Query 045227
Match_columns 173
No_of_seqs 122 out of 191
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 11:05:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045227.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045227hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06410 PB1_UP2 Uncharacterize 100.0 2.3E-42 4.9E-47 259.2 11.1 94 33-140 1-97 (97)
2 smart00666 PB1 PB1 domain. Pho 99.5 3.3E-13 7.1E-18 94.3 10.5 78 47-140 4-81 (81)
3 PF00564 PB1: PB1 domain; Int 99.2 9.9E-11 2.1E-15 81.7 9.4 79 48-141 5-83 (84)
4 cd05992 PB1 The PB1 domain is 99.2 1.6E-10 3.5E-15 80.1 10.0 77 48-140 4-81 (81)
5 cd06407 PB1_NLP A PB1 domain i 98.9 2.2E-08 4.7E-13 73.2 10.2 76 49-140 5-81 (82)
6 cd06408 PB1_NoxR The PB1 domai 98.4 2.5E-06 5.4E-11 63.8 9.2 64 53-118 10-73 (86)
7 cd06401 PB1_TFG The PB1 domain 98.2 6.5E-06 1.4E-10 61.2 7.3 56 53-108 8-67 (81)
8 cd06398 PB1_Joka2 The PB1 doma 98.1 5.6E-05 1.2E-09 56.4 10.6 63 48-111 4-72 (91)
9 cd06404 PB1_aPKC PB1 domain is 98.1 5.4E-05 1.2E-09 56.6 9.8 76 51-141 6-82 (83)
10 cd06396 PB1_NBR1 The PB1 domai 98.0 0.0001 2.3E-09 54.6 9.6 70 53-140 8-79 (81)
11 cd06397 PB1_UP1 Uncharacterize 97.9 3.6E-05 7.8E-10 57.5 6.7 62 49-111 5-66 (82)
12 cd06403 PB1_Par6 The PB1 domai 97.9 0.0001 2.3E-09 54.8 8.8 71 50-139 5-77 (80)
13 cd06405 PB1_Mekk2_3 The PB1 do 97.9 7.2E-05 1.6E-09 55.5 7.8 57 53-114 8-65 (79)
14 cd06406 PB1_P67 A PB1 domain i 97.7 0.00019 4.1E-09 53.3 6.8 61 48-111 6-67 (80)
15 cd06402 PB1_p62 The PB1 domain 97.6 0.00059 1.3E-08 51.1 9.1 57 55-111 15-74 (87)
16 cd06409 PB1_MUG70 The MUG70 pr 97.3 0.0037 8E-08 46.7 9.3 73 53-140 9-84 (86)
17 cd06399 PB1_P40 The PB1 domain 96.7 0.0067 1.5E-07 46.3 6.4 58 53-112 12-73 (92)
18 cd06411 PB1_p51 The PB1 domain 96.6 0.0087 1.9E-07 44.3 6.5 56 56-111 8-65 (78)
19 cd06395 PB1_Map2k5 PB1 domain 91.3 0.76 1.7E-05 35.0 5.9 55 62-117 20-74 (91)
20 KOG0695 Serine/threonine prote 91.1 2.7 5.8E-05 40.0 10.5 89 27-146 13-102 (593)
21 cd01812 BAG1_N Ubiquitin-like 89.9 0.81 1.8E-05 30.6 4.6 41 49-90 5-45 (71)
22 PF14560 Ubiquitin_2: Ubiquiti 89.0 1.3 2.9E-05 31.5 5.4 32 59-90 18-49 (87)
23 cd01803 Ubiquitin Ubiquitin. U 88.9 1.1 2.4E-05 30.2 4.7 41 49-89 5-45 (76)
24 cd01809 Scythe_N Ubiquitin-lik 88.2 1.5 3.4E-05 29.1 5.0 41 49-89 5-45 (72)
25 PF11976 Rad60-SLD: Ubiquitin- 87.9 2 4.4E-05 29.0 5.5 41 49-89 5-46 (72)
26 cd00196 UBQ Ubiquitin-like pro 87.7 1.9 4E-05 25.1 4.7 42 50-91 3-44 (69)
27 cd01807 GDX_N ubiquitin-like d 87.6 1.5 3.2E-05 30.2 4.8 42 49-90 5-46 (74)
28 cd01796 DDI1_N DNA damage indu 87.4 1.3 2.7E-05 30.7 4.3 38 53-90 8-45 (71)
29 cd01794 DC_UbP_C dendritic cel 86.9 1.5 3.2E-05 30.6 4.5 42 48-89 2-43 (70)
30 PTZ00044 ubiquitin; Provisiona 85.6 2.3 5E-05 29.0 4.8 42 49-90 5-46 (76)
31 cd01799 Hoil1_N Ubiquitin-like 84.6 2 4.2E-05 30.6 4.2 38 52-90 10-47 (75)
32 cd01806 Nedd8 Nebb8-like ubiq 83.9 3.6 7.8E-05 27.6 5.2 41 50-90 6-46 (76)
33 cd01805 RAD23_N Ubiquitin-like 82.6 4.2 9.2E-05 27.6 5.1 41 49-89 5-47 (77)
34 cd01810 ISG15_repeat2 ISG15 ub 82.5 3.2 6.9E-05 28.6 4.5 41 49-89 3-43 (74)
35 cd01800 SF3a120_C Ubiquitin-li 81.6 3.2 6.9E-05 28.9 4.3 39 52-90 5-43 (76)
36 cd01769 UBL Ubiquitin-like dom 81.2 4.8 0.0001 25.9 4.8 40 50-89 3-42 (69)
37 cd01798 parkin_N amino-termina 80.3 4.5 9.7E-05 27.4 4.6 42 49-90 3-44 (70)
38 smart00213 UBQ Ubiquitin homol 78.4 6.7 0.00015 24.9 4.8 40 50-90 6-45 (64)
39 cd01789 Alp11_N Ubiquitin-like 75.9 8.4 0.00018 27.7 5.1 39 59-98 17-56 (84)
40 cd01802 AN1_N ubiquitin-like d 74.6 7.5 0.00016 29.2 4.8 42 49-90 32-73 (103)
41 cd01793 Fubi Fubi ubiquitin-li 73.8 10 0.00022 26.0 5.0 38 53-90 7-44 (74)
42 PF00240 ubiquitin: Ubiquitin 70.8 13 0.00028 24.6 4.8 38 52-89 3-40 (69)
43 cd01763 Sumo Small ubiquitin-r 69.0 14 0.00031 26.5 5.0 42 49-90 16-57 (87)
44 KOG3606 Cell polarity protein 67.1 8.3 0.00018 35.4 4.2 70 54-142 27-98 (358)
45 cd01804 midnolin_N Ubiquitin-l 61.5 23 0.0005 24.8 4.8 40 51-90 8-47 (78)
46 PF14107 DUF4280: Domain of un 55.6 8.5 0.00018 28.5 1.8 21 27-48 87-107 (108)
47 cd01813 UBP_N UBP ubiquitin pr 54.0 33 0.00072 24.0 4.6 37 53-89 8-44 (74)
48 cd01792 ISG15_repeat1 ISG15 ub 52.7 30 0.00065 24.2 4.2 38 50-87 8-45 (80)
49 cd01808 hPLIC_N Ubiquitin-like 52.4 36 0.00077 23.1 4.4 36 53-89 9-44 (71)
50 cd01791 Ubl5 UBL5 ubiquitin-li 51.4 37 0.00081 23.9 4.5 37 54-90 11-47 (73)
51 cd01797 NIRF_N amino-terminal 44.0 51 0.0011 23.3 4.3 41 50-90 6-48 (78)
52 TIGR03649 ergot_EASG ergot alk 42.7 58 0.0013 26.7 5.0 60 54-118 189-253 (285)
53 cd01787 GRB7_RA RA (RAS-associ 41.8 83 0.0018 23.7 5.3 57 52-118 10-68 (85)
54 cd04894 ACT_ACR-like_1 ACT dom 37.3 63 0.0014 23.7 3.9 40 35-78 23-68 (69)
55 PF11543 UN_NPL4: Nuclear pore 36.7 40 0.00086 24.4 2.8 33 54-87 14-46 (80)
56 KOG3206 Alpha-tubulin folding 33.4 50 0.0011 29.2 3.3 42 61-104 19-62 (234)
57 PF02519 Auxin_inducible: Auxi 32.6 80 0.0017 23.9 4.0 51 44-105 37-91 (100)
58 PF04599 Pox_G5: Poxvirus G5 p 31.8 57 0.0012 31.0 3.7 21 97-117 41-61 (425)
59 TIGR00601 rad23 UV excision re 31.3 91 0.002 28.8 4.9 42 49-90 5-49 (378)
60 cd02974 AhpF_NTD_N Alkyl hydro 29.8 2.1E+02 0.0046 21.1 5.8 43 69-116 5-47 (94)
61 cd00266 MADS_SRF_like SRF-like 29.7 1.7E+02 0.0037 21.1 5.2 53 62-117 15-74 (83)
62 TIGR03831 YgiT_finger YgiT-typ 29.1 30 0.00065 21.2 1.0 25 37-62 5-31 (46)
63 cd02167 NMNAT_NadR Nicotinamid 28.4 1.8E+02 0.0039 23.1 5.5 13 36-49 4-16 (158)
64 TIGR03140 AhpF alkyl hydropero 28.2 4.3E+02 0.0093 24.5 8.7 45 68-117 4-48 (515)
65 cd00472 Ribosomal_L24e_L24 Rib 26.1 60 0.0013 22.4 2.1 29 33-63 5-33 (54)
66 KOG2094 Predicted DNA damage i 25.7 2.8E+02 0.006 26.8 7.0 92 34-148 331-446 (490)
67 KOG1769 Ubiquitin-like protein 25.0 1.8E+02 0.004 22.6 4.8 37 53-89 29-65 (99)
68 KOG0028 Ca2+-binding protein ( 24.4 43 0.00092 28.4 1.3 52 65-116 86-155 (172)
69 PF09379 FERM_N: FERM N-termin 23.9 2.3E+02 0.0051 19.0 5.2 44 52-95 4-49 (80)
70 PRK10667 Hha toxicity attenuat 23.5 74 0.0016 25.7 2.5 38 63-114 44-81 (122)
71 PHA03065 Hypothetical protein; 22.1 1.1E+02 0.0023 29.4 3.6 22 96-117 42-63 (438)
72 PF10673 DUF2487: Protein of u 22.0 1.6E+02 0.0035 23.9 4.2 69 96-171 18-96 (142)
73 PF11575 FhuF_C: FhuF 2Fe-2S C 21.0 70 0.0015 18.4 1.4 11 85-95 4-14 (22)
74 PF03168 LEA_2: Late embryogen 20.5 2E+02 0.0043 19.6 3.9 65 28-93 15-80 (101)
75 COG2075 RPL24A Ribosomal prote 20.1 80 0.0017 23.0 1.9 27 33-61 5-31 (66)
76 PF09740 DUF2043: Uncharacteri 20.1 40 0.00087 26.5 0.3 22 27-48 83-104 (110)
No 1
>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=100.00 E-value=2.3e-42 Score=259.21 Aligned_cols=94 Identities=49% Similarity=0.875 Sum_probs=89.0
Q ss_pred EeeeCCEEEecCCCCceeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCC---eeeecChHHHHHHH
Q 045227 33 ICYFGGEIRLGPNDNKLRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGE---LISVTSDEDVENMM 109 (173)
Q Consensus 33 mCSyGGrIlPRp~Dg~LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgED---LISVssDeDL~~Mm 109 (173)
||||||||+|||+||+|+|+|||||||+|+|++||+||++||+++++.... ++||||||+|| ||||++||||+|||
T Consensus 1 ~cs~GG~i~pr~~dg~l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky~Lp~edld~Lisv~~DeDl~~M~ 79 (97)
T cd06410 1 LCSYGGRILPRPPDGQLRYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKYQLPDEDLDALISVSNDEDLKNMM 79 (97)
T ss_pred CcccCCEEeCcCCCCCEEEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEEEcCCCCcceeEEecCcHHHHHHH
Confidence 799999999999999999999999999999999999999999999998533 89999999999 99999999999999
Q ss_pred HHHHHHhhcccccccccccCCCCceeEEEEe
Q 045227 110 AEYDRILGSALQDDVQDLTSSAAGTIRLFLF 140 (173)
Q Consensus 110 eEYdrl~~~~~~~~~~~~~s~~~~rlRvFLF 140 (173)
+||+++. .+++|+|+|||
T Consensus 80 ~e~~~~~-------------~~~~rirvflf 97 (97)
T cd06410 80 EEYDRLS-------------GGSARLRVFLF 97 (97)
T ss_pred Hhhcccc-------------CCCceEEEEEC
Confidence 9999982 36899999998
No 2
>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=99.50 E-value=3.3e-13 Score=94.33 Aligned_cols=78 Identities=42% Similarity=0.698 Sum_probs=66.3
Q ss_pred CceeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHhhccccccccc
Q 045227 47 NKLRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRILGSALQDDVQD 126 (173)
Q Consensus 47 g~LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~~~~~~~~~~ 126 (173)
.|++| ||++|.+.|+++++|.+|++++.+.++.....+.|||+=...|+|++++|+||..|++.+.+..
