100.0 6.5E-32 1.4E-36 245.3 7.4 94 69-162 5-98 (593)
3 cd06396 PB1_NBR1 The PB1 domai 99.8 6.6E-21 1.4E-25 139.7 6.9 75 81-159 2-78 (81)
4 cd06407 PB1_NLP A PB1 domain i 99.8 4E-20 8.6E-25 133.8 8.0 77 81-157 2-78 (82)
5 cd06408 PB1_NoxR The PB1 domai 99.8 4E-20 8.6E-25 136.8 6.7 68 79-149 2-69 (86)
6 cd06402 PB1_p62 The PB1 domain 99.7 4.4E-17 9.6E-22 120.5 7.4 67 82-148 3-76 (87)
7 smart00666 PB1 PB1 domain. Pho 99.5 2.9E-14 6.2E-19 98.1 7.8 80 80-160 2-81 (81)
8 PF00564 PB1: PB1 domain; Int 99.5 7E-14 1.5E-18 96.0 7.7 82 79-161 1-83 (84)
9 cd05992 PB1 The PB1 domain is 99.5 7.7E-14 1.7E-18 95.2 7.0 79 81-160 2-81 (81)
10 cd06398 PB1_Joka2 The PB1 doma 99.1 1E-09 2.2E-14 81.2 8.3 77 80-156 1-83 (91)
11 cd06401 PB1_TFG The PB1 domain 98.9 3.4E-09 7.4E-14 78.4 5.6 69 80-148 1-72 (81)
12 cd06397 PB1_UP1 Uncharacterize 98.8 2E-08 4.2E-13 74.8 6.6 68 81-149 2-69 (82)
13 cd06409 PB1_MUG70 The MUG70 pr 98.1 1.5E-05 3.2E-10 59.3 6.9 74 86-159 8-83 (86)
14 cd06403 PB1_Par6 The PB1 domai 97.8 5.6E-05 1.2E-09 56.3 6.3 64 81-145 2-67 (80)
15 cd06410 PB1_UP2 Uncharacterize 97.1 0.0027 5.8E-08 47.7 7.6 76 71-149 6-84 (97)
16 cd06405 PB1_Mekk2_3 The PB1 do 96.0 0.023 4.9E-07 42.5 5.7 66 80-150 1-66 (79)
17 cd06406 PB1_P67 A PB1 domain i 95.8 0.032 7E-07 41.4 5.8 65 81-147 4-68 (80)
18 KOG0695|consensus 95.5 0.0072 1.6E-07 56.8 2.0 21 1-21 74-94 (593)
19 cd06395 PB1_Map2k5 PB1 domain 94.2 0.089 1.9E-06 40.2 4.5 66 80-148 3-70 (91)
20 PF06970 RepA_N: Replication i 88.1 0.36 7.8E-06 34.8 2.0 42 103-148 25-66 (76)
21 PF14430 Imm1: Immunity protei 80.8 4.2 9.1E-05 30.8 5.0 47 123-169 3-57 (127)
22 smart00295 B41 Band 4.1 homolo 76.4 9.4 0.0002 29.1 5.8 58 86-143 11-69 (207)
23 cd06399 PB1_P40 The PB1 domain 70.2 11 0.00024 29.1 4.8 51 97-150 26-76 (92)
24 PF02309 AUX_IAA: AUX/IAA fami 64.3 2.2 4.8E-05 35.1 0.0 77 78-154 108-207 (215)
25 cd01812 BAG1_N Ubiquitin-like 52.1 18 0.0004 23.6 2.8 66 81-157 2-68 (71)
26 PF09379 FERM_N: FERM N-termin 43.2 32 0.0007 23.1 3.0 56 86-141 4-60 (80)
27 cd06411 PB1_p51 The PB1 domain 36.4 1.4E+02 0.0031 22.2 5.7 57 91-148 9-67 (78)
28 PRK08444 hypothetical protein; 35.8 39 0.00085 30.2 3.2 69 81-158 35-103 (353)
29 PF00036 EF-hand_1: EF hand; 35.5 27 0.00058 20.7 1.5 18 2-19 1-18 (29)
30 PF05625 PAXNEB: PAXNEB protei 34.8 34 0.00074 30.6 2.7 90 48-138 120-219 (363)
31 PF03620 IBV_3C: IBV 3C protei 32.5 27 0.00058 27.0 1.4 32 31-62 46-77 (93)
32 PF14560 Ubiquitin_2: Ubiquiti 30.6 70 0.0015 22.4 3.2 66 90-160 15-81 (87)
33 cd04609 CBS_pair_PALP_assoc2 T 28.9 40 0.00086 22.2 1.6 27 129-155 1-27 (110)
34 PF00240 ubiquitin: Ubiquitin 26.5 1.9E+02 0.004 18.7 5.8 66 86-161 3-68 (69)
35 smart00166 UBX Domain present 25.6 1.6E+02 0.0034 20.3 4.2 43 78-122 5-47 (80)
36 COG2086 FixA Electron transfer 24.5 79 0.0017 27.7 3.1 32 125-156 26-59 (260)
37 PF13511 DUF4124: Domain of un 24.0 37 0.00081 22.1 0.8 10 121-130 15-24 (60)
38 PHA02146 hypothetical protein 22.6 57 0.0012 24.7 1.6 23 112-134 21-43 (86)
39 KOG3606|consensus 22.1 2E+02 0.0043 26.8 5.2 70 74-144 13-84 (358)
40 cd01806 Nedd8 Nebb8-like ubiq 21.8 2.2E+02 0.0048 18.5 4.2 32 86-117 8-39 (76)
No 1
>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=100.00 E-value=1.7e-40 Score=244.64 Aligned_cols=83 Identities=51% Similarity=0.869 Sum_probs=81.0
Q ss_pred eehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhcCCCCcEEEee
Q psy5165 80 LHCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIHG 159 (169)
Q Consensus 80 l~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeLnKDSELlIHv 159 (169)
+++|++|+||+|+++++++++||+||+|+|++|+|.++|+||+||+||||||||||||+||+||+|||++||||+|+|||
T Consensus 1 i~~K~~y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~tiSS~~EL~EA~rl~~~n~~~~l~ihv 80 (83)
T cd06404 1 VRVKAAYNGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPCTISSQMELEEAFRLYELNKDSELNIHV 80 (83)
T ss_pred CeEEEEecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCceeecCHHHHHHHHHHHHhcCcccEEEEe
Confidence 46799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eee
Q psy5165 160 KST 162 (169)
Q Consensus 160 f~~ 162 (169)
||.
