Query 035327
Match_columns 67
No_of_seqs 114 out of 456
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 11:00:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035327.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035327hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02309 AUX_IAA: AUX/IAA fami 100.0 5.6E-33 1.2E-37 189.7 0.0 67 1-67 116-191 (215)
2 smart00666 PB1 PB1 domain. Pho 97.5 0.00042 9E-09 40.1 5.6 45 8-63 13-57 (81)
3 PF00564 PB1: PB1 domain; Int 97.5 0.00035 7.6E-09 40.4 5.0 44 9-63 15-58 (84)
4 cd06407 PB1_NLP A PB1 domain i 97.4 0.00072 1.6E-08 40.7 5.5 44 8-61 12-55 (82)
5 cd06398 PB1_Joka2 The PB1 doma 97.2 0.0015 3.3E-08 40.0 5.5 38 15-62 24-61 (91)
6 cd06409 PB1_MUG70 The MUG70 pr 97.1 0.0016 3.5E-08 39.8 5.2 49 5-61 8-58 (86)
7 cd05992 PB1 The PB1 domain is 97.0 0.0025 5.3E-08 36.5 5.2 44 9-63 13-57 (81)
8 cd06401 PB1_TFG The PB1 domain 96.9 0.0043 9.4E-08 37.7 5.5 39 17-63 22-60 (81)
9 cd06396 PB1_NBR1 The PB1 domai 96.8 0.0048 1E-07 37.4 5.1 40 9-61 15-54 (81)
10 cd06403 PB1_Par6 The PB1 domai 96.7 0.0062 1.4E-07 37.0 5.0 42 9-61 15-56 (80)
11 cd06397 PB1_UP1 Uncharacterize 96.5 0.009 1.9E-07 36.5 4.9 45 7-62 11-55 (82)
12 cd06404 PB1_aPKC PB1 domain is 96.3 0.014 3E-07 35.7 4.9 40 12-61 16-55 (83)
13 cd06402 PB1_p62 The PB1 domain 96.1 0.026 5.7E-07 34.5 5.4 43 10-62 21-63 (87)
14 cd06408 PB1_NoxR The PB1 domai 92.4 0.41 8.8E-06 29.3 4.6 43 8-63 14-56 (86)
15 cd06399 PB1_P40 The PB1 domain 90.3 0.78 1.7E-05 28.5 4.3 38 11-61 23-60 (92)
16 cd06395 PB1_Map2k5 PB1 domain 79.9 4.7 0.0001 24.9 4.0 49 2-62 9-57 (91)
17 PF10411 DsbC_N: Disulfide bon 72.1 4.1 8.9E-05 22.4 2.2 17 48-64 34-50 (57)
18 PF07521 RMMBL: RNA-metabolisi 50.3 21 0.00046 18.4 2.4 21 8-28 10-30 (43)
19 PF02013 CBM_10: Cellulose or 50.2 5.6 0.00012 20.6 0.1 12 47-58 15-26 (36)
20 PF08340 DUF1732: Domain of un 49.7 6.9 0.00015 24.0 0.5 11 3-13 35-45 (87)
21 PF12426 DUF3674: RNA dependen 44.3 15 0.00032 19.7 1.2 11 21-31 6-16 (41)
22 PF04809 HupH_C: HupH hydrogen 42.3 26 0.00056 22.3 2.3 21 45-65 71-95 (120)
23 COG0219 CspR Predicted rRNA me 41.0 16 0.00034 24.6 1.2 52 3-64 49-104 (155)
24 cd05141 Barstar_evA4336-like B 36.2 50 0.0011 19.1 2.7 25 8-32 1-25 (81)
25 PRK00745 4-oxalocrotonate taut 36.0 61 0.0013 17.1 2.9 35 18-62 21-55 (62)
26 PRK02220 4-oxalocrotonate taut 34.9 74 0.0016 16.8 3.3 35 18-62 21-55 (61)
27 cd06410 PB1_UP2 Uncharacterize 34.6 55 0.0012 20.0 2.8 25 8-32 25-49 (97)
28 PF03625 DUF302: Domain of unk 34.5 22 0.00048 19.4 1.0 16 47-62 47-62 (65)
29 PF15306 LIN37: LIN37 32.6 19 0.00041 23.3 0.5 18 6-23 21-38 (148)
30 PF09582 AnfO_nitrog: Iron onl 32.6 42 0.00092 23.1 2.3 25 43-67 17-41 (202)
31 PF09676 TraV: Type IV conjuga 31.3 35 0.00075 20.8 1.5 20 45-64 91-110 (119)
32 COG3816 Uncharacterized protei 31.3 33 0.00072 23.8 1.6 7 3-9 59-65 (205)
33 PF02845 CUE: CUE domain; Int 31.1 36 0.00077 17.2 1.3 13 18-30 1-13 (42)
34 COG1561 Uncharacterized stress 30.8 16 0.00034 26.9 -0.1 12 2-13 237-248 (290)
35 cd04369 Bromodomain Bromodomai 30.7 40 0.00086 18.7 1.6 25 6-30 48-72 (99)
36 TIGR00255 conserved hypothetic 28.6 22 0.00047 25.8 0.3 10 3-12 239-248 (291)
37 cd06394 PBP1_iGluR_Kainate_KA1 27.4 54 0.0012 23.6 2.2 35 12-56 112-146 (333)
38 PF01337 Barstar: Barstar (bar 27.1 88 0.0019 18.0 2.7 24 9-32 2-25 (90)
39 TIGR00013 taut 4-oxalocrotonat 27.0 1.1E+02 0.0023 16.2 3.1 35 18-62 21-55 (63)
40 cd03065 PDI_b_Calsequestrin_N 26.6 77 0.0017 19.8 2.5 24 7-30 97-120 (120)
41 PRK11820 hypothetical protein; 25.9 26 0.00056 25.4 0.3 10 3-12 236-245 (288)
42 KOG1663 O-methyltransferase [S 25.7 53 0.0011 23.6 1.8 19 8-26 76-94 (237)
43 PF07929 PRiA4_ORF3: Plasmid p 24.8 64 0.0014 21.0 2.0 28 5-32 17-44 (179)
44 PF10976 DUF2790: Protein of u 24.6 62 0.0013 19.2 1.7 15 46-60 52-66 (78)
45 cd05499 Bromo_BDF1_2_II Bromod 24.4 61 0.0013 19.3 1.7 25 6-30 51-75 (102)
46 cd00771 ThrRS_core Threonyl-tR 24.3 21 0.00046 25.2 -0.4 14 44-57 249-262 (298)
47 cd08905 START_STARD1-like Chol 24.0 1.7E+02 0.0037 19.6 4.0 41 16-65 4-45 (209)
48 PF07522 DRMBL: DNA repair met 23.7 87 0.0019 18.8 2.3 22 9-30 78-99 (110)
49 PF00439 Bromodomain: Bromodom 22.2 65 0.0014 17.8 1.5 25 6-30 42-66 (84)
50 cd05140 Barstar_AU1054-like Ba 22.1 1.2E+02 0.0026 18.0 2.7 24 9-32 2-25 (86)
51 PF14593 PH_3: PH domain; PDB: 21.9 89 0.0019 19.4 2.1 20 47-67 38-57 (104)
52 PF05423 Mycobact_memb: Mycoba 21.7 1.1E+02 0.0024 19.9 2.6 24 44-67 62-87 (140)
53 PF14560 Ubiquitin_2: Ubiquiti 21.1 1.8E+02 0.0039 16.6 4.1 24 7-32 17-40 (87)
54 COG3040 Blc Bacterial lipocali 20.9 95 0.0021 21.3 2.3 19 45-63 111-129 (174)
55 TIGR02805 exbB2 tonB-system en 20.9 49 0.0011 21.8 0.9 24 7-30 33-56 (138)
56 KOG3606 Cell polarity protein 20.6 2.2E+02 0.0049 21.4 4.3 39 12-61 36-74 (358)
57 cd05509 Bromo_gcn5_like Bromod 20.6 75 0.0016 18.7 1.6 25 6-30 47-71 (101)
58 KOG3957 Predicted L-carnitine 20.4 2.1E+02 0.0046 21.9 4.2 57 7-64 178-236 (387)
59 PF02515 CoA_transf_3: CoA-tra 20.4 1.3E+02 0.0028 19.8 2.8 56 6-62 124-181 (191)
60 PF07494 Reg_prop: Two compone 20.4 1.1E+02 0.0023 13.7 2.2 15 46-60 6-20 (24)
61 cd05518 Bromo_polybromo_IV Bro 20.3 83 0.0018 19.1 1.7 25 6-30 52-76 (103)
62 cd05142 Barstar Barstar is an 20.2 1.5E+02 0.0032 17.6 2.8 24 9-32 3-26 (87)
No 1
>PF02309 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The Aux/IAA family of genes are key regulators of auxin-modified gene expression []. The plant hormone auxin (indole-3-acetic acid, IAA) regulates diverse cellular and developmental responses in plants, including cell division, expansion, differentiation and patterning of embryo responses []. Auxin can regulate the gene expression of several families, including GH3 and SAUR, as well as Aux/IAA itself. The Aux/IAA proteins act as repressors of auxin-induced gene expression, possibly through modulating the activity of DNA-binding auxin response factors (ARFs) (IPR010525 from INTERPRO). Aux/IAA and ARF are thought to interact through C-terminal protein-protein interaction domains found in both Aux/IAA and ARF. Recent evidence suggests that Aux/IAA proteins can also mediate light responses []. Some members of the AUX/IAA family are longer and contain an N-terminal DNA binding domain [] and may have an early function in the establishment of vascular and body patterns in embryonic and post-embryonic development in some plants.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P1N_F 2P1Q_C 2P1O_C.