T Consensus 4 vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~~~~---------- 72 (81)
T smart00666 4 VKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDEDLEEAIEEYDSLG---------- 72 (81)
T ss_pred EEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHHHHHHHHHHHHHcC----------
Confidence 47888 9999999999999999999999999997556899999932223999999999999999986642
Q ss_pred ccCCCCceeEEEEe
Q 045227 127 LTSSAAGTIRLFLF 140 (173)
Q Consensus 127 ~~s~~~~rlRvFLF 140 (173)
...||+++|
T Consensus 73 -----~~~l~l~v~ 81 (81)
T smart00666 73 -----SKKLRLHVF 81 (81)
T ss_pred -----CceEEEEeC
Confidence 467888876
No 3
>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=99.23 E-value=9.9e-11 Score=81.68 Aligned_cols=79 Identities=30% Similarity=0.543 Sum_probs=65.8
Q ss_pred ceeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHhhcccccccccc
Q 045227 48 KLRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRILGSALQDDVQDL 127 (173)
Q Consensus 48 ~LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~~~~~~~~~~~ 127 (173)
|++|.|+..|++.++++++|.+|+.++++.++.....+.|+|+=-.+|+|+|++|+||..|++.+.+.
T Consensus 5 K~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~~~------------ 72 (84)
T PF00564_consen 5 KVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDEDLQEAIEQAKES------------ 72 (84)
T ss_dssp EEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHHHHHHHHHHHHC------------
T ss_pred EEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHHHHHHHHHHHhc------------
Confidence 45565555556999999999999999999999865689999986666699999999999999998875
Q ss_pred cCCCCceeEEEEec
Q 045227 128 TSSAAGTIRLFLFN 141 (173)
Q Consensus 128 ~s~~~~rlRvFLFp 141 (173)
+..+||||+..
T Consensus 73 ---~~~~lrl~v~~ 83 (84)
T PF00564_consen 73 ---GSKTLRLFVQD 83 (84)
T ss_dssp ---TTSCEEEEEEE
T ss_pred ---CCCcEEEEEEe
Confidence 24589999864
No 4
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=99.22 E-value=1.6e-10 Score=80.11 Aligned_cols=77 Identities=32% Similarity=0.572 Sum_probs=63.8
Q ss_pred ceeeecCceEEEEEc-CCCChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHhhccccccccc
Q 045227 48 KLRYVGGDTHIISVH-RSSTFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRILGSALQDDVQD 126 (173)
Q Consensus 48 ~LrYvGGeTRIv~V~-Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~~~~~~~~~~ 126 (173)
|++|. |++|.+.++ ++++|.+|++++.+.++.....+.|||.-..+|+|++++|+||..|++.+.+.
T Consensus 4 K~~~~-~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~~~----------- 71 (81)
T cd05992 4 KVKYG-GEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSDEDLEEAIEEARRS----------- 71 (81)
T ss_pred EEEec-CCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCHHHHHHHHHHHhhc-----------
Confidence 45666 567777777 99999999999999999744578888888777799999999999999998761
Q ss_pred ccCCCCceeEEEEe
Q 045227 127 LTSSAAGTIRLFLF 140 (173)
Q Consensus 127 ~~s~~~~rlRvFLF 140 (173)
+..++|++++
T Consensus 72 ----~~~~l~l~v~ 81 (81)
T cd05992 72 ----GSKKLRLFVF 81 (81)
T ss_pred ----CCccEEEEeC
Confidence 3678888874
No 5
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=98.90 E-value=2.2e-08 Score=73.23 Aligned_cols=76 Identities=25% Similarity=0.350 Sum_probs=64.3
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCC-cceEEEeecCCCCeeeecChHHHHHHHHHHHHHhhcccccccccc
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAE-SDISVKYQLPNGELISVTSDEDVENMMAEYDRILGSALQDDVQDL 127 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~-~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~~~~~~~~~~~ 127 (173)
..| |||++.+.++.+++|.+|+.++++.|+... +.+.|||.=..+|.|+++||+||+.=++-|...
T Consensus 5 ~~~-~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~~~~------------ 71 (82)
T cd06407 5 ATY-GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVYRSS------------ 71 (82)
T ss_pred EEe-CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHHHHC------------
Confidence 344 889999999999999999999999999754 689999998777799999999998866654442
Q ss_pred cCCCCceeEEEEe
Q 045227 128 TSSAAGTIRLFLF 140 (173)
Q Consensus 128 ~s~~~~rlRvFLF 140 (173)
+..++|+|+-
T Consensus 72 ---~~~~v~l~v~ 81 (82)
T cd06407 72 ---GSHTIRLLVH 81 (82)
T ss_pred ---CCCeEEEEee
Confidence 5788999873
No 6
>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=98.41 E-value=2.5e-06 Score=63.80 Aligned_cols=64 Identities=16% Similarity=0.264 Sum_probs=57.2
Q ss_pred cCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHhhc
Q 045227 53 GGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRILGS 118 (173)
Q Consensus 53 GGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~~ 118 (173)
+|++++|.|+.+|+|++|..|+.+.|+.. ..+.|||+=. +|.|++++++||+--+.-.....+.
T Consensus 10 ~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykDE-GD~iti~sq~DLd~Ai~~a~~~~~~ 73 (86)
T cd06408 10 QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKDD-GDMITMGDQDDLDMAIDTARSEARK 73 (86)
T ss_pred cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEcC-CCCccccCHHHHHHHHHHHHHHHHh
Confidence 78999999999999999999999999984 6999999988 6799999999999998876654433
No 7
>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=98.21 E-value=6.5e-06 Score=61.20 Aligned_cols=56 Identities=23% Similarity=0.350 Sum_probs=49.3
Q ss_pred cCceEEEEEcC-CCChHHHHHhHHHHhCCCC---cceEEEeecCCCCeeeecChHHHHHH
Q 045227 53 GGDTHIISVHR-SSTFLALQTKPLKLAGMAE---SDISVKYQLPNGELISVTSDEDVENM 108 (173)
Q Consensus 53 GGeTRIv~V~R-sisf~eL~~kLs~l~g~~~---~~~~lKYQLPgEDLISVssDeDL~~M 108 (173)
|||.|.+.++. +++|.+|+..+..+++... .++.|||.=+.+|||+|++++||.--
T Consensus 8 g~DiR~~~~~~~~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~~dL~~A 67 (81)
T cd06401 8 GDDIRRIPIHNEDITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDSSDLSFA 67 (81)
T ss_pred CCeEEEEeccCccccHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccHHHHHHH
Confidence 99999999997 5899999999998887532 48999999999999999999999753
No 8
>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=98.11 E-value=5.6e-05 Score=56.41 Aligned_cols=63 Identities=21% Similarity=0.435 Sum_probs=52.8
Q ss_pred ceeeecCceEEEEEcC-----CCChHHHHHhHHHHhCCCC-cceEEEeecCCCCeeeecChHHHHHHHHH
Q 045227 48 KLRYVGGDTHIISVHR-----SSTFLALQTKPLKLAGMAE-SDISVKYQLPNGELISVTSDEDVENMMAE 111 (173)
Q Consensus 48 ~LrYvGGeTRIv~V~R-----sisf~eL~~kLs~l~g~~~-~~~~lKYQLPgEDLISVssDeDL~~MmeE 111 (173)
|..| ||++|-+.++. +++|.+|..|++++++... ..+.|||.==.+|+|.++||+||+.-++.
