Query psy2540
Match_columns 58
No_of_seqs 125 out of 1015
Neff 7.8
Searched_HMMs 46136
Date Fri Aug 16 18:47:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2540.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2540hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00160 RhoGEF Guanine nucleot 99.8 1.4E-19 3E-24 105.1 5.8 56 2-57 126-181 (181)
2 smart00325 RhoGEF Guanine nucl 99.8 2.7E-19 5.8E-24 103.9 5.9 56 3-58 125-180 (180)
3 PF00621 RhoGEF: RhoGEF domain 99.7 4.5E-17 9.8E-22 93.7 5.2 57 2-58 124-180 (180)
4 KOG4424|consensus 99.7 1.7E-16 3.6E-21 106.7 5.0 57 2-58 185-241 (623)
5 KOG3523|consensus 99.6 1.5E-15 3.2E-20 102.7 5.4 57 2-58 384-440 (695)
6 KOG4305|consensus 99.5 1.7E-14 3.6E-19 101.7 4.4 57 2-58 465-522 (1029)
7 KOG3520|consensus 99.4 7.7E-13 1.7E-17 94.1 4.4 58 1-58 522-579 (1167)
8 KOG2996|consensus 99.3 8.6E-13 1.9E-17 89.8 4.2 54 4-58 322-375 (865)
9 KOG3518|consensus 99.3 3.4E-12 7.4E-17 83.0 5.6 55 3-57 246-302 (521)
10 KOG3521|consensus 99.2 7.7E-12 1.7E-16 85.9 4.2 56 1-57 312-367 (846)
11 KOG3519|consensus 99.1 4.5E-11 9.8E-16 82.9 2.9 54 5-58 468-521 (756)
12 KOG0689|consensus 99.1 1.6E-10 3.6E-15 76.6 4.7 55 3-57 184-238 (448)
13 KOG3522|consensus 98.8 7.1E-09 1.5E-13 72.7 4.2 47 9-58 120-166 (925)
14 COG5422 ROM1 RhoGEF, Guanine n 98.7 2.1E-08 4.6E-13 71.0 3.8 55 3-57 615-669 (1175)
15 KOG3524|consensus 98.4 2.8E-07 6.1E-12 64.2 4.2 55 2-58 506-560 (850)
16 KOG2070|consensus 98.4 6.5E-07 1.4E-11 60.7 5.3 49 8-56 230-278 (661)
17 KOG4240|consensus 98.4 3.3E-07 7.1E-12 65.6 3.8 51 5-58 757-807 (1025)
18 KOG3531|consensus 97.6 2.4E-05 5.2E-10 55.7 0.8 49 3-51 667-715 (1036)
19 KOG4269|consensus 95.4 0.033 7.1E-07 40.7 4.4 52 7-58 475-536 (1112)
20 KOG3524|consensus 85.2 0.42 9.1E-06 34.5 0.9 56 1-58 515-570 (850)
21 PF15601 Imm42: Immunity prote 82.8 3.4 7.3E-05 23.9 3.9 39 12-54 29-67 (134)
22 PF09779 Ima1_N: Ima1 N-termin 68.0 20 0.00043 20.3 4.8 33 22-54 84-117 (131)
23 PHA01756 hypothetical protein 59.3 3.5 7.7E-05 25.8 0.3 16 6-21 7-22 (268)
24 PHA02674 ORF107 virion morphog 56.0 26 0.00056 17.6 3.3 29 23-57 12-40 (60)
25 COG1956 GAF domain-containing 50.1 30 0.00065 20.8 3.2 42 17-58 12-53 (163)
26 PF10835 DUF2573: Protein of u 47.4 44 0.00096 17.8 3.4 28 28-55 47-75 (82)
27 PF06015 Chordopox_A30L: Chord 44.5 47 0.001 17.3 3.7 30 23-57 11-40 (71)
28 PHA03044 IMV membrane protein; 44.4 30 0.00065 18.1 2.3 30 23-57 13-42 (74)
29 COG0380 OtsA Trehalose-6-phosp 42.3 64 0.0014 22.5 4.2 45 14-58 297-350 (486)
30 smart00808 FABD F-actin bindin 41.8 58 0.0012 18.8 3.3 36 18-53 84-124 (126)
31 PF08597 eIF3_subunit: Transla 41.5 74 0.0016 19.7 4.1 41 12-53 154-194 (245)
32 KOG4025|consensus 40.9 86 0.0019 19.2 4.1 44 14-57 94-141 (207)
