Query 034226
Match_columns 101
No_of_seqs 110 out of 526
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 11:09:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034226.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034226hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3430 Dynein light chain typ 100.0 8.6E-32 1.9E-36 178.5 8.6 68 31-98 2-70 (90)
2 PTZ00059 dynein light chain; P 100.0 1E-30 2.2E-35 173.3 9.1 69 32-100 4-72 (90)
3 PLN03058 dynein light chain ty 100.0 1E-29 2.2E-34 178.6 8.7 70 30-99 31-103 (128)
4 PF01221 Dynein_light: Dynein 100.0 2.2E-29 4.7E-34 165.7 7.4 69 31-99 2-70 (89)
5 PF04155 Ground-like: Ground-l 93.1 0.52 1.1E-05 29.7 6.0 36 62-97 22-58 (76)
6 PF15650 Tox-REase-9: Restrict 79.8 1.5 3.3E-05 29.3 2.0 18 71-88 70-87 (89)
7 PF12652 CotJB: CotJB protein; 64.6 5.2 0.00011 25.9 1.8 15 67-81 41-55 (78)
8 PF06150 ChaB: ChaB; InterPro 62.3 28 0.00061 21.0 4.7 44 40-84 7-54 (57)
9 PHA02053 hypothetical protein 59.7 20 0.00043 24.7 4.0 54 41-95 20-92 (115)
10 PF06457 Ectatomin: Ectatomin; 55.7 5.1 0.00011 22.0 0.5 14 64-77 21-34 (34)
11 TIGR02084 leud 3-isopropylmala 54.9 10 0.00023 27.4 2.2 29 65-93 27-59 (156)
12 KOG2451 Aldehyde dehydrogenase 51.8 37 0.00081 28.8 5.1 45 32-76 48-94 (503)
13 cd01579 AcnA_Bact_Swivel Bacte 46.0 14 0.00029 25.7 1.5 16 78-93 45-60 (121)
14 PF12006 DUF3500: Protein of u 45.9 29 0.00064 27.6 3.6 43 37-79 216-261 (313)
15 PF08776 VASP_tetra: VASP tetr 44.5 61 0.0013 18.6 3.8 32 44-77 6-37 (40)
16 PF10440 WIYLD: Ubiquitin-bind 44.3 24 0.00052 22.2 2.3 41 51-91 11-51 (65)
17 PRK13007 succinyl-diaminopimel 43.3 69 0.0015 24.5 5.2 39 42-80 1-42 (352)
18 PF08202 MIS13: Mis12-Mtw1 pro 42.7 75 0.0016 24.9 5.4 70 5-77 22-115 (301)
19 PRK14023 homoaconitate hydrata 42.3 21 0.00046 26.0 2.1 17 77-93 45-61 (166)
20 PF12362 DUF3646: DNA polymera 41.7 37 0.00079 23.4 3.1 29 64-92 48-76 (117)
21 PF08908 DUF1852: Domain of un 41.7 13 0.00027 29.8 0.9 22 75-96 99-120 (322)
22 PF12550 GCR1_C: Transcription 40.2 10 0.00022 24.0 0.2 12 73-84 29-40 (81)
23 PRK10425 DNase TatD; Provision 36.6 86 0.0019 23.9 4.8 47 43-89 102-157 (258)
24 cd02860 Pullulanase_N_term Pul 36.5 42 0.00092 21.4 2.7 26 74-99 40-66 (100)
25 PF09868 DUF2095: Uncharacteri 35.3 76 0.0016 22.5 3.9 32 50-81 80-115 (128)
26 PF08015 Pheromone: Fungal mat 34.7 21 0.00045 22.0 0.9 12 76-87 56-69 (69)
27 PF10655 DUF2482: Hypothetical 34.7 32 0.0007 23.3 1.9 28 65-92 25-65 (100)
28 cd01578 AcnA_Mitochon_Swivel M 33.5 25 0.00053 25.5 1.3 15 79-93 67-81 (149)
29 PF08594 UPF0300: Uncharacteri 33.4 1.3E+02 0.0027 23.2 5.1 15 82-96 95-109 (215)
30 PF05184 SapB_1: Saposin-like 31.8 83 0.0018 16.4 4.7 31 46-76 6-36 (39)
31 PRK00083 frr ribosome recyclin 31.4 1.5E+02 0.0032 21.8 5.1 33 30-62 93-125 (185)
32 PF08958 DUF1871: Domain of un 31.2 63 0.0014 20.8 2.8 30 52-81 25-54 (79)
33 PRK10667 Hha toxicity attenuat 30.8 81 0.0018 22.2 3.4 20 60-79 65-84 (122)
34 PF08006 DUF1700: Protein of u 30.4 1.5E+02 0.0032 21.0 5.0 36 40-75 15-64 (181)
35 COG1352 CheR Methylase of chem 30.2 45 0.00097 26.0 2.3 49 31-85 126-178 (268)
36 PF06925 MGDG_synth: Monogalac 29.6 63 0.0014 22.5 2.8 26 66-91 3-28 (169)
37 PF06057 VirJ: Bacterial virul 29.5 60 0.0013 24.4 2.8 30 65-95 52-81 (192)
38 PRK06489 hypothetical protein; 29.3 37 0.0008 26.3 1.7 32 65-96 136-168 (360)
39 PRK00466 acetyl-lysine deacety 28.7 1.7E+02 0.0036 22.5 5.3 40 44-84 6-48 (346)
40 PF06840 DUF1241: Protein of u 28.6 40 0.00087 24.5 1.7 13 65-77 123-135 (154)
41 cd01577 IPMI_Swivel Aconatase- 28.3 29 0.00063 23.0 0.9 12 82-93 18-29 (91)
42 PF02283 CobU: Cobinamide kina 28.2 71 0.0015 22.9 2.9 24 64-88 36-59 (167)
43 PF15571 Imm25: Immunity prote 28.1 35 0.00076 24.1 1.3 23 65-87 18-40 (124)
44 PF01996 F420_ligase: F420-0:G 27.7 49 0.0011 25.0 2.1 33 64-96 132-164 (228)
45 cd01674 Homoaconitase_Swivel H 27.6 55 0.0012 23.2 2.2 10 84-93 48-57 (129)
46 PF06983 3-dmu-9_3-mt: 3-demet 27.3 24 0.00052 23.7 0.3 12 75-86 105-116 (116)
47 PF07742 BTG: BTG family; Int 27.2 1.1E+02 0.0025 20.9 3.7 19 66-84 29-47 (118)
48 PF10925 DUF2680: Protein of u 26.4 96 0.0021 18.8 2.9 17 64-80 34-50 (59)
49 COG0066 LeuD 3-isopropylmalate 26.3 34 0.00074 25.8 1.0 16 78-93 59-74 (191)
50 cd02856 Glycogen_debranching_e 26.2 85 0.0019 20.1 2.8 26 75-100 39-65 (103)
51 PF10757 YbaJ: Biofilm formati 26.0 90 0.002 22.0 3.0 20 60-79 65-84 (122)
52 KOG3165 Predicted nucleic-acid 25.4 59 0.0013 24.4 2.1 26 67-92 48-73 (195)
53 PF01545 Cation_efflux: Cation 25.3 84 0.0018 23.3 3.0 23 65-87 254-276 (284)
54 cd00520 RRF Ribosome recycling 25.3 2.6E+02 0.0055 20.3 5.5 34 30-63 89-122 (179)
55 PRK13888 conjugal transfer pro 25.2 25 0.00054 26.8 0.1 19 68-86 91-109 (206)
56 KOG2826 Actin-related protein 25.2 43 0.00093 26.6 1.4 15 86-101 216-230 (301)
57 TIGR00171 leuD 3-isopropylmala 25.2 32 0.0007 25.6 0.7 15 79-93 67-81 (188)
58 cd02852 Isoamylase_N_term Isoa 24.9 87 0.0019 20.6 2.7 24 77-100 45-69 (119)
59 TIGR03849 arch_ComA phosphosul 24.4 1.9E+02 0.0041 22.4 4.8 47 38-87 93-153 (237)
60 TIGR01738 bioH putative pimelo 24.4 46 0.001 22.5 1.3 27 65-96 53-79 (245)
61 cd00197 VHS_ENTH_ANTH VHS, ENT 24.0 47 0.001 21.7 1.3 20 64-86 35-54 (115)
62 TIGR02087 LEUD_arch 3-isopropy 23.9 50 0.0011 23.8 1.5 29 65-93 27-59 (154)
63 PRK08775 homoserine O-acetyltr 23.8 27 0.00058 26.9 0.1 57 33-98 98-154 (343)
64 cd02853 MTHase_N_term Maltooli 23.7 95 0.0021 19.2 2.6 26 75-100 34-59 (85)
65 cd00404 Aconitase_swivel Aconi 23.4 55 0.0012 21.5 1.5 12 82-93 16-27 (88)
66 KOG0760 Mitochondrial carrier 23.2 22 0.00047 28.5 -0.6 19 68-86 132-153 (302)
67 cd05503 Bromo_BAZ2A_B_like Bro 23.0 1.8E+02 0.004 18.6 4.0 35 45-79 60-97 (97)
68 cd08071 MPN_DUF2466 Mov34/MPN/ 22.9 64 0.0014 21.6 1.8 30 66-97 82-112 (113)
69 PF13798 PCYCGC: Protein of un 22.1 39 0.00085 24.7 0.6 43 37-81 105-147 (158)
70 TIGR00294 conserved hypothetic 21.9 1.5E+02 0.0032 23.3 3.9 33 65-97 251-287 (308)
71 cd01576 AcnB_Swivel Aconitase 21.8 45 0.00098 23.5 0.9 11 84-94 53-63 (131)
72 PF10302 DUF2407: DUF2407 ubiq 21.8 43 0.00094 22.2 0.8 7 83-89 90-96 (97)
73 cd01580 AcnA_IRP_Swivel Aconit 21.7 54 0.0012 24.3 1.3 16 78-93 93-108 (171)
74 COG1498 SIK1 Protein implicate 21.7 1.4E+02 0.003 24.9 3.8 41 37-77 199-239 (395)
75 PF09551 Spore_II_R: Stage II 21.3 3E+02 0.0066 19.4 5.9 14 82-95 100-113 (130)
76 PF06690 DUF1188: Protein of u 20.3 1.1E+02 0.0024 24.0 2.8 25 67-96 29-53 (252)
77 TIGR03515 GldC gliding motilit 20.2 3E+02 0.0066 18.9 5.3 47 30-76 48-98 (108)
78 TIGR00496 frr ribosome recycli 20.2 3.5E+02 0.0075 19.7 5.3 33 30-62 84-116 (176)
79 PF07999 RHSP: Retrotransposon 20.1 26 0.00056 29.3 -0.8 18 83-100 126-150 (439)
No 1
>KOG3430 consensus Dynein light chain type 1 [Cytoskeleton]
Probab=99.97 E-value=8.6e-32 Score=178.48 Aligned_cols=68 Identities=50% Similarity=0.895 Sum_probs=65.2
Q ss_pred CCCceEEeeCCCCHHHHHHHHHHHHHHHHhCC-chHHHHHHHHHHhcccCCCceEEEEeCCCceeeEEE
Q 034226 31 SGKRIIIKSADMKEDLQKEAVDIAIAAFEKNS-VEKDVAERIKKDFDKKHGPTWHCIVGSNFGNPIYFH 98 (101)
Q Consensus 31 ~~~~i~I~~sDM~~emq~~~i~~a~~al~~~~-~ekdiA~~IK~~lDkkyG~~WHcIVGk~FGS~vt~~ 98 (101)
+..+++|+.+|||++||++|++++.+||++|+ ++++||.+||++||++||++||||||+||||||||+
T Consensus 2 ~~~~~~vk~tDM~~~mq~~a~~~a~~al~~f~~~~k~iA~~iKkefDkkyG~~WhcivG~~FGs~vThe 70 (90)
T KOG3430|consen 2 LERKAVVKATDMPEEMQQEAIELARQALEKFNVIEKDIAAFIKKEFDKKYGPTWHCIVGRNFGSYVTHE 70 (90)
T ss_pred CCccceEecCCCChHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHhhhcCCccEEEEcCCcceEEEee
Confidence 45678999999999999999999999999999 889999999999999999999999999999999997
No 2
>PTZ00059 dynein light chain; Provisional
Probab=99.97 E-value=1e-30 Score=173.33 Aligned_cols=69 Identities=51% Similarity=0.852 Sum_probs=65.4
Q ss_pred CCceEEeeCCCCHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHhcccCCCceEEEEeCCCceeeEEEec
Q 034226 32 GKRIIIKSADMKEDLQKEAVDIAIAAFEKNSVEKDVAERIKKDFDKKHGPTWHCIVGSNFGNPIYFHFF 100 (101)
Q Consensus 32 ~~~i~I~~sDM~~emq~~~i~~a~~al~~~~~ekdiA~~IK~~lDkkyG~~WHcIVGk~FGS~vt~~~~ 100 (101)
..+++|+.+|||++||++|++++.+|+++|+.++|||++||++||++|||+||||||++|||+|||+..