T Consensus 4 Kv~y-~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~ 72 (91)
T cd06398 4 KVKY-GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQY 72 (91)
T ss_pred EEEe-CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHH
Confidence 3455 88999999995 7999999999999998743 58999997555559999999999887766
No 9
>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=98.07 E-value=5.4e-05 Score=56.55 Aligned_cols=76 Identities=16% Similarity=0.281 Sum_probs=62.6
Q ss_pred eecCceEEEEEcCCCChHHHHHhHHHHhCCCC-cceEEEeecCCCCeeeecChHHHHHHHHHHHHHhhcccccccccccC
Q 045227 51 YVGGDTHIISVHRSSTFLALQTKPLKLAGMAE-SDISVKYQLPNGELISVTSDEDVENMMAEYDRILGSALQDDVQDLTS 129 (173)
Q Consensus 51 YvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~-~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~~~~~~~~~~~~s 129 (173)
+-+|+-+|..++.+++|.+|.+|+.++|.... .++++||-=..+|+|++++|++|+.-+.-|..-
T Consensus 6 ~y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~tiSS~~EL~EA~rl~~~n-------------- 71 (83)
T cd06404 6 AYNGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPCTISSQMELEEAFRLYELN-------------- 71 (83)
T ss_pred EecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCceeecCHHHHHHHHHHHHhc--------------
Confidence 34788999999999999999999999998643 589999988888899999999998777666543
Q ss_pred CCCceeEEEEec
Q 045227 130 SAAGTIRLFLFN 141 (173)
Q Consensus 130 ~~~~rlRvFLFp 141 (173)
+..-|-+-+||
T Consensus 72 -~~~~l~ihvfp 82 (83)
T cd06404 72 -KDSELNIHVFP 82 (83)
T ss_pred -CcccEEEEecC
Confidence 23456677776
No 10
>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=97.96 E-value=0.0001 Score=54.59 Aligned_cols=70 Identities=19% Similarity=0.310 Sum_probs=56.2
Q ss_pred cCceEEEEEcC--CCChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHhhcccccccccccCC
Q 045227 53 GGDTHIISVHR--SSTFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRILGSALQDDVQDLTSS 130 (173)
Q Consensus 53 GGeTRIv~V~R--sisf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~~~~~~~~~~~~s~ 130 (173)
|||+..+.++. +++|.+|.+.+++.|+.. ++.|||-==.+|-|+++||.||+.-++ +..+
T Consensus 8 ~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~lKYlDde~e~v~lssd~eLeE~~r----l~~~------------ 69 (81)
T cd06396 8 NGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQIKYVDEENEEVSVNSQGEYEEALK----SAVR------------ 69 (81)
T ss_pred CCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--cceeEEEcCCCCEEEEEchhhHHHHHH----HHHh------------
Confidence 78889999999 889999999999999984 999999544444999999999976554 4433
Q ss_pred CCceeEEEEe
Q 045227 131 AAGTIRLFLF 140 (173)
Q Consensus 131 ~~~rlRvFLF 140 (173)
.+..||+++.
T Consensus 70 ~~~~l~~~v~ 79 (81)
T cd06396 70 QGNLLQMNVY 79 (81)
T ss_pred CCCEEEEEEe
Confidence 2577888764
No 11
>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=97.94 E-value=3.6e-05 Score=57.50 Aligned_cols=62 Identities=23% Similarity=0.321 Sum_probs=51.5
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHH
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAE 111 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeE 111 (173)
..| ||+||=+++++.-+|.+|++||..+++....++.|+|-==++|+|++++|+||++-+..
T Consensus 5 v~~-~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~eL~d~~~~ 66 (82)
T cd06397 5 SSF-LGDTRRIVFPDIPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKELQDFYRL 66 (82)
T ss_pred EEe-CCceEEEecCCCccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHHHHHHHHh
Confidence 344 56777777999999999999999999985457999997666669999999999986553
No 12
>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=97.91 E-value=0.0001 Score=54.81 Aligned_cols=71 Identities=23% Similarity=0.398 Sum_probs=59.7
Q ss_pred eeecCceEEEEEcCC--CChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHhhcccccccccc
Q 045227 50 RYVGGDTHIISVHRS--STFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRILGSALQDDVQDL 127 (173)
Q Consensus 50 rYvGGeTRIv~V~Rs--isf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~~~~~~~~~~~ 127 (173)
.+-++|+|=.+++|+ .+|.||.+.+..+......++.|+|.=|+.||+.|+||+.+.. +-
T Consensus 5 SkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l~~~~f~i~Y~D~~gDLLPInNDdNf~k-------Al----------- 66 (80)
T cd06403 5 SKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHIPNVDFLIGYTDPHGDLLPINNDDNFLK-------AL----------- 66 (80)
T ss_pred cccCCeEEEEEeccccCcCHHHHHHHHHHHhCCCCCcEEEEEeCCCCCEecccCcHHHHH-------HH-----------
Confidence 356899999999998 8999999999999877556999999999889999999997654 32
Q ss_pred cCCCCceeEEEE
Q 045227 128 TSSAAGTIRLFL 139 (173)
Q Consensus 128 ~s~~~~rlRvFL 139 (173)
+++.+-||+|+
T Consensus 67 -ssa~plLRl~i 77 (80)
T cd06403 67 -SSANPLLRIFI 77 (80)
T ss_pred -HcCCCceEEEE
Confidence 22478899987
No 13
>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=97.90 E-value=7.2e-05 Score=55.52 Aligned_cols=57 Identities=32% Similarity=0.523 Sum_probs=50.8
Q ss_pred cCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCC-eeeecChHHHHHHHHHHHH
Q 045227 53 GGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGE-LISVTSDEDVENMMAEYDR 114 (173)
Q Consensus 53 GGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgED-LISVssDeDL~~MmeEYdr 114 (173)
-||.||+.++|.+.|.||..|+.+.||. .+.+-|- +.+ ||.+.|.|||++-||-.|+
T Consensus 8 ~gEKRIi~f~RPvkf~dl~~kv~~afGq---~mdl~yt--n~eL~iPl~~Q~DLDkAie~ld~ 65 (79)
T cd06405 8 NGEKRIIQFPRPVKFKDLQQKVTTAFGQ---PMDLHYT--NNELLIPLKNQEDLDRAIELLDR 65 (79)
T ss_pred cCceEEEecCCCccHHHHHHHHHHHhCC---eeeEEEe--cccEEEeccCHHHHHHHHHHHcc
Confidence 4899999999999999999999999997 6777664 344 9999999999999998877
No 14
>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=97.67 E-value=0.00019 Score=53.26 Aligned_cols=61 Identities=20% Similarity=0.293 Sum_probs=53.1
Q ss_pred ceeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCC-eeeecChHHHHHHHHH
Q 045227 48 KLRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGE-LISVTSDEDVENMMAE 111 (173)
Q Consensus 48 ~LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgED-LISVssDeDL~~MmeE 111 (173)
|++|-+ |-+|.|+++++|++|..|+++-++.....+.|.|.=.... ++.+ +|+||+.++.-
T Consensus 6 KV~f~~--tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~s~~~v~l-~d~dle~aws~ 67 (80)
T cd06406 6 KVHFKY--TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSEASGEDVIL-SDTNMEDVWSQ 67 (80)
T ss_pred EEEEEE--EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCCCCCccCc-ChHHHHHHHHh
Confidence 467887 9999999999999999999999987556789999887666 8888 89999998864
No 15
>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=97.63 E-value=0.00059 Score=51.06 Aligned_cols=57 Identities=12% Similarity=0.259 Sum_probs=46.8
Q ss_pred ceEEEEEcCC--CChHHHHHhHHHHhCC-CCcceEEEeecCCCCeeeecChHHHHHHHHH
Q 045227 55 DTHIISVHRS--STFLALQTKPLKLAGM-AESDISVKYQLPNGELISVTSDEDVENMMAE 111 (173)
Q Consensus 55 eTRIv~V~Rs--isf~eL~~kLs~l~g~-~~~~~~lKYQLPgEDLISVssDeDL~~MmeE 111 (173)
|-|-.+++.. ++|.+|+.++.++|.. ...+++|||.=..+|||+++|||||.--+..
T Consensus 15 EIRRf~l~~~~~~s~~~L~~~V~~~f~~l~~~~ftlky~DeeGDlvtIssdeEL~~A~~~ 74 (87)
T cd06402 15 EIRRFAIDEDVSTSYEYLVEKVAAVFPSLRGKNFQLFWKDEEGDLVAFSSDEELVMALGS 74 (87)
T ss_pred ceEEEEecCCCCcCHHHHHHHHHHHccccCCCcEEEEEECCCCCEEeecCHHHHHHHHHc
Confidence 5677777554 6999999999999964 2468999999888889999999999865543
No 16
>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=97.25 E-value=0.0037 Score=46.73 Aligned_cols=73 Identities=19% Similarity=0.244 Sum_probs=58.7
Q ss_pred cCceEEEEEcCCCChHHHHHhHHHHhCCCC---cceEEEeecCCCCeeeecChHHHHHHHHHHHHHhhcccccccccccC
Q 045227 53 GGDTHIISVHRSSTFLALQTKPLKLAGMAE---SDISVKYQLPNGELISVTSDEDVENMMAEYDRILGSALQDDVQDLTS 129 (173)
Q Consensus 53 GGeTRIv~V~Rsisf~eL~~kLs~l~g~~~---~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~~~~~~~~~~~~s 129 (173)
.|.++=+.+..+.++.+|++.+++-+|... ..+.|||-==.+|.|++|||.||..=++-+...