Probab=99.97 E-value=5.6e-33 Score=189.66 Aligned_cols=67 Identities=58% Similarity=1.034 Sum_probs=0.0
Q ss_pred CCCcccceeecCCCCCCHHHHHHHHHHhhcc-cccccc-----c---CCCCCCCCceEEEEeCCCCeEeeccCCCC
Q 035327 1 MDGAPYLRKIDLKVYTCYPELLNALENMFQL-TIGKYS-----E---REGYNGSDYAPTYEDKDGDWMLVGDVPWE 67 (67)
Q Consensus 1 MdG~~igRkvDL~~~~sY~~L~~~L~~MF~~-~~g~~~-----~---~~~~~~~~~~l~YeD~eGD~mlvGDvPW~ 67 (67)
|||+||||||||++|+||++|+.+|++||++ .|+++. + .+..++++|+|||||+||||||||||||+
T Consensus 116 mdG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~Y~D~egd~mlvGD~PW~ 191 (215)
T PF02309_consen 116 MDGVPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGSHGLNESGLLDLLNGSEYVLVYEDKEGDWMLVGDVPWE 191 (215)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred ecCcccceecCHHHhhCHHHHHHHHHHhcCCCCccccccccccchhhccccCCcceeEEEECCCCCEEEecCCCHH
Confidence 8999999999999999999999999999953 333221 0 01124679999999999999999999996
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=97.52 E-value=0.00042 Score=40.08 Aligned_cols=45 Identities=20% Similarity=0.445 Sum_probs=37.4
Q ss_pred eeecCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeecc
Q 035327 8 RKIDLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVGD 63 (67)
Q Consensus 8 RkvDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvGD 63 (67)
|.+-+..--+|++|.+++.+.|+... ..++|.|+|.||||..+.+
T Consensus 13 ~~~~~~~~~s~~dL~~~i~~~~~~~~-----------~~~~l~Y~Dedgd~v~l~s 57 (81)
T smart00666 13 RRLSVPRDISFEDLRSKVAKRFGLDN-----------QSFTLKYQDEDGDLVSLTS 57 (81)
T ss_pred EEEEECCCCCHHHHHHHHHHHhCCCC-----------CCeEEEEECCCCCEEEecC
Confidence 66677778899999999999999651 2489999999999987653
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=97.49 E-value=0.00035 Score=40.40 Aligned_cols=44 Identities=25% Similarity=0.494 Sum_probs=37.2
Q ss_pred eecCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeecc
Q 035327 9 KIDLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVGD 63 (67)
Q Consensus 9 kvDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvGD 63 (67)
.+.+..--+|++|...+++.|+.. + ..+.+.|.|.||||..+-.
T Consensus 15 ~~~~~~~~s~~~L~~~i~~~~~~~-~----------~~~~l~Y~D~dgD~V~i~s 58 (84)
T PF00564_consen 15 IISLPSDVSFDDLRSKIREKFGLL-D----------EDFQLKYKDEDGDLVTISS 58 (84)
T ss_dssp EEEECSTSHHHHHHHHHHHHHTTS-T----------SSEEEEEEETTSSEEEESS
T ss_pred EEEcCCCCCHHHHHHHHHHHhCCC-C----------ccEEEEeeCCCCCEEEeCC
Confidence 477777789999999999999976 1 2489999999999988753
No 4
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=97.38 E-value=0.00072 Score=40.67 Aligned_cols=44 Identities=25% Similarity=0.430 Sum_probs=35.5
Q ss_pred eeecCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEee
Q 035327 8 RKIDLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLV 61 (67)
Q Consensus 8 RkvDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlv 61 (67)
+.+-|..--+|++|.+++.+.|.+.. .+.+.|-|.|.||||..+
T Consensus 12 ~r~~l~~~~~~~~L~~~i~~r~~~~~----------~~~f~LkY~Ddegd~v~l 55 (82)
T cd06407 12 IRFRLPPSWGFTELKQEIAKRFKLDD----------MSAFDLKYLDDDEEWVLL 55 (82)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCC----------CCeeEEEEECCCCCeEEe
Confidence 34555666699999999999999751 245999999999999876
No 5
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=97.18 E-value=0.0015 Score=39.98 Aligned_cols=38 Identities=29% Similarity=0.413 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeec
Q 035327 15 YTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVG 62 (67)
Q Consensus 15 ~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvG 62 (67)
.-+|++|...+++.|.+.. ..++++.|.|.+|||..+-
T Consensus 24 d~~~~~L~~kI~~~f~l~~----------~~~~~l~Y~Dedgd~V~l~ 61 (91)
T cd06398 24 DLNMDGLREKVEELFSLSP----------DADLSLTYTDEDGDVVTLV 61 (91)
T ss_pred CCCHHHHHHHHHHHhCCCC----------CCcEEEEEECCCCCEEEEc
Confidence 5799999999999998751 2469999999999998764
No 6
>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=97.13 E-value=0.0016 Score=39.84 Aligned_cols=49 Identities=24% Similarity=0.247 Sum_probs=37.7
Q ss_pred ccceee--cCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEee
Q 035327 5 PYLRKI--DLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLV 61 (67)
Q Consensus 5 ~igRkv--DL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlv 61 (67)
|-||.+ -+....|+.+|.+++.+=|+...-. .+.+.|.|.|.||||.++
T Consensus 8 ~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~--------~~~~~L~YlDDEgD~Vll 58 (86)
T cd06409 8 PKGRVHRFRLRPSESLEELRTLISQRLGDDDFE--------THLYALSYVDDEGDIVLI 58 (86)
T ss_pred CCCCEEEEEecCCCCHHHHHHHHHHHhCCcccc--------CCcccEEEEcCCCCEEEE
Confidence 445544 4445789999999999999976211 246999999999999986
No 7
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=97.04 E-value=0.0025 Score=36.55 Aligned_cols=44 Identities=18% Similarity=0.398 Sum_probs=35.7
Q ss_pred eecCC-CCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeecc
Q 035327 9 KIDLK-VYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVGD 63 (67)
Q Consensus 9 kvDL~-~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvGD 63 (67)
.+-+. ..-+|++|...+.+.|++.. ..+.+.|.|.||||..+.+
T Consensus 13 ~~~~~~~~~s~~~L~~~i~~~~~~~~-----------~~~~l~y~D~e~d~v~l~s 57 (81)
T cd05992 13 RFVVVSRSISFEDLRSKIAEKFGLDA-----------VSFKLKYPDEDGDLVTISS 57 (81)
T ss_pred EEEEecCCCCHHHHHHHHHHHhCCCC-----------CcEEEEeeCCCCCEEEeCC
Confidence 34444 77899999999999999762 2489999999999987754
No 8
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=96.89 E-value=0.0043 Score=37.74 Aligned_cols=39 Identities=33% Similarity=0.594 Sum_probs=31.9
Q ss_pred CHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeecc
Q 035327 17 CYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVGD 63 (67)
Q Consensus 17 sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvGD 63 (67)
+|.+|...+++.|....+. ...+.+.|.|.|||+.-+-+
T Consensus 22 t~~~L~~~v~~~F~~~~~~--------~~~flIKYkD~dGDlVTIts 60 (81)
T cd06401 22 TYDELLLMMQRVFRGKLGS--------SDDVLIKYKDEDGDLITIFD 60 (81)
T ss_pred cHHHHHHHHHHHhccccCC--------cccEEEEEECCCCCEEEecc
Confidence 9999999999999955332 34699999999999986643
No 9
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=96.78 E-value=0.0048 Score=37.42 Aligned_cols=40 Identities=18% Similarity=0.221 Sum_probs=33.9
Q ss_pred eecCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEee
Q 035327 9 KIDLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLV 61 (67)
Q Consensus 9 kvDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlv 61 (67)
+++.+..-+|++|...+.++|++. .+.|.|-|.||||.++
T Consensus 15 ~~~~~~~~~~~~L~~ev~~rf~l~-------------~f~lKYlDde~e~v~l 54 (81)
T cd06396 15 LVSDSENTTWASVEAMVKVSFGLN-------------DIQIKYVDEENEEVSV 54 (81)
T ss_pred EecCCCCCCHHHHHHHHHHHhCCC-------------cceeEEEcCCCCEEEE
Confidence 444455779999999999999977 1799999999999886
No 10
>cd06403 PB1_Par6 The PB1 domain is an essential part of Par6 protein which in complex with Par3 and aPKC proteins is crucial for establishment of apical-basal polarity of animal cells. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The