T Consensus 4 ~~~~~i~~~dM~~emq~~a~~~~~~Al~~~~~~kdiA~~IK~~fD~~yg~~WhciVG~~Fgs~vthe~~ 72 (90)
T PTZ00059 4 DRKAVVKNADMSEDMQQDAIDCANQALEKFNIEKDIAAYIKKEFDKKYNPTWHCIVGRNFGSYVTHETK 72 (90)
T ss_pred CCccEEEECCCCHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhhcCCCCEEEEecCeeEEEEEeCC
Confidence 346789999999999999999999999999999999999999999999999999999999999999853
No 3
>PLN03058 dynein light chain type 1 family protein; Provisional
Probab=99.96 E-value=1e-29 Score=178.57 Aligned_cols=70 Identities=31% Similarity=0.558 Sum_probs=66.1
Q ss_pred CCCCceEEeeCCCCHHHHHHHHHHHHHHHHhCC---chHHHHHHHHHHhcccCCCceEEEEeCCCceeeEEEe
Q 034226 30 QSGKRIIIKSADMKEDLQKEAVDIAIAAFEKNS---VEKDVAERIKKDFDKKHGPTWHCIVGSNFGNPIYFHF 99 (101)
Q Consensus 30 ~~~~~i~I~~sDM~~emq~~~i~~a~~al~~~~---~ekdiA~~IK~~lDkkyG~~WHcIVGk~FGS~vt~~~ 99 (101)
+.+.++.|+.+|||++||++|+++|.+|+++++ ++++||.+||++||++|||+||||||++|||+|||+-
T Consensus 31 ~~~~dv~Ik~sDM~~emQ~~ave~a~~Al~k~~~~~~ekdIA~~IKk~fDkkYG~tWHCIVGk~FGs~VTHe~ 103 (128)
T PLN03058 31 KDELNVRVRASDMPLVLQNRAFSCARDILDAMPGKLDSKRLALALKKEFDSAYGPAWHCIVGTSFGSYVTHST 103 (128)
T ss_pred ccCCCCEEEECCCCHHHHHHHHHHHHHHHHHccccCCHHHHHHHHHHHHhhhhCCceEEEECCcEEEEEEEcC
Confidence 567899999999999999999999999999974 6799999999999999999999999999999999984
No 4
>PF01221 Dynein_light: Dynein light chain type 1 ; InterPro: IPR001372 Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein is composed of a number of ATP-binding large subunits (see IPR004273 from INTERPRO), intermediate size subunits and small subunits. Among the small subunits, there is a family of highly conserved proteins which make up this family [, ]. Both type 1 (DLC1) and 2 (DLC2) dynein light chains have a similar two-layer alpha-beta core structure consisting of beta-alpha(2)-beta-X-beta(2) [, ].; GO: 0007017 microtubule-based process, 0005875 microtubule associated complex; PDB: 1F95_A 1F96_A 1F3C_A 3P8M_B 2XQQ_C 1RE6_A 1CMI_A 1PWK_A 1PWJ_A 4DS1_C ....
Probab=99.96 E-value=2.2e-29 Score=165.66 Aligned_cols=69 Identities=49% Similarity=0.856 Sum_probs=64.3
Q ss_pred CCCceEEeeCCCCHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHhcccCCCceEEEEeCCCceeeEEEe
Q 034226 31 SGKRIIIKSADMKEDLQKEAVDIAIAAFEKNSVEKDVAERIKKDFDKKHGPTWHCIVGSNFGNPIYFHF 99 (101)
Q Consensus 31 ~~~~i~I~~sDM~~emq~~~i~~a~~al~~~~~ekdiA~~IK~~lDkkyG~~WHcIVGk~FGS~vt~~~ 99 (101)
+..+++|+.+|||++||++|+++|.+|++++++++++|++||++||++|||+||||||++|||++||+.
T Consensus 2 ~~~~~~i~~~dM~~~~~~~~~~~~~~a~~~~~~~~eiA~~iK~~lD~~yG~~Wh~IVG~~Fg~~~th~~ 70 (89)
T PF01221_consen 2 SENKIVIKSSDMPEEMQEEAIELAKEALKKYQDEKEIAEFIKQELDKKYGPTWHCIVGKSFGSSVTHEP 70 (89)
T ss_dssp GSCSEEEEEEES-HHHHHHHHHHHHHHHHHCSSHHHHHHHHHHHHHHHHSS-EEEEEESEEEEEEEEET
T ss_pred CCCccEEEECCCCHHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHhcccCCceEEEECCcEEEEEEEcC
Confidence 357899999999999999999999999999999999999999999999999999999999999999984
No 5
>PF04155 Ground-like: Ground-like domain; InterPro: IPR007284 This group of proteins contain one or more copies of the ground-like domain, which are specific to Caenorhabditis elegans and Caenorhabditis briggsae. It has been proposed that the ground-like domain containing proteins may bind and modulate the activity of Patched-like membrane molecules, reminiscent of the modulating activities of neuropeptides [].
Probab=93.09 E-value=0.52 Score=29.69 Aligned_cols=36 Identities=17% Similarity=0.199 Sum_probs=29.6
Q ss_pred CchHHHHHHHHHHhcccCCCceEEEEeCC-CceeeEE
Q 034226 62 SVEKDVAERIKKDFDKKHGPTWHCIVGSN-FGNPIYF 97 (101)
Q Consensus 62 ~~ekdiA~~IK~~lDkkyG~~WHcIVGk~-FGS~vt~ 97 (101)
.+...+++.|.+.+.++||+.+-||++++ |...+.+
T Consensus 22 ~~~~~s~~~Iq~~~e~~f~~~f~vIcs~~~Fsy~~~~ 58 (76)
T PF04155_consen 22 CNLSISKRAIQKAAEKRFGGSFEVICSEGDFSYSTHT 58 (76)
T ss_pred CCHHHHHHHHHHHHHHHhCCCEEEEEeCCCceeEEec
Confidence 45678999999999999999999999995 5444433
No 6
>PF15650 Tox-REase-9: Restriction endonuclease fold toxin 9
Probab=79.80 E-value=1.5 Score=29.29 Aligned_cols=18 Identities=22% Similarity=0.503 Sum_probs=15.6
Q ss_pred HHHHhcccCCCceEEEEe
Q 034226 71 IKKDFDKKHGPTWHCIVG 88 (101)
Q Consensus 71 IK~~lDkkyG~~WHcIVG 88 (101)
-|++|...||.+|.||+-
T Consensus 70 Y~~el~~~~G~~W~~~l~ 87 (89)
T PF15650_consen 70 YKQELEKIYGGGWKTRLE 87 (89)
T ss_pred HHHHhcCccCCCeeEEee
Confidence 467899999999999984
No 7
>PF12652 CotJB: CotJB protein; InterPro: IPR024207 The cotJ operon proteins affect spore coat composition, and is controlled by sigma E. The genes, which include CotJB, are either required for the normal formation of the inner layers of the coat or are themselves structural components of the coat []. CotJB has been identified as a spore coat protein [].
Probab=64.61 E-value=5.2 Score=25.87 Aligned_cols=15 Identities=33% Similarity=0.849 Sum_probs=12.7
Q ss_pred HHHHHHHHhcccCCC
Q 034226 67 VAERIKKDFDKKHGP 81 (101)
Q Consensus 67 iA~~IK~~lDkkyG~ 81 (101)
.-+.+++++.++|||
T Consensus 41 ~~~~l~~~Ye~~yGP 55 (78)
T PF12652_consen 41 QRKQLKKEYEKRYGP 55 (78)
T ss_pred HHHHHHHHHHHHhCC
Confidence 446788999999999
No 8
>PF06150 ChaB: ChaB; InterPro: IPR009317 This family of proteins contain a conserved 60 residue region. This protein is known as ChaB in Escherichia coli and is found next to ChaA, which is a cation transporter protein. ChaB may be regulate ChaA function in some way.; PDB: 1SG7_A.
Probab=62.26 E-value=28 Score=21.04 Aligned_cols=44 Identities=23% Similarity=0.345 Sum_probs=28.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHhCCchH---HHH-HHHHHHhcccCCCceE
Q 034226 40 ADMKEDLQKEAVDIAIAAFEKNSVEK---DVA-ERIKKDFDKKHGPTWH 84 (101)
Q Consensus 40 sDM~~emq~~~i~~a~~al~~~~~ek---diA-~~IK~~lDkkyG~~WH 84 (101)
..||..=|+--++....|++.|.++. .+| ..+|+.+.+ -|+.|.
T Consensus 7 ~~LP~~Aq~if~~afn~a~~~~~de~~A~~vAw~AVk~~Y~k-~~g~W~ 54 (57)
T PF06150_consen 7 EHLPEHAQRIFRKAFNSAWEEYGDEERAHRVAWAAVKRKYEK-VNGRWV 54 (57)
T ss_dssp TT--SHHHHHHHHHHHHHHHH--SHHHHHHHHHHHHHHHEEE-SSS-EE
T ss_pred hHCCHHHHHHHHHHHHHHHHhcCCHhHHHHHHHHHHHHHhee-cCCEee
Confidence 45677777777777788888886543 233 579999999 777796
No 9
>PHA02053 hypothetical protein
Probab=59.75 E-value=20 Score=24.72 Aligned_cols=54 Identities=13% Similarity=0.265 Sum_probs=31.9
Q ss_pred CCCHHHHHHHHHHHHHHHHhCCchHH------HHHHHH-------------HHhcccCCCceEEEEeCCCceee
Q 034226 41 DMKEDLQKEAVDIAIAAFEKNSVEKD------VAERIK-------------KDFDKKHGPTWHCIVGSNFGNPI 95 (101)
Q Consensus 41 DM~~emq~~~i~~a~~al~~~~~ekd------iA~~IK-------------~~lDkkyG~~WHcIVGk~FGS~v 95 (101)
-..++..+.+|+.-.+-++.-+..+. |-++++ .+|.+.|- .|-||..++||||-
T Consensus 20 ri~e~kak~iIe~Ya~k~~~~~ts~kllns~MilK~li~sGddmP~D~~ta~~F~kayR-~~~VIysr~lGS~D 92 (115)
T PHA02053 20 RITEPKAKAIIEKYASKTKQQDTSNKLLNSLMILKLLIASGDDMPIDANTATEFQKAYR-SWGVIYSRSLGSYD 92 (115)
T ss_pred ccCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHH-hcCeeeecCCCchh
Confidence 34555566666665555554433222 122332 45556664 59999999999973
No 10
>PF06457 Ectatomin: Ectatomin; InterPro: IPR009458 Ectatomin is a toxin from the venom of the ant Ectatomma tuberculatum. Ectatomin can efficiently insert into the plasma membrane, where it can form channels. Ectatomin was shown to inhibit L-type calcium currents in isolated rat cardiac myocytes []. In these cells, ectatomin induces a gradual, irreversible increase in ion leakage across the membrane, which can lead to cell death. Ectatomin is comprised of two subunits, A and B, which are homologous. The structure of ectatomin reveals that each subunit consists of two alpha helices with a connecting hinge region, which form a hairpin structure that is stabilised by disulphide bridges. A disulphide bridge between the hinge regions of the two subunits links the heterodimer together, forming a closed bundle of four helices with a left-handed twist [].; GO: 0005216 ion channel activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 1ECI_A.