T Consensus 9 ~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~D~DL~e~v~iar~~-------------- 74 (86)
T cd06409 9 KGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITSDSDLVAAVLVARSA-------------- 74 (86)
T ss_pred CCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEeccchHHHHHHHHHHc--------------
Confidence 677888888889999999999999999754 478899954444499999999999887765443
Q ss_pred CCCceeEEEEe
Q 045227 130 SAAGTIRLFLF 140 (173)
Q Consensus 130 ~~~~rlRvFLF 140 (173)
+.-++|+||-
T Consensus 75 -g~~~v~L~v~ 84 (86)
T cd06409 75 -GLKKLDLHLH 84 (86)
T ss_pred -CCCEEEEEEe
Confidence 4677888874
No 17
>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=96.67 E-value=0.0067 Score=46.28 Aligned_cols=58 Identities=26% Similarity=0.280 Sum_probs=52.1
Q ss_pred cCceEEEEEcCCC----ChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHH
Q 045227 53 GGDTHIISVHRSS----TFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEY 112 (173)
Q Consensus 53 GGeTRIv~V~Rsi----sf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEY 112 (173)
|-++|=|+|..++ +|.+|...+...++. .++.|.|+=+..|||-+-+|||+.-|++|-
T Consensus 12 ~~~~rdi~vee~l~~~P~~kdLl~lmr~~f~~--~dIaLNYrD~EGDLIRllddeDv~LMV~~~ 73 (92)
T cd06399 12 ISTIRDIAVEEDLSSTPLLKDLLELTRREFQR--EDIALNYRDAEGDLIRLLSDEDVALMVRQS 73 (92)
T ss_pred CccccceEeecccccCccHHHHHHHHHHHhch--hheeeeeecCCCCEEEEcchhhHHHHHHHH
Confidence 5678889998886 699999999998886 599999999999999999999999999994
No 18
>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=96.62 E-value=0.0087 Score=44.34 Aligned_cols=56 Identities=11% Similarity=0.223 Sum_probs=50.4
Q ss_pred eEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCC--eeeecChHHHHHHHHH
Q 045227 56 THIISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGE--LISVTSDEDVENMMAE 111 (173)
Q Consensus 56 TRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgED--LISVssDeDL~~MmeE 111 (173)
|-.|.|+|..+|++|+.++++.+..-.+...|-|.-|+++ ||-++.+||++.++.-
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~l~~e~~me~aW~~ 65 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRAPGEDGHWVPISGEESLQRAWQD 65 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecCCCCCccEeecCcchHHHHHHHh
Confidence 6789999999999999999999887666789999999998 9999999999988753
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=91.25 E-value=0.76 Score=35.03 Aligned_cols=55 Identities=20% Similarity=0.250 Sum_probs=42.9
Q ss_pred cCCCChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHhh
Q 045227 62 HRSSTFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRILG 117 (173)
Q Consensus 62 ~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~ 117 (173)
+..++|.++..-++....-+ ....+.|.=-..|=|+|.+||+++.|+.-|.....
T Consensus 20 ~~~L~F~DvL~~I~~vlp~a-T~tAFeYEDE~gDRITVRSDeEm~AMlsyy~~~~~ 74 (91)
T cd06395 20 GPQLLFRDVLDVIGQVLPEA-TTTAFEYEDEDGDRITVRSDEEMKAMLSYYCSTVM 74 (91)
T ss_pred cccccHHHHHHHHHHhcccc-cccceeeccccCCeeEecchHHHHHHHHHHHHHHH
Confidence 35689999999999987642 34567776444449999999999999998876644
No 20
>KOG0695 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=91.09 E-value=2.7 Score=40.04 Aligned_cols=89 Identities=20% Similarity=0.331 Sum_probs=65.7
Q ss_pred CceEEEEeeeCCEEEecCCCCceeeecCceEEEEEcCCCChHHHHHhHHHHhCCC-CcceEEEeecCCCCeeeecChHHH
Q 045227 27 LKSVRFICYFGGEIRLGPNDNKLRYVGGDTHIISVHRSSTFLALQTKPLKLAGMA-ESDISVKYQLPNGELISVTSDEDV 105 (173)
Q Consensus 27 ~~kVKlmCSyGGrIlPRp~Dg~LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~-~~~~~lKYQLPgEDLISVssDeDL 105 (173)
...||+--.|+|.| -|..++..++|.+|-..+..+|... ..++++|+-=-..|-++|++.-+|
T Consensus 13 ~~~vrlka~y~g~i----------------~i~~~~p~~~~e~~~~~vrd~c~~h~~q~~t~kwideegdp~tv~sqmel 76 (593)
T KOG0695|consen 13 GGRVRLKAHYGGDI----------------FITSVDPATTFEELCEEVRDMCRLHQQQPLTLKWIDEEGDPCTVSSQMEL 76 (593)
T ss_pred CccEEEEEeecCcE----------------EEEeccCcccHHHHHHHHHHHHHHhhcCCceeEeecCCCCcceechhhhH
Confidence 35677766665555 5778899999999999999999753 358899986444449999998887
Q ss_pred HHHHHHHHHHhhcccccccccccCCCCceeEEEEecCCCcc
Q 045227 106 ENMMAEYDRILGSALQDDVQDLTSSAAGTIRLFLFNKRGIV 146 (173)
Q Consensus 106 ~~MmeEYdrl~~~~~~~~~~~~~s~~~~rlRvFLFp~~~~~ 146 (173)
+.-+ |+.+. .+..-|-+-+||.+|..
T Consensus 77 eea~----r~~~~-----------~~d~el~ihvf~~~pe~ 102 (593)
T KOG0695|consen 77 EEAF----RLARQ-----------CRDEELIIHVFPSTPEQ 102 (593)
T ss_pred HHHH----HHHHh-----------ccccceEEEEccCCCCC
Confidence 6543 33332 35677889999988875
No 21
>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=89.94 E-value=0.81 Score=30.57 Aligned_cols=41 Identities=20% Similarity=0.367 Sum_probs=34.6
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
.+|. |+++-+.|+.+.+..+|+.++++..|.......|.|.
T Consensus 5 vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~ 45 (71)
T cd01812 5 VKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFK 45 (71)
T ss_pred EEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeC
Confidence 4664 8889999999999999999999999985556777775
No 22
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=89.00 E-value=1.3 Score=31.51 Aligned_cols=32 Identities=28% Similarity=0.362 Sum_probs=28.6
Q ss_pred EEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 59 ISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 59 v~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
..++.+++..+|+.||..++|.....+.|.|.
T Consensus 18 kr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~ 49 (87)
T PF14560_consen 18 KRFPKSITVSELKQKLEKLTGIPPSDMRLQLK 49 (87)
T ss_dssp EEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE
T ss_pred EEcCCCCCHHHHHHHHHHHhCCCcccEEEEEE
Confidence 67899999999999999999998788899886
No 23
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=88.93 E-value=1.1 Score=30.15 Aligned_cols=41 Identities=17% Similarity=0.273 Sum_probs=34.1
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEe
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKY 89 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKY 89 (173)
++..+|++..+.|+.+.+-.+|+.++++..|.......|.|
T Consensus 5 v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~ 45 (76)
T cd01803 5 VKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIF 45 (76)
T ss_pred EEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEE
Confidence 45567899999999999999999999999987545566666
No 24
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=88.17 E-value=1.5 Score=29.10 Aligned_cols=41 Identities=22% Similarity=0.346 Sum_probs=34.9
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEe
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKY 89 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKY 89 (173)
.+...|.+..+.|+.+.+..+|+.++++..|.......|-|
T Consensus 5 vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 45 (72)
T cd01809 5 VKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIY 45 (72)
T ss_pred EEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEE
Confidence 45667889999999999999999999999987555667777
No 25
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=87.94 E-value=2 Score=28.97 Aligned_cols=41 Identities=20% Similarity=0.251 Sum_probs=35.8
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCC-cceEEEe
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAE-SDISVKY 89 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~-~~~~lKY 89 (173)
++-.+|+..-+.|.++.+++.|+.+.++..|... ..+.|.|
T Consensus 5 v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~f 46 (72)
T PF11976_consen 5 VRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIF 46 (72)
T ss_dssp EEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEE
T ss_pred EEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEE
Confidence 5667888888999999999999999999999866 6778877
No 26
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=87.69 E-value=1.9 Score=25.07 Aligned_cols=42 Identities=19% Similarity=0.156 Sum_probs=33.8
Q ss_pred eeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeec
Q 045227 50 RYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQL 91 (173)
Q Consensus 50 rYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQL 91 (173)
++.+|.+..+.++.+.+..+|+.++.+..|.....+.|-|.-
T Consensus 3 ~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~ 44 (69)
T cd00196 3 KLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNG 44 (69)
T ss_pred EecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECC
Confidence 445899999999999999999999999987654556665544
No 27
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=87.60 E-value=1.5 Score=30.17 Aligned_cols=42 Identities=10% Similarity=0.195 Sum_probs=34.6
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
.+..+|.+..+.|+.+.+..+|++++++..|.......|-|.
T Consensus 5 vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~ 46 (74)
T cd01807 5 VKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFK 46 (74)
T ss_pred EEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEEC
Confidence 467789999999999999999999999998875445555443
No 28
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=87.41 E-value=1.3 Score=30.69 Aligned_cols=38 Identities=13% Similarity=0.148 Sum_probs=32.3
Q ss_pred cCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 53 GGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 53 GGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
+|++..+.|+.+.+..+|+.++++..|.......|-|.
T Consensus 8 ~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~ 45 (71)
T cd01796 8 SETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYN 45 (71)
T ss_pred CCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEEC
Confidence 89999999999999999999999999875445566553
No 29
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=86.93 E-value=1.5 Score=30.60 Aligned_cols=42 Identities=19% Similarity=0.162 Sum_probs=34.3
Q ss_pred ceeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEe
Q 045227 48 KLRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKY 89 (173)
Q Consensus 48 ~LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKY 89 (173)
+++..+|.+..+.|+.+.+-.+|+.++++..|.......|=|
T Consensus 2 ~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~ 43 (70)
T cd01794 2 KVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFF 43 (70)
T ss_pred eEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEE
Confidence 467889999999999999999999999999887433444444
No 30
>PTZ00044 ubiquitin; Provisional
Probab=85.57 E-value=2.3 Score=28.99 Aligned_cols=42 Identities=12% Similarity=0.252 Sum_probs=34.6
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
.+-..|.+..+.|+.+.+-.+|++++++..|.......|-|.
T Consensus 5 vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~ 46 (76)
T PTZ00044 5 IKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYS 46 (76)
T ss_pred EEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEEC
Confidence 345689999999999999999999999999975455666663
No 31
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=84.60 E-value=2 Score=30.59 Aligned_cols=38 Identities=16% Similarity=-0.007 Sum_probs=32.6
Q ss_pred ecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 52 VGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 52 vGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
.+|.|..+.|+.+.+..+|+.|+.+..|.......| |.
T Consensus 10 ~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~ 47 (75)
T cd01799 10 SHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VI 47 (75)
T ss_pred cCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-Ec
Confidence 478999999999999999999999999985556677 53
No 32
>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=83.91 E-value=3.6 Score=27.58 Aligned_cols=41 Identities=10% Similarity=0.217 Sum_probs=33.1
Q ss_pred eeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 50 RYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 50 rYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
+-.+|.+..+.|+.+.+..+|+.++++..|.......|-|.