Probab=96.66 E-value=0.0062 Score=37.02 Aligned_cols=42 Identities=19% Similarity=0.419 Sum_probs=34.6
Q ss_pred eecCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEee
Q 035327 9 KIDLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLV 61 (67)
Q Consensus 9 kvDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlv 61 (67)
.+|.+...+|+++.+-|++++.+. . ..+.|-|.|.+||.+-+
T Consensus 15 sl~r~~~~~f~ef~~ll~~lH~l~-~----------~~f~i~Y~D~~gDLLPI 56 (80)
T cd06403 15 SLDRNKPGKFEDFYKLLEHLHHIP-N----------VDFLIGYTDPHGDLLPI 56 (80)
T ss_pred EeccccCcCHHHHHHHHHHHhCCC-C----------CcEEEEEeCCCCCEecc
Confidence 355566799999999999999976 1 34999999999998754
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=96.48 E-value=0.009 Score=36.47 Aligned_cols=45 Identities=27% Similarity=0.358 Sum_probs=37.5
Q ss_pred ceeecCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeec
Q 035327 7 LRKIDLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVG 62 (67)
Q Consensus 7 gRkvDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvG 62 (67)
-|++....-=+|.+|.+.|+.+|.+... + +.++|.|.+||..-+-
T Consensus 11 ~RRf~~~~~pt~~~L~~kl~~Lf~lp~~----------~-~~vtYiDeD~D~ITls 55 (82)
T cd06397 11 TRRIVFPDIPTWEALASKLENLYNLPEI----------K-VGVTYIDNDNDEITLS 55 (82)
T ss_pred eEEEecCCCccHHHHHHHHHHHhCCChh----------H-eEEEEEcCCCCEEEec
Confidence 4788888888999999999999998711 2 7999999999987554
No 12
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=96.29 E-value=0.014 Score=35.70 Aligned_cols=40 Identities=18% Similarity=0.311 Sum_probs=32.3
Q ss_pred CCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEee
Q 035327 12 LKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLV 61 (67)
Q Consensus 12 L~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlv 61 (67)
+...-+|++|.+.+.+||.+..+ ..+++.|.|.|||.--+
T Consensus 16 ~d~~~s~e~L~~~v~~~c~~~~~----------q~ft~kw~DEEGDp~ti 55 (83)
T cd06404 16 IDPSISLEELCNEVRDMCRFHND----------QPFTLKWIDEEGDPCTI 55 (83)
T ss_pred cCCCcCHHHHHHHHHHHhCCCCC----------CcEEEEEECCCCCceee
Confidence 34467899999999999997622 35999999999997544
No 13
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=96.05 E-value=0.026 Score=34.53 Aligned_cols=43 Identities=26% Similarity=0.468 Sum_probs=33.4
Q ss_pred ecCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeec
Q 035327 10 IDLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVG 62 (67)
Q Consensus 10 vDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvG 62 (67)
+|=....+|++|...+.++|.... +..+++.|.|.|||..-+.
T Consensus 21 l~~~~~~s~~~L~~~V~~~f~~l~----------~~~ftlky~DeeGDlvtIs 63 (87)
T cd06402 21 IDEDVSTSYEYLVEKVAAVFPSLR----------GKNFQLFWKDEEGDLVAFS 63 (87)
T ss_pred ecCCCCcCHHHHHHHHHHHccccC----------CCcEEEEEECCCCCEEeec
Confidence 344666799999999999997431 2359999999999987553
No 14
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=92.43 E-value=0.41 Score=29.28 Aligned_cols=43 Identities=21% Similarity=0.380 Sum_probs=34.6
Q ss_pred eeecCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeecc
Q 035327 8 RKIDLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVGD 63 (67)
Q Consensus 8 RkvDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvGD 63 (67)
|-|-+..--+|++|...+.++|++. . .+++-|.|. ||..-+++
T Consensus 14 ~~i~v~~~i~f~dL~~kIrdkf~~~-~-----------~~~iKykDE-GD~iti~s 56 (86)
T cd06408 14 RYIMIGPDTGFADFEDKIRDKFGFK-R-----------RLKIKMKDD-GDMITMGD 56 (86)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCC-C-----------ceEEEEEcC-CCCccccC
Confidence 4555666678999999999999985 1 389999999 99876664
No 15
>cd06399 PB1_P40 The PB1 domain is essential part of the p40 adaptor protein which plays an important role in activating phagocyte NADPH oxidase during phagocytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes , such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domain of p40 represents a type I PB1 domain which interacts with the PB1 domain of oxidase activator p67 w
Probab=90.34 E-value=0.78 Score=28.54 Aligned_cols=38 Identities=32% Similarity=0.454 Sum_probs=31.5
Q ss_pred cCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEee
Q 035327 11 DLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLV 61 (67)
Q Consensus 11 DL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlv 61 (67)
||+..-+|.+|.....+-|... +-.|-|+|.|||..-+
T Consensus 23 ~l~~~P~~kdLl~lmr~~f~~~-------------dIaLNYrD~EGDLIRl 60 (92)
T cd06399 23 DLSSTPLLKDLLELTRREFQRE-------------DIALNYRDAEGDLIRL 60 (92)
T ss_pred ccccCccHHHHHHHHHHHhchh-------------heeeeeecCCCCEEEE
Confidence 7888899999999999988854 2477899999998654
No 16
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=79.85 E-value=4.7 Score=24.89 Aligned_cols=49 Identities=20% Similarity=0.326 Sum_probs=34.7
Q ss_pred CCcccceeecCCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeec
Q 035327 2 DGAPYLRKIDLKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVG 62 (67)
Q Consensus 2 dG~~igRkvDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvG 62 (67)
+|.++--.|+...+=++.++..++.+...-.. --..-|||.+||+.-|-
T Consensus 9 ~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~aT------------~tAFeYEDE~gDRITVR 57 (91)
T cd06395 9 NGGAVDWTVQSGPQLLFRDVLDVIGQVLPEAT------------TTAFEYEDEDGDRITVR 57 (91)
T ss_pred CCCcccccccCcccccHHHHHHHHHHhccccc------------ccceeeccccCCeeEec
Confidence 35566667777777889999888887665220 12445999999998763
No 17
>PF10411 DsbC_N: Disulfide bond isomerase protein N-terminus; InterPro: IPR018950 This is the N-terminal domain of the disulphide bond isomerase DsbC. The whole molecule is V-shaped, where each arm is a DsbC monomer of two domains linked by a hinge; and the N-termini of each monomer join to form the dimer interface at the base of the V, so are vital for dimerisation []. DsbC is required for disulphide bond formation and functions as a disulphide bond isomerase during oxidative protein-folding in bacterial periplasm. It also has chaperone activity []. ; PDB: 1EEJ_B 2IYJ_A 1TJD_A 1JZD_B 1JZO_A 1G0T_B 1T3B_A.
Probab=72.12 E-value=4.1 Score=22.43 Aligned_cols=17 Identities=29% Similarity=0.724 Sum_probs=14.6
Q ss_pred eEEEEeCCCCeEeeccC
Q 035327 48 APTYEDKDGDWMLVGDV 64 (67)
Q Consensus 48 ~l~YeD~eGD~mlvGDv 64 (67)
.+.|.|.+|..+++|+.
T Consensus 34 ~i~Y~~~dg~yli~G~l 50 (57)
T PF10411_consen 34 GILYVDEDGRYLIQGQL 50 (57)
T ss_dssp EEEEEETTSSEEEES-E
T ss_pred eEEEEcCCCCEEEEeEE
Confidence 68899999999999974
No 18
>PF07521 RMMBL: RNA-metabolising metallo-beta-lactamase; InterPro: IPR011108 The metallo-beta-lactamase fold contains five sequence motifs. The first four motifs are found in IPR001279 from INTERPRO and are common to all metallo-beta-lactamases. The fifth motif appears to be specific to function. This entry represents the fifth motif from metallo-beta-lactamases involved in RNA metabolism [].; PDB: 3ZQ4_D 2I7T_A 2I7V_A 2YCB_B 3BK1_A 3T3N_A 3BK2_A 3T3O_A 3AF5_A 3AF6_A ....