Probab=55.66 E-value=5.1 Score=22.03 Aligned_cols=14 Identities=36% Similarity=0.496 Sum_probs=11.1
Q ss_pred hHHHHHHHHHHhcc
Q 034226 64 EKDVAERIKKDFDK 77 (101)
Q Consensus 64 ekdiA~~IK~~lDk 77 (101)
+-+||.+||++.|+
T Consensus 21 ~g~iat~ik~~c~k 34 (34)
T PF06457_consen 21 SGSIATMIKRKCDK 34 (34)
T ss_dssp SCCHHHHHHHHCH-
T ss_pred cccHHHHHHHHhCC
Confidence 45799999999875
No 11
>TIGR02084 leud 3-isopropylmalate dehydratase, small subunit. Several pairs of archaeal proteins resemble the leuC and leuD pair in length and sequence but even more closely resemble the respective domains of homoaconitase, and their identity is uncertain. The members of the seed for this model are those sequences which are gene clustered with other genes involved in leucine biosynthesis and include some archaea.
Probab=54.93 E-value=10 Score=27.36 Aligned_cols=29 Identities=34% Similarity=0.470 Sum_probs=18.7
Q ss_pred HHHHHHHHHHhc----ccCCCceEEEEeCCCce
Q 034226 65 KDVAERIKKDFD----KKHGPTWHCIVGSNFGN 93 (101)
Q Consensus 65 kdiA~~IK~~lD----kkyG~~WHcIVGk~FGS 93 (101)
.++++++-..+| +++.+.+=+|.|+||||
T Consensus 27 ~~l~~~~f~~~~p~f~~~~~~g~iiVaG~NFG~ 59 (156)
T TIGR02084 27 KELAKHCMEDLDKDFVKKVKEGDIIVAGENFGC 59 (156)
T ss_pred HHHHhhhhccCChhHHhhcCCCCEEEccCcccC
Confidence 344444444333 44666788888999997
No 12
>KOG2451 consensus Aldehyde dehydrogenase [Energy production and conversion]
Probab=51.79 E-value=37 Score=28.77 Aligned_cols=45 Identities=29% Similarity=0.366 Sum_probs=35.2
Q ss_pred CCceEEeeCCCCHHHHHHHHHHHHHHHHhCCc--hHHHHHHHHHHhc
Q 034226 32 GKRIIIKSADMKEDLQKEAVDIAIAAFEKNSV--EKDVAERIKKDFD 76 (101)
Q Consensus 32 ~~~i~I~~sDM~~emq~~~i~~a~~al~~~~~--ekdiA~~IK~~lD 76 (101)
...++=..+||+-+.-+++|+.|.+|+..|.+ .++=++.|++|+|
T Consensus 48 ~geii~~V~~~~V~e~~kAI~aA~EaF~s~~~~takeRs~lLrkwy~ 94 (503)
T KOG2451|consen 48 NGEIIGKVADMTVEEAEKAIDAAYEAFKSYRNLTAKERSALLRKWYE 94 (503)
T ss_pred ccchhhcccCCcHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHH
Confidence 34566688999999999999999999998864 3555666666654
No 13
>cd01579 AcnA_Bact_Swivel Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course of the reaction. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism. This distinct subfamily is found only in bacteria and archea. Its exact characteristics are not known.
Probab=46.02 E-value=14 Score=25.66 Aligned_cols=16 Identities=25% Similarity=0.397 Sum_probs=12.5
Q ss_pred cCCCceEEEEeCCCce
Q 034226 78 KHGPTWHCIVGSNFGN 93 (101)
Q Consensus 78 kyG~~WHcIVGk~FGS 93 (101)
++|..+=+|.|+|||+
T Consensus 45 ~~~~~~iiVaG~nFG~ 60 (121)
T cd01579 45 KAAGPGFIVGGENYGQ 60 (121)
T ss_pred ccCCCeEEEcCCcCCC
Confidence 4466677888999997
No 14
>PF12006 DUF3500: Protein of unknown function (DUF3500); InterPro: IPR021889 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 335 to 438 amino acids in length. This protein has a conserved GHH sequence motif. This protein has two completely conserved G residues that may be functionally important.
Probab=45.92 E-value=29 Score=27.55 Aligned_cols=43 Identities=12% Similarity=0.188 Sum_probs=31.0
Q ss_pred EeeCCCCHHHHHHHHHHHHHHHHhCCch--HHHHHHH-HHHhcccC
Q 034226 37 IKSADMKEDLQKEAVDIAIAAFEKNSVE--KDVAERI-KKDFDKKH 79 (101)
Q Consensus 37 I~~sDM~~emq~~~i~~a~~al~~~~~e--kdiA~~I-K~~lDkky 79 (101)
|..++|+.+.|+.+..++..-+..+..+ +..-..| +..||+.|
T Consensus 216 l~~s~Lt~~Qq~ll~~li~~y~~~~~~~~a~~~~~~i~~~~ld~t~ 261 (313)
T PF12006_consen 216 LAVSELTADQQELLLALIKEYLGRLPEEDAAERMAEIEEAGLDETY 261 (313)
T ss_pred cChhhCCHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhccccceE
Confidence 7789999999999999888888877643 1222234 66677665
No 15
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=44.49 E-value=61 Score=18.59 Aligned_cols=32 Identities=19% Similarity=0.453 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHhCCchHHHHHHHHHHhcc
Q 034226 44 EDLQKEAVDIAIAAFEKNSVEKDVAERIKKDFDK 77 (101)
Q Consensus 44 ~emq~~~i~~a~~al~~~~~ekdiA~~IK~~lDk 77 (101)
+.+.++|++..+.-+++. ..+|-..|+++|.+
T Consensus 6 e~~KqEIL~EvrkEl~K~--K~EIIeA~~~eL~r 37 (40)
T PF08776_consen 6 ERLKQEILEEVRKELQKV--KEEIIEAIRQELSR 37 (40)
T ss_dssp HHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhc
Confidence 357888888888888765 35788888888865
No 16
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=44.28 E-value=24 Score=22.19 Aligned_cols=41 Identities=22% Similarity=0.354 Sum_probs=28.7
Q ss_pred HHHHHHHHHhCCchHHHHHHHHHHhcccCCCceEEEEeCCC
Q 034226 51 VDIAIAAFEKNSVEKDVAERIKKDFDKKHGPTWHCIVGSNF 91 (101)
Q Consensus 51 i~~a~~al~~~~~ekdiA~~IK~~lDkkyG~~WHcIVGk~F 91 (101)
++.|..++..++..++.+.-.=+.|=+-||+.|--|=-.||
T Consensus 11 ~daA~dam~~lG~~~~~v~~vl~~LL~lY~~nW~lIEed~Y 51 (65)
T PF10440_consen 11 IDAALDAMRQLGFSKKQVRPVLKNLLKLYDGNWELIEEDNY 51 (65)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHcCCchhhhcccH
Confidence 46788888888877655554445555688998987765544
No 17
>PRK13007 succinyl-diaminopimelate desuccinylase; Reviewed
Probab=43.29 E-value=69 Score=24.47 Aligned_cols=39 Identities=21% Similarity=0.258 Sum_probs=29.7
Q ss_pred CCHHHHHHHHHHHHHHHHhCC---chHHHHHHHHHHhcccCC
Q 034226 42 MKEDLQKEAVDIAIAAFEKNS---VEKDVAERIKKDFDKKHG 80 (101)
Q Consensus 42 M~~emq~~~i~~a~~al~~~~---~ekdiA~~IK~~lDkkyG 80 (101)
|+.+...++++.+.++++-.. .+.++|++|+++|.+.+|
T Consensus 1 ~~~~~~~~~~~~l~~li~ips~s~~e~~~~~~l~~~l~~~~~ 42 (352)
T PRK13007 1 MTLDLAADLAELTAALVDIPSVSGDEKALADAVEAALRALPH 42 (352)
T ss_pred CccchHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHHhCcC
Confidence 455567888899999887543 357899999999998534
No 18
>PF08202 MIS13: Mis12-Mtw1 protein family; InterPro: IPR013218 The Mtw1 kinetochore complex contains at least four essential components including Mtw1, DSN1, NNF1 and NSL1. All proteins exhibit genetic and two-hybrid interactions and all stabley associate in solution. The function of the complex is unclear though it is involved in chromosome segregation [, ].; GO: 0005515 protein binding
Probab=42.73 E-value=75 Score=24.94 Aligned_cols=70 Identities=19% Similarity=0.129 Sum_probs=47.0
Q ss_pred hhhhcccccccCCCCCCCCC-CccCCCCCCce------EEeeCCCCHH--HHHHHHHHHHHHHHhCC-------------
Q 034226 5 TKKSVTGALVVKPNSDDRKP-TVAVSQSGKRI------IIKSADMKED--LQKEAVDIAIAAFEKNS------------- 62 (101)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i------~I~~sDM~~e--mq~~~i~~a~~al~~~~------------- 62 (101)
-||||.+--+++.|+...-- .+.|+ .+| .-|..|+|+. |++-.+=++..|+.+..
T Consensus 22 ~RRSS~~~RGRR~Ssl~~~~~~~~PH---~dV~~~efYkhI~~~lpe~~RmrQLL~Wc~~ral~~~~~~~~~~~~~~~~~ 98 (301)
T PF08202_consen 22 KRRSSLSQRGRRASSLINGGSIASPH---KDVPESEFYKHIDADLPEPRRMRQLLIWCFQRALQKKEKKSKSRSKSSGSE 98 (301)
T ss_pred hhhHhhhcCCCchhhhccCCCcCCCC---CCCCHHHHHhcccccCCchHHHHHHHHHHHHHHHhhccccccccccccCCC
Confidence 47888888888877665443 34333 333 4578889885 77778888889988765
Q ss_pred --chHHHHHHHHHHhcc
Q 034226 63 --VEKDVAERIKKDFDK 77 (101)
Q Consensus 63 --~ekdiA~~IK~~lDk 77 (101)
+.+.+|..|+++|=+
T Consensus 99 ~~~~~~~ar~I~~e~l~ 115 (301)
T PF08202_consen 99 DSSAKLIARVIQEEFLK 115 (301)
T ss_pred cccHHHHHHHHHHHHHH
Confidence 113578777766633
No 19
>PRK14023 homoaconitate hydratase small subunit; Provisional
Probab=42.33 E-value=21 Score=25.97 Aligned_cols=17 Identities=29% Similarity=0.370 Sum_probs=13.4
Q ss_pred ccCCCceEEEEeCCCce
Q 034226 77 KKHGPTWHCIVGSNFGN 93 (101)
Q Consensus 77 kkyG~~WHcIVGk~FGS 93 (101)
+++.+..=.|.|+||||
T Consensus 45 ~~~~~g~IIVaG~NFG~ 61 (166)
T PRK14023 45 STVRPGDILVAGRNFGL 61 (166)
T ss_pred hhcCCCCEEEccCcccC
Confidence 45666778888999997
No 20
>PF12362 DUF3646: DNA polymerase III gamma and tau subunits C terminal; InterPro: IPR022107 This domain family is found in bacteria, and is approximately 120 amino acids in length. The family is found in association with PF00004 from PFAM. The proteins in this family are frequently annotated as the gamma and tau subunits of DNA polymerase III, however there is little accompanying literature to back this up.
Probab=41.68 E-value=37 Score=23.38 Aligned_cols=29 Identities=24% Similarity=0.548 Sum_probs=25.8
Q ss_pred hHHHHHHHHHHhcccCCCceEEEEeCCCc
Q 034226 64 EKDVAERIKKDFDKKHGPTWHCIVGSNFG 92 (101)
Q Consensus 64 ekdiA~~IK~~lDkkyG~~WHcIVGk~FG 92 (101)
..++|..|.+.|.+--|..|.|.+.+.=|
T Consensus 48 p~dl~~~L~~~L~~wTG~rW~V~~s~~~g 76 (117)
T PF12362_consen 48 PKDLAQRLSRKLQEWTGQRWIVSLSNEPG 76 (117)
T ss_pred CHHHHHHHHHHHHHHhCCCeEEEEeCCCC
Confidence 37899999999999999999999988644
No 21
>PF08908 DUF1852: Domain of unknown function (DUF1852); InterPro: IPR015004 This group of proteins are functionally uncharacterised.
