Query 035333
Match_columns 67
No_of_seqs 10 out of 12
Neff 1.7
Searched_HMMs 46136
Date Fri Mar 29 11:02:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035333.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035333hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14142 YrzO: YrzO-like prote 89.2 0.64 1.4E-05 28.0 3.2 25 18-45 5-30 (46)
2 PF06783 UPF0239: Uncharacteri 83.3 0.94 2E-05 29.7 1.9 22 13-34 19-42 (85)
3 PF08114 PMP1_2: ATPase proteo 79.7 3 6.4E-05 24.8 3.0 27 16-44 14-40 (43)
4 cd01406 SIR2-like Sir2-like: P 78.5 0.18 4E-06 34.1 -2.7 23 17-39 2-24 (242)
5 PF14110 DUF4282: Domain of un 76.3 3.5 7.7E-05 25.4 2.8 24 12-35 10-33 (90)
6 PF07047 OPA3: Optic atrophy 3 72.2 8.4 0.00018 25.4 4.0 30 18-48 83-112 (134)
7 PF08173 YbgT_YccB: Membrane b 71.6 3.6 7.9E-05 22.2 1.8 17 18-34 4-20 (28)
8 cd02810 DHOD_DHPD_FMN Dihydroo 67.7 1.7 3.7E-05 30.0 -0.0 27 7-33 15-43 (289)
9 cd00296 SIR2 SIR2 superfamily 66.9 0.35 7.7E-06 32.0 -3.4 23 17-39 2-24 (222)
10 PF12065 DUF3545: Protein of u 62.4 10 0.00022 23.5 2.7 20 33-52 25-48 (59)
11 PRK14749 hypothetical protein; 60.3 11 0.00024 20.9 2.4 20 18-37 4-25 (30)
12 TIGR02106 cyd_oper_ybgT cyd op 59.8 15 0.00033 20.1 2.8 22 18-39 4-25 (30)
13 PF01810 LysE: LysE type trans 55.3 11 0.00024 24.2 2.0 37 11-47 54-90 (191)
14 PF12512 DUF3717: Protein of u 51.7 8.5 0.00018 24.3 1.1 10 29-38 10-19 (71)
15 PF04553 Tis11B_N: Tis11B like 50.2 6.3 0.00014 26.8 0.4 17 31-49 84-106 (109)
16 TIGR00949 2A76 The Resistance 49.4 23 0.0005 22.7 2.9 26 12-37 50-75 (185)
17 KOG3648 Golgi apparatus protei 47.8 15 0.00033 32.9 2.4 7 17-23 45-51 (1179)
18 PF08073 CHDNT: CHDNT (NUC034) 47.2 19 0.00041 21.8 2.1 22 7-40 31-52 (55)
19 PF08507 COPI_assoc: COPI asso 46.1 28 0.00061 22.4 2.9 25 13-37 3-27 (136)
20 PRK10958 leucine export protei 43.1 31 0.00068 23.4 2.9 27 11-37 71-97 (212)
21 PF03994 DUF350: Domain of Unk 42.0 31 0.00068 19.0 2.3 30 3-32 25-54 (54)
22 PRK09304 arginine exporter pro 40.3 43 0.00093 22.5 3.2 26 12-37 65-90 (207)
23 COG1279 Lysine efflux permease 40.1 37 0.00081 25.0 3.1 31 11-41 64-94 (202)
24 PF11298 DUF3099: Protein of u 39.0 21 0.00045 22.3 1.4 15 15-29 25-39 (73)
25 TIGR00948 2a75 L-lysine export 38.6 51 0.0011 21.3 3.2 26 12-37 51-76 (177)
26 PF11003 DUF2842: Protein of u 37.9 28 0.00061 20.9 1.8 18 11-28 30-47 (62)
27 TIGR02983 SigE-fam_strep RNA p 36.2 41 0.00089 20.6 2.4 18 25-42 59-76 (162)
28 PF05598 DUF772: Transposase d 35.5 56 0.0012 18.3 2.8 21 16-36 36-60 (77)
29 PF14527 LAGLIDADG_WhiA: WhiA 35.4 29 0.00062 21.6 1.6 28 12-46 64-91 (93)
30 TIGR01037 pyrD_sub1_fam dihydr 35.3 13 0.00027 26.1 0.0 23 7-29 17-41 (300)
31 cd04741 DHOD_1A_like Dihydroor 34.7 13 0.00028 26.7 0.0 26 7-32 15-42 (294)
32 COG1280 RhtB Putative threonin 34.7 52 0.0011 22.4 3.0 27 12-38 68-94 (208)
33 PRK00888 ftsB cell division pr 34.2 98 0.0021 19.7 4.0 9 34-42 28-36 (105)
34 PRK01637 hypothetical protein; 33.6 69 0.0015 22.7 3.5 41 13-53 243-283 (286)
35 COG3346 Uncharacterized conser 32.1 1.3E+02 0.0029 22.6 4.9 46 2-50 2-51 (252)
36 PRK12542 RNA polymerase sigma 31.7 56 0.0012 20.8 2.6 19 25-43 64-82 (185)
37 COG2875 CobM Precorrin-4 methy 31.7 9.4 0.0002 29.3 -1.2 9 17-25 3-11 (254)
38 PHA03170 UL37 tegument protein 31.2 38 0.00083 26.6 2.1 38 8-45 252-289 (293)
39 PF14774 FAM177: FAM177 family 31.1 74 0.0016 21.5 3.2 39 12-50 74-118 (123)
40 cd01412 SIRT5_Af1_CobB SIRT5_A 31.0 3.5 7.6E-05 28.0 -3.2 21 17-37 2-22 (224)
41 KOG3957 Predicted L-carnitine 30.2 38 0.00083 27.5 1.9 31 1-33 136-166 (387)
42 cd02940 DHPD_FMN Dihydropyrimi 30.2 18 0.0004 25.7 0.2 27 7-33 18-46 (299)
43 PRK09644 RNA polymerase sigma 29.2 63 0.0014 20.0 2.5 20 24-43 52-71 (165)
44 cd00929 Cyt_c_Oxidase_VIIc Cyt 28.7 77 0.0017 18.3 2.6 21 16-36 23-43 (46)
45 PRK02506 dihydroorotate dehydr 28.5 19 0.0004 26.2 -0.0 26 7-32 18-45 (310)
46 cd01413 SIR2_Af2 SIR2_Af2: Arc 28.0 4.2 9E-05 28.1 -3.3 21 17-37 6-26 (222)
47 PRK13467 F0F1 ATP synthase sub 27.6 59 0.0013 20.0 2.1 28 5-32 29-56 (66)
48 PF06374 NDUF_C2: NADH-ubiquin 27.2 87 0.0019 21.2 3.0 29 10-38 49-78 (117)
49 PRK10229 threonine efflux syst 27.2 91 0.002 20.5 3.1 26 12-37 67-92 (206)
50 PRK13743 conjugal transfer pro 26.8 52 0.0011 23.6 1.9 20 19-38 93-112 (141)
51 PF04645 DUF603: Protein of un 26.7 1.1E+02 0.0025 22.5 3.8 37 9-47 78-114 (181)
52 PRK09415 RNA polymerase factor 26.6 74 0.0016 20.3 2.5 19 25-43 69-87 (179)
53 PRK12532 RNA polymerase sigma 24.6 87 0.0019 20.0 2.5 18 25-42 59-76 (195)
54 KOG4164 Cyclin ik3-1/CABLES [C 23.9 98 0.0021 26.0 3.3 29 22-50 428-456 (497)
55 PRK09645 RNA polymerase sigma 23.2 97 0.0021 19.2 2.5 18 25-42 63-80 (173)
56 cd08320 Pyrin_NALPs Pyrin deat 23.1 1.9E+02 0.0041 17.9 3.8 34 18-51 51-84 (86)
57 PRK10591 hypothetical protein; 23.0 1.1E+02 0.0024 20.3 2.9 31 12-42 41-72 (92)
58 COG0846 SIR2 NAD-dependent pro 23.0 6.3 0.00014 28.9 -3.3 22 16-37 13-34 (250)
59 PF10562 CaM_bdg_C0: Calmoduli 22.9 62 0.0014 17.8 1.4 10 28-37 17-26 (29)
60 PRK07259 dihydroorotate dehydr 22.0 23 0.00051 24.8 -0.5 27 7-33 18-46 (301)
61 PRK08318 dihydropyrimidine deh 22.0 28 0.00061 25.8 -0.1 26 7-33 20-48 (420)
62 PF10300 DUF3808: Protein of u 21.7 48 0.001 25.5 1.1 12 13-24 189-200 (468)
63 PRK12527 RNA polymerase sigma 21.5 1.1E+02 0.0025 18.7 2.6 19 25-43 47-65 (159)
64 PF01881 Cas_Cas6: CRISPR asso 21.4 50 0.0011 21.1 0.9 17 12-28 129-145 (155)
65 PRK07558 F0F1 ATP synthase sub 21.3 96 0.0021 19.2 2.2 27 6-32 36-62 (74)
66 KOG0622 Ornithine decarboxylas 21.3 47 0.001 27.4 1.0 20 11-30 90-109 (448)
67 PRK13466 F0F1 ATP synthase sub 21.0 95 0.0021 19.0 2.1 27 6-32 30-56 (66)
68 KOG1574 Predicted cell growth/ 20.7 22 0.00048 28.6 -1.0 10 32-41 48-57 (375)
69 PRK10520 rhtB homoserine/homos 20.6 1.4E+02 0.003 19.7 3.0 26 12-37 68-93 (205)
70 TIGR01877 cas_cas6 CRISPR-asso 20.2 67 0.0014 20.2 1.3 16 14-29 177-192 (199)