T Consensus 81 fp~ 83 (83)
T cd06404 81 FPG 83 (83)
T ss_pred cCC
Confidence 984
No 2
>KOG0695|consensus
Probab=99.97 E-value=6.5e-32 Score=245.28 Aligned_cols=94 Identities=39% Similarity=0.633 Sum_probs=87.8
Q ss_pred ccccccccccceehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhh
Q psy5165 69 SYCKFLHISFTLHCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYE 148 (169)
Q Consensus 69 ~~~~~~~~t~~l~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLye 148 (169)
+-++....-+.++.|++|+||+|+++++++++||+||+++||||+++++|+||+||||||||||||||||||+||+||++
T Consensus 5 t~~~~~g~~~~vrlka~y~g~i~i~~~~p~~~~e~~~~~vrd~c~~h~~q~~t~kwideegdp~tv~sqmeleea~r~~~ 84 (593)
T KOG0695|consen 5 TDPKMEGSGGRVRLKAHYGGDIFITSVDPATTFEELCEEVRDMCRLHQQQPLTLKWIDEEGDPCTVSSQMELEEAFRLAR 84 (593)
T ss_pred CCcccCCCCccEEEEEeecCcEEEEeccCcccHHHHHHHHHHHHHHhhcCCceeEeecCCCCcceechhhhHHHHHHHHH
Confidence 33444445568899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcEEEeeeee
Q psy5165 149 VNHEPELVIHGKST 162 (169)
Q Consensus 149 LnKDSELlIHvf~~ 162 (169)
+++|+||+|||||+
T Consensus 85 ~~~d~el~ihvf~~ 98 (593)
T KOG0695|consen 85 QCRDEELIIHVFPS 98 (593)
T ss_pred hccccceEEEEccC
Confidence 99999999999986
No 3
>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=99.83 E-value=6.6e-21 Score=139.66 Aligned_cols=75 Identities=20% Similarity=0.196 Sum_probs=69.1
Q ss_pred ehhhhccceeEEEecCC--CCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhcCCCCcEEEe
Q psy5165 81 HCYFIIFSEVFITYIKP--DITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIH 158 (169)
Q Consensus 81 ~~k~~y~GDimitsle~--sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeLnKDSELlIH 158 (169)
.+|+.|+||++++.+++ +.++++|+.++++.|+|+ +|++||+|||||||++|||+||+||+|+++-+. ..|.+-
T Consensus 2 ~vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~---~f~lKYlDde~e~v~lssd~eLeE~~rl~~~~~-~~l~~~ 77 (81)
T cd06396 2 NLKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN---DIQIKYVDEENEEVSVNSQGEYEEALKSAVRQG-NLLQMN 77 (81)
T ss_pred EEEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC---cceeEEEcCCCCEEEEEchhhHHHHHHHHHhCC-CEEEEE
Confidence 57999999999999999 889999999999999999 999999999999999999999999999999876 445554
Q ss_pred e
Q psy5165 159 G 159 (169)
Q Consensus 159 v 159 (169)
|
T Consensus 78 v 78 (81)
T cd06396 78 V 78 (81)
T ss_pred E
Confidence 4
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=99.82 E-value=4e-20 Score=133.79 Aligned_cols=77 Identities=18% Similarity=0.333 Sum_probs=73.2
Q ss_pred ehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhcCCCCcEEE
Q psy5165 81 HCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVI 157 (169)
Q Consensus 81 ~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeLnKDSELlI 157 (169)
.+|+.|+||++++.+.++++|++|++++++.|++++.|.|++||+|||||||++++|.+|+||++++..++.+.+-+
T Consensus 2 ~vK~~~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~~~~~~~~v~l 78 (82)
T cd06407 2 RVKATYGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVYRSSGSHTIRL 78 (82)
T ss_pred EEEEEeCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHHHHCCCCeEEE
Confidence 57999999999999999999999999999999999889999999999999999999999999999999998886554
No 5
>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=99.81 E-value=4e-20 Score=136.82 Aligned_cols=68 Identities=18% Similarity=0.312 Sum_probs=64.7
Q ss_pred ceehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhc
Q psy5165 79 TLHCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEV 149 (169)
Q Consensus 79 ~l~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeL 149 (169)
.+.+|++|+||++++.++++|+|++||+++|+.|+|. |+||+||.|| |||||+|||++|++|++.+.-
T Consensus 2 ~ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~--~~~~iKykDE-GD~iti~sq~DLd~Ai~~a~~ 69 (86)
T cd06408 2 KIRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFGFK--RRLKIKMKDD-GDMITMGDQDDLDMAIDTARS 69 (86)
T ss_pred cEEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhCCC--CceEEEEEcC-CCCccccCHHHHHHHHHHHHH
Confidence 4678999999999999999999999999999999995 7999999999 999999999999999998874
No 6
>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=99.70 E-value=4.4e-17 Score=120.51 Aligned_cols=67 Identities=27% Similarity=0.339 Sum_probs=59.0
Q ss_pred hhhhccc-----eeEEEecCCC--CChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhh
Q psy5165 82 CYFIIFS-----EVFITYIKPD--ITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYE 148 (169)
Q Consensus 82 ~k~~y~G-----Dimitsle~s--IsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLye 148 (169)
+|++..| +|..+++++. ++|++||++++++|.+..+|+||+||.||||||||||||+||.+|+....