Probab=50.30 E-value=21 Score=18.42 Aligned_cols=21 Identities=29% Similarity=0.357 Sum_probs=17.8
Q ss_pred eeecCCCCCCHHHHHHHHHHh
Q 035327 8 RKIDLKVYTCYPELLNALENM 28 (67)
Q Consensus 8 RkvDL~~~~sY~~L~~~L~~M 28 (67)
..+++|.|.++++|..-++.+
T Consensus 10 ~~~~fSgHad~~~L~~~i~~~ 30 (43)
T PF07521_consen 10 EQIDFSGHADREELLEFIEQL 30 (43)
T ss_dssp EESGCSSS-BHHHHHHHHHHH
T ss_pred EEEeecCCCCHHHHHHHHHhc
Confidence 368999999999999998887
No 19
>PF02013 CBM_10: Cellulose or protein binding domain; InterPro: IPR002883 This domain is found in two distinct sets of proteins with different functions. Those found in aerobic bacteria bind cellulose (or other carbohydrates); but in anaerobic fungi they are protein binding domains, referred to as dockerin domains or docking domains. They are believed to be responsible for the assembly of a multiprotein cellulase/hemicellulase complex, similar to the cellulosome found in certain anaerobic bacteria. The recycling of photosynthetically fixed carbon in plant cell walls is a key microbial process. Enzyme systems that attack the plant cell wall contain noncatalytic carbohydrate-binding modules that mediate attachment to this composite structure and play a pivotal role in maximizing the hydrolytic process. In anaerobes, the degradation is carried out by a high molecular weight, multifunctional complex termed the cellulosome. This consists of a number of independent enzyme components, each of which contains a conserved 40-residue dockerin domain, which functions to bind the enzyme to a cohesin domain within the scaffoldin protein [, ]. In anaerobic bacteria that degrade plant cell walls, exemplified by Clostridium thermocellum, the dockerin domains of the catalytic polypeptides can bind equally well to any cohesin from the same organism. More recently, anaerobic fungi, typified by Piromyces equi, have been suggested to also synthesise a cellulosome complex, although the dockerin sequences of the bacterial and fungal enzymes are completely different []. For example, the fungal enzymes contain one, two or three copies of the dockerin sequence in tandem within the catalytic polypeptide. In contrast, all the C. thermocellum cellulosome catalytic components contain a single dockerin domain. The anaerobic bacterial dockerins are homologous to EF hands (calcium-binding motifs) and require calcium for activity whereas the fungal dockerin does not require calcium. Finally, the interaction between cohesin and dockerin appears to be species specific in bacteria, there is almost no species specificity of binding within fungal species and no identified sites that distinguish different species. The structure of dockerin from P. equi contains two helical stretches and four short beta-strands which form an antiparallel sheet structure adjacent to an additional short twisted parallel strand. The N- and C-termini are adjacent to each other. Aerobic bacteria contain related regions, however these appear to function as cellulose/carbohydrate binding domains.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 2J4M_A 2J4N_A 1E8R_A 1QLD_A 1E8P_A 1E8Q_A.
Probab=50.23 E-value=5.6 Score=20.61 Aligned_cols=12 Identities=42% Similarity=1.005 Sum_probs=8.8
Q ss_pred ceEEEEeCCCCe
Q 035327 47 YAPTYEDKDGDW 58 (67)
Q Consensus 47 ~~l~YeD~eGD~ 58 (67)
-.+.|+|.+|+|
T Consensus 15 ~~v~y~d~~g~W 26 (36)
T PF02013_consen 15 CEVVYTDDDGGW 26 (36)
T ss_dssp S--SEEETTEEE
T ss_pred CceEEcCCCCCE
Confidence 378899999998
No 20
>PF08340 DUF1732: Domain of unknown function (DUF1732); InterPro: IPR013551 This domain of unknown function is found at the C terminus of bacterial proteins, many of which are hypothetical and include proteins of the YicC family.
Probab=49.73 E-value=6.9 Score=24.01 Aligned_cols=11 Identities=45% Similarity=0.727 Sum_probs=8.9
Q ss_pred CcccceeecCC
Q 035327 3 GAPYLRKIDLK 13 (67)
Q Consensus 3 G~~igRkvDL~ 13 (67)
|.|+|||+|--
T Consensus 35 ~~~vGrkLdFl 45 (87)
T PF08340_consen 35 GEPVGRKLDFL 45 (87)
T ss_pred CCCCCCCCccc
Confidence 46999999964
No 21
>PF12426 DUF3674: RNA dependent RNA polymerase; InterPro: IPR024378 This domain is found in the RNA-directed RNA polymerase. It is located towards the N terminus and is approximately 40 amino acids in length. There is a conserved MFNLKF sequence motif. There are two completely conserved residues (E and P) that may be functionally important.
Probab=44.27 E-value=15 Score=19.71 Aligned_cols=11 Identities=55% Similarity=0.655 Sum_probs=9.1
Q ss_pred HHHHHHHhhcc
Q 035327 21 LLNALENMFQL 31 (67)
Q Consensus 21 L~~~L~~MF~~ 31 (67)
=.++||.||+.
T Consensus 6 ER~aLEAMFNL 16 (41)
T PF12426_consen 6 ERSALEAMFNL 16 (41)
T ss_pred HHHHHHHHhce
Confidence 35799999995
No 22
>PF04809 HupH_C: HupH hydrogenase expression protein, C-terminal conserved region; InterPro: IPR006894 This entry represents the C-terminal conserved domain found in bacterial hydrogenase expression proteins (HupH), which are necessary for hydrogenase synthesis. The precise function of HupH is unknown [].; PDB: 3SB1_A.
Probab=42.27 E-value=26 Score=22.25 Aligned_cols=21 Identities=43% Similarity=0.684 Sum_probs=15.6
Q ss_pred CCceEEEEeCCC----CeEeeccCC
Q 035327 45 SDYAPTYEDKDG----DWMLVGDVP 65 (67)
Q Consensus 45 ~~~~l~YeD~eG----D~mlvGDvP 65 (67)
.=|.+.|.|.+| |.+-||++|
T Consensus 71 gVWrV~~~n~~~~~i~d~iEV~~vP 95 (120)
T PF04809_consen 71 GVWRVRYFNSDGRLILDTIEVGDVP 95 (120)
T ss_dssp TEEEEEEE-TTS-EEEEEEEESSS-
T ss_pred CEEEEEEECCCCCEeeeeEEEeCCc
Confidence 459999999997 556789988
No 23
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=41.00 E-value=16 Score=24.64 Aligned_cols=52 Identities=29% Similarity=0.452 Sum_probs=34.9
Q ss_pred CcccceeecCCCCCCHHHHHHHH---HHhhcccc-cccccCCCCCCCCceEEEEeCCCCeEeeccC
Q 035327 3 GAPYLRKIDLKVYTCYPELLNAL---ENMFQLTI-GKYSEREGYNGSDYAPTYEDKDGDWMLVGDV 64 (67)
Q Consensus 3 G~~igRkvDL~~~~sY~~L~~~L---~~MF~~~~-g~~~~~~~~~~~~~~l~YeD~eGD~mlvGDv 64 (67)
|-.+--+++|..|+|+++...+. .++|.++. |.- .|.= +....||+++-|-.
T Consensus 49 GlDY~~~~~l~~h~s~e~fl~~~~~~~rl~~~tt~~~~---------~~~~-~~f~~~d~llFG~E 104 (155)
T COG0219 49 GLDYHEKASLTEHDSLEAFLEAEPIGGRLFALTTKGTT---------TYTD-VSFQKGDYLLFGPE 104 (155)
T ss_pred ccchHhhcceEEeCCHHHHHhhccCCceEEEEEecccc---------cccc-ccCCCCCEEEECCC
Confidence 44556689999999999999999 56777652 211 0111 33456889998854
No 24
>cd05141 Barstar_evA4336-like Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=36.16 E-value=50 Score=19.09 Aligned_cols=25 Identities=24% Similarity=0.264 Sum_probs=22.8
Q ss_pred eeecCCCCCCHHHHHHHHHHhhccc
Q 035327 8 RKIDLKVYTCYPELLNALENMFQLT 32 (67)
Q Consensus 8 RkvDL~~~~sY~~L~~~L~~MF~~~ 32 (67)
|.||.+.-.+-.++..+|.+-|++.
T Consensus 1 ~~idg~~i~~~~~~~~~l~~~l~fP 25 (81)
T cd05141 1 IVLDLSGIADKAALLDALAAALDFP 25 (81)
T ss_pred CEEecccCCCHHHHHHHHHHHcCCC
Confidence 5689999999999999999999975
No 25
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=35.99 E-value=61 Score=17.14 Aligned_cols=35 Identities=14% Similarity=0.073 Sum_probs=21.1
Q ss_pred HHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeec
Q 035327 18 YPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVG 62 (67)
Q Consensus 18 Y~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvG 62 (67)
++.+..+|.+.|++... .-++++-+-...+|...|
T Consensus 21 ~~~it~~l~~~~~~p~~----------~v~V~i~e~~~~~w~~gG 55 (62)
T PRK00745 21 VEEITRVTVETLGCPPE----------SVDIIITDVKRENWATGG 55 (62)
T ss_pred HHHHHHHHHHHcCCChh----------HEEEEEEEcChHHeeECC
Confidence 45666667777775411 225666666777777655
No 26
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=34.91 E-value=74 Score=16.75 Aligned_cols=35 Identities=9% Similarity=-0.015 Sum_probs=19.7
Q ss_pred HHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeec
Q 035327 18 YPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVG 62 (67)
Q Consensus 18 Y~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvG 62 (67)
++.+..+|.+.|++... .-++++=+-...+|..-|
T Consensus 21 ~~~it~~l~~~~~~p~~----------~v~V~i~e~~~~~~~~gG 55 (61)
T PRK02220 21 VKDVTAAVSKNTGAPAE----------HIHVIINEMSKNHYAVGG 55 (61)
T ss_pred HHHHHHHHHHHhCcChh----------hEEEEEEEeChhHeEECC
Confidence 45667777777776522 124444455556665554
No 27
>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=34.63 E-value=55 Score=20.02 Aligned_cols=25 Identities=20% Similarity=0.402 Sum_probs=20.4
Q ss_pred eeecCCCCCCHHHHHHHHHHhhccc
Q 035327 8 RKIDLKVYTCYPELLNALENMFQLT 32 (67)
Q Consensus 8 RkvDL~~~~sY~~L~~~L~~MF~~~ 32 (67)
|-|.+..--||.+|...|.++|++.