71 PF04437 RINT1_TIP1: RINT-1 / 20.2 2E+02 0.0042 22.0 4.0 25 25-49 126-151 (494)
72 COG3671 Predicted membrane pro 20.2 97 0.0021 21.8 2.2 21 18-38 82-102 (125)
No 1
>PF14142 YrzO: YrzO-like protein
Probab=89.23 E-value=0.64 Score=28.00 Aligned_cols=25 Identities=44% Similarity=0.841 Sum_probs=18.2
Q ss_pred HHHhhhhhhhHH-HHHHHHHHHHHHHHHH
Q 035333 18 FLYFVGAGFICT-AAINKWRELERKSLQK 45 (67)
Q Consensus 18 ~~yFVGAg~icT-~aINk~re~Erks~~~ 45 (67)
+++|+.+|+.|- +|||.- -||.|-|
T Consensus 5 llff~a~gvacelaainrn---grk~ikq 30 (46)
T PF14142_consen 5 LLFFFAAGVACELAAINRN---GRKKIKQ 30 (46)
T ss_pred HHHHHHHHHHHHHHHHhhh---hHHHHHH
Confidence 689999999996 578853 3555543
No 2
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=83.28 E-value=0.94 Score=29.75 Aligned_cols=22 Identities=50% Similarity=0.742 Sum_probs=18.8
Q ss_pred hhHHHHHHhhhhhh--hHHHHHHH
Q 035333 13 TKVLRFLYFVGAGF--ICTAAINK 34 (67)
Q Consensus 13 ~k~lR~~yFVGAg~--icT~aINk 34 (67)
..|||.-.||||-| ||-.||=-
T Consensus 19 e~llRYGLf~GAIFQliCilAiI~ 42 (85)
T PF06783_consen 19 ENLLRYGLFVGAIFQLICILAIIL 42 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHheee
Confidence 46899999999986 99999854
No 3
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=79.75 E-value=3 Score=24.85 Aligned_cols=27 Identities=26% Similarity=0.507 Sum_probs=20.4
Q ss_pred HHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Q 035333 16 LRFLYFVGAGFICTAAINKWRELERKSLQ 44 (67)
Q Consensus 16 lR~~yFVGAg~icT~aINk~re~Erks~~ 44 (67)
.=++..||-|.+||++-+||.. ||..+
T Consensus 14 F~lVglv~i~iva~~iYRKw~a--Rkr~l 40 (43)
T PF08114_consen 14 FCLVGLVGIGIVALFIYRKWQA--RKRAL 40 (43)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH--HHHHH
Confidence 3456778999999999999964 44433
No 4
>cd01406 SIR2-like Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation.
Probab=78.46 E-value=0.18 Score=34.07 Aligned_cols=23 Identities=35% Similarity=0.778 Sum_probs=19.2
Q ss_pred HHHHhhhhhhhHHHHHHHHHHHH
Q 035333 17 RFLYFVGAGFICTAAINKWRELE 39 (67)
Q Consensus 17 R~~yFVGAg~icT~aINk~re~E 39 (67)
|++.|||||+--...+=.|+++=
T Consensus 2 ~lvlFiGAG~S~~~glP~W~~Ll 24 (242)
T cd01406 2 RVVIFVGAGVSVSSGLPDWKTLL 24 (242)
T ss_pred CEEEEecCccccccCCCChHHHH
Confidence 46789999999888888898763
No 5
>PF14110 DUF4282: Domain of unknown function (DUF4282)
Probab=76.26 E-value=3.5 Score=25.40 Aligned_cols=24 Identities=21% Similarity=0.502 Sum_probs=20.4
Q ss_pred chhHHHHHHhhhhhhhHHHHHHHH
Q 035333 12 GTKVLRFLYFVGAGFICTAAINKW 35 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~icT~aINk~ 35 (67)
.||+++++|.+|..+++-.++..+
T Consensus 10 Tp~ii~~~Y~l~li~i~l~~~~~~ 33 (90)
T PF14110_consen 10 TPKIIKVLYWLGLILIVLSGLSGI 33 (90)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHH
Confidence 699999999999999887776543
No 6
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=72.25 E-value=8.4 Score=25.35 Aligned_cols=30 Identities=27% Similarity=0.329 Sum_probs=18.7
Q ss_pred HHHhhhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 035333 18 FLYFVGAGFICTAAINKWRELERKSLQKKQQ 48 (67)
Q Consensus 18 ~~yFVGAg~icT~aINk~re~Erks~~~qqQ 48 (67)
|+|.||+|+|+-- .++.+.-|++.-..++|
T Consensus 83 fiF~Va~~li~~E-~~Rs~~ke~~Ke~~~~~ 112 (134)
T PF07047_consen 83 FIFSVAAGLIIYE-YWRSARKEAKKEEELQE 112 (134)
T ss_pred HHHHHHHHHHHHH-HHHHHhhHHHHHHHHHH
Confidence 6788999988865 55555555554444433
No 7
>PF08173 YbgT_YccB: Membrane bound YbgT-like protein; InterPro: IPR012994 This family contains a set of membrane proteins, typically 33 amino acids long. The family has no known function, but the protein is found in the operon CydAB in Escherichia coli. Members have a consensus motif (MWYFXW), which is rich in aromatic residues. The protein forms a single membrane-spanning helix. This family seems to be restricted to proteobacteria [].
Probab=71.64 E-value=3.6 Score=22.23 Aligned_cols=17 Identities=24% Similarity=0.555 Sum_probs=13.7
Q ss_pred HHHhhhhhhhHHHHHHH
Q 035333 18 FLYFVGAGFICTAAINK 34 (67)
Q Consensus 18 ~~yFVGAg~icT~aINk 34 (67)
|..++|.++.|+++|=.
T Consensus 4 faWilG~~lA~~~~i~~ 20 (28)
T PF08173_consen 4 FAWILGVLLACAFGILN 20 (28)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 55679999999999743
No 8
>cd02810 DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass its homodimeric interface twice. Two of
Probab=67.68 E-value=1.7 Score=29.95 Aligned_cols=27 Identities=19% Similarity=0.301 Sum_probs=23.1
Q ss_pred ccCCC--chhHHHHHHhhhhhhhHHHHHH
Q 035333 7 ASGPA--GTKVLRFLYFVGAGFICTAAIN 33 (67)
Q Consensus 7 ~~Gpa--~~k~lR~~yFVGAg~icT~aIN 33 (67)
++||. ...++|.++.-|+|+++|+.|-
T Consensus 15 aag~~~~~~~~~~~~~~~g~g~vv~kti~ 43 (289)
T cd02810 15 AAGPLLKTGELIARAAAAGFGAVVYKTVT 43 (289)
T ss_pred CCCCCCCCHHHHHHHHHcCCCeEEeCccc
Confidence 57887 6788999999999999998764
No 9
>cd00296 SIR2 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer. Also included in this superfamily is a group of uncharacterized Sir2-like proteins which lack certain key catalytic
Probab=66.93 E-value=0.35 Score=31.99 Aligned_cols=23 Identities=35% Similarity=0.618 Sum_probs=20.2
Q ss_pred HHHHhhhhhhhHHHHHHHHHHHH
Q 035333 17 RFLYFVGAGFICTAAINKWRELE 39 (67)
Q Consensus 17 R~~yFVGAg~icT~aINk~re~E 39 (67)
|++.|.|||+-....|=.||+..
T Consensus 2 ~iv~~tGAGiS~~sGiP~fr~~~ 24 (222)
T cd00296 2 RVVVFTGAGISTESGIPDFRGLG 24 (222)
T ss_pred CEEEEeCCccccccCCCCccccc
Confidence 46789999999999999999776
No 10
>PF12065 DUF3545: Protein of unknown function (DUF3545); InterPro: IPR021932 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 60 to 77 amino acids in length. This protein has two completely conserved residues (R and L) that may be functionally important.
Probab=62.45 E-value=10 Score=23.47 Aligned_cols=20 Identities=50% Similarity=0.969 Sum_probs=12.4
Q ss_pred HHHHHHH----HHHHHHHHhhhhh
Q 035333 33 NKWRELE----RKSLQKKQQESDL 52 (67)
Q Consensus 33 Nk~re~E----rks~~~qqQq~~~ 52 (67)
-||||+| |..|++.-|+-|.