T Consensus 6 ~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~ 46 (76)
T cd01806 6 KTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYS 46 (76)
T ss_pred EeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEEC
Confidence 34568888899999999999999999998875555666654
No 33
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=82.57 E-value=4.2 Score=27.63 Aligned_cols=41 Identities=20% Similarity=0.215 Sum_probs=33.9
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCC--CCcceEEEe
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGM--AESDISVKY 89 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~--~~~~~~lKY 89 (173)
++..+|++..+.|+.+.+-.+|+.++++..|. ......|-|
T Consensus 5 vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~ 47 (77)
T cd01805 5 FKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIY 47 (77)
T ss_pred EEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEE
Confidence 56789999999999999999999999998886 444455555
No 34
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=82.50 E-value=3.2 Score=28.59 Aligned_cols=41 Identities=15% Similarity=0.223 Sum_probs=33.8
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEe
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKY 89 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKY 89 (173)
.+...|++..+.|+.+.+..+|++++++..|.......|-|
T Consensus 3 vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~ 43 (74)
T cd01810 3 VRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSF 43 (74)
T ss_pred EECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEE
Confidence 45678999999999999999999999999887444555554
No 35
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=81.60 E-value=3.2 Score=28.87 Aligned_cols=39 Identities=18% Similarity=0.300 Sum_probs=33.1
Q ss_pred ecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 52 VGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 52 vGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
.+|++..+.|+.+.+..+|+.++.+..|.......|.|.
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~ 43 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYE 43 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEEC
Confidence 478999999999999999999999999875455666664
No 36
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=81.21 E-value=4.8 Score=25.94 Aligned_cols=40 Identities=20% Similarity=0.281 Sum_probs=31.9
Q ss_pred eeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEe
Q 045227 50 RYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKY 89 (173)
Q Consensus 50 rYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKY 89 (173)
+...|.+..+.++.+.+..+|+.++++.+|.....+.|.|
T Consensus 3 ~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~ 42 (69)
T cd01769 3 KTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIY 42 (69)
T ss_pred EccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEE
Confidence 3446777788999999999999999999987555566655
No 37
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=80.30 E-value=4.5 Score=27.41 Aligned_cols=42 Identities=19% Similarity=0.277 Sum_probs=34.4
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
.+..+|++..+.|+.+.+..+|++++++..|.......|-|.
T Consensus 3 vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~ 44 (70)
T cd01798 3 VRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFA 44 (70)
T ss_pred EEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEEC
Confidence 356689999999999999999999999998875455566553
No 38
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=78.38 E-value=6.7 Score=24.94 Aligned_cols=40 Identities=23% Similarity=0.317 Sum_probs=30.6
Q ss_pred eeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 50 RYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 50 rYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
+..+ .+.-+.|+.+.+..+|+.++++.+|.......|.|.
T Consensus 6 k~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~ 45 (64)
T smart00213 6 KTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYK 45 (64)
T ss_pred EECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEEC
Confidence 4445 477899999999999999999999874444555553
No 39
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=75.91 E-value=8.4 Score=27.65 Aligned_cols=39 Identities=21% Similarity=0.252 Sum_probs=30.3
Q ss_pred EEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCC-eee
Q 045227 59 ISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGE-LIS 98 (173)
Q Consensus 59 v~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgED-LIS 98 (173)
..++.+++..+|+.||...+|.....+.|-|. .+.+ .+.
T Consensus 17 kr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~-~~~~~~~~ 56 (84)
T cd01789 17 KKYSRGLTIAELKKKLELVVGTPASSMRLQLF-DGDDKLVS 56 (84)
T ss_pred EecCCCCcHHHHHHHHHHHHCCCccceEEEEE-cCCCCeEe
Confidence 45899999999999999999987777888543 3334 444
No 40
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=74.65 E-value=7.5 Score=29.25 Aligned_cols=42 Identities=14% Similarity=0.284 Sum_probs=34.9
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
.+-.+|++..+.|+.+.+-.+|+.++++..|.......|-|.
T Consensus 32 Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~ 73 (103)
T cd01802 32 IETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWN 73 (103)
T ss_pred EEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEEC
Confidence 566789999999999999999999999998875445566553
No 41
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=73.82 E-value=10 Score=26.01 Aligned_cols=38 Identities=18% Similarity=0.257 Sum_probs=31.4
Q ss_pred cCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 53 GGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 53 GGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
+++|+.+.|+.+.+-.+|+.++++..|.......|-|.
T Consensus 7 ~~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~ 44 (74)
T cd01793 7 AQNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLA 44 (74)
T ss_pred CCCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEEC
Confidence 46899999999999999999999998875455566664
No 42
>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=70.75 E-value=13 Score=24.63 Aligned_cols=38 Identities=21% Similarity=0.338 Sum_probs=32.5
Q ss_pred ecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEe
Q 045227 52 VGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKY 89 (173)
Q Consensus 52 vGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKY 89 (173)
..|.+.-+.|+.+.+..+|+.++++..|.......|-|
T Consensus 3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~ 40 (69)
T PF00240_consen 3 LSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIY 40 (69)
T ss_dssp TTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEE
T ss_pred CCCcEEEEEECCCCCHHHhhhhcccccccccccceeee
Confidence 46889999999999999999999999997655666655
No 43
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=68.97 E-value=14 Score=26.45 Aligned_cols=42 Identities=12% Similarity=0.267 Sum_probs=35.6
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
++..-|.+..+.|.++.++..|+.+.++..|.....+.|-|.
T Consensus 16 v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~ 57 (87)
T cd01763 16 VKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFD 57 (87)
T ss_pred EECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEEC
Confidence 455668888899999999999999999999986667778774
No 44
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=67.13 E-value=8.3 Score=35.41 Aligned_cols=70 Identities=23% Similarity=0.397 Sum_probs=49.0
Q ss_pred CceEEEEEcCC--CChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHhhcccccccccccCCC
Q 045227 54 GDTHIISVHRS--STFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRILGSALQDDVQDLTSSA 131 (173)
Q Consensus 54 GeTRIv~V~Rs--isf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~~~~~~~~~~~~s~~ 131 (173)
-|-|=.+++|+ -+|.+|..-+..+-.....+|.|-|.=++.||.-++||+-+.. .. +++
T Consensus 27 aEfRRfsl~r~~~~~f~~F~~Lv~~~H~i~nvdvllgY~d~hgDLLPinNDDn~~k-------a~------------~sa 87 (358)
T KOG3606|consen 27 AEFRRFSLPRHSASSFDEFYSLVEHLHHIPNVDVLLGYADTHGDLLPINNDDNLHK-------AL------------SSA 87 (358)
T ss_pred chhheecccccCcccHHHHHHHHHHHhcCCCceEEEEEecCCCceecccCchhHHH-------Hh------------hcc
Confidence 34455566666 4788877766666555445899999999999999999987543 22 234
Q ss_pred CceeEEEEecC
Q 045227 132 AGTIRLFLFNK 142 (173)
Q Consensus 132 ~~rlRvFLFp~ 142 (173)
.+-||+|+=-.
T Consensus 88 ~PlLR~~iQkr 98 (358)
T KOG3606|consen 88 RPLLRLLIQKR 98 (358)
T ss_pred Cchhhhhhhhh
Confidence 67788876543
No 45
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=61.47 E-value=23 Score=24.84 Aligned_cols=40 Identities=13% Similarity=0.114 Sum_probs=30.2
Q ss_pred eecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 51 YVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 51 YvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
-..|.+.-+.|+.+.+..+|+.++++..|.......|-|.
T Consensus 8 ~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~ 47 (78)
T cd01804 8 STTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHR 47 (78)
T ss_pred ECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEEC
Confidence 3457788899999999999999999988764333444333
No 46
>PF14107 DUF4280: Domain of unknown function (DUF4280)
Probab=55.55 E-value=8.5 Score=28.48 Aligned_cols=21 Identities=19% Similarity=0.558 Sum_probs=14.9
Q ss_pred CceEEEEeeeCCEEEecCCCCc
Q 045227 27 LKSVRFICYFGGEIRLGPNDNK 48 (173)
Q Consensus 27 ~~kVKlmCSyGGrIlPRp~Dg~ 48 (173)
..+=+++|.|||.|..- ++||
T Consensus 87 ~~~S~~~C~~gG~I~i~-~~GQ 107 (108)
T PF14107_consen 87 TEDSKLTCAYGGIISII-DSGQ 107 (108)
T ss_pred ccCeEEeccCCCEEEEE-eCCC
Confidence 34568899999998763 4443
No 47
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=53.95 E-value=33 Score=24.02 Aligned_cols=37 Identities=19% Similarity=0.200 Sum_probs=29.8
Q ss_pred cCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEe
Q 045227 53 GGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKY 89 (173)
Q Consensus 53 GGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKY 89 (173)
+|++.-|.|+.+.+..+|+++|.+..|.......|=|
T Consensus 8 ~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~ 44 (74)
T cd01813 8 GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLG 44 (74)
T ss_pred CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEe
Confidence 6788889999999999999999999887433444444
No 48
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=52.72 E-value=30 Score=24.17 Aligned_cols=38 Identities=18% Similarity=0.344 Sum_probs=30.1
Q ss_pred eeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEE
Q 045227 50 RYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISV 87 (173)
Q Consensus 50 rYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~l 87 (173)
+-..|.+..+.|+.+.+-.+|+.++++..|.......|
T Consensus 8 k~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL 45 (80)
T cd01792 8 KMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRL 45 (80)
T ss_pred EeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEE
Confidence 34568888899999999999999999998864334444
No 49
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=52.37 E-value=36 Score=23.05 Aligned_cols=36 Identities=6% Similarity=0.091 Sum_probs=28.0
Q ss_pred cCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEe
Q 045227 53 GGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKY 89 (173)
Q Consensus 53 GGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKY 89 (173)
.|.+ .+.|+.+.+-.+|+.++++..|.......|-|
T Consensus 9 ~g~~-~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~ 44 (71)
T cd01808 9 KDKE-EIEIAEDASVKDFKEAVSKKFKANQEQLVLIF 44 (71)
T ss_pred CCCE-EEEECCCChHHHHHHHHHHHhCCCHHHEEEEE
Confidence 4544 78999999999999999999886444555554
No 50
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=51.39 E-value=37 Score=23.88 Aligned_cols=37 Identities=16% Similarity=0.121 Sum_probs=30.8
Q ss_pred CceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 54 GDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 54 GeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
|.+..+.|+.+.+..+|+.++++..|.......|-|.