T Consensus 25 r~i~V~r~~s~~el~~kl~~~~~~~ 49 (97)
T cd06410 25 RIVSVDRSISFKELVSKLSELFGAG 49 (97)
T ss_pred EEEEEcCCCCHHHHHHHHHHHhCCC
Confidence 4455566679999999999999976
No 28
>PF03625 DUF302: Domain of unknown function DUF302 ; InterPro: IPR005180 This domain is found in an undescribed set of proteins. It normally occurs uniquely within a sequence, but is found as a tandem repeat (Q9X8B8 from SWISSPROT). It has an interesting phylogenetic distribution with the majority of examples in bacteria and archaea, but it is also found in Drosophila melanogaster (e.g. Q9VA18 from SWISSPROT). The hypothetical protein TT1751 from Thermus thermophilus has a beta-alpha-beta(4)-alpha structural fold [].; PDB: 1Q9U_A 1J3M_B.
Probab=34.46 E-value=22 Score=19.39 Aligned_cols=16 Identities=31% Similarity=0.383 Sum_probs=12.0
Q ss_pred ceEEEEeCCCCeEeec
Q 035327 47 YAPTYEDKDGDWMLVG 62 (67)
Q Consensus 47 ~~l~YeD~eGD~mlvG 62 (67)
-+++|||++|...+.=
T Consensus 47 rv~vye~~~G~~~v~~ 62 (65)
T PF03625_consen 47 RVLVYEDEDGKVWVSY 62 (65)
T ss_dssp EEEEEE-ETTEEEEEE
T ss_pred EEEEEEecCCeEEEEE
Confidence 5899999999877653
No 29
>PF15306 LIN37: LIN37
Probab=32.60 E-value=19 Score=23.32 Aligned_cols=18 Identities=22% Similarity=0.384 Sum_probs=14.7
Q ss_pred cceeecCCCCCCHHHHHH
Q 035327 6 YLRKIDLKVYTCYPELLN 23 (67)
Q Consensus 6 igRkvDL~~~~sY~~L~~ 23 (67)
++|+|||+.|+.=..|+.
T Consensus 21 fdRsvdLa~f~~~tpLY~ 38 (148)
T PF15306_consen 21 FDRSVDLAQFSENTPLYP 38 (148)
T ss_pred eCceeeecccCCCCcHHH
Confidence 689999999987666665
No 30
>PF09582 AnfO_nitrog: Iron only nitrogenase protein AnfO (AnfO_nitrog); InterPro: IPR014287 Proteins in this entry include Anf1 from Rhodobacter capsulatus (Rhodopseudomonas capsulata) and AnfO from Azotobacter vinelandii. They are found exclusively in species which contain the iron-only nitrogenase, and are encoded immediately downstream of the structural genes for the nitrogenase enzyme in these species.
Probab=32.57 E-value=42 Score=23.10 Aligned_cols=25 Identities=28% Similarity=0.854 Sum_probs=21.6
Q ss_pred CCCCceEEEEeCCCCeEeeccCCCC
Q 035327 43 NGSDYAPTYEDKDGDWMLVGDVPWE 67 (67)
Q Consensus 43 ~~~~~~l~YeD~eGD~mlvGDvPW~ 67 (67)
..++.+.+|+...|.|-++.+.|++
T Consensus 17 ~e~G~v~vy~~~~g~W~~~~e~~f~ 41 (202)
T PF09582_consen 17 YEPGFVRVYEKDDGKWKVIREIPFE 41 (202)
T ss_pred CCCcEEEEEECCCCceEEeEEEEec
Confidence 4678999999999999999988863
No 31
>PF09676 TraV: Type IV conjugative transfer system lipoprotein (TraV); InterPro: IPR014118 This entry represents TraV, a component of a conjugative type IV secretion system. TraV is an outer membrane lipoprotein that is believed to interact with the secretin TraK [, , ]. This protein contains three conserved cysteines in the N-terminal half.
Probab=31.33 E-value=35 Score=20.81 Aligned_cols=20 Identities=35% Similarity=0.453 Sum_probs=15.6
Q ss_pred CCceEEEEeCCCCeEeeccC
Q 035327 45 SDYAPTYEDKDGDWMLVGDV 64 (67)
Q Consensus 45 ~~~~l~YeD~eGD~mlvGDv 64 (67)
.=|+.-|+|.+|++-.-+.|
T Consensus 91 RiwiaP~~D~~g~l~~~~~V 110 (119)
T PF09676_consen 91 RIWIAPWEDADGDLHDPGYV 110 (119)
T ss_pred EEEEeeeECCCCCEeccceE
Confidence 34888999999998766543
No 32
>COG3816 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.31 E-value=33 Score=23.82 Aligned_cols=7 Identities=57% Similarity=0.838 Sum_probs=5.4
Q ss_pred Cccccee
Q 035327 3 GAPYLRK 9 (67)
Q Consensus 3 G~~igRk 9 (67)
|.|||||
T Consensus 59 GTPIGR~ 65 (205)
T COG3816 59 GTPIGRK 65 (205)
T ss_pred cCccchH
Confidence 7788886
No 33
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=31.13 E-value=36 Score=17.23 Aligned_cols=13 Identities=31% Similarity=0.618 Sum_probs=11.2
Q ss_pred HHHHHHHHHHhhc
Q 035327 18 YPELLNALENMFQ 30 (67)
Q Consensus 18 Y~~L~~~L~~MF~ 30 (67)
|++.+..|..||.
T Consensus 1 ~~~~v~~L~~mFP 13 (42)
T PF02845_consen 1 REEMVQQLQEMFP 13 (42)
T ss_dssp CHHHHHHHHHHSS
T ss_pred CHHHHHHHHHHCC
Confidence 4678899999998
No 34
>COG1561 Uncharacterized stress-induced protein [Function unknown]
Probab=30.79 E-value=16 Score=26.94 Aligned_cols=12 Identities=42% Similarity=0.695 Sum_probs=9.8
Q ss_pred CCcccceeecCC
Q 035327 2 DGAPYLRKIDLK 13 (67)
Q Consensus 2 dG~~igRkvDL~ 13 (67)
.|.|+|||+|--
T Consensus 237 ~~g~vGRkLDFl 248 (290)
T COG1561 237 KGGPVGRKLDFL 248 (290)
T ss_pred cCCccchhHHHH
Confidence 478999999963
No 35
>cd04369 Bromodomain Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=30.73 E-value=40 Score=18.67 Aligned_cols=25 Identities=16% Similarity=0.255 Sum_probs=21.8
Q ss_pred cceeecCCCCCCHHHHHHHHHHhhc
Q 035327 6 YLRKIDLKVYTCYPELLNALENMFQ 30 (67)
Q Consensus 6 igRkvDL~~~~sY~~L~~~L~~MF~ 30 (67)
|-+|+.-..|++.+++...+..||.
T Consensus 48 I~~kl~~~~Y~s~~~f~~D~~li~~ 72 (99)
T cd04369 48 IKKKLKNGEYKSLEEFEADVRLIFS 72 (99)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHHHH
Confidence 4566777789999999999999998
No 36
>TIGR00255 conserved hypothetical protein TIGR00255. The apparent ortholog from Aquifex aeolicus as reported is split into two consecutive reading frames.
Probab=28.60 E-value=22 Score=25.80 Aligned_cols=10 Identities=40% Similarity=0.627 Sum_probs=8.4
Q ss_pred CcccceeecC
Q 035327 3 GAPYLRKIDL 12 (67)
Q Consensus 3 G~~igRkvDL 12 (67)
+.|||||+|-
T Consensus 239 ~~~vGrkLDF 248 (291)
T TIGR00255 239 GEAVGRKLDF 248 (291)
T ss_pred CCCcCcchhH
Confidence 5699999985
No 37
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=27.42 E-value=54 Score=23.64 Aligned_cols=35 Identities=6% Similarity=0.117 Sum_probs=26.8
Q ss_pred CCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCC
Q 035327 12 LKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDG 56 (67)
Q Consensus 12 L~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eG 56 (67)
+..+-+...+..|+.++.... + + ..++++|+|.||
T Consensus 112 i~l~P~~~~~~~Ai~dli~~~-~-W--------~~v~~iYe~d~~ 146 (333)
T cd06394 112 VNLHPSNEDISVAVAGILNSF-N-Y--------PTASLICAKAEC 146 (333)
T ss_pred EEecCCHHHHHHHHHHHHHhc-C-C--------CEEEEEEeCcHH
Confidence 566678888999999988854 2 3 248999999886
No 38
>PF01337 Barstar: Barstar (barnase inhibitor); InterPro: IPR000468 Barstar is a small single chain protein. Barnase is the extracellular ribonuclease IPR001887 from INTERPRO of Bacillus amyloliquefaciens, and barstar its specific intracellular inhibitor [, ]. Expression of barstar is necessary to counter the lethal effect of expressed active barnase. The structure of the barnase-barstar complex is known [].; PDB: 2CX6_A 1B2U_F 1A19_A 1X1U_F 1B27_E 1X1W_F 1BGS_E 1X1Y_D 1B3S_D 1B2S_D ....