T Consensus 25 RKWREIEAikDr~rL~kEL~d~D~ 48 (59)
T PF12065_consen 25 RKWREIEAIKDRQRLRKELQDMDM 48 (59)
T ss_pred hhHHHHHHHHHHHHHHHHHHHccc
Confidence 4899998 4445555554444
No 11
>PRK14749 hypothetical protein; Provisional
Probab=60.27 E-value=11 Score=20.90 Aligned_cols=20 Identities=30% Similarity=0.811 Sum_probs=15.8
Q ss_pred HHHhhhhhhhHHHHHHH--HHH
Q 035333 18 FLYFVGAGFICTAAINK--WRE 37 (67)
Q Consensus 18 ~~yFVGAg~icT~aINk--~re 37 (67)
|..++|-++.|.++|=. |-|
T Consensus 4 faWiLG~~lAc~f~ilna~w~E 25 (30)
T PRK14749 4 LLWFVGILLMCSLSTLVLVWLD 25 (30)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 56789999999999854 544
No 12
>TIGR02106 cyd_oper_ybgT cyd operon protein YbgT. This model describes a very small (as short as 33 amino acids) protein of unknown function, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It begins with an aromatic motif MWYFXW and appears to contain a membrane-spanning helix. This protein appears to be restricted to the Proteobacteria and exist in a single copy only. We suggest it may be a membrane subunit of the terminal oxidase. The family is named after the E. coli member YbgT. This model excludes the apparently related protein YccB.
Probab=59.80 E-value=15 Score=20.11 Aligned_cols=22 Identities=23% Similarity=0.394 Sum_probs=16.0
Q ss_pred HHHhhhhhhhHHHHHHHHHHHH
Q 035333 18 FLYFVGAGFICTAAINKWRELE 39 (67)
Q Consensus 18 ~~yFVGAg~icT~aINk~re~E 39 (67)
|..++|.+++|++||=.=--+|
T Consensus 4 faWilG~~lA~~~~v~~a~w~E 25 (30)
T TIGR02106 4 FAWILGTLLACAFGVLNAMWLE 25 (30)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4567999999999975433344
No 13
>PF01810 LysE: LysE type translocator; InterPro: IPR001123 Lysine exporter protein is involved in the efflux of excess L-lysine as a control for intracellular levels of L-lysine. A number of proteins belong to this family. These include the chemotactic transduction protein from Pseudomonas aeruginosa, the threonine efflux protein and a number of uncharacterised proteins from a variety of sources.; GO: 0006865 amino acid transport, 0016020 membrane
Probab=55.27 E-value=11 Score=24.17 Aligned_cols=37 Identities=11% Similarity=0.105 Sum_probs=30.2
Q ss_pred CchhHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 035333 11 AGTKVLRFLYFVGAGFICTAAINKWRELERKSLQKKQ 47 (67)
Q Consensus 11 a~~k~lR~~yFVGAg~icT~aINk~re~Erks~~~qq 47 (67)
..|.++..+.++|+.++.-.++..||.-.+....+++
T Consensus 54 ~~~~~~~~l~~~G~~~L~~lg~~~~~~~~~~~~~~~~ 90 (191)
T PF01810_consen 54 SSPWLFMILKLLGALYLLYLGYKLLRSKFSSKSSTQS 90 (191)
T ss_pred hChHHHHHHHHHHHHHHHHHHHHHHhcccCcchhhhh
Confidence 3688999999999999999999999987665554443
No 14
>PF12512 DUF3717: Protein of unknown function (DUF3717) ; InterPro: IPR022191 This family of proteins is found in bacteria. Proteins in this family are typically between 75 and 117 amino acids in length. There is a conserved AIN sequence motif. There are two completely conserved residues (L and Y) that may be functionally important.
Probab=51.71 E-value=8.5 Score=24.29 Aligned_cols=10 Identities=60% Similarity=0.903 Sum_probs=7.9
Q ss_pred HHHHHHHHHH
Q 035333 29 TAAINKWREL 38 (67)
Q Consensus 29 T~aINk~re~ 38 (67)
-.|||-||.-
T Consensus 10 E~AIN~WR~r 19 (71)
T PF12512_consen 10 EAAINYWRAR 19 (71)
T ss_pred HHHHHHHHhc
Confidence 3699999963
No 15
>PF04553 Tis11B_N: Tis11B like protein, N terminus; InterPro: IPR007635 All proteins of containing this domain also contain a tandem repeat of CCCH zinc fingers (IPR000571 from INTERPRO). Tis11B, Tis11D and their homologues are thought to be regulatory proteins involved in the response to growth factors []. Tis11B (Q07352 from SWISSPROT) is thought to be involved in calcium signalling-induced apoptosis in B cells []. The function of this N-terminal domain is unknown.
Probab=50.20 E-value=6.3 Score=26.84 Aligned_cols=17 Identities=47% Similarity=0.657 Sum_probs=10.9
Q ss_pred HHHHHHHH------HHHHHHHHHhh
Q 035333 31 AINKWREL------ERKSLQKKQQE 49 (67)
Q Consensus 31 aINk~re~------Erks~~~qqQq 49 (67)
==||+||- || |++||||
T Consensus 84 KEnKfRDRsFSE~GeR--Llqqqq~ 106 (109)
T PF04553_consen 84 KENKFRDRSFSENGER--LLQQQQQ 106 (109)
T ss_pred ccccccccccccchHH--HHHHhhc
Confidence 34788874 77 6665544
No 16
>TIGR00949 2A76 The Resistance to Homoserine/Threonine (RhtB) Family protein.
Probab=49.39 E-value=23 Score=22.70 Aligned_cols=26 Identities=12% Similarity=0.367 Sum_probs=23.5
Q ss_pred chhHHHHHHhhhhhhhHHHHHHHHHH
Q 035333 12 GTKVLRFLYFVGAGFICTAAINKWRE 37 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~icT~aINk~re 37 (67)
.|.++..+.++|+.++.-.|+..||+
T Consensus 50 ~~~~~~~l~~~Ga~yLl~lg~~~~~~ 75 (185)
T TIGR00949 50 SVILFTVIKWLGGAYLIYLGIKMLRK 75 (185)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 47788999999999999999999985
No 17
>KOG3648 consensus Golgi apparatus protein (cysteine-rich fibroblast growth factor receptor) [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.85 E-value=15 Score=32.88 Aligned_cols=7 Identities=57% Similarity=1.151 Sum_probs=5.3
Q ss_pred HHHHhhh
Q 035333 17 RFLYFVG 23 (67)
Q Consensus 17 R~~yFVG 23 (67)
-|++|||
T Consensus 45 ~~~~~~~ 51 (1179)
T KOG3648|consen 45 NFVSFVG 51 (1179)
T ss_pred chhhhcc
Confidence 4788887
No 18
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=47.21 E-value=19 Score=21.85 Aligned_cols=22 Identities=27% Similarity=0.579 Sum_probs=16.4
Q ss_pred ccCCCchhHHHHHHhhhhhhhHHHHHHHHHHHHH
Q 035333 7 ASGPAGTKVLRFLYFVGAGFICTAAINKWRELER 40 (67)
Q Consensus 7 ~~Gpa~~k~lR~~yFVGAg~icT~aINk~re~Er 40 (67)
.+|-+.+|+++++ + -|||||..
T Consensus 31 NPk~~~sKl~~l~---~---------AKwrEF~~ 52 (55)
T PF08073_consen 31 NPKAPMSKLMMLL---Q---------AKWREFQE 52 (55)
T ss_pred CCCCcHHHHHHHH---H---------HHHHHHHh
Confidence 5777888998884 3 29999853
No 19
>PF08507 COPI_assoc: COPI associated protein; InterPro: IPR013714 Proteins in this family co-localise with COPI vesicle coat proteins []. In yeast it is a Golgi membrane protein involved in vesicular trafficking, interacting with TVP18 [].
Probab=46.08 E-value=28 Score=22.38 Aligned_cols=25 Identities=16% Similarity=0.246 Sum_probs=21.3
Q ss_pred hhHHHHHHhhhhhhhHHHHHHHHHH
Q 035333 13 TKVLRFLYFVGAGFICTAAINKWRE 37 (67)
Q Consensus 13 ~k~lR~~yFVGAg~icT~aINk~re 37 (67)
++++|++.++.|++.+..+|-..-.
T Consensus 3 ~~~~r~~~~~~~~~~i~~gi~~l~~ 27 (136)
T PF08507_consen 3 KNIFRILNIIAGILLILAGILSLFN 27 (136)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6899999999999999888876554
No 20
>PRK10958 leucine export protein LeuE; Provisional
Probab=43.07 E-value=31 Score=23.36 Aligned_cols=27 Identities=15% Similarity=0.370 Sum_probs=24.2
Q ss_pred CchhHHHHHHhhhhhhhHHHHHHHHHH
Q 035333 11 AGTKVLRFLYFVGAGFICTAAINKWRE 37 (67)
Q Consensus 11 a~~k~lR~~yFVGAg~icT~aINk~re 37 (67)
..|-++-.+.++|+++++-.|++-||+
T Consensus 71 ~~p~~~~~l~~~G~~yL~~la~~~~~~ 97 (212)
T PRK10958 71 ATPLLFNVVKYLGAAYLLYLGVKMLRA 97 (212)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 357788899999999999999999987
No 21
>PF03994 DUF350: Domain of Unknown Function (DUF350) ; InterPro: IPR007140 This motif occurs in a small set of bacterial proteins. It has two transmembrane regions, and often occurs as tandem repeats. The are no conserved catalytic residues.