Probab=41.67 E-value=13 Score=29.83 Aligned_cols=22 Identities=32% Similarity=0.452 Sum_probs=18.0
Q ss_pred hcccCCCceEEEEeCCCceeeE
Q 034226 75 FDKKHGPTWHCIVGSNFGNPIY 96 (101)
Q Consensus 75 lDkkyG~~WHcIVGk~FGS~vt 96 (101)
+|++-|..-.=|||.||.|||.
T Consensus 99 vD~kt~~rieGivGNnFSSYVR 120 (322)
T PF08908_consen 99 VDHKTNERIEGIVGNNFSSYVR 120 (322)
T ss_pred EecCCCceecceeccccccccc
Confidence 5777777677799999999993
No 22
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=40.21 E-value=10 Score=24.03 Aligned_cols=12 Identities=33% Similarity=0.944 Sum_probs=10.0
Q ss_pred HHhcccCCCceE
Q 034226 73 KDFDKKHGPTWH 84 (101)
Q Consensus 73 ~~lDkkyG~~WH 84 (101)
+.|+++||..|-
T Consensus 29 ~~le~~yG~~WR 40 (81)
T PF12550_consen 29 RSLEKKYGSKWR 40 (81)
T ss_pred HHHHHHhChhhc
Confidence 468999999995
No 23
>PRK10425 DNase TatD; Provisional
Probab=36.60 E-value=86 Score=23.88 Aligned_cols=47 Identities=19% Similarity=0.295 Sum_probs=33.8
Q ss_pred CHHHHHHHHHHHHHHHHhCCc---------hHHHHHHHHHHhcccCCCceEEEEeC
Q 034226 43 KEDLQKEAVDIAIAAFEKNSV---------EKDVAERIKKDFDKKHGPTWHCIVGS 89 (101)
Q Consensus 43 ~~emq~~~i~~a~~al~~~~~---------ekdiA~~IK~~lDkkyG~~WHcIVGk 89 (101)
+.+.|.++.+...+...+++. .+++.+.||++..+.-++.+||.-|.
T Consensus 102 ~~~~Q~~vF~~ql~lA~~~~~Pv~iH~r~a~~~~l~iL~~~~~~~~~~i~H~fsG~ 157 (258)
T PRK10425 102 TPEEQERAFVAQLAIAAELNMPVFMHCRDAHERFMALLEPWLDKLPGAVLHCFTGT 157 (258)
T ss_pred CHHHHHHHHHHHHHHHHHhCCCeEEEEeCchHHHHHHHHHhccCCCCeEEEecCCC
Confidence 357788998888877776652 36788888886544347889998764
No 24
>cd02860 Pullulanase_N_term Pullulanase domain N-terminus. Pullulanase (AKA dextrinase; alpha-dextrin endo-1,6-alpha glucosidase) is an enzyme with action similar to that of isoamylase; it cleaves 1,6-alpha-glucosidic linkages in pullulan, amylopectin, and glycogen, and in alpha-and beta-amylase limit-dextrins of amylopectin and glycogen. The N-terminus of pullulanase may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=36.48 E-value=42 Score=21.41 Aligned_cols=26 Identities=8% Similarity=0.395 Sum_probs=18.9
Q ss_pred HhcccCCCceEEEEeCCC-ceeeEEEe
Q 034226 74 DFDKKHGPTWHCIVGSNF-GNPIYFHF 99 (101)
Q Consensus 74 ~lDkkyG~~WHcIVGk~F-GS~vt~~~ 99 (101)
.|+++-|+.||+.|-..+ |.+..|++
T Consensus 40 ~m~~~~~gvw~~~v~~~~~g~~Y~y~i 66 (100)
T cd02860 40 QMKRGENGVWSVTLDGDLEGYYYLYEV 66 (100)
T ss_pred eeecCCCCEEEEEeCCccCCcEEEEEE
Confidence 355678999999996544 67767765
No 25
>PF09868 DUF2095: Uncharacterized protein conserved in archaea (DUF2095); InterPro: IPR018662 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=35.32 E-value=76 Score=22.45 Aligned_cols=32 Identities=16% Similarity=0.262 Sum_probs=21.1
Q ss_pred HHHHHHHHHHhCCchHHHHHHHHHHhccc----CCC
Q 034226 50 AVDIAIAAFEKNSVEKDVAERIKKDFDKK----HGP 81 (101)
Q Consensus 50 ~i~~a~~al~~~~~ekdiA~~IK~~lDkk----yG~ 81 (101)
|+++..-.-+.-....++|+.|+..|.++ ||+
T Consensus 80 ALEVInylek~GEIt~e~A~eLr~~L~~kGvr~fG~ 115 (128)
T PF09868_consen 80 ALEVINYLEKRGEITPEEAKELRSILVKKGVRSFGS 115 (128)
T ss_pred HHHHHHHHHHhCCCCHHHHHHHHHHHHHhhHHHhCC
Confidence 33333333333334578999999999998 776
No 26
>PF08015 Pheromone: Fungal mating-type pheromone; InterPro: IPR012597 This family corresponds to mating-type pheromone proteins. The homobasidiomycetes, or mushroom fungi, have arguably the most complex mating system of all known organisms. Many species possess a mating system known as bifactorial incompatibility, where two unlinked loci control the mating-type of an individual incompatibility loci (the A and B mating-type loci). Each A mating-type sublocus encodes a pair of divergently transcribed homeodomain transcription factors while the genes responsible for B mating-type activity encode lipopeptide pheromones and G-protein -coupled pheromone receptors [].; GO: 0000772 mating pheromone activity, 0016020 membrane
Probab=34.72 E-value=21 Score=21.97 Aligned_cols=12 Identities=17% Similarity=0.683 Sum_probs=7.4
Q ss_pred cccCCC--ceEEEE
Q 034226 76 DKKHGP--TWHCIV 87 (101)
Q Consensus 76 DkkyG~--~WHcIV 87 (101)
++..|+ +|-|||
T Consensus 56 Er~~~g~~~~fCVI 69 (69)
T PF08015_consen 56 ERRGGGGAGAFCVI 69 (69)
T ss_pred cccCCCCceEEEeC
Confidence 444444 688886
No 27
>PF10655 DUF2482: Hypothetical protein of unknown function (DUF2482); InterPro: IPR018917 This entry is represented by Bacteriophage 80, Orf10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. All the members of this very small, very short family are derived from bacteriophages, of the SA bacteriophages 11, Mu50B, system, and from the Staphylococcal_phi-Mu50B-like_prophages subsystem. All members are hypothetical proteins.
Probab=34.69 E-value=32 Score=23.32 Aligned_cols=28 Identities=32% Similarity=0.583 Sum_probs=20.5
Q ss_pred HHHHHHHHHHhcc-------------cCCCceEEEEeCCCc
Q 034226 65 KDVAERIKKDFDK-------------KHGPTWHCIVGSNFG 92 (101)
Q Consensus 65 kdiA~~IK~~lDk-------------kyG~~WHcIVGk~FG 92 (101)
.++|..|+++=+- .|-++=||++|+-||
T Consensus 25 ydL~~eI~kETeFdillfS~igv~~GD~~~ss~~alG~~~~ 65 (100)
T PF10655_consen 25 YDLANEIDKETEFDILLFSTIGVSNGDFISSSHCALGNPFG 65 (100)
T ss_pred HHHHHHhcccceeeeeeeeeeccccCccccccchhhccHHH
Confidence 5789999876442 345678999999765
No 28
>cd01578 AcnA_Mitochon_Swivel Mitochondrial aconitase A swivel domain. Aconitase (also known as aconitate hydratase and citrate hydro-lyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme mechanism. In eukaryotes two isozymes of aconitase are known to exist: one found in the mitochondrial matrix and the other found in the cytoplasm. This is the mitochondrial form. The mitochondrial product is coded by a nuclear gene. Most members of this subfamily are mitochondrial but there are some bacterial members.
Probab=33.54 E-value=25 Score=25.52 Aligned_cols=15 Identities=40% Similarity=0.882 Sum_probs=12.6
Q ss_pred CCCceEEEEeCCCce
Q 034226 79 HGPTWHCIVGSNFGN 93 (101)
Q Consensus 79 yG~~WHcIVGk~FGS 93 (101)
.|-.|=+|.|+|||+
T Consensus 67 ~g~~~iIVaG~nyG~ 81 (149)
T cd01578 67 HGIKWVVIGDENYGE 81 (149)
T ss_pred cCCCeEEEccCccCC
Confidence 465799999999996
No 29
>PF08594 UPF0300: Uncharacterised protein family (UPF0300); InterPro: IPR013903 This entry of proteins appear to be specific to Schizosaccharomyces pombe (Fission yeast).
Probab=33.44 E-value=1.3e+02 Score=23.20 Aligned_cols=15 Identities=33% Similarity=0.554 Sum_probs=13.7
Q ss_pred ceEEEEeCCCceeeE
Q 034226 82 TWHCIVGSNFGNPIY 96 (101)
Q Consensus 82 ~WHcIVGk~FGS~vt 96 (101)
.|=||+-++|-|+|-
T Consensus 95 ~W~~I~~k~F~c~I~ 109 (215)
T PF08594_consen 95 SWIAICSKNFMCNIH 109 (215)
T ss_pred cEEEEecCcceEEEE
Confidence 599999999999984
No 30
>PF05184 SapB_1: Saposin-like type B, region 1; InterPro: IPR007856 Synonym(s):cerebroside sulphate activator, CSAct Saposin B is a small non-enzymatic glycoprotein required for the breakdown of cerebroside sulphates (sulphatides) in lysosomes. Saposin B contains three intramolecular disulphide bridges, exists as a dimer and is remarkably heat, protease, and pH stable. The crystal structure of human saposin B reveals an unusual shell-like dimer consisting of a monolayer of alpha-helices enclosing a large hydrophobic cavity. Although the secondary structure of saposin B is similar to that of the known monomeric members of the saposin-like superfamily, the helices are repacked into a different tertiary arrangement to form the homodimer. A comparison of the two forms of the saposin B dimer suggests that extraction of target lipids from membranes involves a conformational change that facilitates access to the inner cavity [].; GO: 0006629 lipid metabolic process; PDB: 1N69_C 1QDM_C 4DDJ_A 2DOB_A 1OF9_A 2Z9A_A 1M12_A 2GTG_A 1SN6_A 2QYP_B ....
Probab=31.84 E-value=83 Score=16.44 Aligned_cols=31 Identities=16% Similarity=0.248 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHhCCchHHHHHHHHHHhc
Q 034226 46 LQKEAVDIAIAAFEKNSVEKDVAERIKKDFD 76 (101)
Q Consensus 46 mq~~~i~~a~~al~~~~~ekdiA~~IK~~lD 76 (101)
.-+.++..+...+....++.+|.++|++..+
T Consensus 6 ~C~~~v~~i~~~l~~~~t~~~I~~~l~~~C~ 36 (39)
T PF05184_consen 6 ICKFVVKEIEKLLKNNKTEEEIKKALEKACN 36 (39)
T ss_dssp HHHHHHHHHHHHHHSTCHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHcCccHHHHHHHHHHHHh
Confidence 3467888888899877788888888887543
No 31
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=31.40 E-value=1.5e+02 Score=21.83 Aligned_cols=33 Identities=21% Similarity=0.239 Sum_probs=27.5
Q ss_pred CCCCceEEeeCCCCHHHHHHHHHHHHHHHHhCC
Q 034226 30 QSGKRIIIKSADMKEDLQKEAVDIAIAAFEKNS 62 (101)
Q Consensus 30 ~~~~~i~I~~sDM~~emq~~~i~~a~~al~~~~ 62 (101)
.....+.|....|++|.+++.++.+.+..++..
T Consensus 93 ~dg~~Iri~iP~lT~E~R~elvK~~k~~~E~aK 125 (185)
T PRK00083 93 NDGTVIRLPIPPLTEERRKELVKQVKKEAEEAK 125 (185)
T ss_pred cCCCEEEecCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 345668888889999999999999998887765
No 32
>PF08958 DUF1871: Domain of unknown function (DUF1871); InterPro: IPR015053 This set of hypothetical proteins is produced by prokaryotes pertaining to the Bacillus genus. ; PDB: 1U84_A.