33 PF06971 Put_DNA-bind_N: Putat 39.3 35 0.00077 16.3 2.0 32 14-46 7-38 (50)
34 PHA02892 hypothetical protein; 37.7 46 0.00099 17.4 2.3 18 40-57 29-46 (75)
35 PTZ00081 enolase; Provisional 36.8 65 0.0014 22.0 3.5 53 3-55 168-240 (439)
36 KOG3519|consensus 36.5 3.6 7.9E-05 29.6 -2.5 42 8-49 110-151 (756)
37 COG5590 Uncharacterized conser 35.5 76 0.0016 20.1 3.4 31 19-49 27-57 (229)
38 PF12311 DUF3632: Protein of u 32.9 84 0.0018 18.0 3.3 28 25-52 4-31 (184)
39 smart00428 H3 Histone H3. 32.5 71 0.0015 17.7 2.7 34 13-53 33-66 (105)
40 PF10193 Telomere_reg-2: Telom 32.1 31 0.00068 19.0 1.3 32 23-54 3-34 (114)
41 KOG3391|consensus 31.9 16 0.00034 21.6 0.0 45 13-57 16-75 (151)
42 PF14409 Herpeto_peptide: Ribo 31.6 75 0.0016 15.8 3.2 10 15-24 7-16 (58)
43 PF07253 Gypsy: Gypsy protein; 31.3 1E+02 0.0022 21.6 3.8 43 12-55 74-116 (472)
44 COG3947 Response regulator con 31.2 16 0.00035 24.3 -0.0 14 4-17 90-103 (361)
45 PF06840 DUF1241: Protein of u 31.0 75 0.0016 18.8 2.8 44 14-57 90-137 (154)
46 KOG4127|consensus 30.7 1.2E+02 0.0026 20.9 3.9 22 11-32 349-370 (419)
47 cd06225 HAMP Histidine kinase, 29.6 48 0.001 13.0 2.5 10 12-21 2-11 (48)
48 COG4565 CitB Response regulato 28.8 43 0.00094 21.1 1.6 26 5-30 95-126 (224)
49 PLN00158 histone H2B; Provisio 28.3 1.1E+02 0.0024 17.4 3.0 37 16-55 24-60 (116)
50 PF05713 MobC: Bacterial mobil 27.1 77 0.0017 14.5 3.4 30 25-54 12-41 (48)
51 KOG0718|consensus 26.8 85 0.0018 22.2 2.8 52 5-56 389-440 (546)
52 PF12536 DUF3734: Patatin phos 24.8 1.1E+02 0.0024 16.6 2.7 27 12-38 11-37 (108)
53 PLN00191 enolase 24.6 1.5E+02 0.0032 20.5 3.6 53 3-55 183-255 (457)
54 PTZ00463 histone H2B; Provisio 24.0 1.4E+02 0.0029 17.0 2.9 36 17-55 26-61 (117)
55 smart00595 MADF subfamily of S 24.0 1.1E+02 0.0024 15.3 3.2 24 34-57 15-38 (89)
56 PRK10807 paraquat-inducible pr 23.7 1.9E+02 0.0041 20.4 4.1 29 27-55 487-515 (547)
57 PF07136 DUF1385: Protein of u 23.3 2.1E+02 0.0045 18.2 4.1 37 14-54 197-234 (236)
58 PHA00489 scaffolding protein 22.1 91 0.002 17.1 1.9 27 24-50 28-54 (101)
59 PF06833 MdcE: Malonate decarb 21.6 1.3E+02 0.0028 19.0 2.8 29 14-42 146-175 (234)
60 PF09190 DALR_2: DALR domain; 21.4 93 0.002 14.9 1.8 16 42-57 12-27 (63)
61 PF04010 DUF357: Protein of un 21.2 1.4E+02 0.003 15.4 2.4 14 20-33 2-15 (75)
62 PF12641 Flavodoxin_3: Flavodo 20.9 80 0.0017 18.5 1.6 16 34-49 144-159 (160)
63 PF10545 MADF_DNA_bdg: Alcohol 20.8 1.2E+02 0.0025 14.7 2.1 23 34-56 14-36 (85)
64 COG3872 Predicted metal-depend 20.7 1.6E+02 0.0034 19.4 3.0 40 12-54 262-301 (318)
65 smart00304 HAMP HAMP (Histidin 20.7 79 0.0017 12.3 2.7 11 11-21 3-13 (53)
66 PHA02595 tk.4 hypothetical pro 20.1 1.9E+02 0.0042 16.6 3.4 23 33-55 87-109 (154)
No 1
>cd00160 RhoGEF Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.