T Consensus 3 vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~l~~~~ftlky~DeeGDlvtIssdeEL~~A~~~~~ 76 (87)
T cd06402 3 VKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPSLRGKNFQLFWKDEEGDLVAFSSDEELVMALGSLN 76 (87)
T ss_pred EEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHccccCCCcEEEEEECCCCCEEeecCHHHHHHHHHcCC
Confidence 4556644 7888888655 48999999999999999999999999999999999999999999987765
No 7
>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=99.54 E-value=2.9e-14 Score=98.14 Aligned_cols=80 Identities=26% Similarity=0.369 Sum_probs=74.6
Q ss_pred eehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhcCCCCcEEEee
Q psy5165 80 LHCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIHG 159 (169)
Q Consensus 80 l~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeLnKDSELlIHv 159 (169)
+.+|+.|+|++.+..++++++|++|++++.+.+.+.. +.|++||.|||||.++++++.+|.+|++.+..++...|.||+
T Consensus 2 ~~vK~~~~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~-~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~~~~~~~l~l~v 80 (81)
T smart00666 2 VDVKLRYGGETRRLSVPRDISFEDLRSKVAKRFGLDN-QSFTLKYQDEDGDLVSLTSDEDLEEAIEEYDSLGSKKLRLHV 80 (81)
T ss_pred ccEEEEECCEEEEEEECCCCCHHHHHHHHHHHhCCCC-CCeEEEEECCCCCEEEecCHHHHHHHHHHHHHcCCceEEEEe
Confidence 5678999999999999999999999999999999876 579999999999999999999999999999998888888887
Q ss_pred e
Q psy5165 160 K 160 (169)
Q Consensus 160 f 160 (169)
+
T Consensus 81 ~ 81 (81)
T smart00666 81 F 81 (81)
T ss_pred C
Confidence 5
No 8
>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=99.51 E-value=7e-14 Score=96.01 Aligned_cols=82 Identities=23% Similarity=0.355 Sum_probs=75.6
Q ss_pred ceehhhhccceeEE-EecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhcCCCCcEEE
Q psy5165 79 TLHCYFIIFSEVFI-TYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVI 157 (169)
Q Consensus 79 ~l~~k~~y~GDimi-tsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeLnKDSELlI 157 (169)
|+.+|+.|+|++.. ..+.++++|++|.++++..+.+. ...|+++|.|+|||.++|++|.+|.+|+..+.-.+...|.+
T Consensus 1 t~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~-~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~~~~~~~lrl 79 (84)
T PF00564_consen 1 TVRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLL-DEDFQLKYKDEDGDLVTISSDEDLQEAIEQAKESGSKTLRL 79 (84)
T ss_dssp SEEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTS-TSSEEEEEEETTSSEEEESSHHHHHHHHHHHHHCTTSCEEE
T ss_pred CEEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCC-CccEEEEeeCCCCCEEEeCCHHHHHHHHHHHHhcCCCcEEE
Confidence 46789999999999 99999999999999999999998 66899999999999999999999999999998866668888
Q ss_pred eeee
Q psy5165 158 HGKS 161 (169)
Q Consensus 158 Hvf~ 161 (169)
|+..
T Consensus 80 ~v~~ 83 (84)
T PF00564_consen 80 FVQD 83 (84)
T ss_dssp EEEE
T ss_pred EEEe
Confidence 8864
No 9
>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=99.50 E-value=7.7e-14 Score=95.23 Aligned_cols=79 Identities=23% Similarity=0.278 Sum_probs=73.5
Q ss_pred ehhhhccceeEEEecC-CCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhcCCCCcEEEee
Q psy5165 81 HCYFIIFSEVFITYIK-PDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIHG 159 (169)
Q Consensus 81 ~~k~~y~GDimitsle-~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeLnKDSELlIHv 159 (169)
.+|+.|+|++....++ ++++|++|++++++.+.+.. +.|+++|.|||||.++++++.+|++|++.+..+...-|.|++
T Consensus 2 ~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~-~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~~~~~~~l~l~v 80 (81)
T cd05992 2 RVKVKYGGEIRRFVVVSRSISFEDLRSKIAEKFGLDA-VSFKLKYPDEDGDLVTISSDEDLEEAIEEARRSGSKKLRLFV 80 (81)
T ss_pred cEEEEecCCCEEEEEecCCCCHHHHHHHHHHHhCCCC-CcEEEEeeCCCCCEEEeCCHHHHHHHHHHHhhcCCccEEEEe
Confidence 5789999999999999 99999999999999999987 789999999999999999999999999999987778788876
Q ss_pred e
Q psy5165 160 K 160 (169)
Q Consensus 160 f 160 (169)
+
T Consensus 81 ~ 81 (81)
T cd05992 81 F 81 (81)
T ss_pred C
Confidence 4
No 10
>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=99.05 E-value=1e-09 Score=81.15 Aligned_cols=77 Identities=22% Similarity=0.275 Sum_probs=68.3
Q ss_pred eehhhhccceeEEEecCC-----CCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhh-hhcCCCC
Q psy5165 80 LHCYFIIFSEVFITYIKP-----DITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRL-YEVNHEP 153 (169)
Q Consensus 80 l~~k~~y~GDimitsle~-----sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRL-yeLnKDS 153 (169)
+.+|+.|+|++..+.++. +++|++|.+|+++..+++...-|+++|.||+||-.+++++.+|+||+.. +...+..
T Consensus 1 l~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~~~ 80 (91)
T cd06398 1 LVVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSRLN 80 (91)
T ss_pred CEEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCCCc
Confidence 457999999999999996 6999999999999999999889999999999999999999999999998 4555444
Q ss_pred cEE
Q psy5165 154 ELV 156 (169)
Q Consensus 154 ELl 156 (169)
-|-
T Consensus 81 ~lr 83 (91)
T cd06398 81 PLR 83 (91)
T ss_pred eEE
Confidence 333
No 11
>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=98.88 E-value=3.4e-09 Score=78.39 Aligned_cols=69 Identities=25% Similarity=0.274 Sum_probs=62.0
Q ss_pred eehhhhccceeEEEecCC-CCChhHHHHHHHHhhc--cCCCceeeeeeeeccCCccccCcHHHHHHHHhhhh
Q psy5165 80 LHCYFIIFSEVFITYIKP-DITYDRLQEEVKEMCK--FSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYE 148 (169)
Q Consensus 80 l~~k~~y~GDimitsle~-sIsfE~LC~evRd~C~--f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLye 148 (169)
+.+|+.|+||+...++++ +++|.+|.+.++...+ |++..-|++|+-|+|||-.||+|..||..|+...+
T Consensus 1 ~iiK~~~g~DiR~~~~~~~~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~~dL~~A~~~~~ 72 (81)
T cd06401 1 LILKAQLGDDIRRIPIHNEDITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDSSDLSFAIQCSR 72 (81)
T ss_pred CeEEEEeCCeEEEEeccCccccHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccHHHHHHHHhcCc
Confidence 357999999999999997 5899999999988888 66778899999999999999999999999977664
No 12
>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=98.78 E-value=2e-08 Score=74.82 Aligned_cols=68 Identities=15% Similarity=0.232 Sum_probs=64.1
Q ss_pred ehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhc
Q psy5165 81 HCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEV 149 (169)
Q Consensus 81 ~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeL 149 (169)
+-|..|+|+....+++...++++|.+++....+++... |.++++||+||-+|+||..||.||.|+...