Probab=42.00 E-value=31 Score=19.03 Aligned_cols=30 Identities=30% Similarity=0.455 Sum_probs=25.0
Q ss_pred ccccccCCCchhHHHHHHhhhhhhhHHHHH
Q 035333 3 GEEMASGPAGTKVLRFLYFVGAGFICTAAI 32 (67)
Q Consensus 3 gee~~~Gpa~~k~lR~~yFVGAg~icT~aI 32 (67)
.||...|..+--++-...++|-|+|...||
T Consensus 25 ~~eI~~~N~a~ai~~~~~~ia~~lii~~ai 54 (54)
T PF03994_consen 25 REEIKKGNVAAAIVLAGIFIAIGLIIAAAI 54 (54)
T ss_pred HHHHhCCCcCHHHHHHHHHHHHHHHHHHHC
Confidence 366678888888999999999999987775
No 22
>PRK09304 arginine exporter protein; Provisional
Probab=40.27 E-value=43 Score=22.46 Aligned_cols=26 Identities=12% Similarity=0.282 Sum_probs=23.9
Q ss_pred chhHHHHHHhhhhhhhHHHHHHHHHH
Q 035333 12 GTKVLRFLYFVGAGFICTAAINKWRE 37 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~icT~aINk~re 37 (67)
.|.++..+-++||..++--|++-||.
T Consensus 65 ~p~~~~~l~~~Ga~YLlyLg~~~~rs 90 (207)
T PRK09304 65 SPWLLALVTWGGVAFLLWYGFGAFKT 90 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888899999999999999999996
No 23
>COG1279 Lysine efflux permease [General function prediction only]
Probab=40.09 E-value=37 Score=24.98 Aligned_cols=31 Identities=16% Similarity=0.208 Sum_probs=27.0
Q ss_pred CchhHHHHHHhhhhhhhHHHHHHHHHHHHHH
Q 035333 11 AGTKVLRFLYFVGAGFICTAAINKWRELERK 41 (67)
Q Consensus 11 a~~k~lR~~yFVGAg~icT~aINk~re~Erk 41 (67)
..|.++=++.++|+.|++-.+...||.-=|.
T Consensus 64 ~~p~l~~i~~~~G~~FLl~yg~~a~~~a~~~ 94 (202)
T COG1279 64 KSPWLLLIVRWGGAAFLLYYGLLALKSAPRG 94 (202)
T ss_pred hCHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 3578888999999999999999999987664
No 24
>PF11298 DUF3099: Protein of unknown function (DUF3099); InterPro: IPR021449 Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is known.
Probab=38.96 E-value=21 Score=22.30 Aligned_cols=15 Identities=27% Similarity=0.308 Sum_probs=12.5
Q ss_pred HHHHHHhhhhhhhHH
Q 035333 15 VLRFLYFVGAGFICT 29 (67)
Q Consensus 15 ~lR~~yFVGAg~icT 29 (67)
.+|+++|++|++.-.
T Consensus 25 ~~Ri~~fvlA~~~~~ 39 (73)
T PF11298_consen 25 GIRIPCFVLAAVVYR 39 (73)
T ss_pred HHHHHHHHHHHHHHh
Confidence 579999999998764
No 25
>TIGR00948 2a75 L-lysine exporter.
Probab=38.62 E-value=51 Score=21.27 Aligned_cols=26 Identities=19% Similarity=0.135 Sum_probs=23.4
Q ss_pred chhHHHHHHhhhhhhhHHHHHHHHHH
Q 035333 12 GTKVLRFLYFVGAGFICTAAINKWRE 37 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~icT~aINk~re 37 (67)
.|-+.-.+-++||+++.--|+..||.
T Consensus 51 ~p~~~~~l~~~Ga~YLlylg~~~~r~ 76 (177)
T TIGR00948 51 SPILLAVLTWGGALFLLWYGFLAAKT 76 (177)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888999999999999999987
No 26
>PF11003 DUF2842: Protein of unknown function (DUF2842); InterPro: IPR021265 This bacterial family of proteins have no known function.
Probab=37.94 E-value=28 Score=20.93 Aligned_cols=18 Identities=17% Similarity=0.366 Sum_probs=16.0
Q ss_pred CchhHHHHHHhhhhhhhH
Q 035333 11 AGTKVLRFLYFVGAGFIC 28 (67)
Q Consensus 11 a~~k~lR~~yFVGAg~ic 28 (67)
..|..+-++|||.+|++=
T Consensus 30 ~~~~~~~l~~Yvv~G~~W 47 (62)
T PF11003_consen 30 RWPWWVQLIYYVVLGLLW 47 (62)
T ss_pred CchHHHHHHHHHHHHHHH
Confidence 678999999999999874
No 27
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=36.17 E-value=41 Score=20.60 Aligned_cols=18 Identities=17% Similarity=0.224 Sum_probs=15.7
Q ss_pred hhhHHHHHHHHHHHHHHH
Q 035333 25 GFICTAAINKWRELERKS 42 (67)
Q Consensus 25 g~icT~aINk~re~Erks 42 (67)
+.+++.+.|++.++-|+.
T Consensus 59 ~wl~~i~~n~~~d~~rk~ 76 (162)
T TIGR02983 59 AYVRRVLVNLARSRWRRR 76 (162)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 578999999999998865
No 28
>PF05598 DUF772: Transposase domain (DUF772); InterPro: IPR008490 This presumed domain is found at the N terminus of transposase insH and other related transposases.
Probab=35.53 E-value=56 Score=18.30 Aligned_cols=21 Identities=29% Similarity=0.616 Sum_probs=14.2
Q ss_pred HHHHHhhh----hhhhHHHHHHHHH
Q 035333 16 LRFLYFVG----AGFICTAAINKWR 36 (67)
Q Consensus 16 lR~~yFVG----Ag~icT~aINk~r 36 (67)
+++-||.| ..+..-..|.++|
T Consensus 36 ~~~r~~~g~~~~~~~pd~stl~rfr 60 (77)
T PF05598_consen 36 LSFRYFCGLSLEEPVPDHSTLSRFR 60 (77)
T ss_pred hHHHHHHhcccCCCCCChHHHHHHH
Confidence 45667777 6667777777776
No 29
>PF14527 LAGLIDADG_WhiA: WhiA LAGLIDADG-like domain; PDB: 3HYI_A 3HYJ_D.
Probab=35.39 E-value=29 Score=21.58 Aligned_cols=28 Identities=21% Similarity=0.386 Sum_probs=21.2
Q ss_pred chhHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHH
Q 035333 12 GTKVLRFLYFVGAGFICTAAINKWRELERKSLQKK 46 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~icT~aINk~re~Erks~~~q 46 (67)
+.++.+|+.++|| .+.+.++|...+++.
T Consensus 64 ~e~I~dfL~~iGA-------~~s~~~~E~~ri~r~ 91 (93)
T PF14527_consen 64 SEQISDFLKLIGA-------HKSVLEFENIRIMRE 91 (93)
T ss_dssp HHHHHHHHHHTT---------CHCCHHHHHHHHH-
T ss_pred HHHHHHHHHHcCh-------HHHHHHHHHHHHhcc
Confidence 4578999999995 688889998888764
No 30
>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein. This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase.
Probab=35.34 E-value=13 Score=26.09 Aligned_cols=23 Identities=43% Similarity=0.507 Sum_probs=18.0
Q ss_pred ccCCC--chhHHHHHHhhhhhhhHH
Q 035333 7 ASGPA--GTKVLRFLYFVGAGFICT 29 (67)
Q Consensus 7 ~~Gpa--~~k~lR~~yFVGAg~icT 29 (67)
++||. ....+|.+.--|+|+++|
T Consensus 17 aag~~~~~~~~~~~~~~~G~g~iv~ 41 (300)
T TIGR01037 17 ASGIMGSGVESLRRIDRSGAGAVVT 41 (300)
T ss_pred CCcCCCCCHHHHHHHHHcCCcEEEe
Confidence 56664 347788888889999999
No 31
>cd04741 DHOD_1A_like Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.