Probab=27.14 E-value=88 Score=17.96 Aligned_cols=24 Identities=17% Similarity=0.241 Sum_probs=19.6
Q ss_pred eecCCCCCCHHHHHHHHHHhhccc
Q 035327 9 KIDLKVYTCYPELLNALENMFQLT 32 (67)
Q Consensus 9 kvDL~~~~sY~~L~~~L~~MF~~~ 32 (67)
+||.+...+-+++..+|.+-|++.
T Consensus 2 ~idg~~i~~~~~~~~~l~~~l~fP 25 (90)
T PF01337_consen 2 TIDGRKIRDKEDFYDALAEALDFP 25 (90)
T ss_dssp EEECCC-SSHHHHHHHHHHHTT--
T ss_pred EEeCCCCCCHHHHHHHHHHHcCCC
Confidence 589999999999999999999975
No 39
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=27.00 E-value=1.1e+02 Score=16.15 Aligned_cols=35 Identities=11% Similarity=0.082 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeec
Q 035327 18 YPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVG 62 (67)
Q Consensus 18 Y~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvG 62 (67)
+..+..+|.+.|+... ..-++++-+-...+|..-|
T Consensus 21 ~~~it~~l~~~lg~~~----------~~v~V~i~e~~~~~w~~gG 55 (63)
T TIGR00013 21 IEGVTEAMAETLGANL----------ESIVVIIDEMPKNNYGIGG 55 (63)
T ss_pred HHHHHHHHHHHhCCCc----------ccEEEEEEEcCHHHeeECC
Confidence 3455555666665441 2235666666666666644
No 40
>cd03065 PDI_b_Calsequestrin_N PDIb family, Calsequestrin subfamily, N-terminal TRX-fold domain; Calsequestrin is the major calcium storage protein in the sarcoplasmic reticulum (SR) of skeletal and cardiac muscle. It stores calcium ions in sufficient quantities (up to 20 mM) to allow repetitive contractions and is essential to maintain movement, respiration and heart beat. A missense mutation in human cardiac calsequestrin is associated with catecholamine-induced polymorphic ventricular tachycardia (CPVT), a rare disease characterized by seizures or sudden death in response to physiologic or emotional stress. Calsequestrin is a highly acidic protein with up to 50 calcium binding sites formed simply by the clustering of two or more acidic residues. The monomer contains three redox inactive TRX-fold domains. Calsequestrin is condensed as a linear polymer in the SR lumen and is membrane-anchored through binding with intra-membrane proteins triadin, junctin and ryanodine receptor (RyR) Ca2
Probab=26.58 E-value=77 Score=19.81 Aligned_cols=24 Identities=13% Similarity=0.065 Sum_probs=19.8
Q ss_pred ceeecCCCCCCHHHHHHHHHHhhc
Q 035327 7 LRKIDLKVYTCYPELLNALENMFQ 30 (67)
Q Consensus 7 gRkvDL~~~~sY~~L~~~L~~MF~ 30 (67)
|+.|+..-..+.++|...|++||.
T Consensus 97 G~~v~~~G~~~~~~l~~~l~~~~~ 120 (120)
T cd03065 97 DEVIEYDGEFAADTLVEFLLDLIE 120 (120)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHhC
Confidence 566777788899999999999874
No 41
>PRK11820 hypothetical protein; Provisional
Probab=25.88 E-value=26 Score=25.38 Aligned_cols=10 Identities=50% Similarity=0.886 Sum_probs=8.3
Q ss_pred CcccceeecC
Q 035327 3 GAPYLRKIDL 12 (67)
Q Consensus 3 G~~igRkvDL 12 (67)
+.|+|||+|-
T Consensus 236 ~~~vGrkLDF 245 (288)
T PRK11820 236 GGPVGRKLDF 245 (288)
T ss_pred CCCCCcchhH
Confidence 4699999985
No 42
>KOG1663 consensus O-methyltransferase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=25.68 E-value=53 Score=23.57 Aligned_cols=19 Identities=42% Similarity=0.656 Sum_probs=17.7
Q ss_pred eeecCCCCCCHHHHHHHHH
Q 035327 8 RKIDLKVYTCYPELLNALE 26 (67)
Q Consensus 8 RkvDL~~~~sY~~L~~~L~ 26 (67)
|.|+|..|.||.-|.-||+
T Consensus 76 ~~lelGvfTGySaL~~Ala 94 (237)
T KOG1663|consen 76 RTLELGVFTGYSALAVALA 94 (237)
T ss_pred eEEEEecccCHHHHHHHHh
Confidence 7899999999999999986
No 43
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=24.82 E-value=64 Score=20.99 Aligned_cols=28 Identities=18% Similarity=0.389 Sum_probs=23.3
Q ss_pred ccceeecCCCCCCHHHHHHHHHHhhccc
Q 035327 5 PYLRKIDLKVYTCYPELLNALENMFQLT 32 (67)
Q Consensus 5 ~igRkvDL~~~~sY~~L~~~L~~MF~~~ 32 (67)
+|=|+|-+..-.+..+|..++...|+..
T Consensus 17 ~iwRri~Vp~~~tl~~Lh~~Iq~afgw~ 44 (179)
T PF07929_consen 17 PIWRRIEVPADITLADLHEVIQAAFGWD 44 (179)
T ss_dssp -EEEEEEEETT-BHHHHHHHHHHHTT--
T ss_pred CeEEEEEECCCCCHHHHHHHHHHHhCcC
Confidence 6889999999999999999999999964
No 44
>PF10976 DUF2790: Protein of unknown function (DUF2790); InterPro: IPR021245 This family of proteins with unknown function appear to be restricted to Pseudomonadaceae.
Probab=24.58 E-value=62 Score=19.22 Aligned_cols=15 Identities=33% Similarity=0.439 Sum_probs=11.9
Q ss_pred CceEEEEeCCCCeEe
Q 035327 46 DYAPTYEDKDGDWML 60 (67)
Q Consensus 46 ~~~l~YeD~eGD~ml 60 (67)
.-+++|+|..|..--
T Consensus 52 pa~MtY~DS~G~~h~ 66 (78)
T PF10976_consen 52 PARMTYEDSQGELHT 66 (78)
T ss_pred ccEEEEECCCCCEEE
Confidence 458999999998643
No 45
>cd05499 Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=24.41 E-value=61 Score=19.28 Aligned_cols=25 Identities=16% Similarity=0.259 Sum_probs=22.6
Q ss_pred cceeecCCCCCCHHHHHHHHHHhhc
Q 035327 6 YLRKIDLKVYTCYPELLNALENMFQ 30 (67)
Q Consensus 6 igRkvDL~~~~sY~~L~~~L~~MF~ 30 (67)
|-||+.-..|.+-+++...+..||.
T Consensus 51 I~~kl~~~~Y~s~~ef~~D~~li~~ 75 (102)
T cd05499 51 ISKKLQNGQYQSAKEFERDVRLIFK 75 (102)
T ss_pred HHHHHcCCCCCCHHHHHHHHHHHHH
Confidence 5678888899999999999999998
No 46
>cd00771 ThrRS_core Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.
Probab=24.27 E-value=21 Score=25.24 Aligned_cols=14 Identities=29% Similarity=0.565 Sum_probs=11.2
Q ss_pred CCCceEEEEeCCCC
Q 035327 44 GSDYAPTYEDKDGD 57 (67)
Q Consensus 44 ~~~~~l~YeD~eGD 57 (67)
...|-|+|.|++|.