T Consensus 11 Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~ 47 (73)
T cd01791 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKW 47 (73)
T ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeC
Confidence 7778889999999999999999988875556667665
No 51
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=43.99 E-value=51 Score=23.30 Aligned_cols=41 Identities=17% Similarity=0.243 Sum_probs=30.6
Q ss_pred eeecCce-EEEE-EcCCCChHHHHHhHHHHhCCCCcceEEEee
Q 045227 50 RYVGGDT-HIIS-VHRSSTFLALQTKPLKLAGMAESDISVKYQ 90 (173)
Q Consensus 50 rYvGGeT-RIv~-V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQ 90 (173)
+-..|.+ .-+. |..+.+..+|+.++++..|.......|-|.
T Consensus 6 k~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~ 48 (78)
T cd01797 6 RTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYR 48 (78)
T ss_pred EcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeC
Confidence 4456765 4564 788999999999999998875455666664
No 52
>TIGR03649 ergot_EASG ergot alkaloid biosynthesis protein, AFUA_2G17970 family. This family consists of fungal proteins of unknown function associated with secondary metabolite biosynthesis, such as of the ergot alkaloids such as ergovaline. Nomenclature differs because gene order differs - this is EasG in Neotyphodium lolii but is designated ergot alkaloid biosynthetic protein A in several other fungi.
Probab=42.73 E-value=58 Score=26.68 Aligned_cols=60 Identities=18% Similarity=0.213 Sum_probs=43.1
Q ss_pred CceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEe-ecCCCC----eeeecChHHHHHHHHHHHHHhhc
Q 045227 54 GDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKY-QLPNGE----LISVTSDEDVENMMAEYDRILGS 118 (173)
Q Consensus 54 GeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKY-QLPgED----LISVssDeDL~~MmeEYdrl~~~ 118 (173)
|.+..+.=+..+++.|+...+++.+|. + ++| ++|.++ |..---.+|+.+|+.++.+....
T Consensus 189 ~~~~~l~g~~~~s~~eia~~l~~~~g~---~--v~~~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~~~ 253 (285)
T TIGR03649 189 NTDYVVLGPELLTYDDVAEILSRVLGR---K--ITHVKLTEEELAQRLQSFGMPEDLARMLASLDTAVKN 253 (285)
T ss_pred CCeEEeeCCccCCHHHHHHHHHHHhCC---c--eEEEeCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHhC
Confidence 455666678899999999999999986 3 344 356665 44444568888888887766543
No 53
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=41.79 E-value=83 Score=23.67 Aligned_cols=57 Identities=9% Similarity=0.109 Sum_probs=47.6
Q ss_pred ecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCC--eeeecChHHHHHHHHHHHHHhhc
Q 045227 52 VGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGE--LISVTSDEDVENMMAEYDRILGS 118 (173)
Q Consensus 52 vGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgED--LISVssDeDL~~MmeEYdrl~~~ 118 (173)
-.|.++.|-|+..++-.+....|++.... .+.++ |+=...|--|++.+|.|+.+...
T Consensus 10 ~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~----------~~~~~W~LvE~~P~l~lER~~EDHE~vvdv 68 (85)
T cd01787 10 EDGASKSLEVDERMTARDVCQLLVDKNHC----------QDDSSWTLVEHLPHLQLERLFEDHELVVEV 68 (85)
T ss_pred cCCCeeEEEEcCCCcHHHHHHHHHHHhCC----------CCCCCeEEEEecchhhhhhhccchHHHHHH
Confidence 45889999999999999999999998776 35556 88888888889999988887654
No 54
>cd04894 ACT_ACR-like_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=37.26 E-value=63 Score=23.72 Aligned_cols=40 Identities=23% Similarity=0.349 Sum_probs=28.1
Q ss_pred eeCCEEEec--CCCCceeeecCceEEEEEcCC----CChHHHHHhHHHHh
Q 045227 35 YFGGEIRLG--PNDNKLRYVGGDTHIISVHRS----STFLALQTKPLKLA 78 (173)
Q Consensus 35 SyGGrIlPR--p~Dg~LrYvGGeTRIv~V~Rs----isf~eL~~kLs~l~ 78 (173)
-||=.|.-- ..||++.|+ -.-.|+++ +.|.-|+.||.++|
T Consensus 23 ~fGl~i~rgd~sTDGkWCyi----v~wVv~~~~~~~~rW~lLK~RL~~~C 68 (69)
T cd04894 23 EFGLNITRGDDSTDGRWCYI----VFWVVPRPPSIKVRWDLLKNRLMSAC 68 (69)
T ss_pred HhceEEEecccccCCcEEEE----EEEEecCCCCCcccHHHHHHHHHhcC
Confidence 466666532 378999998 22233555 78999999999876
No 55
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=36.65 E-value=40 Score=24.36 Aligned_cols=33 Identities=30% Similarity=0.308 Sum_probs=20.4
Q ss_pred CceEEEEEcCCCChHHHHHhHHHHhCCCCcceEE
Q 045227 54 GDTHIISVHRSSTFLALQTKPLKLAGMAESDISV 87 (173)
Q Consensus 54 GeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~l 87 (173)
|-.|| .|+.+.++.+|..|+.+.++.....++|
T Consensus 14 G~~Ri-e~~~~~t~~~L~~kI~~~l~~~~~~~~L 46 (80)
T PF11543_consen 14 GMKRI-EVSPSSTLSDLKEKISEQLSIPDSSQSL 46 (80)
T ss_dssp EEEEE-EE-TTSBHHHHHHHHHHHS---TTT---
T ss_pred CCEEE-EcCCcccHHHHHHHHHHHcCCCCcceEE
Confidence 34454 6899999999999999998874334443
No 56
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=33.41 E-value=50 Score=29.16 Aligned_cols=42 Identities=29% Similarity=0.392 Sum_probs=33.6
Q ss_pred EcCCCChHHHHHhHHHHhCCCCcceEEEeecCCCC--eeeecChHH
Q 045227 61 VHRSSTFLALQTKPLKLAGMAESDISVKYQLPNGE--LISVTSDED 104 (173)
Q Consensus 61 V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgED--LISVssDeD 104 (173)
.+++++.++|+.||--++|.... +.+-||=+.+ +++.-+|||
T Consensus 19 ~~~~ltl~q~K~KLe~~~G~~~~--~M~l~l~~~~d~~~~~lsn~d 62 (234)
T KOG3206|consen 19 LSNSLTLAQFKDKLELLTGTEAE--SMELELYDGDDKKVSALSNED 62 (234)
T ss_pred cCCcCcHHHHHhhhhhhhCCCcc--ceEEEEEcCCCceeeeccCCc
Confidence 47889999999999999997433 5566777775 888888776
No 57
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=32.63 E-value=80 Score=23.88 Aligned_cols=51 Identities=20% Similarity=0.262 Sum_probs=35.5
Q ss_pred CCCCceeeecCceEEEEEcCC----CChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHH
Q 045227 44 PNDNKLRYVGGDTHIISVHRS----STFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDV 105 (173)
Q Consensus 44 p~Dg~LrYvGGeTRIv~V~Rs----isf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL 105 (173)
|.+---=|||-+.|-..||.. --|.+|..+-.+-+|. ..+.-|.|-||.++
T Consensus 37 p~G~~~VyVG~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~-----------~~~G~l~iPC~~~~ 91 (100)
T PF02519_consen 37 PKGHFAVYVGEERRRFVVPVSYLNHPLFQELLEQAEEEFGF-----------DQDGPLTIPCDVVL 91 (100)
T ss_pred CCCeEEEEeCccceEEEechHHcCchhHHHHHHHHhhhcCc-----------CCCCcEEeeCCHHH
Confidence 444456799998998889876 3688888888777775 33334566777654
No 58
>PF04599 Pox_G5: Poxvirus G5 protein; InterPro: IPR007678 Protein G5 is found in a number of Poxviruses.
Probab=31.77 E-value=57 Score=31.05 Aligned_cols=21 Identities=29% Similarity=0.275 Sum_probs=18.8
Q ss_pred eeecChHHHHHHHHHHHHHhh
Q 045227 97 ISVTSDEDVENMMAEYDRILG 117 (173)
Q Consensus 97 ISVssDeDL~~MmeEYdrl~~ 117 (173)
.||++++||.+++++|-..-.
T Consensus 41 ysv~s~~eL~~~~~~~i~~w~ 61 (425)
T PF04599_consen 41 YSVNSLDELRNSFEEYIQQWI 61 (425)
T ss_pred hhhCCHHHHHHHHHHHHHHHH
Confidence 589999999999999988764
No 59
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.34 E-value=91 Score=28.81 Aligned_cols=42 Identities=14% Similarity=0.166 Sum_probs=33.3
Q ss_pred eeeecCceEEEEEcCCCChHHHHHhHHHHhC---CCCcceEEEee
Q 045227 49 LRYVGGDTHIISVHRSSTFLALQTKPLKLAG---MAESDISVKYQ 90 (173)
Q Consensus 49 LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g---~~~~~~~lKYQ 90 (173)
++...|++..|.|+.+.+..+|+.++.+..| +......|-|.
T Consensus 5 VKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~ 49 (378)
T TIGR00601 5 FKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYS 49 (378)
T ss_pred EEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEEC
Confidence 5667899999999999999999999999887 43334555554
No 60
>cd02974 AhpF_NTD_N Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction of hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD forming two contiguous TRX-fold subdomain similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The N-terminal TRX-fold subdomain of AhpF NTD is redox inactive, but is proposed to contain an important residue that aids in the catalytic function of the redox-active CXXC motif contained in the C-terminal TRX-
Probab=29.79 E-value=2.1e+02 Score=21.11 Aligned_cols=43 Identities=9% Similarity=0.156 Sum_probs=31.3
Q ss_pred HHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHh
Q 045227 69 ALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRIL 116 (173)
Q Consensus 69 eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~ 116 (173)
++++.|.+++..-..++.|++++.+. ..-++++.+++|...+.