Probab=34.73 E-value=13 Score=26.68 Aligned_cols=26 Identities=27% Similarity=0.201 Sum_probs=19.2
Q ss_pred ccCCC--chhHHHHHHhhhhhhhHHHHH
Q 035333 7 ASGPA--GTKVLRFLYFVGAGFICTAAI 32 (67)
Q Consensus 7 ~~Gpa--~~k~lR~~yFVGAg~icT~aI 32 (67)
++||. ....+|.++--|+|+++|+.|
T Consensus 15 Asg~~~~~~e~~~~~~~~G~Gavv~kti 42 (294)
T cd04741 15 AAGPWCTTLEDLLELAASSTGAVTTRSS 42 (294)
T ss_pred CCCCCCCCHHHHHHHHHcCCcEEEeCcc
Confidence 57883 336777777789999998765
No 32
>COG1280 RhtB Putative threonine efflux protein [Amino acid transport and metabolism]
Probab=34.69 E-value=52 Score=22.43 Aligned_cols=27 Identities=15% Similarity=0.240 Sum_probs=24.4
Q ss_pred chhHHHHHHhhhhhhhHHHHHHHHHHH
Q 035333 12 GTKVLRFLYFVGAGFICTAAINKWREL 38 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~icT~aINk~re~ 38 (67)
+|.+...+.++||+.++--+++.||.-
T Consensus 68 ~~~~f~~lk~~GaaYL~ylg~~~~ra~ 94 (208)
T COG1280 68 SPALFTVLKLAGAAYLLYLGWKALRAG 94 (208)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 578889999999999999999999964
No 33
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=34.22 E-value=98 Score=19.75 Aligned_cols=9 Identities=0% Similarity=0.235 Sum_probs=5.0
Q ss_pred HHHHHHHHH
Q 035333 34 KWRELERKS 42 (67)
Q Consensus 34 k~re~Erks 42 (67)
.|++++++-
T Consensus 28 ~~~~l~~q~ 36 (105)
T PRK00888 28 DYWRVNDQV 36 (105)
T ss_pred HHHHHHHHH
Confidence 566665543
No 34
>PRK01637 hypothetical protein; Reviewed
Probab=33.58 E-value=69 Score=22.68 Aligned_cols=41 Identities=22% Similarity=0.104 Sum_probs=27.7
Q ss_pred hhHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 035333 13 TKVLRFLYFVGAGFICTAAINKWRELERKSLQKKQQESDLL 53 (67)
Q Consensus 13 ~k~lR~~yFVGAg~icT~aINk~re~Erks~~~qqQq~~~~ 53 (67)
+-+|=.+|+.+.-++.-+.+|...+-.|...+--+||+|.+
T Consensus 243 i~lllWlyl~~~ilL~Gaelna~~~~~~~~~~~~~~~~~~~ 283 (286)
T PRK01637 243 PILFVWVYLSWCIVLLGAEITATLGEYRKLKQAAEQEEDDE 283 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccc
Confidence 44566788888888888888877765444444455666543
No 35
>COG3346 Uncharacterized conserved protein [Function unknown]
Probab=32.15 E-value=1.3e+02 Score=22.62 Aligned_cols=46 Identities=15% Similarity=0.148 Sum_probs=28.3
Q ss_pred cccccccCCCchhHHHHHHhhh-hhhhHHHHHHHH---HHHHHHHHHHHHhhh
Q 035333 2 TGEEMASGPAGTKVLRFLYFVG-AGFICTAAINKW---RELERKSLQKKQQES 50 (67)
Q Consensus 2 tgee~~~Gpa~~k~lR~~yFVG-Ag~icT~aINk~---re~Erks~~~qqQq~ 50 (67)
+.+-....+.++++| .++| +.++|+.+.-+| |..++..++.+-++.
T Consensus 2 ~~~~~~~~~~~~~~l---~~l~~~~~~il~~LGtWQl~Rl~wK~~lia~ie~r 51 (252)
T COG3346 2 NLEASTRRRRWLALL---LLLVLATFAILLGLGTWQLQRLHWKLALIARIEAR 51 (252)
T ss_pred CccccccccchhHHH---HHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHH
Confidence 344444456666666 3444 778999999999 445555555554444
No 36
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=31.72 E-value=56 Score=20.78 Aligned_cols=19 Identities=32% Similarity=0.219 Sum_probs=16.1
Q ss_pred hhhHHHHHHHHHHHHHHHH
Q 035333 25 GFICTAAINKWRELERKSL 43 (67)
Q Consensus 25 g~icT~aINk~re~Erks~ 43 (67)
+++++.|.|++.++=|+.-
T Consensus 64 ~wL~~Iarn~~~d~~Rk~~ 82 (185)
T PRK12542 64 RYILRVAKNKAIDSYRKNK 82 (185)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 5789999999999888764
No 37
>COG2875 CobM Precorrin-4 methylase [Coenzyme metabolism]
Probab=31.71 E-value=9.4 Score=29.32 Aligned_cols=9 Identities=56% Similarity=1.121 Sum_probs=6.8
Q ss_pred HHHHhhhhh
Q 035333 17 RFLYFVGAG 25 (67)
Q Consensus 17 R~~yFVGAg 25 (67)
+-+||||||
T Consensus 3 ~~VyFIGAG 11 (254)
T COG2875 3 MKVYFIGAG 11 (254)
T ss_pred ceEEEEccC
Confidence 457888887
No 38
>PHA03170 UL37 tegument protein; Provisional
Probab=31.25 E-value=38 Score=26.64 Aligned_cols=38 Identities=13% Similarity=0.205 Sum_probs=27.2
Q ss_pred cCCCchhHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHH
Q 035333 8 SGPAGTKVLRFLYFVGAGFICTAAINKWRELERKSLQK 45 (67)
Q Consensus 8 ~Gpa~~k~lR~~yFVGAg~icT~aINk~re~Erks~~~ 45 (67)
.|-+.||++=+++++|.+|..++-.==--=..|++|.|
T Consensus 252 ~~~ql~~~~GlFf~~gGa~~ml~LfCclSm~~Rr~i~K 289 (293)
T PHA03170 252 EITQSMSAAGLFFLAGGAFTMLLLLCCLSMITRKHVVK 289 (293)
T ss_pred ccchhhhheeeeeeeccHHHHHHHHHHHHHHHHHHHHh
Confidence 57788999999999999987655443333345666655
No 39
>PF14774 FAM177: FAM177 family
Probab=31.15 E-value=74 Score=21.48 Aligned_cols=39 Identities=26% Similarity=0.331 Sum_probs=25.8
Q ss_pred chhHHHHHHhhhhhhhHHHHHHH--H----HHHHHHHHHHHHhhh
Q 035333 12 GTKVLRFLYFVGAGFICTAAINK--W----RELERKSLQKKQQES 50 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~icT~aINk--~----re~Erks~~~qqQq~ 50 (67)
|.++|.-.-|||-.+.-.++||. | -+|.|.+-.++..+.
T Consensus 74 ~~~~l~~~d~~Ge~lA~~fGit~~KYqy~idey~r~~~~~~~~~~ 118 (123)
T PF14774_consen 74 GTKSLSGCDYLGEKLASFFGITSPKYQYAIDEYYRMQEEEKEEEE 118 (123)
T ss_pred HHhHhhHHhhhhhHHHHHhCCCchHHHHHHHHHHHHHHHHHhHHH
Confidence 44555566789999998888874 3 366676655554443
No 40
>cd01412 SIRT5_Af1_CobB SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. CobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase at an active site lysine to stimulate its enzymatic activity.
Probab=31.01 E-value=3.5 Score=28.02 Aligned_cols=21 Identities=29% Similarity=0.612 Sum_probs=17.6
Q ss_pred HHHHhhhhhhhHHHHHHHHHH
Q 035333 17 RFLYFVGAGFICTAAINKWRE 37 (67)
Q Consensus 17 R~~yFVGAg~icT~aINk~re 37 (67)
|++.|-|||+-...+|+.||+
T Consensus 2 ~ivi~tGAGiS~~sGIp~fR~ 22 (224)
T cd01412 2 RVVVLTGAGISAESGIPTFRD 22 (224)
T ss_pred cEEEEeCCccchhhCCCCccC
Confidence 457788999999999998885
No 41
>KOG3957 consensus Predicted L-carnitine dehydratase/alpha-methylacyl-CoA racemase [Lipid transport and metabolism]
Probab=30.23 E-value=38 Score=27.53 Aligned_cols=31 Identities=23% Similarity=0.343 Sum_probs=25.3
Q ss_pred CcccccccCCCchhHHHHHHhhhhhhhHHHHHH
Q 035333 1 MTGEEMASGPAGTKVLRFLYFVGAGFICTAAIN 33 (67)
Q Consensus 1 mtgee~~~Gpa~~k~lR~~yFVGAg~icT~aIN 33 (67)
|||++ .|+|.+-.-=+-=|-|.|.-|..||=
T Consensus 136 ~~G~~--~~~P~~P~n~laDfAgGgL~aa~gI~ 166 (387)
T KOG3957|consen 136 ITGRR--AGRPWAPGNALADFAGGGLYAAGGIL 166 (387)
T ss_pred eeccc--CCCCCCchhhhhhhccchhHHHHHHH
Confidence 57888 68888777778889999998888874
No 42
>cd02940 DHPD_FMN Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass the dimer interface twice. Two of the Fe-S clusters show a hitherto unobserved coordination involving a glutamine residue.
Probab=30.20 E-value=18 Score=25.73 Aligned_cols=27 Identities=26% Similarity=0.327 Sum_probs=19.5
Q ss_pred ccCCC--chhHHHHHHhhhhhhhHHHHHH
Q 035333 7 ASGPA--GTKVLRFLYFVGAGFICTAAIN 33 (67)
Q Consensus 7 ~~Gpa--~~k~lR~~yFVGAg~icT~aIN 33 (67)
++||- ..+.+|.++-.|+|+++++.|.