Probab=99.80 E-value=1.4e-19 Score=105.15 Aligned_cols=56 Identities=39% Similarity=0.549 Sum_probs=54.3
Q ss_pred CccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhc
Q psy2540 2 VSKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57 (58)
Q Consensus 2 ~~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN 57 (58)
.+++++.+||++|+||++||++||++++|+|+++|+|+..+++|++.+++++.+||
T Consensus 126 ~~~~~l~~~L~~PvQRl~rY~lLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN 181 (181)
T cd00160 126 CGRLKLESLLLKPVQRLTKYPLLLKELLKHTPDGHEDREDLKKALEAIKEVASQVN 181 (181)
T ss_pred cccCCHHHHhhhhHHHhchHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHcC
Confidence 46889999999999999999999999999999999999999999999999999998
No 2
>smart00325 RhoGEF Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases. Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains. Improved coverage.
Probab=99.79 E-value=2.7e-19 Score=103.87 Aligned_cols=56 Identities=38% Similarity=0.558 Sum_probs=54.2
Q ss_pred ccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 3 SKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 3 ~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
+++++.+||++|+||++||++||++++|+|+++|+|+..+++|++.++.++..||+
T Consensus 125 ~~~~l~~~L~~PvqRl~rY~lll~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iNe 180 (180)
T smart00325 125 RRLTLESLLLKPVQRLTKYPLLLKELLKHTPEDHEDREDLKKALKAIKELANQVNE 180 (180)
T ss_pred ccCCHHHHHhHHHHHhccHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHcCC
Confidence 56899999999999999999999999999999999999999999999999999995
No 3
>PF00621 RhoGEF: RhoGEF domain; InterPro: IPR000219 The Rho family GTPases Rho, Rac and CDC42 regulate a diverse array of cellular processes. Like all members of the Ras superfamily, the Rho proteins cycle between active GTP-bound and inactive GDP-bound conformational states. Activation of Rho proteins through release of bound GDP and subsequent binding of GTP, is catalysed by guanine nucleotide exchange factors (GEFs) in the Dbl family. The proteins encoded by members of the Dbl family share a common domain, presented in this entry, of about 200 residues (designated the Dbl homology or DH domain) that has been shown to encode a GEF activity specific for a number of Rho family members. In addition, all family members possess a second, shared domain designated the pleckstrin homology (PH) domain (IPR001849 from INTERPRO). Trio and its homologue UNC-73 are unique within the Dbl family insomuch as they encode two distinct DH/PH domain modules. The PH domain is invariably located immediately C-terminal to the DH domain and this invariant topography suggests a functional interdependence between these two structural modules. Biochemical data have established the role of the conserved DH domain in Rho GTPase interaction and activation, and the role of the tandem PH domain in intracellular targeting and/or regulation of DH domain function. The DH domain of Dbl has been shown to mediate oligomerisation that is mostly homophilic in nature. In addition to the tandem DH/PH domains Dbl family GEFs contain diverse structural motifs like serine/threonine kinase, RBD, PDZ, RGS, IQ, REM, Cdc25, RasGEF, CH, SH2, SH3, EF, spectrin or Ig. The DH domain is composed of three structurally conserved regions separated by more variable regions. It does not share significant sequence homology with other subtypes of small G-protein GEF motifs such as the Cdc25 domain and the Sec7 domain, which specifically interact with Ras and ARF family small GTPases, respectively, nor with other Rho protein interactive motifs, indicating that the Dbl family proteins are evolutionarily unique. The DH domain is composed of 11 alpha helices that are folded into a flattened, elongated alpha-helix bundle in which two of the three conserved regions, conserved region 1 (CR1) and conserved region 3 (CR3), are exposed near the centre of one surface. CR1 and CR3, together with a part of alpha-6 and the DH/PH junction site, constitute the Rho GTPase interacting pocket.; GO: 0005089 Rho guanyl-nucleotide exchange factor activity, 0035023 regulation of Rho protein signal transduction, 0005622 intracellular; PDB: 3MPX_A 2RGN_E 2Z0Q_A 3T06_A 3KZ1_A 1XCG_E 2KR9_A 1BY1_A 1RJ2_J 1KZG_C ....