T Consensus 2 ~fKv~~~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~-~~vtYiDeD~D~ITlssd~eL~d~~~~~~~ 69 (82)
T cd06397 2 QFKSSFLGDTRRIVFPDIPTWEALASKLENLYNLPEIK-VGVTYIDNDNDEITLSSNKELQDFYRLSHR 69 (82)
T ss_pred eEEEEeCCceEEEecCCCccHHHHHHHHHHHhCCChhH-eEEEEEcCCCCEEEecchHHHHHHHHhccc
Confidence 56889999999999999999999999999999999875 999999999999999999999999997765
No 13
>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=98.08 E-value=1.5e-05 Score=59.25 Aligned_cols=74 Identities=19% Similarity=0.267 Sum_probs=66.0
Q ss_pred ccceeEEEecCCCCChhHHHHHHHHhhccCCC--ceeeeeeeeccCCccccCcHHHHHHHHhhhhcCCCCcEEEee
Q psy5165 86 IFSEVFITYIKPDITYDRLQEEVKEMCKFSTD--QVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIHG 159 (169)
Q Consensus 86 y~GDimitsle~sIsfE~LC~evRd~C~f~nk--Q~FT~KWVDEEGDPCTISSQlELeEAiRLyeLnKDSELlIHv 159 (169)
.+|++....+.++-++++|..++..-.+.+.. ..|.+|++|+|||-..+.++..|.||+.++....-.-+.+|+
T Consensus 8 ~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~D~DL~e~v~iar~~g~~~v~L~v 83 (86)
T cd06409 8 PKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITSDSDLVAAVLVARSAGLKKLDLHL 83 (86)
T ss_pred CCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEeccchHHHHHHHHHHcCCCEEEEEE
Confidence 38999999999999999999999999988875 789999999999999999999999999999776666566655
No 14
>cd06403 PB1_Par6 The PB1 domain is an essential part of Par6 protein which in complex with Par3 and aPKC proteins is crucial for establishment of apical-basal polarity of animal cells. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The
Probab=97.84 E-value=5.6e-05 Score=56.27 Aligned_cols=64 Identities=11% Similarity=0.128 Sum_probs=60.4
Q ss_pred ehhhhccceeEEEecCCC--CChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHh
Q psy5165 81 HCYFIIFSEVFITYIKPD--ITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIR 145 (169)
Q Consensus 81 ~~k~~y~GDimitsle~s--IsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiR 145 (169)
++|..|+++....+++.+ .+|++++..+..+-.+++- +|+++|.|..||-.+|+++.++.+|+.
T Consensus 2 eVKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l~~~-~f~i~Y~D~~gDLLPInNDdNf~kAls 67 (80)
T cd06403 2 EVKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHIPNV-DFLIGYTDPHGDLLPINNDDNFLKALS 67 (80)
T ss_pred ceecccCCeEEEEEeccccCcCHHHHHHHHHHHhCCCCC-cEEEEEeCCCCCEecccCcHHHHHHHH
Confidence 578889999999999998 8999999999999999985 899999999999999999999999987
No 15
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=97.15 E-value=0.0027 Score=47.71 Aligned_cols=76 Identities=18% Similarity=0.215 Sum_probs=61.2
Q ss_pred ccccccccceehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeee--eccCC-ccccCcHHHHHHHHhhh
Q psy5165 71 CKFLHISFTLHCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWV--DEEGD-PCLISTQMELEEAIRLY 147 (169)
Q Consensus 71 ~~~~~~t~~l~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWV--DEEGD-PCTISSQlELeEAiRLy 147 (169)
|+|.++++.-+. -+-+|+..+.+++.++||.+|..++.++|..+.. +++||- +|+-| -.+++++..|...+.-|
T Consensus 6 G~i~pr~~dg~l-~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~--~~lky~Lp~edld~Lisv~~DeDl~~M~~e~ 82 (97)
T cd06410 6 GRILPRPPDGQL-RYVGGETRIVSVDRSISFKELVSKLSELFGAGVV--VTLKYQLPDEDLDALISVSNDEDLKNMMEEY 82 (97)
T ss_pred CEEeCcCCCCCE-EEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc--eEEEEEcCCCCcceeEEecCcHHHHHHHHhh
Confidence 445544444443 3568999999999999999999999999998866 899997 67777 77999999999888776
Q ss_pred hc
Q psy5165 148 EV 149 (169)
Q Consensus 148 eL 149 (169)
.-
T Consensus 83 ~~ 84 (97)
T cd06410 83 DR 84 (97)
T ss_pred cc
Confidence 63
No 16
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. 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, f
Probab=95.96 E-value=0.023 Score=42.51 Aligned_cols=66 Identities=18% Similarity=0.223 Sum_probs=55.0
Q ss_pred eehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhcC
Q psy5165 80 LHCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVN 150 (169)
Q Consensus 80 l~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeLn 150 (169)
+++|+-|+|+..|.-+.+++-|++|..++.+.|++ +..+.+...| =-+-+-.|.+|+-|+-+...+
T Consensus 1 vRiKfE~~gEKRIi~f~RPvkf~dl~~kv~~afGq----~mdl~ytn~e-L~iPl~~Q~DLDkAie~ld~s 66 (79)
T cd06405 1 VRIKFEHNGEKRIIQFPRPVKFKDLQQKVTTAFGQ----PMDLHYTNNE-LLIPLKNQEDLDRAIELLDRS 66 (79)
T ss_pred CeEEEEecCceEEEecCCCccHHHHHHHHHHHhCC----eeeEEEeccc-EEEeccCHHHHHHHHHHHccC
Confidence 46899999999999999999999999999999975 4557666655 344456899999999998764
No 17
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=95.76 E-value=0.032 Score=41.38 Aligned_cols=65 Identities=9% Similarity=0.169 Sum_probs=53.8
Q ss_pred ehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhh
Q psy5165 81 HCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLY 147 (169)
Q Consensus 81 ~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLy 147 (169)
-+|.+|.+ .++....+.++|.+|++++++--++..++ .++.+=||...=....++..|++|+...