T Consensus 18 aag~~~~~~~~~~~~~~~G~Gavv~kti~ 46 (299)
T cd02940 18 ASAPPTTSYPMIRRAFEAGWGGAVTKTLG 46 (299)
T ss_pred CCcCCCCCHHHHHHHHHhCCCEEEecccc
Confidence 57773 4567777666699999988764
No 43
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=29.24 E-value=63 Score=20.05 Aligned_cols=20 Identities=15% Similarity=0.282 Sum_probs=17.1
Q ss_pred hhhhHHHHHHHHHHHHHHHH
Q 035333 24 AGFICTAAINKWRELERKSL 43 (67)
Q Consensus 24 Ag~icT~aINk~re~Erks~ 43 (67)
.+.+++.+.|.|.|+=|+.-
T Consensus 52 ~~wL~~i~~n~~~d~~R~~~ 71 (165)
T PRK09644 52 KPWLFKVAYHTFIDFVRKEK 71 (165)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 35899999999999999863
No 44
>cd00929 Cyt_c_Oxidase_VIIc Cytochrome c oxidase subunit VIIc. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. The VIIc subunit is found only in eukaryotes and its specific function remains unclear. Peroxide inactivation of bovine CcO coincides with the direct oxidation of tryptophan (W19) within subunit VIIc, along with other structural changes in other subunits.
Probab=28.75 E-value=77 Score=18.29 Aligned_cols=21 Identities=24% Similarity=0.479 Sum_probs=18.1
Q ss_pred HHHHHhhhhhhhHHHHHHHHH
Q 035333 16 LRFLYFVGAGFICTAAINKWR 36 (67)
Q Consensus 16 lR~~yFVGAg~icT~aINk~r 36 (67)
+++..|.|.||..-+.|..|.
T Consensus 23 ~~~~~ffg~GF~~PF~i~~~Q 43 (46)
T cd00929 23 ALFHLFFGSGFSAPFIVVRHQ 43 (46)
T ss_pred HHHHHHHHHHHhhhHHHHHHH
Confidence 567779999999999999885
No 45
>PRK02506 dihydroorotate dehydrogenase 1A; Reviewed
Probab=28.54 E-value=19 Score=26.22 Aligned_cols=26 Identities=23% Similarity=0.135 Sum_probs=21.0
Q ss_pred ccCCCc--hhHHHHHHhhhhhhhHHHHH
Q 035333 7 ASGPAG--TKVLRFLYFVGAGFICTAAI 32 (67)
Q Consensus 7 ~~Gpa~--~k~lR~~yFVGAg~icT~aI 32 (67)
++||.+ ...+|.++--|+|+++|+.|
T Consensus 18 AsG~~~~~~e~~~~~~~~g~Gavv~kti 45 (310)
T PRK02506 18 AAGVYCMTKEELEEVEASAAGAFVTKSA 45 (310)
T ss_pred CCCCCCCCHHHHHHHHHcCCcEEEeCcc
Confidence 678873 56788888899999998876
No 46
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=28.01 E-value=4.2 Score=28.15 Aligned_cols=21 Identities=24% Similarity=0.495 Sum_probs=18.3
Q ss_pred HHHHhhhhhhhHHHHHHHHHH
Q 035333 17 RFLYFVGAGFICTAAINKWRE 37 (67)
Q Consensus 17 R~~yFVGAg~icT~aINk~re 37 (67)
|.+.|-|||+-...+|..||+
T Consensus 6 ~ivv~tGAGiS~~sGIp~FR~ 26 (222)
T cd01413 6 KTVVLTGAGISTESGIPDFRS 26 (222)
T ss_pred eEEEEECchhhhhhCCCCccC
Confidence 468899999999999999884
No 47
>PRK13467 F0F1 ATP synthase subunit C; Provisional
Probab=27.57 E-value=59 Score=19.99 Aligned_cols=28 Identities=29% Similarity=0.329 Sum_probs=20.8
Q ss_pred ccccCCCchhHHHHHHhhhhhhhHHHHH
Q 035333 5 EMASGPAGTKVLRFLYFVGAGFICTAAI 32 (67)
Q Consensus 5 e~~~Gpa~~k~lR~~yFVGAg~icT~aI 32 (67)
-++.-|....-+|-..|+|++++=+.+|
T Consensus 29 ~iaRqPE~~~~i~~~m~ig~Al~Ea~~i 56 (66)
T PRK13467 29 SAARQPEMIGQLRSLMILGVAFIEGTFF 56 (66)
T ss_pred HHHcChhHHHhHHHHHHHHHHHHHHHHH
Confidence 3455677777788888999998866665
No 48
>PF06374 NDUF_C2: NADH-ubiquinone oxidoreductase subunit b14.5b (NDUFC2); InterPro: IPR009423 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This family consists of several NADH-ubiquinone oxidoreductase subunit b14.5b proteins.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0006120 mitochondrial electron transport, NADH to ubiquinone, 0005743 mitochondrial inner membrane
Probab=27.23 E-value=87 Score=21.20 Aligned_cols=29 Identities=24% Similarity=0.385 Sum_probs=23.0
Q ss_pred CCc-hhHHHHHHhhhhhhhHHHHHHHHHHH
Q 035333 10 PAG-TKVLRFLYFVGAGFICTAAINKWREL 38 (67)
Q Consensus 10 pa~-~k~lR~~yFVGAg~icT~aINk~re~ 38 (67)
|+- +.+-|-+.|+.+|+..-..|-||+++
T Consensus 49 P~~~sGihr~ll~~t~g~~~Gy~~~k~~n~ 78 (117)
T PF06374_consen 49 PPLKSGIHRQLLLATIGWFIGYYITKYRNY 78 (117)
T ss_pred CchhhccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444 56778888888888888888888876
No 49
>PRK10229 threonine efflux system; Provisional
Probab=27.18 E-value=91 Score=20.50 Aligned_cols=26 Identities=12% Similarity=0.180 Sum_probs=23.2
Q ss_pred chhHHHHHHhhhhhhhHHHHHHHHHH
Q 035333 12 GTKVLRFLYFVGAGFICTAAINKWRE 37 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~icT~aINk~re 37 (67)
.|.++..+-++|+.+++-.|+..||.
T Consensus 67 ~p~~~~~l~~~Ga~yLlylg~~~~~~ 92 (206)
T PRK10229 67 MAWLHTIIMVGGGLYLCWMGYQMLRG 92 (206)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47788889999999999999999986
No 50
>PRK13743 conjugal transfer protein TrbF; Provisional
Probab=26.77 E-value=52 Score=23.56 Aligned_cols=20 Identities=35% Similarity=0.561 Sum_probs=15.3
Q ss_pred HHhhhhhhhHHHHHHHHHHH
Q 035333 19 LYFVGAGFICTAAINKWREL 38 (67)
Q Consensus 19 ~yFVGAg~icT~aINk~re~ 38 (67)
+|-+||||+|+.--+--+++
T Consensus 93 L~Ala~GFlv~~~~~p~~~~ 112 (141)
T PRK13743 93 LWALAAGFLVAGVRNPLCEL 112 (141)
T ss_pred HHHHHhchhhhhhhhHHHHH
Confidence 56789999999877665554
No 51
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=26.74 E-value=1.1e+02 Score=22.54 Aligned_cols=37 Identities=24% Similarity=0.289 Sum_probs=29.0
Q ss_pred CCCchhHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 035333 9 GPAGTKVLRFLYFVGAGFICTAAINKWRELERKSLQKKQ 47 (67)
Q Consensus 9 Gpa~~k~lR~~yFVGAg~icT~aINk~re~Erks~~~qq 47 (67)
+.+-+.+=+..|..|-||| .+.|.|.++|-+|+.+.-
T Consensus 78 ~~~Kse~~~~r~~L~l~FI--~sf~~Y~~leL~s~~~ei 114 (181)
T PF04645_consen 78 RNAKSELEMERSNLELSFI--DSFNQYKNLELKSIKKEI 114 (181)
T ss_pred HHHHhHHHHHHHHHhhHHH--HHHHHhhhhhHHHHHHHH
Confidence 3344566677899999998 577999999999987654
No 52
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=26.58 E-value=74 Score=20.26 Aligned_cols=19 Identities=16% Similarity=0.244 Sum_probs=16.2
Q ss_pred hhhHHHHHHHHHHHHHHHH
Q 035333 25 GFICTAAINKWRELERKSL 43 (67)
Q Consensus 25 g~icT~aINk~re~Erks~ 43 (67)
+++++.+.|.++++=|++-
T Consensus 69 awl~~ia~n~~~d~~Rk~~ 87 (179)
T PRK09415 69 TWLYRIAINHCKDYLKSWH 87 (179)
T ss_pred HHHHHHHHHHHHHHHHhhc
Confidence 5689999999999988853
No 53
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=24.59 E-value=87 Score=20.05 Aligned_cols=18 Identities=17% Similarity=0.158 Sum_probs=15.4
Q ss_pred hhhHHHHHHHHHHHHHHH
Q 035333 25 GFICTAAINKWRELERKS 42 (67)
Q Consensus 25 g~icT~aINk~re~Erks 42 (67)
+.+++.+.|++.++=|++
T Consensus 59 ~wL~~Ia~n~~~d~~Rk~ 76 (195)
T PRK12532 59 SWLFAILKNKIIDALRQI 76 (195)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 578999999999998875
No 54
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=23.88 E-value=98 Score=25.98 Aligned_cols=29 Identities=31% Similarity=0.399 Sum_probs=26.7
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q 035333 22 VGAGFICTAAINKWRELERKSLQKKQQES 50 (67)
Q Consensus 22 VGAg~icT~aINk~re~Erks~~~qqQq~ 50 (67)
.||.++..+-||.++.-+-||+|+|..++
T Consensus 428 AGAclLlaaKmnD~Kks~vKslIek~Ee~ 456 (497)
T KOG4164|consen 428 AGACLLLAAKMNDLKKSTVKSLIEKLEEQ 456 (497)
T ss_pred HHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence 59999999999999999999999998776
No 55
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=23.23 E-value=97 Score=19.21 Aligned_cols=18 Identities=22% Similarity=0.217 Sum_probs=15.6
Q ss_pred hhhHHHHHHHHHHHHHHH
Q 035333 25 GFICTAAINKWRELERKS 42 (67)
Q Consensus 25 g~icT~aINk~re~Erks 42 (67)
+.+|+.|.|++.++=|+.