Probab=31.24 E-value=63 Score=20.83 Aligned_cols=30 Identities=20% Similarity=0.355 Sum_probs=21.7
Q ss_pred HHHHHHHHhCCchHHHHHHHHHHhcccCCC
Q 034226 52 DIAIAAFEKNSVEKDVAERIKKDFDKKHGP 81 (101)
Q Consensus 52 ~~a~~al~~~~~ekdiA~~IK~~lDkkyG~ 81 (101)
.....++....+...+|+.|+.-|..-||.
T Consensus 25 ~~Iv~~v~~~~~~~~LA~~Iq~If~~SF~e 54 (79)
T PF08958_consen 25 NDIVQAVHENDDPEELAKKIQSIFEFSFGE 54 (79)
T ss_dssp HHHHHHHTT-S-HHHHHHHHHHHHHHHHSS
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHHHHHcc
Confidence 445566666777788999999999888875
No 33
>PRK10667 Hha toxicity attenuator; Provisional
Probab=30.78 E-value=81 Score=22.18 Aligned_cols=20 Identities=20% Similarity=0.297 Sum_probs=18.1
Q ss_pred hCCchHHHHHHHHHHhcccC
Q 034226 60 KNSVEKDVAERIKKDFDKKH 79 (101)
Q Consensus 60 ~~~~ekdiA~~IK~~lDkky 79 (101)
+|+.+.+++..|-.+||++|
T Consensus 65 KYp~~~~l~~~ideYLDeTy 84 (122)
T PRK10667 65 KYPEDSKLIEQIDEYLDDTY 84 (122)
T ss_pred cCCcHhhHHHHHHHHHHHHH
Confidence 67788899999999999987
No 34
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=30.43 E-value=1.5e+02 Score=21.02 Aligned_cols=36 Identities=17% Similarity=0.356 Sum_probs=25.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHhC--------------CchHHHHHHHHHHh
Q 034226 40 ADMKEDLQKEAVDIAIAAFEKN--------------SVEKDVAERIKKDF 75 (101)
Q Consensus 40 sDM~~emq~~~i~~a~~al~~~--------------~~ekdiA~~IK~~l 75 (101)
.+||++.++++++...+-++.- ++.+++|+.|+...
T Consensus 15 ~~lp~~e~~e~l~~Y~e~f~d~~~~G~sEeeii~~LG~P~~iA~~i~~~~ 64 (181)
T PF08006_consen 15 KKLPEEEREEILEYYEEYFDDAGEEGKSEEEIIAELGSPKEIAREILAEY 64 (181)
T ss_pred HcCCHHHHHHHHHHHHHHHHHhhhCCCCHHHHHHHcCCHHHHHHHHHHhh
Confidence 3699999999999777666532 23367888777544
No 35
>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=30.20 E-value=45 Score=26.03 Aligned_cols=49 Identities=16% Similarity=0.344 Sum_probs=34.2
Q ss_pred CCCceEEeeCCCCHHHHHHHHHHHHHHHHhCCch---HHH-HHHHHHHhcccCCCceEE
Q 034226 31 SGKRIIIKSADMKEDLQKEAVDIAIAAFEKNSVE---KDV-AERIKKDFDKKHGPTWHC 85 (101)
Q Consensus 31 ~~~~i~I~~sDM~~emq~~~i~~a~~al~~~~~e---kdi-A~~IK~~lDkkyG~~WHc 85 (101)
...++.|..+|.+....+.| +.+. |+.. +.+ .++++++|++.-|+.|++
T Consensus 126 ~~~~~~I~AtDId~~~L~~A----~~G~--Y~~~~~~~~~~~~~~~ryF~~~~~~~y~v 178 (268)
T COG1352 126 AGFRVKILATDIDLSVLEKA----RAGI--YPSRELLRGLPPELLRRYFERGGDGSYRV 178 (268)
T ss_pred cCCceEEEEEECCHHHHHHH----hcCC--CChhHhhccCCHHHHhhhEeecCCCcEEE
Confidence 44589999999998755544 3332 4411 233 677899999998888876
No 36
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=29.64 E-value=63 Score=22.48 Aligned_cols=26 Identities=15% Similarity=0.317 Sum_probs=22.3
Q ss_pred HHHHHHHHHhcccCCCceEEEEeCCC
Q 034226 66 DVAERIKKDFDKKHGPTWHCIVGSNF 91 (101)
Q Consensus 66 diA~~IK~~lDkkyG~~WHcIVGk~F 91 (101)
..|+.|++.|...||+...|.|..-|
T Consensus 3 ~aA~Al~eal~~~~~~~~~v~v~D~~ 28 (169)
T PF06925_consen 3 SAARALAEALERRRGPDAEVEVVDFL 28 (169)
T ss_pred HHHHHHHHHHHhhcCCCCEEEEEehH
Confidence 46899999999999999999987744
No 37
>PF06057 VirJ: Bacterial virulence protein (VirJ); InterPro: IPR010333 This entry contains several bacterial VirJ virulence proteins. VirJ is thought to be involved in the type IV secretion system. It is thought that the substrate proteins localised to the periplasm may associate with the pilus in a manner that is mediated by VirJ, and suggest a two-step process for type IV secretion in Agrobacterium [].
Probab=29.54 E-value=60 Score=24.36 Aligned_cols=30 Identities=23% Similarity=0.432 Sum_probs=19.0
Q ss_pred HHHHHHHHHHhcccCCCceEEEEeCCCceee
Q 034226 65 KDVAERIKKDFDKKHGPTWHCIVGSNFGNPI 95 (101)
Q Consensus 65 kdiA~~IK~~lDkkyG~~WHcIVGk~FGS~v 95 (101)
.|+++.|..++. ++|..==+.||.+||.-|
T Consensus 52 ~Dl~~~i~~y~~-~w~~~~vvLiGYSFGADv 81 (192)
T PF06057_consen 52 ADLARIIRHYRA-RWGRKRVVLIGYSFGADV 81 (192)
T ss_pred HHHHHHHHHHHH-HhCCceEEEEeecCCchh
Confidence 355555555443 444444489999999865
No 38
>PRK06489 hypothetical protein; Provisional
Probab=29.30 E-value=37 Score=26.32 Aligned_cols=32 Identities=19% Similarity=0.248 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhcccCC-CceEEEEeCCCceeeE
Q 034226 65 KDVAERIKKDFDKKHG-PTWHCIVGSNFGNPIY 96 (101)
Q Consensus 65 kdiA~~IK~~lDkkyG-~~WHcIVGk~FGS~vt 96 (101)
.++|+.+...+.+..| ..+++|||-++|..|.
T Consensus 136 ~~~a~~~~~~l~~~lgi~~~~~lvG~SmGG~vA 168 (360)
T PRK06489 136 DDMVEAQYRLVTEGLGVKHLRLILGTSMGGMHA 168 (360)
T ss_pred HHHHHHHHHHHHHhcCCCceeEEEEECHHHHHH
Confidence 3566666565544444 4577899999998874
No 39
>PRK00466 acetyl-lysine deacetylase; Validated
Probab=28.69 E-value=1.7e+02 Score=22.52 Aligned_cols=40 Identities=10% Similarity=0.108 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHhCC---chHHHHHHHHHHhcccCCCceE
Q 034226 44 EDLQKEAVDIAIAAFEKNS---VEKDVAERIKKDFDKKHGPTWH 84 (101)
Q Consensus 44 ~emq~~~i~~a~~al~~~~---~ekdiA~~IK~~lDkkyG~~WH 84 (101)
++|++++++...++++-.. .+.++|.+|+++|. ++|-.++
T Consensus 6 ~~~~~~~~~~l~~lv~i~s~s~~e~~~~~~l~~~l~-~~g~~~~ 48 (346)
T PRK00466 6 ELVKQKAKELLLDLLSIYTPSGNETNATKFFEKISN-ELNLKLE 48 (346)
T ss_pred HHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHH-HcCCeEE
Confidence 4566778888877776432 35789999999997 4454333
No 40
>PF06840 DUF1241: Protein of unknown function (DUF1241); InterPro: IPR009652 This family consists of several programmed cell death 10 protein (PDCD10 or TFAR15) sequences. The function of this family is unknown.; PDB: 3L8I_A 3RQG_B 3RQE_B 3L8J_A 3RQF_B 3AJM_B.
Probab=28.63 E-value=40 Score=24.51 Aligned_cols=13 Identities=46% Similarity=0.608 Sum_probs=12.0
Q ss_pred HHHHHHHHHHhcc
Q 034226 65 KDVAERIKKDFDK 77 (101)
Q Consensus 65 kdiA~~IK~~lDk 77 (101)
|+||..||+-||.
T Consensus 123 K~IAsaIK~lLdA 135 (154)
T PF06840_consen 123 KEIASAIKKLLDA 135 (154)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 7999999999995
No 41
>cd01577 IPMI_Swivel Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate 3-isopropylmalate. IPMI is involved in fungal and bacterial leucine biosynthesis and is also found in eukaryotes. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=28.33 E-value=29 Score=22.99 Aligned_cols=12 Identities=33% Similarity=0.443 Sum_probs=10.3
Q ss_pred ceEEEEeCCCce
Q 034226 82 TWHCIVGSNFGN 93 (101)
Q Consensus 82 ~WHcIVGk~FGS 93 (101)
.+=.|.|+|||+
T Consensus 18 ~~ilVaG~nfG~ 29 (91)
T cd01577 18 GDIIVAGKNFGC 29 (91)
T ss_pred CCEEEecCcccC
Confidence 577889999997
No 42
>PF02283 CobU: Cobinamide kinase / cobinamide phosphate guanyltransferase; InterPro: IPR003203 This family is composed of a group of bifunctional cobalbumin biosynthesis enzymes which display cobinamide kinase and cobinamide phosphate guanyltransferase activity. The crystal structure of the enzyme reveals the molecule to be a trimer with a propeller-like shape [].; GO: 0000166 nucleotide binding, 0043752 adenosylcobinamide kinase activity, 0051188 cofactor biosynthetic process; PDB: 1CBU_C 1C9K_B.
Probab=28.18 E-value=71 Score=22.87 Aligned_cols=24 Identities=21% Similarity=0.490 Sum_probs=20.5
Q ss_pred hHHHHHHHHHHhcccCCCceEEEEe
Q 034226 64 EKDVAERIKKDFDKKHGPTWHCIVG 88 (101)
Q Consensus 64 ekdiA~~IK~~lDkkyG~~WHcIVG 88 (101)
+.+|++.|+++-..+ |..|+.|--
T Consensus 36 D~em~~RI~~H~~~R-~~~w~tiE~ 59 (167)
T PF02283_consen 36 DEEMRERIARHRQRR-PKGWITIEE 59 (167)
T ss_dssp HHHHHHHHHHHHHHS-STCEEEEE-
T ss_pred CHHHHHHHHHHHHhC-CCCcEEEec
Confidence 468999999999999 999999853
No 43
>PF15571 Imm25: Immunity protein 25
Probab=28.11 E-value=35 Score=24.09 Aligned_cols=23 Identities=22% Similarity=0.268 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhcccCCCceEEEE
Q 034226 65 KDVAERIKKDFDKKHGPTWHCIV 87 (101)
Q Consensus 65 kdiA~~IK~~lDkkyG~~WHcIV 87 (101)
.++...||+.+|.-||..|+-|-
T Consensus 18 r~~r~~Ik~~~~~~~g~~~~~I~ 40 (124)
T PF15571_consen 18 REIRNEIKELNDNLYGIEIESIA 40 (124)
T ss_pred HHHHHHHHHHHccccccchhhhc
Confidence 46778889999999999987654
No 44
>PF01996 F420_ligase: F420-0:Gamma-glutamyl ligase; InterPro: IPR002847 This entry contains F420-0:gamma-glutamyl ligase and related proteins. F420-0:gamma-glutamyl ligase catalyzes the GTP-dependent successive addition of multiple gamma-linked L-glutamates to the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) to form polyglutamated F420 derivatives [, , , ].; PDB: 2G9I_A 2PHN_A.