T Consensus 5 ~~~~qL~~~f~~l~~pV~l~~f~~~~-----~~~~e~~~ll~e~a~lS 47 (94)
T cd02974 5 NLKQQLKAYLERLENPVELVASLDDS-----EKSAELLELLEEIASLS 47 (94)
T ss_pred HHHHHHHHHHHhCCCCEEEEEEeCCC-----cchHHHHHHHHHHHHhC
Confidence 56666776665445689999999764 45578899999877663
No 61
>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=29.68 E-value=1.7e+02 Score=21.10 Aligned_cols=53 Identities=25% Similarity=0.429 Sum_probs=35.4
Q ss_pred cCCCChHH----HHHhH---HHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHhh
Q 045227 62 HRSSTFLA----LQTKP---LKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRILG 117 (173)
Q Consensus 62 ~Rsisf~e----L~~kL---s~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~ 117 (173)
.|.++|+- |+.|. +.|||. ++++=+.=|++.+..+.....++.+++.|..+..
T Consensus 15 ~R~~tf~KRk~gl~kKa~ELs~Lc~~---~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~ 74 (83)
T cd00266 15 KRAVTFSKRRQGLFKKASELSTLCGA---EVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSA 74 (83)
T ss_pred hhhhhHHHhhhhHHHHHHHHHHhhCC---cEEEEEECCCCCcceecCcHHHHHHHHHHhhcCH
Confidence 45566654 44444 445664 8888888999995555444449999999877643
No 62
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=29.09 E-value=30 Score=21.17 Aligned_cols=25 Identities=36% Similarity=0.634 Sum_probs=15.6
Q ss_pred CCEEEecCC-CCceeeecCceEEE-EEc
Q 045227 37 GGEIRLGPN-DNKLRYVGGDTHII-SVH 62 (173)
Q Consensus 37 GGrIlPRp~-Dg~LrYvGGeTRIv-~V~ 62 (173)
||.-+.+.. +-...| ||+..+| .||
T Consensus 5 ~~~~~~~~~~~~~~~~-~~~~~~i~~vp 31 (46)
T TIGR03831 5 GGEELEGKTTTETYEY-GGELIVIENVP 31 (46)
T ss_pred CCceecceEEEEEEEe-CCEEEEEeCCC
Confidence 556555544 555777 8877777 444
No 63
>cd02167 NMNAT_NadR Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins. NMNAT domain of NadR protein. The NadR protein (NadR) is a bifunctional enzyme possessing both NMN adenylytransferase (NMNAT) and ribosylnicotinamide kinase (RNK) activities. Its function is essential for the growth and survival of H. influenzae and thus may present a new highly specific anti-infectious drug target. The N-terminal domain that hosts the NMNAT activity is closely related to archaeal NMNAT. The bound NAD at the active site of the NMNAT domain reveals several critical interactions between NAD and the protein.The NMNAT domain of hiNadR defines yet another member of the pyridine nucleotide adenylyltransferase
Probab=28.39 E-value=1.8e+02 Score=23.11 Aligned_cols=13 Identities=8% Similarity=0.066 Sum_probs=11.3
Q ss_pred eCCEEEecCCCCce
Q 045227 36 FGGEIRLGPNDNKL 49 (173)
Q Consensus 36 yGGrIlPRp~Dg~L 49 (173)
|||+|.| +|-|.|
T Consensus 4 ~~G~F~P-~H~GHl 16 (158)
T cd02167 4 VFGKFAP-LHTGHV 16 (158)
T ss_pred EeeccCC-CCHHHH
Confidence 8999999 788875
No 64
>TIGR03140 AhpF alkyl hydroperoxide reductase, F subunit. This enzyme is the partner of the peroxiredoxin (alkyl hydroperoxide reductase) AhpC which contains the peroxide-reactive cysteine. AhpF contains the reductant (NAD(P)H) binding domain (pfam00070) and presumably acts to resolve the disulfide which forms after oxidation of the active site cysteine in AphC. This proteins contains two paired conserved cysteine motifs, CxxCP and CxHCDGP.
Probab=28.20 E-value=4.3e+02 Score=24.47 Aligned_cols=45 Identities=7% Similarity=0.110 Sum_probs=33.4
Q ss_pred HHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHHHhh
Q 045227 68 LALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDRILG 117 (173)
Q Consensus 68 ~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdrl~~ 117 (173)
.++++.|.+++.....++.|++++.++ ...++++.+++|...+..
T Consensus 4 ~~~~~~l~~~~~~~~~~v~~~~~~~~~-----~~~~~~~~~~~~~~~~s~ 48 (515)
T TIGR03140 4 QSLLAQLKSYLASLENPVTLVLSAGSH-----EKSKELLELLDEIASLSD 48 (515)
T ss_pred HHHHHHHHHHHHhcCCCEEEEEEeCCC-----chhHHHHHHHHHHHHhCC
Confidence 356777777776555789999999843 355889999999887753
No 65
>cd00472 Ribosomal_L24e_L24 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor binding site. L24e/L24 appears to play a role in the kinetics of peptide synthesis, and may be involved in interactions between the large and small subunits, either directly or through other factors. In mouse, a deletion mutation in L24 has been identified as the cause for the belly spot and tail (Bst) mutation that results in disrupted pigmentation, somitogenesis and retinal cell fate determination. L24 may be an important protein in eukaryotic reproduction: in shrimp, L24 expression is elevated in the ovary, suggesting a role in oogenesis, and in Arabidopsis, L24 has been proposed to have a specific function in gynoecium development. No protein with sequence or structural homology to L24e/L24 has been identifi
Probab=26.08 E-value=60 Score=22.37 Aligned_cols=29 Identities=24% Similarity=0.394 Sum_probs=21.1
Q ss_pred EeeeCCEEEecCCCCceeeecCceEEEEEcC
Q 045227 33 ICYFGGEIRLGPNDNKLRYVGGDTHIISVHR 63 (173)
Q Consensus 33 mCSyGGrIlPRp~Dg~LrYvGGeTRIv~V~R 63 (173)
.|+|-|.-+. |+-| .+||-.|-+|+..=.
T Consensus 5 ~C~f~g~~I~-PG~G-~~~Vr~Dgkv~~F~s 33 (54)
T cd00472 5 KCSFCGYKIY-PGHG-KMYVRNDGKVFRFCS 33 (54)
T ss_pred EecCcCCeec-CCCc-cEEEecCCCEEEEEC
Confidence 6999776654 4666 789988888876543
No 66
>KOG2094 consensus Predicted DNA damage inducible protein [Replication, recombination and repair]
Probab=25.70 E-value=2.8e+02 Score=26.80 Aligned_cols=92 Identities=26% Similarity=0.267 Sum_probs=58.0
Q ss_pred ee--eCCEEEecCCCCceeeecCceEEEEEcCCC----ChHHHHHhHHHHh----------CCCCcceEEEeecCCCCee
Q 045227 34 CY--FGGEIRLGPNDNKLRYVGGDTHIISVHRSS----TFLALQTKPLKLA----------GMAESDISVKYQLPNGELI 97 (173)
Q Consensus 34 CS--yGGrIlPRp~Dg~LrYvGGeTRIv~V~Rsi----sf~eL~~kLs~l~----------g~~~~~~~lKYQLPgEDLI 97 (173)
|| +||.++++ || +.+-|++.|.. +++.|-.|+-++| |.-..+++|||.+-.=+..
T Consensus 331 ~slG~g~t~~~~--~~-------eRKsis~ErTFs~~sd~~il~~k~qel~~~lsedlqK~glv~rtvtiKlK~ssFev~ 401 (490)
T KOG2094|consen 331 CSLGLGTTILDE--DG-------ERKSISSERTFSSTSDPSILYSKLQELCQMLSEDLQKEGLVGRTVTIKLKTSSFEVH 401 (490)
T ss_pred HhhcCCCCcCcc--cc-------ccccccceeeecccCCHHHHHHHHHHHHHHHHHHHHhcCcccceEEEEEeccceeee
Confidence 55 45677764 44 45566676664 3566666666655 3334689999999877733
Q ss_pred e--------ecChHHHHHHHHHHHHHhhcccccccccccCCCCceeEEEEecCCCcchh
Q 045227 98 S--------VTSDEDVENMMAEYDRILGSALQDDVQDLTSSAAGTIRLFLFNKRGIVSF 148 (173)
Q Consensus 98 S--------VssDeDL~~MmeEYdrl~~~~~~~~~~~~~s~~~~rlRvFLFp~~~~~s~ 148 (173)
+ |.+.||+..---|.-+.+ .+.+||+.=......+++
T Consensus 402 Tr~~t~s~vv~S~edi~k~aleLLk~e--------------~~~~iRLlGvR~sqlv~e 446 (490)
T KOG2094|consen 402 TRQKTISQVVHSEEDILKPALELLKQE--------------YPMTIRLLGVRASQLVSE 446 (490)
T ss_pred eccCchhhhhccHHHHHHHHHHHHHhh--------------cCceEeeeeeeHhhccch
Confidence 2 577888776655544432 467888876666555554
No 67
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=25.01 E-value=1.8e+02 Score=22.57 Aligned_cols=37 Identities=11% Similarity=0.283 Sum_probs=30.8
Q ss_pred cCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEe
Q 045227 53 GGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKY 89 (173)
Q Consensus 53 GGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKY 89 (173)
+|.+....|.|+..|.-||..-++.-|.....+.|.|
T Consensus 29 d~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlF 65 (99)
T KOG1769|consen 29 DGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLF 65 (99)
T ss_pred CCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEE
Confidence 5778899999999999999999998887555666655
No 68
>KOG0028 consensus Ca2+-binding protein (centrin/caltractin), EF-Hand superfamily protein [Cytoskeleton; Cell cycle control, cell division, chromosome partitioning]
Probab=24.37 E-value=43 Score=28.40 Aligned_cols=52 Identities=23% Similarity=0.229 Sum_probs=31.6
Q ss_pred CChHHHHHhHHHHhCCCCcceEEEe--ecCCCC---------eee-------ecChHHHHHHHHHHHHHh
Q 045227 65 STFLALQTKPLKLAGMAESDISVKY--QLPNGE---------LIS-------VTSDEDVENMMAEYDRIL 116 (173)
Q Consensus 65 isf~eL~~kLs~l~g~~~~~~~lKY--QLPgED---------LIS-------VssDeDL~~MmeEYdrl~ 116 (173)
|+|.+|+.-++...+...+..-||+ +|=+.| |.. --+|+||..||||.++-.