T Consensus 63 ~wL~~iarn~~~d~~Rk~ 80 (173)
T PRK09645 63 AWLFTVARNLVIDERRSA 80 (173)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 578999999999998874
No 56
>cd08320 Pyrin_NALPs Pyrin death domain found in NALP proteins. Pyrin Death Domain found in NALP (NACHT, LRR and PYD domains) proteins including NALP1 (CARD7, NLRP1), NALP3 (NLRP3, Cryopyrin, CIAS1), and NALP12 (NLRP12, Monarch-1), among others. Mammals contains at least 14 NALP proteins, named NALP1-14 (or NLRP1-14). NALPs are members of the NBS-LRR family of proteins possessing a tripartite domain structure including a C-terminal LRR (leucine-rich repeats), a central nucleotide-binding site (NBS) domain or NACHT (for neuronal apoptosis inhibitor protein, CIITA, HET-E and TP1), and an N-terminal protein-protein interaction domain, which is a Pyrin domain in the case of NALPs. The NBS-LRR family is also referred to as the NLR (Nod-like Receptor) or CATERPILLER (for CARD, transcription enhancer, R-(purine)-binding, pyrin, lots of LRRs) family. NALP1 contains an additional Caspase activation and recruitment domain (CARD) at the C-terminus. NALP1 and NALP3 are both involved in the assembly
Probab=23.12 E-value=1.9e+02 Score=17.87 Aligned_cols=34 Identities=9% Similarity=0.185 Sum_probs=29.7
Q ss_pred HHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhhhh
Q 035333 18 FLYFVGAGFICTAAINKWRELERKSLQKKQQESD 51 (67)
Q Consensus 18 ~~yFVGAg~icT~aINk~re~Erks~~~qqQq~~ 51 (67)
|+-+-|..-+...++|-++.+-++.+-.+.|++.
T Consensus 51 Lv~~y~~~~A~~~t~~if~~mn~~dL~e~~~~e~ 84 (86)
T cd08320 51 LVEHYGGQQAWDVTLSIFEKMNLRDLCEKAKREM 84 (86)
T ss_pred HHHHcChhHHHHHHHHHHHHHChHHHHHHHHHHh
Confidence 4567788889999999999999999999988763
No 57
>PRK10591 hypothetical protein; Provisional
Probab=23.01 E-value=1.1e+02 Score=20.29 Aligned_cols=31 Identities=19% Similarity=0.351 Sum_probs=23.8
Q ss_pred chhHHHHHHhhhhhhhHHHHHHH-HHHHHHHH
Q 035333 12 GTKVLRFLYFVGAGFICTAAINK-WRELERKS 42 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~icT~aINk-~re~Erks 42 (67)
+|...=.+.|+|-|.+.-+|+|- ||--.+=+
T Consensus 41 ~~~aai~mif~Gi~lmiPAav~ivWR~a~~la 72 (92)
T PRK10591 41 TPTAAILMIFLGVLLMLPAAVVIIWRVAKGLA 72 (92)
T ss_pred CchHHHHHHHHHHHHhhHHHHHHHHHHHHHhc
Confidence 44556678899999999999995 88765543
No 58
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=22.97 E-value=6.3 Score=28.91 Aligned_cols=22 Identities=27% Similarity=0.534 Sum_probs=18.5
Q ss_pred HHHHHhhhhhhhHHHHHHHHHH
Q 035333 16 LRFLYFVGAGFICTAAINKWRE 37 (67)
Q Consensus 16 lR~~yFVGAg~icT~aINk~re 37 (67)
-|++.|.|||+-+-.+|=++|.
T Consensus 13 ~~ivvltGAGiSa~sGIpdFR~ 34 (250)
T COG0846 13 KRIVVLTGAGISAESGIPDFRS 34 (250)
T ss_pred CcEEEEeCCccccccCCCcccC
Confidence 4788999999999999887774
No 59
>PF10562 CaM_bdg_C0: Calmodulin-binding domain C0 of NMDA receptor NR1 subunit; InterPro: IPR018882 This is a very short highly conserved domain that is C-terminal to the cytosolic transmembrane region IV of the NMDA-receptor 1. It has been shown to bind Calmodulin-Calcium with high affinity. The ionotropic N-methyl-D-aspartate receptor (NMDAR) is a major source of calcium flux into neurons in the brain and plays a critical role in learning, memory, neural development, and synaptic plasticity. Calmodulin (CaM) regulates NMDARs by binding tightly to the C0 and C1 regions of their NR1 subunit. The conserved tryptophan is considered to be the anchor residue [].
Probab=22.93 E-value=62 Score=17.81 Aligned_cols=10 Identities=40% Similarity=0.820 Sum_probs=7.7
Q ss_pred HHHHHHHHHH
Q 035333 28 CTAAINKWRE 37 (67)
Q Consensus 28 cT~aINk~re 37 (67)
.-.|++|||-
T Consensus 17 Ar~a~dkWR~ 26 (29)
T PF10562_consen 17 ARHAADKWRG 26 (29)
T ss_pred HHHHHHHHHh
Confidence 3578999985
No 60
>PRK07259 dihydroorotate dehydrogenase 1B; Reviewed
Probab=22.04 E-value=23 Score=24.84 Aligned_cols=27 Identities=37% Similarity=0.481 Sum_probs=20.0
Q ss_pred ccCCCc--hhHHHHHHhhhhhhhHHHHHH
Q 035333 7 ASGPAG--TKVLRFLYFVGAGFICTAAIN 33 (67)
Q Consensus 7 ~~Gpa~--~k~lR~~yFVGAg~icT~aIN 33 (67)
++||.+ ..++|.+.--|+|+++++.|+
T Consensus 18 aag~~~~~~~~~~~~~~~g~g~v~~kti~ 46 (301)
T PRK07259 18 ASGTFGFGGEYARFYDLNGLGAIVTKSTT 46 (301)
T ss_pred CCcCCCCCHHHHHHhhhcCCcEEEeCCCC
Confidence 567664 367887778899999888764
No 61
>PRK08318 dihydropyrimidine dehydrogenase subunit B; Validated
Probab=22.02 E-value=28 Score=25.84 Aligned_cols=26 Identities=27% Similarity=0.286 Sum_probs=17.8
Q ss_pred ccCCCc---hhHHHHHHhhhhhhhHHHHHH
Q 035333 7 ASGPAG---TKVLRFLYFVGAGFICTAAIN 33 (67)
Q Consensus 7 ~~Gpa~---~k~lR~~yFVGAg~icT~aIN 33 (67)
++||.+ ..+.|++- .|+|+++++.|-
T Consensus 20 aag~~~~~~~~~~~~~~-~g~Gavv~kti~ 48 (420)
T PRK08318 20 ASAPPTNKYYNVARAFE-AGWGGVVWKTLG 48 (420)
T ss_pred CCcCCCCCHHHHHHHHH-hCCCEEEEeecC
Confidence 577764 34466665 599998888774
No 62
>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans. In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.