T Consensus 4 vvKV~f~~-tIaIrvp~~~~y~~L~~ki~~kLkl~~e~-i~LsYkde~s~~~v~l~d~dle~aws~~ 68 (80)
T cd06406 4 VVKVHFKY-TVAIQVARGLSYATLLQKISSKLELPAEH-ITLSYKSEASGEDVILSDTNMEDVWSQA 68 (80)
T ss_pred EEEEEEEE-EEEEEcCCCCCHHHHHHHHHHHhCCCchh-cEEEeccCCCCCccCcChHHHHHHHHhh
Confidence 46889998 88888999999999999999999998554 7888989775444444889999998764
No 18
>KOG0695|consensus
Probab=95.53 E-value=0.0072 Score=56.78 Aligned_cols=21 Identities=57% Similarity=0.787 Sum_probs=20.6
Q ss_pred CchhHHhhhhhccCCCceEEe
Q psy5165 1 MELEEAIRLYEVNHEPELVIH 21 (169)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~ 21 (169)
||||||.|+|+.|+|+||.||
T Consensus 74 meleea~r~~~~~~d~el~ih 94 (593)
T KOG0695|consen 74 MELEEAFRLARQCRDEELIIH 94 (593)
T ss_pred hhHHHHHHHHHhccccceEEE
Confidence 799999999999999999999
No 19
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=94.20 E-value=0.089 Score=40.18 Aligned_cols=66 Identities=12% Similarity=0.247 Sum_probs=49.4
Q ss_pred eehhhhccceeEEEecC--CCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhh
Q psy5165 80 LHCYFIIFSEVFITYIK--PDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYE 148 (169)
Q Consensus 80 l~~k~~y~GDimitsle--~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLye 148 (169)
|++|.--+|++=- ..+ +.++|.++.+.++++- ....+....+-||+||-+||-|+.||+-.+.-|.
T Consensus 3 IRIk~p~gg~vDw-~V~~~~~L~F~DvL~~I~~vl--p~aT~tAFeYEDE~gDRITVRSDeEm~AMlsyy~ 70 (91)
T cd06395 3 IRIKIPNGGAVDW-TVQSGPQLLFRDVLDVIGQVL--PEATTTAFEYEDEDGDRITVRSDEEMKAMLSYYC 70 (91)
T ss_pred EEEeCCCCCcccc-cccCcccccHHHHHHHHHHhc--ccccccceeeccccCCeeEecchHHHHHHHHHHH
Confidence 5666666666632 233 4589999999999884 3444445678999999999999999998887553
No 20
>PF06970 RepA_N: Replication initiator protein A (RepA) N-terminus; InterPro: IPR010724 This entry represents the N terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids []. Most proteins in this entry are bacterial, but archaeal and eukaryotic members are also included.
Probab=88.13 E-value=0.36 Score=34.80 Aligned_cols=42 Identities=24% Similarity=0.341 Sum_probs=32.9
Q ss_pred HHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhh
Q psy5165 103 RLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYE 148 (169)
Q Consensus 103 ~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLye 148 (169)
-|..-++|-.+++.+ =+||||+|+.+.+-|..|+.|.+..++
T Consensus 25 ~lY~ll~dR~~lS~k----n~wiDe~G~vYi~~s~eel~~~L~~s~ 66 (76)
T PF06970_consen 25 ILYSLLLDRLRLSLK----NGWIDENGNVYIIFSIEELMELLNCSK 66 (76)
T ss_pred HHHHHHHHHHHhhhh----cCcCCCCCCEEEEeeHHHHHHHHCCCH
Confidence 356666666666644 349999999999999999999887654
No 21
>PF14430 Imm1: Immunity protein Imm1
Probab=80.77 E-value=4.2 Score=30.77 Aligned_cols=47 Identities=19% Similarity=0.345 Sum_probs=33.5
Q ss_pred eeeecc-CCccccCcHHHHHHHHhhhhcCCCC-cEEEee------eeeeeeecCC
Q psy5165 123 KWVDEE-GDPCLISTQMELEEAIRLYEVNHEP-ELVIHG------KSTYLISLHG 169 (169)
Q Consensus 123 KWVDEE-GDPCTISSQlELeEAiRLyeLnKDS-ELlIHv------f~~~~~~~~~ 169 (169)
+|.|.. |+|..+++..|++++|+...-...+ -..|++ +|.+.+.+||
T Consensus 3 ~~~~~~~~~~~~v~t~~evd~~l~~l~~~~~~~~~~l~~~~~~~~~~~l~vgv~g 57 (127)
T PF14430_consen 3 AWYDRRQGHPVEVATPAEVDELLDRLAGPGGPQVVELWIDGDPWGYPYLGVGVNG 57 (127)
T ss_pred eEEecCCCCeeEeCCHHHHHHHHHHHhccCCCceEEEEeCCCCCCCceEEEEecC
Confidence 588855 9999999999999999988766644 333443 4555555543
No 22
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=76.36 E-value=9.4 Score=29.11 Aligned_cols=58 Identities=14% Similarity=0.162 Sum_probs=45.7
Q ss_pred ccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCc-cccCcHHHHHHH
Q psy5165 86 IFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDP-CLISTQMELEEA 143 (169)
Q Consensus 86 y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDP-CTISSQlELeEA 143 (169)
++|......++++.+.+++++++...+++...+-|.+-.+|.+++- .-.++...+.+.
T Consensus 11 ~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~ 69 (207)
T smart00295 11 LDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQ 69 (207)
T ss_pred cCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHh
Confidence 4677778889999999999999999999999899999888877654 344444444443
No 23
>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=70.16 E-value=11 Score=29.08 Aligned_cols=51 Identities=14% Similarity=0.111 Sum_probs=42.1
Q ss_pred CCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhcC
Q psy5165 97 PDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVN 150 (169)
Q Consensus 97 ~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeLn 150 (169)
...+|.+|..-+|+...-+ -+++.+.|-|||-+.+-++.+++=.++-....