Probab=27.73 E-value=49 Score=25.04 Aligned_cols=33 Identities=21% Similarity=0.402 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHhcccCCCceEEEEeCCCceeeE
Q 034226 64 EKDVAERIKKDFDKKHGPTWHCIVGSNFGNPIY 96 (101)
Q Consensus 64 ekdiA~~IK~~lDkkyG~~WHcIVGk~FGS~vt 96 (101)
.+..|+.|+++|.+++|..=.|||...+|..|-
T Consensus 132 Pd~sA~~i~~~l~~~~g~~v~ViI~Dt~gr~~r 164 (228)
T PF01996_consen 132 PDASARRIREELKERTGKDVGVIITDTNGRPWR 164 (228)
T ss_dssp HHHHHHHHHHHHHHHHS---EEEEEEEEEETTE
T ss_pred HHHHHHHHHHHHHHHHCCceEEEEECCCCcEEe
Confidence 367999999999999999999999998886653
No 45
>cd01674 Homoaconitase_Swivel Homoaconitase swivel domain. This family includes homoaconitase and other uncharacterized proteins of the Aconitase family. Homoaconitase is part of an unusual lysine biosynthesis pathway found only in filamentous fungi, in which lysine is synthesized via the alpha-aminoadipate pathway. In this pathway, homoaconitase catalyzes the conversion of cis-homoaconitic acid into homoisocitric acid. The reaction mechanism is believed to be similar to that of other aconitases. This is the swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=27.63 E-value=55 Score=23.21 Aligned_cols=10 Identities=40% Similarity=0.670 Sum_probs=7.3
Q ss_pred EEEEeCCCce
Q 034226 84 HCIVGSNFGN 93 (101)
Q Consensus 84 HcIVGk~FGS 93 (101)
-+|.|+|||+
T Consensus 48 ilVaG~nFG~ 57 (129)
T cd01674 48 ILVSGFNFGT 57 (129)
T ss_pred EEEeCCccCC
Confidence 4566889986
No 46
>PF06983 3-dmu-9_3-mt: 3-demethylubiquinone-9 3-methyltransferase; PDB: 1U7I_A 1TSJ_A 1U69_D 3L20_B 3OMS_A.
Probab=27.30 E-value=24 Score=23.68 Aligned_cols=12 Identities=25% Similarity=0.761 Sum_probs=7.1
Q ss_pred hcccCCCceEEE
Q 034226 75 FDKKHGPTWHCI 86 (101)
Q Consensus 75 lDkkyG~~WHcI 86 (101)
+-.|||-+|++|
T Consensus 105 v~DkFGv~Wqiv 116 (116)
T PF06983_consen 105 VTDKFGVSWQIV 116 (116)
T ss_dssp EE-TTS-EEEEE
T ss_pred EEeCCCCEEEeC
Confidence 445788888876
No 47
>PF07742 BTG: BTG family; InterPro: IPR002087 Anti-proliferative proteins have been shown to include mammalian and avian protein BTG1 (which appears to be involved in negative regulation of cell proliferation) and rat/mouse NGF-inducible protein PC3/TIS21 (BTG2) [, , ]. These proteins have from 158 to 363 amino acid residues, that are highly similar and include 3 conserved cysteine residues. BTG2 seems to have a signal sequence; while the other proteins may lack such a domain. The sequence of the N-terminal half of these proteins is well conserved.; PDB: 3DJU_B 3E9V_A 2Z15_D 2D5R_B 3DJN_B.
Probab=27.20 E-value=1.1e+02 Score=20.90 Aligned_cols=19 Identities=16% Similarity=0.291 Sum_probs=15.0
Q ss_pred HHHHHHHHHhcccCCCceE
Q 034226 66 DVAERIKKDFDKKHGPTWH 84 (101)
Q Consensus 66 diA~~IK~~lDkkyG~~WH 84 (101)
..++.|...|-++|.+.|+
T Consensus 29 ~F~~~L~~~L~~ry~~HW~ 47 (118)
T PF07742_consen 29 RFAEELENLLCERYKGHWY 47 (118)
T ss_dssp HHHHHHHHHHHHHHTTS--
T ss_pred HHHHHHHHHHHHHHhCCCC
Confidence 4688999999999999997
No 48
>PF10925 DUF2680: Protein of unknown function (DUF2680); InterPro: IPR024485 Members in this family of proteins are annotated as YckD however currently no function is known.
Probab=26.38 E-value=96 Score=18.83 Aligned_cols=17 Identities=29% Similarity=0.554 Sum_probs=13.8
Q ss_pred hHHHHHHHHHHhcccCC
Q 034226 64 EKDVAERIKKDFDKKHG 80 (101)
Q Consensus 64 ekdiA~~IK~~lDkkyG 80 (101)
-++-|..||..+|.++.
T Consensus 34 TqeqAd~ik~~id~~~~ 50 (59)
T PF10925_consen 34 TQEQADAIKKHIDQRQE 50 (59)
T ss_pred CHHHHHHHHHHHHHHHH
Confidence 37789999999998753
No 49
>COG0066 LeuD 3-isopropylmalate dehydratase small subunit [Amino acid transport and metabolism]
Probab=26.28 E-value=34 Score=25.80 Aligned_cols=16 Identities=25% Similarity=0.214 Sum_probs=11.8
Q ss_pred cCCCceEEEEeCCCce
Q 034226 78 KHGPTWHCIVGSNFGN 93 (101)
Q Consensus 78 kyG~~WHcIVGk~FGS 93 (101)
.|-+.=-.|+|+||||
T Consensus 59 ~yq~g~IlVag~NFGc 74 (191)
T COG0066 59 PYQGGDILVAGENFGC 74 (191)
T ss_pred ccCCccEEEecCCCCC
Confidence 4544556788999997
No 50
>cd02856 Glycogen_debranching_enzyme_N_term Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor, which may be glucose or another 1,4-alpha-D-glucan. As a glucosidase it catalyzes the endohydrolysis of 1,6-alpha-D-glucoside linkages at points of branching in chains of 1,4-linked alpha-D-glucose residues. The N-terminus of the glycogen debranching enzyme may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=26.19 E-value=85 Score=20.15 Aligned_cols=26 Identities=23% Similarity=0.524 Sum_probs=18.1
Q ss_pred hcccCCCceEEEE-eCCCceeeEEEec
Q 034226 75 FDKKHGPTWHCIV-GSNFGNPIYFHFF 100 (101)
Q Consensus 75 lDkkyG~~WHcIV-Gk~FGS~vt~~~~ 100 (101)
|.+.-|+.|++.| |..=|.+..|.|.
T Consensus 39 m~~~~~GvW~~~v~~~~~g~~Y~y~i~ 65 (103)
T cd02856 39 LTEEYGGVWHGFLPGIKAGQRYGFRVH 65 (103)
T ss_pred cccccCCEEEEEECCCCCCCEEEEEEC
Confidence 3445689999999 4445777777763
No 51
>PF10757 YbaJ: Biofilm formation regulator YbaJ; InterPro: IPR019693 YbaJ regulates biofilm formation. It also has an important role in the regulation of motility in the biofilm. YbaJ functions in increasing conjugation, aggregation and decreasing the motility, resulting in an increase of biofilm [].
Probab=25.95 E-value=90 Score=21.96 Aligned_cols=20 Identities=30% Similarity=0.315 Sum_probs=18.0
Q ss_pred hCCchHHHHHHHHHHhcccC
Q 034226 60 KNSVEKDVAERIKKDFDKKH 79 (101)
Q Consensus 60 ~~~~ekdiA~~IK~~lDkky 79 (101)
+|+++.++...|-++||++|
T Consensus 65 KYp~~~~l~~~ideYLDeTy 84 (122)
T PF10757_consen 65 KYPDESDLIELIDEYLDETY 84 (122)
T ss_pred ccCcHhhHHHHHHHHHHHHH
Confidence 67788899999999999987
No 52
>KOG3165 consensus Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=25.43 E-value=59 Score=24.39 Aligned_cols=26 Identities=31% Similarity=0.586 Sum_probs=21.8
Q ss_pred HHHHHHHHhcccCCCceEEEEeCCCc
Q 034226 67 VAERIKKDFDKKHGPTWHCIVGSNFG 92 (101)
Q Consensus 67 iA~~IK~~lDkkyG~~WHcIVGk~FG 92 (101)
+++.+--.++...||.+|+||-.||=
T Consensus 48 ~~s~lffqyn~~L~PPy~vivDTNFI 73 (195)
T KOG3165|consen 48 VPSALFFQYNTTLGPPYHVIVDTNFI 73 (195)
T ss_pred cchhHHHhcccccCCCeEEEEecchh
Confidence 56667777888999999999999883
No 53
>PF01545 Cation_efflux: Cation efflux family; InterPro: IPR002524 Members of this family are integral membrane proteins, that are found to increase tolerance to divalent metal ions such as cadmium, zinc, and cobalt. These proteins are considered to be efflux pumps that remove these ions from cells [, ], however others are implicated in ion uptake []. The family has six predicted transmembrane domains. Members of the family are variable in length because of variably sized inserts, often containing low-complexity sequence.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3BYP_B 3BYR_A 3H90_B 2QFI_B 2ZZT_A.
Probab=25.31 E-value=84 Score=23.29 Aligned_cols=23 Identities=22% Similarity=0.456 Sum_probs=20.2
Q ss_pred HHHHHHHHHHhcccCCCceEEEE
Q 034226 65 KDVAERIKKDFDKKHGPTWHCIV 87 (101)
Q Consensus 65 kdiA~~IK~~lDkkyG~~WHcIV 87 (101)
.++++.|++.+-++|++.++|.|
T Consensus 254 ~~i~~~i~~~l~~~~~~i~~v~I 276 (284)
T PF01545_consen 254 HEIRERIEKRLREKFPGIYDVTI 276 (284)
T ss_dssp HHHHHHHHHHHHHHSTTCEEEEE
T ss_pred HHHHHHHHHHHHHhCCCcEEEEE
Confidence 35899999999999999999776
No 54
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=25.27 E-value=2.6e+02 Score=20.31 Aligned_cols=34 Identities=26% Similarity=0.270 Sum_probs=27.6
Q ss_pred CCCCceEEeeCCCCHHHHHHHHHHHHHHHHhCCc
Q 034226 30 QSGKRIIIKSADMKEDLQKEAVDIAIAAFEKNSV 63 (101)
Q Consensus 30 ~~~~~i~I~~sDM~~emq~~~i~~a~~al~~~~~ 63 (101)
.....+.|...-|++|.+++.+..+....+++..
T Consensus 89 ~dg~~iri~iP~lT~E~R~~lvK~~k~~~E~~Kv 122 (179)
T cd00520 89 NDGAVIRVNLPPLTEERRKELVKDAKKIAEEAKV 122 (179)
T ss_pred cCCCEEEecCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3445677778899999999999999988887653
No 55
>PRK13888 conjugal transfer protein TrbN; Provisional
Probab=25.25 E-value=25 Score=26.82 Aligned_cols=19 Identities=21% Similarity=0.436 Sum_probs=16.6
Q ss_pred HHHHHHHhcccCCCceEEE
Q 034226 68 AERIKKDFDKKHGPTWHCI 86 (101)
Q Consensus 68 A~~IK~~lDkkyG~~WHcI 86 (101)
|-.|++.|+++||-.|.+|
T Consensus 91 AWILr~~i~~~~G~~W~AV 109 (206)
T PRK13888 91 AWRLRMHIRNDKGDLWTKA 109 (206)
T ss_pred HHHHHHHHHHhhCchHHHH
Confidence 5578899998999999987
No 56
>KOG2826 consensus Actin-related protein Arp2/3 complex, subunit ARPC2 [Cytoskeleton]
Probab=25.24 E-value=43 Score=26.56 Aligned_cols=15 Identities=47% Similarity=0.731 Sum_probs=12.9
Q ss_pred EEeCCCceeeEEEecC
Q 034226 86 IVGSNFGNPIYFHFFS 101 (101)
Q Consensus 86 IVGk~FGS~vt~~~~~ 101 (101)
=||.++| ||||=||.
T Consensus 216 ~vgdn~g-yiTFVLFp 230 (301)
T KOG2826|consen 216 RVGDNIG-YITFVLFP 230 (301)
T ss_pred ccccccc-eEEEEEec
Confidence 6899999 99998873
No 57
>TIGR00171 leuD 3-isopropylmalate dehydratase, small subunit. Several pairs of archaeal proteins resemble the leuC and leuD pair in length and sequence but even more closely resemble the respective domains of homoaconitase, and their identity is uncertain. The candidate archaeal leuD proteins are not included in the seed alignment for this model and score below the trusted cutoff.