Probab=99.69 E-value=4.5e-17 Score=93.66 Aligned_cols=57 Identities=37% Similarity=0.560 Sum_probs=54.3
Q ss_pred CccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 2 VSKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 2 ~~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
.+++++.+++.+|+||++||+++|++++++|+++|+|+..+++|+..++++...||+
T Consensus 124 ~~~~~l~~~l~~Piqrl~rY~lll~~llk~t~~~~~d~~~L~~a~~~i~~l~~~in~ 180 (180)
T PF00621_consen 124 SKRLSLSSLLIKPIQRLPRYPLLLKRLLKNTPPDHPDYKSLQKALDQIKELIQHINE 180 (180)
T ss_dssp CTTSTHHHHTTHHHHHHHHHHHHHHHHHHTSSTTSTHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCCHHHHHHHhhhHHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHHHHHHHHhCc
Confidence 357899999999999999999999999999999999999999999999999999984
No 4
>KOG4424|consensus
Probab=99.65 E-value=1.7e-16 Score=106.69 Aligned_cols=57 Identities=28% Similarity=0.298 Sum_probs=55.5
Q ss_pred CccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 2 VSKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 2 ~~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
|.+|+|+++++.|||||+||.|||+++++++|++++|+.++++|++.|...+.++|+
T Consensus 185 cg~l~LqhhMiePVQRIPRYeLLLk~yl~~lp~~d~D~~d~~ksLe~I~~aA~HsNa 241 (623)
T KOG4424|consen 185 CGGLKLQHHMIEPVQRVPRYELLLQDYLLYLPPDDPDYKDLKKSLELISTAASHSNA 241 (623)
T ss_pred cCCccchhheechhhhhhHHHHHHHHHHHhCCCCCcchHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999999999999999999999999999999999999999999995
No 5
>KOG3523|consensus
Probab=99.60 E-value=1.5e-15 Score=102.70 Aligned_cols=57 Identities=23% Similarity=0.323 Sum_probs=55.5
Q ss_pred CccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 2 VSKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 2 ~~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
|++|+|.|||+.|+|||||+|||++.+++.|.+.+++|+...+|+.+++.++..+|+
T Consensus 384 C~~Lpl~SFLiLPmQRITRL~LLl~nIl~rt~~~ser~~~a~~Al~av~klVr~CNe 440 (695)
T KOG3523|consen 384 CQGLPLRSFLILPMQRITRLPLLLDNILKRTEEGSERYETATKALKAVSKLVRDCNE 440 (695)
T ss_pred ccCCCchhhhhchHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 899999999999999999999999999999999999999999999999999999984
No 6
>KOG4305|consensus
Probab=99.51 E-value=1.7e-14 Score=101.72 Aligned_cols=57 Identities=37% Similarity=0.485 Sum_probs=54.2
Q ss_pred CccCCcchhhhhhhhhhhchHHHHHHHHhhC-CCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 2 VSKLFAQVSITVPVQRVTKYPLLLARLYKVT-PDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 2 ~~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t-~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
|++++|.+||.+|+||+.||||++++++||| |++|||++.+.+|+..+++++.+||.
T Consensus 465 ~rkl~L~~FL~kp~sRl~RYpLllr~ILk~TdP~n~~D~q~L~~aI~~ir~l~~~iN~ 522 (1029)
T KOG4305|consen 465 SRKLDLVSFLTKPTSRLQRYPLLLREILKHTDPENHPDLQLLKKAIEIIRGLLSEINQ 522 (1029)
T ss_pred hhccchhhhhccccchhheeeHHHHHHHhcCCCCCCccHHHHHHHHHHHHHHHHHhCh
Confidence 6889999999999999999999999999999 66779999999999999999999994
No 7
>KOG3520|consensus
Probab=99.36 E-value=7.7e-13 Score=94.11 Aligned_cols=58 Identities=33% Similarity=0.442 Sum_probs=55.4
Q ss_pred CCccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 1 MVSKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 1 ~~~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
.|++|.|.++++.-+||+|||||||+.|+|||.++..|++.++.|++.+++|+..||+
T Consensus 522 ~cRRL~lkd~I~~v~QRLTKYPLLle~I~k~T~~~~~E~e~L~~Al~~~K~IL~~Vn~ 579 (1167)
T KOG3520|consen 522 VCRRLGLKDCILLVTQRLTKYPLLLERILKYTEDNTTEREKLQRALELVKEILSAVDQ 579 (1167)