T Consensus 249 ~~~f~l~y~~~~~~ 262 (298)
T cd00771 249 PERFDLTYIGEDGE 262 (298)
T ss_pred hhhcCCEEEccCCC
Confidence 35688999999985
No 47
>cd08905 START_STARD1-like Cholesterol-binding START domain of mammalian STARD1 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD1 (also known as StAR) and related proteins. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD1 has a high affinity for cholesterol. It can reduce macrophage lipid content and inflammatory status. It plays an essential role in steroidogenic tissues: transferring the steroid precursor, cholesterol, from the outer to the inner mitochondrial membrane, across the aqueous space. Mutations in the gene encoding STARD1/StAR can cause lipid congenital adrenal hyperplasia (CAH), an autosomal recessive disorder characterized by a steroid synthesis deficiency and an accumulation of cholesterol in
Probab=24.04 E-value=1.7e+02 Score=19.55 Aligned_cols=41 Identities=17% Similarity=0.276 Sum_probs=26.6
Q ss_pred CCHHHHHHH-HHHhhcccccccccCCCCCCCCceEEEEeCCCCeEeeccCC
Q 035327 16 TCYPELLNA-LENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLVGDVP 65 (67)
Q Consensus 16 ~sY~~L~~~-L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlvGDvP 65 (67)
.+|.+++.+ ++++..+. . ...+|.+...+++|+.+..=.+|
T Consensus 4 ~~y~~~~~~~~~~~~~~~-~--------~~~~W~~~~~~~~gi~v~s~~~~ 45 (209)
T cd08905 4 MSYIKQGEEALQKSLSIL-Q--------DQEGWKTEIVAENGDKVLSKVVP 45 (209)
T ss_pred HHHHHHHHHHHHHHHHHh-c--------cccCCEEEEecCCCCEEEEEEcC
Confidence 467777665 55555543 1 13469999888999887764443
No 48
>PF07522 DRMBL: DNA repair metallo-beta-lactamase; InterPro: IPR011084 The metallo-beta-lactamase fold contains five sequence motifs. The first four motifs are found in IPR001279 from INTERPRO and are common to all metallo-beta-lactamases. The fifth motif appears to be specific to function. This entry represents the fifth motif from metallo-beta-lactamases involved in DNA repair [].
Probab=23.70 E-value=87 Score=18.82 Aligned_cols=22 Identities=9% Similarity=0.161 Sum_probs=17.4
Q ss_pred eecCCCCCCHHHHHHHHHHhhc
Q 035327 9 KIDLKVYTCYPELLNALENMFQ 30 (67)
Q Consensus 9 kvDL~~~~sY~~L~~~L~~MF~ 30 (67)
.|-.|.|+||.||..-+..+--
T Consensus 78 ~VPYSeHSSf~EL~~Fv~~l~P 99 (110)
T PF07522_consen 78 RVPYSEHSSFSELKEFVSFLKP 99 (110)
T ss_pred EEecccCCCHHHHHHHHHhcCC
Confidence 4667999999999988776543
No 49
>PF00439 Bromodomain: Bromodomain; InterPro: IPR001487 Bromodomains are found in a variety of mammalian, invertebrate and yeast DNA-binding proteins []. Bromodomains can interact with acetylated lysine []. In some proteins, the classical bromodomain has diverged to such an extent that parts of the region are either missing or contain an insertion (e.g., mammalian protein HRX, Caenorhabditis elegans hypothetical protein ZK783.4, yeast protein YTA7). The bromodomain may occur as a single copy, or in duplicate. The precise function of the domain is unclear, but it may be involved in protein-protein interactions and may play a role in assembly or activity of multi-component complexes involved in transcriptional activation [].; GO: 0005515 protein binding; PDB: 3P1C_A 4A9K_B 3SVH_A 3P1E_B 3P1F_A 1JSP_B 2L85_A 3P1D_B 3DWY_B 2D82_A ....
Probab=22.22 E-value=65 Score=17.83 Aligned_cols=25 Identities=20% Similarity=0.309 Sum_probs=21.7
Q ss_pred cceeecCCCCCCHHHHHHHHHHhhc
Q 035327 6 YLRKIDLKVYTCYPELLNALENMFQ 30 (67)
Q Consensus 6 igRkvDL~~~~sY~~L~~~L~~MF~ 30 (67)
|=+|+.-..|++.+++...+..||.
T Consensus 42 I~~kl~~~~Y~s~~~f~~Dv~~i~~ 66 (84)
T PF00439_consen 42 IRKKLENGKYKSIEEFEADVRLIFQ 66 (84)
T ss_dssp HHHHHHTTSSSSHHHHHHHHHHHHH
T ss_pred hhHHhhccchhhHHHHHHHHHHHHH
Confidence 4467778899999999999999998
No 50
>cd05140 Barstar_AU1054-like Barstar_AU1054-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor AU1054 found in Burkholderia cenocepacia. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=22.09 E-value=1.2e+02 Score=18.00 Aligned_cols=24 Identities=29% Similarity=0.307 Sum_probs=22.2
Q ss_pred eecCCCCCCHHHHHHHHHHhhccc
Q 035327 9 KIDLKVYTCYPELLNALENMFQLT 32 (67)
Q Consensus 9 kvDL~~~~sY~~L~~~L~~MF~~~ 32 (67)
.||++.-.+-++|...|.+-|++.
T Consensus 2 ~iD~~~i~~~~~l~~~l~~~l~fP 25 (86)
T cd05140 2 TIDLSDITSERELHELLKECLGFP 25 (86)
T ss_pred EEecccCCCHHHHHHHHHHHcCCc
Confidence 489999999999999999999985
No 51
>PF14593 PH_3: PH domain; PDB: 1W1H_D 1W1D_A 1W1G_A 2VKI_A.
Probab=21.90 E-value=89 Score=19.35 Aligned_cols=20 Identities=25% Similarity=0.512 Sum_probs=14.4
Q ss_pred ceEEEEeCCCCeEeeccCCCC
Q 035327 47 YAPTYEDKDGDWMLVGDVPWE 67 (67)
Q Consensus 47 ~~l~YeD~eGD~mlvGDvPW~ 67 (67)
=+|.|.|.++...= |.+||.
T Consensus 38 PrL~Yvdp~~~~~K-GeI~~~ 57 (104)
T PF14593_consen 38 PRLFYVDPKKMVLK-GEIPWS 57 (104)
T ss_dssp TEEEEEETTTTEEE-EEE--S
T ss_pred CEEEEEECCCCeEC-cEEecC
Confidence 48999999997544 999984
No 52
>PF05423 Mycobact_memb: Mycobacterium membrane protein; InterPro: IPR008693 This family contains several membrane proteins from Mycobacterium species [].
Probab=21.73 E-value=1.1e+02 Score=19.88 Aligned_cols=24 Identities=38% Similarity=0.688 Sum_probs=19.3
Q ss_pred CCCceEEEEeCCCCeEeecc--CCCC
Q 035327 44 GSDYAPTYEDKDGDWMLVGD--VPWE 67 (67)
Q Consensus 44 ~~~~~l~YeD~eGD~mlvGD--vPW~ 67 (67)
++--.++|.|.+|..-.+-+ .||.
T Consensus 62 G~~~~I~Y~D~~~~~~~~~~v~LPWs 87 (140)
T PF05423_consen 62 GSTATISYLDADGQPQQVDNVSLPWS 87 (140)
T ss_pred CCeEEEEEEcCCCceEeecCcCCCCE
Confidence 45578999999999988865 7884
No 53
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=21.14 E-value=1.8e+02 Score=16.60 Aligned_cols=24 Identities=17% Similarity=0.194 Sum_probs=17.5
Q ss_pred ceeecCCCCCCHHHHHHHHHHhhccc
Q 035327 7 LRKIDLKVYTCYPELLNALENMFQLT 32 (67)
Q Consensus 7 gRkvDL~~~~sY~~L~~~L~~MF~~~ 32 (67)
-||++. ...=.+|...|+.+||+.
T Consensus 17 ekr~~~--~~Tv~eLK~kl~~~~Gi~ 40 (87)
T PF14560_consen 17 EKRFPK--SITVSELKQKLEKLTGIP 40 (87)
T ss_dssp EEEEET--TSBHHHHHHHHHHHHTS-
T ss_pred EEEcCC--CCCHHHHHHHHHHHhCCC
Confidence 344443 457789999999999976
No 54
>COG3040 Blc Bacterial lipocalin [Cell envelope biogenesis, outer membrane]
Probab=20.94 E-value=95 Score=21.34 Aligned_cols=19 Identities=32% Similarity=0.550 Sum_probs=17.1
Q ss_pred CCceEEEEeCCCCeEeecc
Q 035327 45 SDYAPTYEDKDGDWMLVGD 63 (67)
Q Consensus 45 ~~~~l~YeD~eGD~mlvGD 63 (67)
.+|.++|.|.|.-|-+||.
T Consensus 111 g~Y~Vl~~d~eYs~aiVgs 129 (174)
T COG3040 111 GDYWVLALDPEYSWAIVGS 129 (174)
T ss_pred ccEEEEEECCCccEEEEeC
Confidence 5699999999999999984
No 55
>TIGR02805 exbB2 tonB-system energizer ExbB, group 2. Members of this protein family appear to be the ExbB protein of an ExbBD proton-transporting membrane complex that, by means of TonB, energizes transport by TonB-dependent receptors. Note that this family represents one of at least two distinct groups TolQ homologs designated ExbB - see also TIGR02797. Each group associates with a distinct group of ExbD proteins, and a single species may have two ExbB/ExbD/TonB systems.
Probab=20.93 E-value=49 Score=21.81 Aligned_cols=24 Identities=29% Similarity=0.368 Sum_probs=21.0
Q ss_pred ceeecCCCCCCHHHHHHHHHHhhc
Q 035327 7 LRKIDLKVYTCYPELLNALENMFQ 30 (67)
Q Consensus 7 gRkvDL~~~~sY~~L~~~L~~MF~ 30 (67)
=|+||++.|++-++|-..|++-..