Probab=25.18 E-value=32 Score=25.60 Aligned_cols=15 Identities=20% Similarity=0.146 Sum_probs=10.5
Q ss_pred CCCceEEEEeCCCce
Q 034226 79 HGPTWHCIVGSNFGN 93 (101)
Q Consensus 79 yG~~WHcIVGk~FGS 93 (101)
|-+.==.|.|+||||
T Consensus 67 ~~~~~IlVaG~NFGc 81 (188)
T TIGR00171 67 YQGASILLARENFGC 81 (188)
T ss_pred cCCCcEEEcCCcccC
Confidence 433345788999997
No 58
>cd02852 Isoamylase_N_term Isoamylase N-terminus domain. Isoamylase (aka glycogen 6-glucanohydrolase) is one of the starch-debranching enzymes that catalyzes the hydrolysis of alpha-1,6-glucosidic linkages specific in alpha-glucans such as amylopectin or glycogen. Isoamylase contains a bound calcium ion, but this is not in the same position as the conserved calcium ion that has been reported in other alpha-amylase family enzymes. The N-terminus of isoamylase may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=24.87 E-value=87 Score=20.57 Aligned_cols=24 Identities=25% Similarity=0.512 Sum_probs=17.8
Q ss_pred ccCCCceEEEE-eCCCceeeEEEec
Q 034226 77 KKHGPTWHCIV-GSNFGNPIYFHFF 100 (101)
Q Consensus 77 kkyG~~WHcIV-Gk~FGS~vt~~~~ 100 (101)
.+-|+.||+.| |..-|.+..|++.
T Consensus 45 ~~~~gvW~~~v~~~~~g~~Y~y~v~ 69 (119)
T cd02852 45 NRTGDVWHVFVEGLKPGQLYGYRVD 69 (119)
T ss_pred cccCCEEEEEECCCCCCCEEEEEEC
Confidence 34589999988 4456888888764
No 59
>TIGR03849 arch_ComA phosphosulfolactate synthase. This model finds the ComA (Coenzyme M biosynthesis A) protein, phosphosulfolactate synthase, in methanogenic archaea. The ComABC pathway is one of at least two pathways to the intermediate sulfopyruvate. Coenzyme M occurs rarely and sporadically outside of the archaea, as for expoxide metabolism in Xanthobacter autotrophicus Py2, but candidate phosphosulfolactate synthases from that and other species occur fall below the cutoff and outside the scope of this model. This model deliberately is narrower in scope than pfam02679.
Probab=24.45 E-value=1.9e+02 Score=22.39 Aligned_cols=47 Identities=17% Similarity=0.211 Sum_probs=32.8
Q ss_pred eeCCCCHHHHHHHHHHHHHH-H-------------HhCCchHHHHHHHHHHhcccCCCceEEEE
Q 034226 38 KSADMKEDLQKEAVDIAIAA-F-------------EKNSVEKDVAERIKKDFDKKHGPTWHCIV 87 (101)
Q Consensus 38 ~~sDM~~emq~~~i~~a~~a-l-------------~~~~~ekdiA~~IK~~lDkkyG~~WHcIV 87 (101)
=..+||.+.+...++.+.+. + ..-.+..+..+.+++.||. |.|.+||
T Consensus 93 G~~~i~~~~~~rlI~~~~~~g~~v~~EvG~K~~~~~~~~~~~~~i~~~~~~LeA---GA~~Vii 153 (237)
T TIGR03849 93 GSMEISLEERCNLIERAKDNGFMVLSEVGKKSPEKDSELTPDDRIKLINKDLEA---GADYVII 153 (237)
T ss_pred CccCCCHHHHHHHHHHHHhCCCeEeccccccCCcccccCCHHHHHHHHHHHHHC---CCcEEEE
Confidence 34689999999999998844 1 1011225677888888875 6788887
No 60
>TIGR01738 bioH putative pimeloyl-BioC--CoA transferase BioH. This CoA-binding enzyme is required for the production of pimeloyl-coenzyme A, the substrate of the BioF protein early in the biosynthesis of biotin. Its exact function is unknown, but is proposed in ref 2. This enzyme belongs to the alpha/beta hydrolase fold family (pfam model pfam00561). Members of this family are restricted to the Proteobacteria.
Probab=24.36 E-value=46 Score=22.50 Aligned_cols=27 Identities=22% Similarity=0.203 Sum_probs=19.3
Q ss_pred HHHHHHHHHHhcccCCCceEEEEeCCCceeeE
Q 034226 65 KDVAERIKKDFDKKHGPTWHCIVGSNFGNPIY 96 (101)
Q Consensus 65 kdiA~~IK~~lDkkyG~~WHcIVGk~FGS~vt 96 (101)
.++++.|...+++ --.+||.++|+++.
T Consensus 53 ~~~~~~~~~~~~~-----~~~lvG~S~Gg~~a 79 (245)
T TIGR01738 53 ADAAEAIAAQAPD-----PAIWLGWSLGGLVA 79 (245)
T ss_pred HHHHHHHHHhCCC-----CeEEEEEcHHHHHH
Confidence 5677777776653 24588999999774
No 61
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=24.00 E-value=47 Score=21.71 Aligned_cols=20 Identities=30% Similarity=0.494 Sum_probs=15.8
Q ss_pred hHHHHHHHHHHhcccCCCceEEE
Q 034226 64 EKDVAERIKKDFDKKHGPTWHCI 86 (101)
Q Consensus 64 ekdiA~~IK~~lDkkyG~~WHcI 86 (101)
-+++++.|++.|+.+ .|+++
T Consensus 35 ~~~~~~~l~kRl~~~---~~~~~ 54 (115)
T cd00197 35 PKEAVDAIKKRINNK---NPHVV 54 (115)
T ss_pred HHHHHHHHHHHhcCC---cHHHH
Confidence 478999999999875 67754
No 62
>TIGR02087 LEUD_arch 3-isopropylmalate dehydratase, small subunit. This subfamily is most closely related to the 3-isopropylmalate dehydratase, small subunits which form TIGR00171. This subfamily includes the members of TIGR02084 which are gene clustered with other genes of leucine biosynthesis. The rest of the subfamily includes mainly archaeal species which exhibit two hits to this model. In these cases it is possible that one or the other of the hits does not have a 3-isopropylmalate dehydratase activity but rather one of the other related aconitase-like activities.
Probab=23.92 E-value=50 Score=23.76 Aligned_cols=29 Identities=31% Similarity=0.462 Sum_probs=17.0
Q ss_pred HHHHHHHHHHhc----ccCCCceEEEEeCCCce
Q 034226 65 KDVAERIKKDFD----KKHGPTWHCIVGSNFGN 93 (101)
Q Consensus 65 kdiA~~IK~~lD----kkyG~~WHcIVGk~FGS 93 (101)
.++++++-..+| .+..+..=+|.|+||||
T Consensus 27 ~~l~~~~f~~~~p~f~~~~~~g~iiVaG~NFG~ 59 (154)
T TIGR02087 27 DELASHAMEGIDPEFAKKVRPGDVIVAGKNFGC 59 (154)
T ss_pred HHHHhhccCcCCchhhhcCCCCcEEEcCCcccC
Confidence 345555444444 33344566777999997
No 63
>PRK08775 homoserine O-acetyltransferase; Provisional
Probab=23.82 E-value=27 Score=26.86 Aligned_cols=57 Identities=18% Similarity=0.112 Sum_probs=35.5
Q ss_pred CceEEeeCCCCHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHhcccCCCceEEEEeCCCceeeEEE
Q 034226 33 KRIIIKSADMKEDLQKEAVDIAIAAFEKNSVEKDVAERIKKDFDKKHGPTWHCIVGSNFGNPIYFH 98 (101)
Q Consensus 33 ~~i~I~~sDM~~emq~~~i~~a~~al~~~~~ekdiA~~IK~~lDkkyG~~WHcIVGk~FGS~vt~~ 98 (101)
....|+.-|++---... -..+. -.++|+.|...+|.---..-+++||-++|.+|..+
T Consensus 98 ~~~~Vi~~Dl~G~g~s~--------~~~~~-~~~~a~dl~~ll~~l~l~~~~~lvG~SmGG~vA~~ 154 (343)
T PRK08775 98 ARFRLLAFDFIGADGSL--------DVPID-TADQADAIALLLDALGIARLHAFVGYSYGALVGLQ 154 (343)
T ss_pred cccEEEEEeCCCCCCCC--------CCCCC-HHHHHHHHHHHHHHcCCCcceEEEEECHHHHHHHH
Confidence 46788888888421110 01122 24578888888876433345779999999987543
No 64
>cd02853 MTHase_N_term Maltooligosyl trehalose synthase (MTSase) N-terminus domain. MTSase and maltooligosyl trehalose trehalohydrolase (MTHase) work together to produce trehalose. MTSase is responsible for converting the alpha-1,4-glucosidic linkage to an alpha,alpha-1,1-glucosidic linkage at the reducing end of the maltooligosaccharide through an intramolecular transglucosylation reaction, while MTHase hydrolyzes the penultimate alpha-1,4 linkage of the reducing end, resulting in the release of trehalose. The N-terminus of MTSase may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=23.72 E-value=95 Score=19.20 Aligned_cols=26 Identities=8% Similarity=0.100 Sum_probs=18.4
Q ss_pred hcccCCCceEEEEeCCCceeeEEEec
Q 034226 75 FDKKHGPTWHCIVGSNFGNPIYFHFF 100 (101)
Q Consensus 75 lDkkyG~~WHcIVGk~FGS~vt~~~~ 100 (101)
|.+.-++.|++.|-..=|.+..|.+.
T Consensus 34 m~~~~~G~W~~~v~~~~g~~Y~y~v~ 59 (85)
T cd02853 34 MQRDGDGWFEAEVPGAAGTRYRYRLD 59 (85)
T ss_pred CccCCCcEEEEEeCCCCCCeEEEEEC
Confidence 34556899999996546777777663
No 65
>cd00404 Aconitase_swivel Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme mechanism. The aconitase family contains the following proteins: - Iron-responsive element binding protein (IRE-BP). IRE-BP is a cytosolic protein that binds to iron-responsive elements (IREs). IREs are stem-loop structures found in the 5'UTR of ferritin, and delta aminolevulinic acid synthase mRNAs, and in the 3'UTR of transferrin receptor mRNA. IRE-BP also express aconitase activity. - 3-isopropylmalate dehydratase (isopropylmalate isomerase), the enzyme that catalyzes the second step in the biosynthesis of leucine. - Homoaconitase (homoaconitate hydratase), an enzyme that participates in the alpha-aminoadipate pathway of lysine biosynthesis and that converts cis-homoaconitate into homoisocitric acid.
Probab=23.38 E-value=55 Score=21.55 Aligned_cols=12 Identities=25% Similarity=0.310 Sum_probs=9.6
Q ss_pred ceEEEEeCCCce
Q 034226 82 TWHCIVGSNFGN 93 (101)
Q Consensus 82 ~WHcIVGk~FGS 93 (101)
.|-+|.|++||+
T Consensus 16 ~~iiVaG~nfG~ 27 (88)
T cd00404 16 PGVVIGDENYGT 27 (88)
T ss_pred CEEEEecCCeec
Confidence 577788889986
No 66
>KOG0760 consensus Mitochondrial carrier protein MRS3/4 [Energy production and conversion]
Probab=23.23 E-value=22 Score=28.55 Aligned_cols=19 Identities=21% Similarity=0.639 Sum_probs=14.0
Q ss_pred HHHHHHHh---cccCCCceEEE
Q 034226 68 AERIKKDF---DKKHGPTWHCI 86 (101)
Q Consensus 68 A~~IK~~l---DkkyG~~WHcI 86 (101)
++-||+.| ...|++.|+||
T Consensus 132 ~dvVKQR~Qm~~~~y~sv~~ci 153 (302)
T KOG0760|consen 132 FDVVKQRMQMYNSPYKSVWDCI 153 (302)
T ss_pred HHHHHHHHhcccCCCccHHHHH
Confidence 34567665 46799999998
No 67
>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B (BAZ2B) were identified as a novel human bromodomain gene by cDNA library screening. BAZ2A is also known as Tip5 (Transcription termination factor I-interacting protein 5) and hWALp3. The proteins may play roles in transcriptional regulation. Human Tip5 is part of a complex termed NoRC (nucleolar remodeling complex), which induces nucleosome sliding and may play a role in the regulation of the rDNA locus. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=22.97 E-value=1.8e+02 Score=18.64 Aligned_cols=35 Identities=11% Similarity=0.143 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHhCCch---HHHHHHHHHHhcccC
Q 034226 45 DLQKEAVDIAIAAFEKNSVE---KDVAERIKKDFDKKH 79 (101)
Q Consensus 45 emq~~~i~~a~~al~~~~~e---kdiA~~IK~~lDkky 79 (101)
+...++.-+...|..-+... -..|..|++.|++++
T Consensus 60 ef~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~f~~~~ 97 (97)
T cd05503 60 EFAEDVRLVFDNCETFNEDDSEVGRAGHNMRKFFEKRW 97 (97)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence 44444545555565433322 246889999998864
No 68
>cd08071 MPN_DUF2466 Mov34/MPN/PAD-1 family. Mov34 DUF2466 (also known as DNA repair protein RadC) domain of unknown function contains the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. However, to date, the name RadC has been misleading and no function has been determined.