T Consensus 26 ~~P~~kdLl~lmr~~f~~~---dIaLNYrD~EGDLIRllddeDv~LMV~~~r~~ 76 (92)
T cd06399 26 STPLLKDLLELTRREFQRE---DIALNYRDAEGDLIRLLSDEDVALMVRQSRGL 76 (92)
T ss_pred cCccHHHHHHHHHHHhchh---heeeeeecCCCCEEEEcchhhHHHHHHHHhcC
Confidence 3447999999999988766 57999999999999999999988777665444
No 24
>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=64.30 E-value=2.2 Score=35.09 Aligned_cols=77 Identities=13% Similarity=0.190 Sum_probs=0.0
Q ss_pred cceehhhhccceeEEEecCCCC--ChhHHHHHHHHhh---ccC----------------CCceeeeeeeeccCCccccC-
Q psy5165 78 FTLHCYFIIFSEVFITYIKPDI--TYDRLQEEVKEMC---KFS----------------TDQVFTVKWVDEEGDPCLIS- 135 (169)
Q Consensus 78 ~~l~~k~~y~GDimitsle~sI--sfE~LC~evRd~C---~f~----------------nkQ~FT~KWVDEEGDPCTIS- 135 (169)
....+|....|..+-+.++.+. +|++|..++.+|. .+. ++.-+++-+.|.|||-.-|=
T Consensus 108 ~~~~vKV~mdG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~Y~D~egd~mlvGD 187 (215)
T PF02309_consen 108 SRSYVKVNMDGVPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGSHGLNESGLLDLLNGSEYVLVYEDKEGDWMLVGD 187 (215)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCceeEEEecCcccceecCHHHhhCHHHHHHHHHHhcCCCCccccccccccchhhccccCCcceeEEEECCCCCEEEecC
Confidence 3678999999998888888877 9999999999999 332 22345777899999976654
Q ss_pred -cHHHHHHHHhhhhcCCCCc
Q psy5165 136 -TQMELEEAIRLYEVNHEPE 154 (169)
Q Consensus 136 -SQlELeEAiRLyeLnKDSE 154 (169)
|=.++.++.|...+=+++|
T Consensus 188 ~PW~~F~~~vkRl~I~~~~e 207 (215)
T PF02309_consen 188 VPWEEFVKSVKRLRIMKSSE 207 (215)
T ss_dssp --------------------
T ss_pred CCHHHHHHHhhccEEecHHH
Confidence 4456666666665555554
No 25
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=52.05 E-value=18 Score=23.63 Aligned_cols=66 Identities=11% Similarity=0.102 Sum_probs=44.5
Q ss_pred ehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCc-eeeeeeeeccCCccccCcHHHHHHHHhhhhcCCCCcEEE
Q psy5165 81 HCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQ-VFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVI 157 (169)
Q Consensus 81 ~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ-~FT~KWVDEEGDPCTISSQlELeEAiRLyeLnKDSELlI 157 (169)
++.+.++|......++++.+.++|-+++.+.++++.++ -+.. .|.+.. =+.-+.-|.++.++.|.+
T Consensus 2 ~i~vk~~g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~-----~g~~l~------d~~~L~~~~i~~g~~l~v 68 (71)
T cd01812 2 RVRVKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIF-----KGKERD------DAETLDMSGVKDGSKVML 68 (71)
T ss_pred EEEEEECCEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEee-----CCcccC------ccCcHHHcCCCCCCEEEE
Confidence 34555679988889999999999999999999988763 2222 244431 122344566666666544
No 26
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=43.20 E-value=32 Score=23.06 Aligned_cols=56 Identities=18% Similarity=0.296 Sum_probs=45.6
Q ss_pred ccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeee-eeccCCccccCcHHHHH
Q psy5165 86 IFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKW-VDEEGDPCLISTQMELE 141 (169)
Q Consensus 86 y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KW-VDEEGDPCTISSQlELe 141 (169)
..|......++++.+..+|++++-+--++...+-|-+.. .|.+|...=+.++..+.
T Consensus 4 lD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~ 60 (80)
T PF09379_consen 4 LDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLK 60 (80)
T ss_dssp SSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGG
T ss_pred cCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHH
Confidence 467788899999999999999999999999999999977 68888776655544443
No 27
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. 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. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=36.41 E-value=1.4e+02 Score=22.18 Aligned_cols=57 Identities=11% Similarity=0.034 Sum_probs=43.3
Q ss_pred EEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCC-ccc-cCcHHHHHHHHhhhh
Q psy5165 91 FITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGD-PCL-ISTQMELEEAIRLYE 148 (169)
Q Consensus 91 mitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGD-PCT-ISSQlELeEAiRLye 148 (169)
+.....+..++..|.+.+.+--.+...+ .++.+-+++.+ =.+ +|-..+|++|.+...
T Consensus 9 Vai~v~~g~~y~~L~~~ls~kL~l~~~~-~~LSY~~~~~~~~~v~l~~e~~me~aW~~v~ 67 (78)
T cd06411 9 VALRAPRGADVSSLRALLSQALPQQAQR-GQLSYRAPGEDGHWVPISGEESLQRAWQDVA 67 (78)
T ss_pred EEEEccCCCCHHHHHHHHHHHhcCChhh-cEEEecCCCCCccEeecCcchHHHHHHHhcc
Confidence 3455778899999999999999998776 77877776655 344 444899999988653
No 28
>PRK08444 hypothetical protein; Provisional
Probab=35.81 E-value=39 Score=30.22 Aligned_cols=69 Identities=16% Similarity=0.196 Sum_probs=45.3
Q ss_pred ehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhcCCCCcEEEe
Q psy5165 81 HCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIH 158 (169)
Q Consensus 81 ~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeLnKDSELlIH 158 (169)
+++-.+.|+.+..+....|++.+.|.+.=.-|.|..+. .+.++++.|+ .|+-|..+-..-..-+++.|-
T Consensus 35 ~vR~~~~G~~Vt~~~n~~In~TN~C~~~C~FCaf~~~~--------~~~~~y~ls~-eeI~~~a~~a~~~G~~ei~iv 103 (353)
T PRK08444 35 KKRTKLHGKKVYFNVNRHINPTNICADVCKFCAFSAHR--------KNPNPYTMSH-EEILEIVKNSVKRGIKEVHIV 103 (353)
T ss_pred HHHHHhcCCEEEEEecCCcccccccccCCccCCCccCC--------CCCccccCCH-HHHHHHHHHHHHCCCCEEEEe
Confidence 45566778888777778888888998887777776431 1235677755 566665555544555555543
No 29
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=35.53 E-value=27 Score=20.68 Aligned_cols=18 Identities=28% Similarity=0.497 Sum_probs=15.7
Q ss_pred chhHHhhhhhccCCCceE
Q psy5165 2 ELEEAIRLYEVNHEPELV 19 (169)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~ 19 (169)
|+++|++.|-.|+|..+-
T Consensus 1 E~~~~F~~~D~d~dG~I~ 18 (29)
T PF00036_consen 1 ELKEAFREFDKDGDGKID 18 (29)
T ss_dssp HHHHHHHHHSTTSSSEEE
T ss_pred CHHHHHHHHCCCCCCcCC
Confidence 789999999999998764
No 30
>PF05625 PAXNEB: PAXNEB protein; InterPro: IPR008728 The RNA polymerase II elongator complex is a major histone acetyltransferase component of the RNA polymerase II (RNAPII) holoenzyme and is involved in transcriptional elongation [, ]. It may also play some role in wobble uridine tRNA modification []. This entry represents the ELP4 subunit. ELP4 is not required for the association of the complex with nascent RNA transcript, but is required for complex integrity and histone acetyltransferase activity. It is also required for an early step in synthesis of 5-methoxycarbonylmethyl (mcm5) and 5-carbamoylmethyl (ncm5) groups present on uridines at the wobble position in tRNA in yeast species.; GO: 0006357 regulation of transcription from RNA polymerase II promoter, 0033588 Elongator holoenzyme complex; PDB: 4EJS_A 4A8J_A.