T Consensus 33 ~~~~~~~~y~~~~~l~~~l~k~L~ 56 (138)
T TIGR02805 33 LRKISVAHYSTIHQLDIDLNRNLT 56 (138)
T ss_pred HHHccHHhcCCHHHHHHHHHcCCH
Confidence 489999999999999998887666
No 56
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=20.62 E-value=2.2e+02 Score=21.40 Aligned_cols=39 Identities=18% Similarity=0.390 Sum_probs=29.1
Q ss_pred CCCCCCHHHHHHHHHHhhcccccccccCCCCCCCCceEEEEeCCCCeEee
Q 035327 12 LKVYTCYPELLNALENMFQLTIGKYSEREGYNGSDYAPTYEDKDGDWMLV 61 (67)
Q Consensus 12 L~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~~~~~~~l~YeD~eGD~mlv 61 (67)
-..-.+|++.+.-++++-.+. ..++.+-|.|.-||.+-+
T Consensus 36 r~~~~~f~~F~~Lv~~~H~i~-----------nvdvllgY~d~hgDLLPi 74 (358)
T KOG3606|consen 36 RHSASSFDEFYSLVEHLHHIP-----------NVDVLLGYADTHGDLLPI 74 (358)
T ss_pred ccCcccHHHHHHHHHHHhcCC-----------CceEEEEEecCCCceecc
Confidence 344568888888888777665 245899999999998754
No 57
>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates acetylation of histones at lysine residues; such acetylation is generally correlated with the activation of transcription. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=20.55 E-value=75 Score=18.75 Aligned_cols=25 Identities=20% Similarity=0.363 Sum_probs=21.9
Q ss_pred cceeecCCCCCCHHHHHHHHHHhhc
Q 035327 6 YLRKIDLKVYTCYPELLNALENMFQ 30 (67)
Q Consensus 6 igRkvDL~~~~sY~~L~~~L~~MF~ 30 (67)
|-+||+=..|.+.+++...+..||.
T Consensus 47 I~~kl~~~~Y~s~~~f~~Dv~li~~ 71 (101)
T cd05509 47 MEEKLENGYYVTLEEFVADLKLIFD 71 (101)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHHHH
Confidence 5567777899999999999999998
No 58
>KOG3957 consensus Predicted L-carnitine dehydratase/alpha-methylacyl-CoA racemase [Lipid transport and metabolism]
Probab=20.42 E-value=2.1e+02 Score=21.95 Aligned_cols=57 Identities=25% Similarity=0.268 Sum_probs=37.1
Q ss_pred ceeecCCCCCCHHHHHHHHHHhhcccccccccCCCC--CCCCceEEEEeCCCCeEeeccC
Q 035327 7 LRKIDLKVYTCYPELLNALENMFQLTIGKYSEREGY--NGSDYAPTYEDKDGDWMLVGDV 64 (67)
Q Consensus 7 gRkvDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~~--~~~~~~l~YeD~eGD~mlvGDv 64 (67)
|..||-++..+=.-|++-+..-...+ ..-.++.+. .+.-+--||+-+||-.|.||-.
T Consensus 178 GqviD~~m~eg~ayl~S~v~~~y~~s-~~ea~R~~~~~G~~~~Y~tykTkDG~fmavga~ 236 (387)
T KOG3957|consen 178 GQVIDCNMLEGVAYLLSFVQKNYLQS-LWEADRYGTAHGSIPPYQTYKTKDGYFMAVGAL 236 (387)
T ss_pred ceEEEechhHhHHHHHHHHHHHhhhh-hccccccccccCCCccceeeeccCceEEEeccc
Confidence 67888888888888887776655543 111122221 1333445799999999999963
No 59
>PF02515 CoA_transf_3: CoA-transferase family III; InterPro: IPR003673 CoA-transferases are found in organisms from all kingdoms of life. They catalyse reversible transfer reactions of coenzyme A groups from CoA-thioesters to free acids. There are at least three families of CoA-transferases, which differ in sequence and reaction mechanism: Family I consists of CoA-transferases for 3-oxoacids (2.8.3.5 from EC, 2.8.3.6 from EC), short-chain fatty acids (2.8.3.8 from EC, 2.8.3.9 from EC) and glutaconate (2.8.3.12 from EC). Most use succinyl-CoA or acetyl-CoA as CoA donors. Family II consists of the homodimeric alpha-subunits of citrate lyase and citramalate lyase (2.8.3.10 from EC, 2.8.3.11 from EC). These enzymes catalyse the transfer of acyl carrier protein (ACP) with a covalently bound CoA derivative, but can accept free CoA thioesters as well. Family III consists of formyl-CoA:oxalate CoA-transferase [], succinyl-CoA:(R)-benzylsuccinate CoA-transferase [], (E)-cinnamoyl-CoA:(R)-phenyllactate CoA-transferase [], and butyrobetainyl-CoA:(R)-carnitine CoA-transferase []. These CoA-transferases occur in prokaryotes and eukaryotes, and catalyse CoA-transfer reactions in a highly substrate- and stereo-specific manner []. This entry represents family III CoA-transferases.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1PT7_B 1PT8_A 1PQY_A 1Q7E_A 1Q6Y_A 1PT5_A 1XK6_B 1XK7_C 1XVT_A 1XVU_A ....
Probab=20.39 E-value=1.3e+02 Score=19.76 Aligned_cols=56 Identities=20% Similarity=0.288 Sum_probs=28.2
Q ss_pred cceeecCCCCCCHHHHHHHHHHhhcccccccccCCC--CCCCCceEEEEeCCCCeEeec
Q 035327 6 YLRKIDLKVYTCYPELLNALENMFQLTIGKYSEREG--YNGSDYAPTYEDKDGDWMLVG 62 (67)
Q Consensus 6 igRkvDL~~~~sY~~L~~~L~~MF~~~~g~~~~~~~--~~~~~~~l~YeD~eGD~mlvG 62 (67)
-|+.||.|++.+-..+....--.+... +....+.+ ....-..-+|+-+||-|+.|+
T Consensus 124 ~G~~vdvSl~~~~~~~~~~~~~~~~~~-~~~~~~~g~~~~~~~~~~~y~~~DG~~v~i~ 181 (191)
T PF02515_consen 124 RGQRVDVSLLEAALALLSYPLADYLNG-GRVPPRSGNRDPSSAPYGVYRCADGRWVAIA 181 (191)
T ss_dssp S-EEEEEEHHHHHHHHTHHHHHHHHCT-SSSSTTBSTTCSSSTTEEEEEETTC-EEEEE
T ss_pred CeeEEEECHHHHHHHHhhHHHHHHHcc-CCCCCCCCCCCCCCCCCCeEECCCCCEEEEE
Confidence 478888888766554433333222222 11111111 122333456999999998876
No 60
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=20.38 E-value=1.1e+02 Score=13.72 Aligned_cols=15 Identities=33% Similarity=0.665 Sum_probs=9.4
Q ss_pred CceEEEEeCCCCeEe
Q 035327 46 DYAPTYEDKDGDWML 60 (67)
Q Consensus 46 ~~~l~YeD~eGD~ml 60 (67)
.-.-.|+|++|..-+
T Consensus 6 ~I~~i~~D~~G~lWi 20 (24)
T PF07494_consen 6 NIYSIYEDSDGNLWI 20 (24)
T ss_dssp CEEEEEE-TTSCEEE
T ss_pred eEEEEEEcCCcCEEE
Confidence 345569999997543
No 61
>cd05518 Bromo_polybromo_IV Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=20.34 E-value=83 Score=19.10 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=22.6
Q ss_pred cceeecCCCCCCHHHHHHHHHHhhc
Q 035327 6 YLRKIDLKVYTCYPELLNALENMFQ 30 (67)
Q Consensus 6 igRkvDL~~~~sY~~L~~~L~~MF~ 30 (67)
|-+||+-..|++-+++...+..||.
T Consensus 52 I~~kl~~~~Y~s~~ef~~D~~li~~ 76 (103)
T cd05518 52 IEHNIRNDKYATEEELMDDFKLMFR 76 (103)
T ss_pred HHHHHCCCCCCCHHHHHHHHHHHHH
Confidence 5677888899999999999999998
No 62
>cd05142 Barstar Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=20.18 E-value=1.5e+02 Score=17.57 Aligned_cols=24 Identities=21% Similarity=0.203 Sum_probs=21.9
Q ss_pred eecCCCCCCHHHHHHHHHHhhccc
Q 035327 9 KIDLKVYTCYPELLNALENMFQLT 32 (67)
Q Consensus 9 kvDL~~~~sY~~L~~~L~~MF~~~ 32 (67)
.||.+...+.+++..+|.+-|++.
T Consensus 3 ~iDg~~i~~~~~f~~~l~~~~~~p 26 (87)
T cd05142 3 VIDGEEIRSIEDLHQILKKELALP 26 (87)
T ss_pred EEECccCCCHHHHHHHHHHHhCCc
Confidence 489999999999999999999975
Done!