Probab=22.89 E-value=64 Score=21.59 Aligned_cols=30 Identities=27% Similarity=0.305 Sum_probs=18.8
Q ss_pred HHHHHHHHHhcccCCC-ceEEEEeCCCceeeEE
Q 034226 66 DVAERIKKDFDKKHGP-TWHCIVGSNFGNPIYF 97 (101)
Q Consensus 66 diA~~IK~~lDkkyG~-~WHcIVGk~FGS~vt~ 97 (101)
.+.+.|++-+..--=. .=|+|||+ +.|++|
T Consensus 82 ~~T~~l~~~~~~l~i~llDHiIi~~--~~~~S~ 112 (113)
T cd08071 82 ELTKRLKEAGELLGIRLLDHIIVGD--GGYFSF 112 (113)
T ss_pred HHHHHHHHHHHHCCCEEeeEEEEcC--CcEEEe
Confidence 4567777655432222 34999998 777765
No 69
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=22.09 E-value=39 Score=24.75 Aligned_cols=43 Identities=21% Similarity=0.198 Sum_probs=27.9
Q ss_pred EeeCCCCHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHhcccCCC
Q 034226 37 IKSADMKEDLQKEAVDIAIAAFEKNSVEKDVAERIKKDFDKKHGP 81 (101)
Q Consensus 37 I~~sDM~~emq~~~i~~a~~al~~~~~ekdiA~~IK~~lDkkyG~ 81 (101)
|.-.|+--. ..-.+++|..++..+...+ =...|++..|++|..
T Consensus 105 Vvwd~Hg~~-C~vCl~ia~~a~~~~~~Gk-s~~eIR~~ID~kYk~ 147 (158)
T PF13798_consen 105 VVWDDHGTR-CGVCLDIAVQAVQMYQEGK-SPKEIRQYIDEKYKE 147 (158)
T ss_pred eeecccccc-cHHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHh
Confidence 344455443 4556777777777665444 367788889999864
No 70
>TIGR00294 conserved hypothetical protein TIGR00294.
Probab=21.88 E-value=1.5e+02 Score=23.32 Aligned_cols=33 Identities=9% Similarity=-0.063 Sum_probs=26.2
Q ss_pred HHHHHHHHHHhcccCC--CceEEEEeC--CCceeeEE
Q 034226 65 KDVAERIKKDFDKKHG--PTWHCIVGS--NFGNPIYF 97 (101)
Q Consensus 65 kdiA~~IK~~lDkkyG--~~WHcIVGk--~FGS~vt~ 97 (101)
.|++..|+..|.+.++ |.|-.|-.+ ||.|-=-|
T Consensus 251 ED~vR~ia~~l~~~~~~~~~~~~~~v~~~~~ESIH~H 287 (308)
T TIGR00294 251 EDCVRLMAARLVELFPHLPDDTEVECRQINEESIHRH 287 (308)
T ss_pred HHHHHHHHHHHHhccCCCCCceEEEEEecCcccccCC
Confidence 5899999999999977 658888777 99875333
No 71
>cd01576 AcnB_Swivel Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme mechanism. The domain structure of Aconitase B is different from other Aconitases in that he swivel domain that is found at N-terminus of B family is normally found at C-terminus for other Aconitases. In most members of the family, there is also a HEAT domain before domain 4, which is believed to play a role in protein-protein interaction.
Probab=21.76 E-value=45 Score=23.55 Aligned_cols=11 Identities=27% Similarity=0.356 Sum_probs=9.3
Q ss_pred EEEEeCCCcee
Q 034226 84 HCIVGSNFGNP 94 (101)
Q Consensus 84 HcIVGk~FGS~ 94 (101)
-.|+|+|||+=
T Consensus 53 ilvaG~nFG~G 63 (131)
T cd01576 53 VAYVGDVVGTG 63 (131)
T ss_pred EEEECCceeec
Confidence 77889999974
No 72
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=21.75 E-value=43 Score=22.20 Aligned_cols=7 Identities=43% Similarity=1.146 Sum_probs=5.9
Q ss_pred eEEEEeC
Q 034226 83 WHCIVGS 89 (101)
Q Consensus 83 WHcIVGk 89 (101)
=||+||.
T Consensus 90 IhCsIGd 96 (97)
T PF10302_consen 90 IHCSIGD 96 (97)
T ss_pred EEEeccC
Confidence 5999996
No 73
>cd01580 AcnA_IRP_Swivel Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group also includes sequences that have been shown to act as an iron-responsive element (IRE) binding protein in animals and may have the same role in other eukaryotes. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=21.75 E-value=54 Score=24.32 Aligned_cols=16 Identities=19% Similarity=0.538 Sum_probs=13.5
Q ss_pred cCCCceEEEEeCCCce
Q 034226 78 KHGPTWHCIVGSNFGN 93 (101)
Q Consensus 78 kyG~~WHcIVGk~FGS 93 (101)
+-|-.|-+|.|++||+
T Consensus 93 ~~g~plIIvaG~nfG~ 108 (171)
T cd01580 93 EEGVPLVILAGKEYGS 108 (171)
T ss_pred HcCCcEEEEccCcccC
Confidence 4477899999999996
No 74
>COG1498 SIK1 Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]
Probab=21.68 E-value=1.4e+02 Score=24.94 Aligned_cols=41 Identities=17% Similarity=0.238 Sum_probs=34.3
Q ss_pred EeeCCCCHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHhcc
Q 034226 37 IKSADMKEDLQKEAVDIAIAAFEKNSVEKDVAERIKKDFDK 77 (101)
Q Consensus 37 I~~sDM~~emq~~~i~~a~~al~~~~~ekdiA~~IK~~lDk 77 (101)
-.-.+|++.+...|..+|....+.|..-+++..||...|+.
T Consensus 199 SmG~~~~~~Di~~i~~~ae~i~~L~~~R~~l~~Yi~~~M~~ 239 (395)
T COG1498 199 SMGADLSEEDIDNIRELAEIILELYELREQLEEYIESKMSE 239 (395)
T ss_pred ccccCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35679999999999999999888887667899999988764
No 75
>PF09551 Spore_II_R: Stage II sporulation protein R (spore_II_R); InterPro: IPR014202 This entry is designated stage II sporulation protein R. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species. SpoIIR is a signalling protein that links the activation of sigma E to the transcriptional activity of sigma F during sporulation [, ].
Probab=21.28 E-value=3e+02 Score=19.36 Aligned_cols=14 Identities=14% Similarity=0.261 Sum_probs=9.6
Q ss_pred ceEEEEeCCCceee
Q 034226 82 TWHCIVGSNFGNPI 95 (101)
Q Consensus 82 ~WHcIVGk~FGS~v 95 (101)
...+++|+.-|..|
T Consensus 100 AlrI~IG~g~G~NW 113 (130)
T PF09551_consen 100 ALRITIGEGKGHNW 113 (130)
T ss_pred EEEEEecCccCcce
Confidence 46777777777665
No 76
>PF06690 DUF1188: Protein of unknown function (DUF1188); InterPro: IPR009573 This family consists of several hypothetical archaeal proteins of around 260 residues in length, which seem to be specific to Methanobacterium, Methanococcus and Methanopyrus species. The function of this family is unknown.
Probab=20.32 E-value=1.1e+02 Score=24.02 Aligned_cols=25 Identities=20% Similarity=0.255 Sum_probs=18.0
Q ss_pred HHHHHHHHhcccCCCceEEEEeCCCceeeE
Q 034226 67 VAERIKKDFDKKHGPTWHCIVGSNFGNPIY 96 (101)
Q Consensus 67 iA~~IK~~lDkkyG~~WHcIVGk~FGS~vt 96 (101)
-|..||.||+..-.. +|+| ||+|+|
T Consensus 29 Ka~ai~~~le~~~~k--~~lI---~G~Ylt 53 (252)
T PF06690_consen 29 KANAIKYWLEGEEFK--QALI---FGAYLT 53 (252)
T ss_pred HHHHHHHHhcccccc--eEEE---EEEEee
Confidence 477899999977666 7776 466654
No 77
>TIGR03515 GldC gliding motility-associated protein GldC. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldC is a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldC do not abolish the gliding phenotype but do impair it. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=20.22 E-value=3e+02 Score=18.94 Aligned_cols=47 Identities=21% Similarity=0.262 Sum_probs=33.3
Q ss_pred CCCCceEEeeCCCCH-HHHHHHHHHHHHH---HHhCCchHHHHHHHHHHhc
Q 034226 30 QSGKRIIIKSADMKE-DLQKEAVDIAIAA---FEKNSVEKDVAERIKKDFD 76 (101)
Q Consensus 30 ~~~~~i~I~~sDM~~-emq~~~i~~a~~a---l~~~~~ekdiA~~IK~~lD 76 (101)
+...+|-+.--|||- +|+....+..... +.+.+.+++||..||...|
T Consensus 48 k~tlrIDLWTKdMpVdEMK~Ff~qtl~~maDT~~rAT~d~kma~~m~dfcd 98 (108)
T TIGR03515 48 KNTMRIDLWTKDMPVDEMKRFFIETLGGMADTFLNATGDEKMAEDIKDLCD 98 (108)
T ss_pred CceeEEEeecCcCcHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence 345568888999997 6888887765544 3344556778888887765
No 78
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=20.16 E-value=3.5e+02 Score=19.67 Aligned_cols=33 Identities=24% Similarity=0.261 Sum_probs=27.1
Q ss_pred CCCCceEEeeCCCCHHHHHHHHHHHHHHHHhCC
Q 034226 30 QSGKRIIIKSADMKEDLQKEAVDIAIAAFEKNS 62 (101)
Q Consensus 30 ~~~~~i~I~~sDM~~emq~~~i~~a~~al~~~~ 62 (101)
.....+.|...-|++|.+++.++.+....+++.
T Consensus 84 ~dg~~Iri~iP~lT~E~RkelvK~~k~~~E~aK 116 (176)
T TIGR00496 84 NDGSVIRVNFPPLTEERRKELVKHAKKIAEQAK 116 (176)
T ss_pred cCCCEEEecCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 345567888889999999999999988887765
No 79
>PF07999 RHSP: Retrotransposon hot spot protein; InterPro: IPR006518 These sequences are full-length and part-length members of the RHS (retrotransposon hot spot) family in Trypanosoma brucei and Trypanosoma cruzi. Members of this family are frequently interrupted by non-LTR retrotransposons inserted at exactly the same relative position.
Probab=20.08 E-value=26 Score=29.25 Aligned_cols=18 Identities=17% Similarity=0.609 Sum_probs=12.6
Q ss_pred eEEEE-----eCCC--ceeeEEEec
Q 034226 83 WHCIV-----GSNF--GNPIYFHFF 100 (101)
Q Consensus 83 WHcIV-----Gk~F--GS~vt~~~~ 100 (101)
=+++| ||+| |||+.|||-
T Consensus 126 p~vlIGTPGIGKS~~~GS~LLyqLL 150 (439)
T PF07999_consen 126 PFVLIGTPGIGKSFGTGSYLLYQLL 150 (439)
T ss_pred ceEEEecCCcCccccchhhhhhhhh
Confidence 34666 5665 789999973
Done!