Probab=34.81 E-value=34 Score=30.58 Aligned_cols=90 Identities=17% Similarity=0.343 Sum_probs=37.7
Q ss_pred EeEEeecchhhhhhhhhhcCc--ccccccccccceehhhhccceeEEEecCC----CCChhHHHHHHHHhhccC----CC
Q psy5165 48 IFIVWQYSRKLQHRELVRKKR--SYCKFLHISFTLHCYFIIFSEVFITYIKP----DITYDRLQEEVKEMCKFS----TD 117 (169)
Q Consensus 48 ~~~~~~~~~~~~hr~~~~~~~--~~~~~~~~t~~l~~k~~y~GDimitsle~----sIsfE~LC~evRd~C~f~----nk 117 (169)
.=|.|+|.+.-+...-.+... .||-.|.-|.++......+-.+.+....+ +-.|..+.+.++.+-.-. ++
T Consensus 120 mKIAWRY~~~~~~~~~~~~~~~~~fcH~FDLsk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~i~~~i~~~~~~~~~ 199 (363)
T PF05625_consen 120 MKIAWRYEKLPKFQSSVGSSSYPNFCHQFDLSKRMDPEPLSAEIIFIPPDQPPSSSSSPYRSLLQQIQQIISKSGFSPPS 199 (363)
T ss_dssp ----------------------TTSS--EETTSE-SS---TTTEEEE-TTS--------HHHHHHHHHHHHHH----TTT
T ss_pred CeeEeecccCccccccccCCcccccccccccccccChhhccccceEecCCCCcchhHHHHHHHHHHHHHHHHhhccCCCC
Confidence 458999999888887777765 89999999988876666665554443333 235888999998887663 44
Q ss_pred ceeeeeeeeccCCccccCcHH
Q psy5165 118 QVFTVKWVDEEGDPCLISTQM 138 (169)
Q Consensus 118 Q~FT~KWVDEEGDPCTISSQl 138 (169)
.+.-+ -|..=|.|.-=.++.
T Consensus 200 ~v~RI-~I~sl~SP~w~~~~~ 219 (363)
T PF05625_consen 200 KVLRI-VIPSLGSPLWYPPSA 219 (363)
T ss_dssp SEEEE-EETTTT-TTTS-GGG
T ss_pred ceEEE-EEcCCCCcccCCccc
Confidence 44444 677667776555443
No 31
>PF03620 IBV_3C: IBV 3C protein; InterPro: IPR005296 These proteins are the product of ORF 3C from Infectious bronchitis virus. Currently, the function of this protein remains unknown.
Probab=32.51 E-value=27 Score=27.00 Aligned_cols=32 Identities=34% Similarity=0.652 Sum_probs=23.6
Q ss_pred HHhhhhhccccccceeeEeEEeecchhhhhhh
Q psy5165 31 NKFWRTWAPVPTLFGITIFIVWQYSRKLQHRE 62 (169)
Q Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~hr~ 62 (169)
--||-||+-+|+.=|....----|.+|+..-+
T Consensus 46 ~Lfwytw~v~pgak~~afvY~~tygkkln~pe 77 (93)
T PF03620_consen 46 CLFWYTWVVVPGAKGTAFVYNHTYGKKLNNPE 77 (93)
T ss_pred HHHhhheeeccCCceeEEeeccccccccCchh
Confidence 45999999999999877665556666654433
No 32
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=30.60 E-value=70 Score=22.40 Aligned_cols=66 Identities=11% Similarity=0.119 Sum_probs=41.1
Q ss_pred eEEEecCCCCChhHHHHHHHHhhccCCCceeeeeee-eccCCccccCcHHHHHHHHhhhhcCCCCcEEEeee
Q psy5165 90 VFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWV-DEEGDPCLISTQMELEEAIRLYEVNHEPELVIHGK 160 (169)
Q Consensus 90 imitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWV-DEEGDPCTISSQlELeEAiRLyeLnKDSELlIHvf 160 (169)
..-..++.++++.+|+.++..+++.+.... .+.-. ++.|.++... .++.-.|..++=.....|||-
T Consensus 15 ~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m-~L~l~~~~~~~~~~~~----~dd~~~L~~y~~~dg~~i~V~ 81 (87)
T PF14560_consen 15 SVEKRFPKSITVSELKQKLEKLTGIPPSDM-RLQLKSDKDDSKIEEL----DDDDATLGSYGIKDGMRIHVV 81 (87)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTS-TTTE-EEEEE-TSSSSEEEES----SGSSSBCCHHT-STTEEEEEE
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCcccE-EEEEEecCCCcccccc----CCCccEeecCCCCCCCEEEEE
Confidence 444678999999999999999999997743 33345 3444444333 224444555555566666663
No 33
>cd04609 CBS_pair_PALP_assoc2 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well as the 5'-phosphate esters of pyridoxal (PALP) and pyridoxamine, the last two being the biologically active coenzyme derivatives. The members of the PALP family are principally involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and other amine-containing compounds. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a pote
Probab=28.86 E-value=40 Score=22.20 Aligned_cols=27 Identities=19% Similarity=0.218 Sum_probs=20.8
Q ss_pred CCccccCcHHHHHHHHhhhhcCCCCcE
Q psy5165 129 GDPCLISTQMELEEAIRLYEVNHEPEL 155 (169)
Q Consensus 129 GDPCTISSQlELeEAiRLyeLnKDSEL 155 (169)
||+.++++...+.||++...-++-+.+
T Consensus 1 ~~~~~v~~~~~~~~~~~~~~~~~~~~~ 27 (110)
T cd04609 1 GDVVSVAPDDTVSQAIERMREYGVSQL 27 (110)
T ss_pred CCcEEECCCCcHHHHHHHHHHcCCcee
Confidence 789999999999999988765554333
No 34
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=26.55 E-value=1.9e+02 Score=18.74 Aligned_cols=66 Identities=15% Similarity=0.281 Sum_probs=43.1
Q ss_pred ccceeEEEecCCCCChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHHhhhhcCCCCcEEEeeee
Q psy5165 86 IFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIHGKS 161 (169)
Q Consensus 86 y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAiRLyeLnKDSELlIHvf~ 161 (169)
.+|..+...++++-+..+|-+.+.....++.++.--+ + .|.+. +-+..+.=|.++.++.+.++..|
T Consensus 3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~-~---~G~~L------~d~~tL~~~~i~~~~~I~l~~k~ 68 (69)
T PF00240_consen 3 LSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLI-Y---NGKEL------DDDKTLSDYGIKDGSTIHLVIKP 68 (69)
T ss_dssp TTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEE-E---TTEEE------STTSBTGGGTTSTTEEEEEEESS
T ss_pred CCCcEEEEEECCCCCHHHhhhhcccccccccccceee-e---eeecc------cCcCcHHHcCCCCCCEEEEEEec
Confidence 5688899999999999999999999999887754222 1 12111 11223334677777755555444
No 35
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=25.58 E-value=1.6e+02 Score=20.31 Aligned_cols=43 Identities=14% Similarity=0.057 Sum_probs=31.3
Q ss_pred cceehhhhccceeEEEecCCCCChhHHHHHHHHhhccCCCceeee
Q psy5165 78 FTLHCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTV 122 (169)
Q Consensus 78 ~~l~~k~~y~GDimitsle~sIsfE~LC~evRd~C~f~nkQ~FT~ 122 (169)
-++++|+ -+|..+...|..+-+++++++-++.....+ ..+|++
T Consensus 5 ~~I~iRl-PdG~ri~~~F~~~~tl~~v~~~v~~~~~~~-~~~f~L 47 (80)
T smart00166 5 CRLQIRL-PDGSRLVRRFPSSDTLRTVYEFVSAALTDG-NDPFTL 47 (80)
T ss_pred EEEEEEc-CCCCEEEEEeCCCCcHHHHHHHHHHcccCC-CCCEEE
Confidence 4556666 688888899999999999999996555433 234544
No 36
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=24.51 E-value=79 Score=27.69 Aligned_cols=32 Identities=34% Similarity=0.369 Sum_probs=26.7
Q ss_pred eeccCCccccCcHHH--HHHHHhhhhcCCCCcEE
Q psy5165 125 VDEEGDPCLISTQME--LEEAIRLYEVNHEPELV 156 (169)
Q Consensus 125 VDEEGDPCTISSQlE--LeEAiRLyeLnKDSELl 156 (169)
+|.+|=|..+++..+ +|||+||-+.+.+.++.
T Consensus 26 ~~~~gv~~~in~~D~~AvEeAlrLke~~~~~eV~ 59 (260)
T COG2086 26 LDRSGVPLSINPFDLNAVEEALRLKEKGYGGEVT 59 (260)
T ss_pred cccCCCCcccChhhHHHHHHHHHhhccCCCceEE
Confidence 678999999987654 89999999987776665
No 37
>PF13511 DUF4124: Domain of unknown function (DUF4124)
Probab=24.02 E-value=37 Score=22.08 Aligned_cols=10 Identities=60% Similarity=1.086 Sum_probs=8.4
Q ss_pred eeeeeeccCC
Q psy5165 121 TVKWVDEEGD 130 (169)
Q Consensus 121 T~KWVDEEGD 130 (169)
--||+|+.|-
T Consensus 15 vYk~~D~~G~ 24 (60)
T PF13511_consen 15 VYKWVDENGV 24 (60)
T ss_pred EEEEECCCCC
Confidence 4689999996
No 38
>PHA02146 hypothetical protein
Probab=22.57 E-value=57 Score=24.71 Aligned_cols=23 Identities=26% Similarity=0.406 Sum_probs=19.8
Q ss_pred hccCCCceeeeeeeeccCCcccc
Q psy5165 112 CKFSTDQVFTVKWVDEEGDPCLI 134 (169)
Q Consensus 112 C~f~nkQ~FT~KWVDEEGDPCTI 134 (169)
-...|++-||+.=+||+||-+|-
T Consensus 21 hgi~ng~ef~v~~~d~dgd~~s~ 43 (86)
T PHA02146 21 HGITNGTEFTVTNIDDDGDLYTY 43 (86)
T ss_pred hCcCCCcEEEeeccccCCCeEee
Confidence 36789999999999999998873
No 39
>KOG3606|consensus
Probab=22.11 E-value=2e+02 Score=26.80 Aligned_cols=70 Identities=16% Similarity=0.141 Sum_probs=59.3
Q ss_pred cccccceehhhhccceeEEEecCCCC--ChhHHHHHHHHhhccCCCceeeeeeeeccCCccccCcHHHHHHHH
Q psy5165 74 LHISFTLHCYFIIFSEVFITYIKPDI--TYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAI 144 (169)
Q Consensus 74 ~~~t~~l~~k~~y~GDimitsle~sI--sfE~LC~evRd~C~f~nkQ~FT~KWVDEEGDPCTISSQlELeEAi 144 (169)
-+-++++.+|--|..+-..++++..- +|+++..-++.+-.+.|-| |++-+.|--||-.-|.-+.-+.-|+
T Consensus 13 ~~~~~~veVKSKFdaEfRRfsl~r~~~~~f~~F~~Lv~~~H~i~nvd-vllgY~d~hgDLLPinNDDn~~ka~ 84 (358)
T KOG3606|consen 13 SNDSSTVEVKSKFDAEFRRFSLPRHSASSFDEFYSLVEHLHHIPNVD-VLLGYADTHGDLLPINNDDNLHKAL 84 (358)
T ss_pred CCCcceEEeeccccchhheecccccCcccHHHHHHHHHHHhcCCCce-EEEEEecCCCceecccCchhHHHHh
Confidence 34556889999999999999988654 8999999999999999885 6677999999999998888777775
No 40
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=21.80 E-value=2.2e+02 Score=18.53 Aligned_cols=32 Identities=19% Similarity=0.252 Sum_probs=27.9
Q ss_pred ccceeEEEecCCCCChhHHHHHHHHhhccCCC
Q psy5165 86 IFSEVFITYIKPDITYDRLQEEVKEMCKFSTD 117 (169)
Q Consensus 86 y~GDimitsle~sIsfE~LC~evRd~C~f~nk 117 (169)
.+|+.....++++.+.++|-+++....+++..
T Consensus 8 ~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~ 39 (76)
T cd01806 8 LTGKEIEIDIEPTDKVERIKERVEEKEGIPPQ 39 (76)
T ss_pred CCCCEEEEEECCCCCHHHHHHHHhHhhCCChh
Confidence 36777888899999999999999999888866
Done!