T Consensus 86 i~fe~f~~~mt~k~~e~dt~eEi~~afrl~D~D~~Gkis~~~lkrvakeLgenltD~El~eMIeEAd~d~ 155 (172)
T KOG0028|consen 86 ITFEDFRRVMTVKLGERDTKEEIKKAFRLFDDDKTGKISQRNLKRVAKELGENLTDEELMEMIEEADRDG 155 (172)
T ss_pred echHHHHHHHHHHHhccCcHHHHHHHHHcccccCCCCcCHHHHHHHHHHhCccccHHHHHHHHHHhcccc
Confidence 7788888777766654332222332 332322 222 247999999999988754
No 69
>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=23.90 E-value=2.3e+02 Score=18.99 Aligned_cols=44 Identities=23% Similarity=0.293 Sum_probs=35.2
Q ss_pred ecCceEEEEEcCCCChHHHHHhHHHHhCCCCc-ceEEEe-ecCCCC
Q 045227 52 VGGDTHIISVHRSSTFLALQTKPLKLAGMAES-DISVKY-QLPNGE 95 (173)
Q Consensus 52 vGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~-~~~lKY-QLPgED 95 (173)
--|.+..+.|+++.+-.+|..++.+..|.... -+.|.| ....+.
T Consensus 4 lD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~ 49 (80)
T PF09379_consen 4 LDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGE 49 (80)
T ss_dssp SSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSS
T ss_pred cCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCc
Confidence 35788999999999999999999998887543 578999 455443
No 70
>PRK10667 Hha toxicity attenuator; Provisional
Probab=23.46 E-value=74 Score=25.67 Aligned_cols=38 Identities=21% Similarity=0.296 Sum_probs=28.9
Q ss_pred CCCChHHHHHhHHHHhCCCCcceEEEeecCCCCeeeecChHHHHHHHHHHHH
Q 045227 63 RSSTFLALQTKPLKLAGMAESDISVKYQLPNGELISVTSDEDVENMMAEYDR 114 (173)
Q Consensus 63 Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPgEDLISVssDeDL~~MmeEYdr 114 (173)
.++.+.||+..++.... .+.||| | .+.+|-.+||||-.
T Consensus 44 ~nlqLNeLIEHIa~f~~----~fKIKY--p--------~~~~l~~~ideYLD 81 (122)
T PRK10667 44 VNLQLNELIEHIATFAL----NFKIKY--P--------EDSKLIEQIDEYLD 81 (122)
T ss_pred hhhhHHHHHHHHHHHHH----HhhccC--C--------cHhhHHHHHHHHHH
Confidence 34679999999998653 467887 4 46788889999855
No 71
>PHA03065 Hypothetical protein; Provisional
Probab=22.13 E-value=1.1e+02 Score=29.45 Aligned_cols=22 Identities=18% Similarity=0.225 Sum_probs=19.2
Q ss_pred eeeecChHHHHHHHHHHHHHhh
Q 045227 96 LISVTSDEDVENMMAEYDRILG 117 (173)
Q Consensus 96 LISVssDeDL~~MmeEYdrl~~ 117 (173)
=.||++.+||.+.++||-..-.
T Consensus 42 Aysv~~~~eL~~~~~~~iq~w~ 63 (438)
T PHA03065 42 AYSVNNLDELRSTFEEYVQQWV 63 (438)
T ss_pred hhhhCCHHHHHHHHHHHHHHHH
Confidence 3589999999999999998863
No 72
>PF10673 DUF2487: Protein of unknown function (DUF2487); InterPro: IPR019615 This entry represents proteins with unknown function that appears to be restricted to Bacillus sp.
Probab=21.97 E-value=1.6e+02 Score=23.90 Aligned_cols=69 Identities=23% Similarity=0.303 Sum_probs=48.2
Q ss_pred eeeecChHHHHHHHHHHHHHhhcccccccccccCCCCceeEEEEecCCCcch---------hhHHHHHHHhcc-ceEeEE
Q 045227 96 LISVTSDEDVENMMAEYDRILGSALQDDVQDLTSSAAGTIRLFLFNKRGIVS---------FFRHWINKILSC-FKILFT 165 (173)
Q Consensus 96 LISVssDeDL~~MmeEYdrl~~~~~~~~~~~~~s~~~~rlRvFLFp~~~~~s---------~~~~~~~~~l~~-~~~~~~ 165 (173)
|++|+-+++.+.-.+.++.+.... +. -.++-|=|++|||+-.... ....|-..+-+. ||=.|-
T Consensus 18 L~~i~~~~~~k~~a~~~E~~~~l~--~~-----lErqfKGRv~l~P~~~Y~~~~~~~~~~~~L~~w~~~l~~~GFkhV~~ 90 (142)
T PF10673_consen 18 LIPIDFGEDMKEAASQGEFLRLLA--DE-----LERQFKGRVLLFPAFTYLKEEDEEELVERLNDWCEELKESGFKHVFY 90 (142)
T ss_pred ccccCccccHHHHHHHHHHHHHHH--HH-----HHHhcCceEEecCCeeeecccchhHHHHHHHHHHHHHHhcCCcEEEE
Confidence 888888888888777555544321 11 1357888999999977652 247888888665 898888
Q ss_pred eecCCC
Q 045227 166 QTDDSG 171 (173)
Q Consensus 166 ~~~~~~ 171 (173)
-|-|..
T Consensus 91 lT~D~~ 96 (142)
T PF10673_consen 91 LTSDSE 96 (142)
T ss_pred EecCcc
Confidence 777753
No 73
>PF11575 FhuF_C: FhuF 2Fe-2S C-terminal domain; InterPro: IPR024726 Ferric iron reductase (FhuF) is involved in the reduction of ferric iron in cytoplasmic ferrioxamine B []. This entry represents the C-terminal domain that contains 4 conserved cysteine residues found to be part of a 2Fe-2S cluster [].; GO: 0051537 2 iron, 2 sulfur cluster binding
Probab=21.04 E-value=70 Score=18.37 Aligned_cols=11 Identities=36% Similarity=0.782 Sum_probs=9.2
Q ss_pred eEEEeecCCCC
Q 045227 85 ISVKYQLPNGE 95 (173)
Q Consensus 85 ~~lKYQLPgED 95 (173)
=.+.|++|+.+
T Consensus 4 CCl~y~~~~~~ 14 (22)
T PF11575_consen 4 CCLYYRLPGGG 14 (22)
T ss_pred EeeeEEcCCCC
Confidence 36899999986
No 74
>PF03168 LEA_2: Late embryogenesis abundant protein; InterPro: IPR004864 Different types of LEA proteins are expressed at different stages of late embryogenesis in higher plant seed embryos and under conditions of dehydration stress [, ]. The function of these proteins is unknown. ; PDB: 3BUT_A 1XO8_A 1YYC_A.
Probab=20.48 E-value=2e+02 Score=19.58 Aligned_cols=65 Identities=15% Similarity=0.226 Sum_probs=44.9
Q ss_pred ceEEEEeeeCCEEEe-cCCCCceeeecCceEEEEEcCCCChHHHHHhHHHHhCCCCcceEEEeecCC
Q 045227 28 KSVRFICYFGGEIRL-GPNDNKLRYVGGDTHIISVHRSSTFLALQTKPLKLAGMAESDISVKYQLPN 93 (173)
Q Consensus 28 ~kVKlmCSyGGrIlP-Rp~Dg~LrYvGGeTRIv~V~Rsisf~eL~~kLs~l~g~~~~~~~lKYQLPg 93 (173)
.++.+=.+|+|.-+- -.......--.+.+..+.++-.+.+.+|...+..+. .......++|++.+
T Consensus 15 ~~~~~~v~~~g~~v~~~~~~~~~~i~~~~~~~v~~~v~~~~~~l~~~l~~~~-~~~~~~~v~~~~~g 80 (101)
T PF03168_consen 15 DSIEYDVYYNGQRVGTGGSLPPFTIPARSSTTVPVPVSVDYSDLPRLLKDLL-AGRVPFDVTYRIRG 80 (101)
T ss_dssp EEEEEEEEESSSEEEEEEECE-EEESSSCEEEEEEEEEEEHHHHHHHHHHHH-HTTSCEEEEEEEEE
T ss_pred eCEEEEEEECCEEEECccccCCeEECCCCcEEEEEEEEEcHHHHHHHHHhhh-ccccceEEEEEEEE
Confidence 345566667776665 334445677788899999999999999888888777 21246677777654
No 75
>COG2075 RPL24A Ribosomal protein L24E [Translation, ribosomal structure and biogenesis]
Probab=20.12 E-value=80 Score=23.00 Aligned_cols=27 Identities=26% Similarity=0.597 Sum_probs=21.9
Q ss_pred EeeeCCEEEecCCCCceeeecCceEEEEE
Q 045227 33 ICYFGGEIRLGPNDNKLRYVGGDTHIISV 61 (173)
Q Consensus 33 mCSyGGrIlPRp~Dg~LrYvGGeTRIv~V 61 (173)
.|||=|+-++ |+.| .-||=+|-+|+..
T Consensus 5 ~CsFcG~~I~-PGtG-~m~Vr~Dg~v~~F 31 (66)
T COG2075 5 VCSFCGKKIE-PGTG-IMYVRNDGKVLRF 31 (66)
T ss_pred EecCcCCccC-CCce-EEEEecCCeEEEE
Confidence 5999888776 6778 6799999999864
No 76
>PF09740 DUF2043: Uncharacterized conserved protein (DUF2043); InterPro: IPR018610 This entry consists of uncharacterised proteins of unknown function. They contain three conserved cysteines and a {CP}{y/l}{HG} motif.
Probab=20.08 E-value=40 Score=26.55 Aligned_cols=22 Identities=23% Similarity=0.336 Sum_probs=18.4
Q ss_pred CceEEEEeeeCCEEEecCCCCc
Q 045227 27 LKSVRFICYFGGEIRLGPNDNK 48 (173)
Q Consensus 27 ~~kVKlmCSyGGrIlPRp~Dg~ 48 (173)
..+-++.|=|-|+|+||..-|.
T Consensus 83 ~RrD~~kCPfHG~IIpRD~~G~ 104 (110)
T PF09740_consen 83 PRRDRKKCPFHGKIIPRDDEGN 104 (110)
T ss_pred CccCcccCCCCCcccCCCCCCC
Confidence 5677889999999999977664
Done!