Probab=21.70 E-value=48 Score=25.51 Aligned_cols=12 Identities=58% Similarity=0.894 Sum_probs=10.0
Q ss_pred hhHHHHHHhhhh
Q 035333 13 TKVLRFLYFVGA 24 (67)
Q Consensus 13 ~k~lR~~yFVGA 24 (67)
|+++|++.|||-
T Consensus 189 p~~~kll~~vGF 200 (468)
T PF10300_consen 189 PKVLKLLSFVGF 200 (468)
T ss_pred HHHHHHHhhcCc
Confidence 788999999883
No 63
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=21.48 E-value=1.1e+02 Score=18.68 Aligned_cols=19 Identities=21% Similarity=0.324 Sum_probs=15.8
Q ss_pred hhhHHHHHHHHHHHHHHHH
Q 035333 25 GFICTAAINKWRELERKSL 43 (67)
Q Consensus 25 g~icT~aINk~re~Erks~ 43 (67)
+.+++.|.|+..|+-|+.-
T Consensus 47 ~wL~~ia~n~~~d~~R~~~ 65 (159)
T PRK12527 47 AFLYRTALNLVVDRHRRHR 65 (159)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 6788999999999888764
No 64
>PF01881 Cas_Cas6: CRISPR associated protein Cas6; InterPro: IPR002743 This entry is represented by Bacteriophage c-st, ORF: CST018. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; PDB: 3PKM_A 3I4H_X 3QJJ_B 3QJP_A 3QJL_B 3UFC_X.
Probab=21.36 E-value=50 Score=21.07 Aligned_cols=17 Identities=29% Similarity=0.411 Sum_probs=12.4
Q ss_pred chhHHHHHHhhhhhhhH
Q 035333 12 GTKVLRFLYFVGAGFIC 28 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~ic 28 (67)
.|++|+++|-.|.|--+
T Consensus 129 ~~ell~~~y~~GlG~kn 145 (155)
T PF01881_consen 129 DPELLNFAYDAGLGEKN 145 (155)
T ss_dssp -HHHHHHHHHH-SSS-G
T ss_pred CHHHHHHHHHcCCCCCC
Confidence 39999999999988544
No 65
>PRK07558 F0F1 ATP synthase subunit C; Validated
Probab=21.33 E-value=96 Score=19.24 Aligned_cols=27 Identities=15% Similarity=0.178 Sum_probs=20.5
Q ss_pred cccCCCchhHHHHHHhhhhhhhHHHHH
Q 035333 6 MASGPAGTKVLRFLYFVGAGFICTAAI 32 (67)
Q Consensus 6 ~~~Gpa~~k~lR~~yFVGAg~icT~aI 32 (67)
++.-|-..+-+|-..|+|.+++=+.+|
T Consensus 36 iaRqPe~~~~l~~~~~ig~Al~Ea~~i 62 (74)
T PRK07558 36 ALRNPSAADSQFGYLLIGAALAEALGI 62 (74)
T ss_pred HHcCchHHHhHHHHHHHHHHHHHHHHH
Confidence 345577777788889999998876665
No 66
>KOG0622 consensus Ornithine decarboxylase [Amino acid transport and metabolism]
Probab=21.29 E-value=47 Score=27.41 Aligned_cols=20 Identities=45% Similarity=0.825 Sum_probs=18.1
Q ss_pred CchhHHHHHHhhhhhhhHHH
Q 035333 11 AGTKVLRFLYFVGAGFICTA 30 (67)
Q Consensus 11 a~~k~lR~~yFVGAg~icT~ 30 (67)
+.|+|||++-=.|.||-|..
T Consensus 90 ~dp~vl~~La~lG~gfdcaS 109 (448)
T KOG0622|consen 90 SDPKVLRLLASLGCGFDCAS 109 (448)
T ss_pred CCHHHHHHHHHcCccceecC
Confidence 67999999999999999963
No 67
>PRK13466 F0F1 ATP synthase subunit C; Provisional
Probab=21.03 E-value=95 Score=18.99 Aligned_cols=27 Identities=26% Similarity=0.246 Sum_probs=20.1
Q ss_pred cccCCCchhHHHHHHhhhhhhhHHHHH
Q 035333 6 MASGPAGTKVLRFLYFVGAGFICTAAI 32 (67)
Q Consensus 6 ~~~Gpa~~k~lR~~yFVGAg~icT~aI 32 (67)
++.-|....-+|-..|+|++++=+.+|
T Consensus 30 vaRqPea~~~l~~~~~ig~al~Ea~~i 56 (66)
T PRK13466 30 TARQPEMQSKLMAGVFLGVAFIEGTFF 56 (66)
T ss_pred HHcChhHHHhHHHHHHHHHHHHHHHHH
Confidence 345566677788888999998876665
No 68
>KOG1574 consensus Predicted cell growth/differentiation regulator, contains RA domain [Extracellular structures]
Probab=20.68 E-value=22 Score=28.56 Aligned_cols=10 Identities=50% Similarity=1.139 Sum_probs=8.5
Q ss_pred HHHHHHHHHH
Q 035333 32 INKWRELERK 41 (67)
Q Consensus 32 INk~re~Erk 41 (67)
|-|||++||-
T Consensus 48 VEKwR~~ER~ 57 (375)
T KOG1574|consen 48 VEKWRGYERH 57 (375)
T ss_pred eehhcccccc
Confidence 7899999983
No 69
>PRK10520 rhtB homoserine/homoserine lactone efflux protein; Provisional
Probab=20.62 E-value=1.4e+02 Score=19.69 Aligned_cols=26 Identities=23% Similarity=0.544 Sum_probs=23.3
Q ss_pred chhHHHHHHhhhhhhhHHHHHHHHHH
Q 035333 12 GTKVLRFLYFVGAGFICTAAINKWRE 37 (67)
Q Consensus 12 ~~k~lR~~yFVGAg~icT~aINk~re 37 (67)
.|-++..+-++|++++.-.|+.-||.
T Consensus 68 ~p~~~~~lk~~Ga~YL~~lg~~~~~s 93 (205)
T PRK10520 68 SLLAFEVLKWAGAAYLIWLGIQQWRA 93 (205)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 57788889999999999999999985
No 70
>TIGR01877 cas_cas6 CRISPR-associated endoribonuclease Cas6. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This broadly distributed, highly divergent Cas family is now characterized as an endoribonuclease that generates guide RNAs for host defense against phage and other invaders. The family contains a C-terminal motif GXGXXXXXGXG, where the each X between two Gly is hydrophobic and the spacer XXXXX contains (usually) one Arg or Lys. The seed alignment for the current version of this model has gappy columns removed. Members of this protein family are found associated with several different CRISPR/cas system subtypes, and consequently we designate this family Cas6.
Probab=20.25 E-value=67 Score=20.18 Aligned_cols=16 Identities=38% Similarity=0.781 Sum_probs=13.3
Q ss_pred hHHHHHHhhhhhhhHH
Q 035333 14 KVLRFLYFVGAGFICT 29 (67)
Q Consensus 14 k~lR~~yFVGAg~icT 29 (67)
.+|++.|+.|-|--++
T Consensus 177 ~ll~~~~~~GlG~kts 192 (199)
T TIGR01877 177 KLLKFAYYAGLGEKTS 192 (199)
T ss_pred HHHHHHHHhCCCcccC
Confidence 8999999999886443
No 71
>PF04437 RINT1_TIP1: RINT-1 / TIP-1 family; InterPro: IPR007528 This family includes RINT-1, a Rad50 interacting protein which participates in radiation induced checkpoint control [], that interacts with Rad50 only during late S and G2/M phases. RINT1 also functions in membrane trafficking from the endoplasmic reticulum(ER) to the Golgi complex in interphase cells [, , ]. In addition to this, the TIP-1 protein, which is involved in the retrograde transport from the Golgi to the ER []. They share a similar domain organisation with an N-terminal leucine heptad repeat rich coiled coil and an ~500-residue C-terminal RINT1/TIP20 domain, which might be a protein-protein interaction module necessary for the formation of functional complexes.; PDB: 3FHN_A.
Probab=20.24 E-value=2e+02 Score=22.01 Aligned_cols=25 Identities=16% Similarity=0.481 Sum_probs=19.6
Q ss_pred hhhH-HHHHHHHHHHHHHHHHHHHhh
Q 035333 25 GFIC-TAAINKWRELERKSLQKKQQE 49 (67)
Q Consensus 25 g~ic-T~aINk~re~Erks~~~qqQq 49 (67)
.++| ....++|.++|++...++-++
T Consensus 126 ~vL~~~~~~~~Wl~~E~~~a~~r~~~ 151 (494)
T PF04437_consen 126 DVLCQPDWFDRWLNAEKEFALERFDE 151 (494)
T ss_dssp GGGS-HHHHHHHHHHHHHHHHHHHH-
T ss_pred HHhcchHHHHHHHHHHHHHHHHHHhh
Confidence 3444 467899999999999998885
No 72
>COG3671 Predicted membrane protein [Function unknown]
Probab=20.20 E-value=97 Score=21.77 Aligned_cols=21 Identities=29% Similarity=0.632 Sum_probs=17.7
Q ss_pred HHHhhhhhhhHHHHHHHHHHH
Q 035333 18 FLYFVGAGFICTAAINKWREL 38 (67)
Q Consensus 18 ~~yFVGAg~icT~aINk~re~ 38 (67)
++-|+|.||..-.|.|-|-=|
T Consensus 82 Llt~lgiGv~i~~AlgvW~i~ 102 (125)
T COG3671 82 LLTFLGIGVVILVALGVWYIY 102 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456899999999999999654
Done!