T ss_pred HHHhhcchHHHHHHHHHHhhchHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999999999999999999999999987788999999999999999999984
No 8
>KOG2996|consensus
Probab=99.35 E-value=8.6e-13 Score=89.85 Aligned_cols=54 Identities=37% Similarity=0.389 Sum_probs=49.2
Q ss_pred cCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 4 KLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 4 ~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
+.+|.++|.-|+||+.||+|||++|.|||.+.. +...++.|+++|++++..||+
T Consensus 322 kF~l~DLL~VPmQRvlKYhLLLkEL~kht~~a~-ek~~LkeAleaM~Dla~yiNE 375 (865)
T KOG2996|consen 322 KFTLRDLLVVPMQRVLKYHLLLKELVKHTDEAS-EKRNLKEALEAMEDLAQYINE 375 (865)
T ss_pred ceeeceeeeeeHHHHHHHHHHHHHHHHhcccCC-hhhhHHHHHHHHHHHHHHHhH
Confidence 678999999999999999999999999997655 555999999999999999995
No 9
>KOG3518|consensus
Probab=99.32 E-value=3.4e-12 Score=82.99 Aligned_cols=55 Identities=31% Similarity=0.405 Sum_probs=51.1
Q ss_pred ccCCcchhhhhhhhhhhchHHHHHHHHhhCCCC-Cc-cHHHHHHHHHHHHHHHHHhc
Q psy2540 3 SKLFAQVSITVPVQRVTKYPLLLARLYKVTPDH-HT-GKDLLIEAQHNIQLHLEHIN 57 (58)
Q Consensus 3 ~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~-~~-d~~~l~~a~~~~~~~~~~iN 57 (58)
..|+|++||++|||||.+|.|+|+++.+|.+.+ || ++..+.+|.+.|+.++++||
T Consensus 246 hsl~l~ayllkpvqrilkyhlfle~i~k~l~~~thpeel~qvk~ahd~m~~qa~~in 302 (521)
T KOG3518|consen 246 HSLPLGAYLLKPVQRILKYHLFLEEIEKHLDKDTHPEELDQVKDAHDTMQRQAAHIN 302 (521)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHHHHHHHHHHhc
Confidence 468999999999999999999999999999865 55 78899999999999999999
No 10
>KOG3521|consensus
Probab=99.24 E-value=7.7e-12 Score=85.87 Aligned_cols=56 Identities=27% Similarity=0.439 Sum_probs=52.1
Q ss_pred CCccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhc
Q psy2540 1 MVSKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57 (58)
Q Consensus 1 ~~~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN 57 (58)
+|.++.|.|.+++|+||+|||+|||+.++|+|+ +..+.+.+...+..++.++.+||
T Consensus 312 ~c~RqkL~D~l~kPmQRLTKY~LLLkAVlK~t~-d~~e~Eai~aMi~svEsf~~~vN 367 (846)
T KOG3521|consen 312 NCDRQKLIDTLSKPMQRLTKYPLLLKAVLKVTT-DEREREAISAMIDSVESFTAHVN 367 (846)
T ss_pred hhhhHHHHHHhhhHHHHhhhhHHHHHHHHhhCC-CHHHHHHHHHHHHHHHHHHHHHH
Confidence 688999999999999999999999999999995 56689999999999999999998
No 11
>KOG3519|consensus
Probab=99.11 E-value=4.5e-11 Score=82.94 Aligned_cols=54 Identities=31% Similarity=0.330 Sum_probs=52.4
Q ss_pred CCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 5 LFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 5 l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
.+|++|+++|+||+++|||+++++++.|+.++.||..+..|...++.+...||.
T Consensus 468 ~~L~s~l~~pvqri~kYPLll~elld~t~~~~~~~~~l~~a~~~m~~~~~~INe 521 (756)
T KOG3519|consen 468 SSLSSFLLKPVQRICKYPLLLNELLDSTPLESSDYVPLSAALPAMKTVASLINE 521 (756)
T ss_pred CCchhhhccHHHHhccCchhhhhhhhhccCCcchhhhhhhhhhhhhhHHHHHhh
Confidence 689999999999999999999999999999999999999999999999999994
No 12
>KOG0689|consensus
Probab=99.09 E-value=1.6e-10 Score=76.62 Aligned_cols=55 Identities=31% Similarity=0.410 Sum_probs=51.3
Q ss_pred ccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhc
Q psy2540 3 SKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57 (58)
Q Consensus 3 ~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN 57 (58)
.++++.+|+++||||++||++||+++++.+...-.|...+.+|.+.|..+..++|
T Consensus 184 ~~l~l~~~l~kPiQR~~kYqlLL~~~~k~~~~~~~d~~~l~~a~e~m~~~~~~~~ 238 (448)
T KOG0689|consen 184 HKLDLSSYLIKPVQRIMKYQLLLQDFLKFCEKAGDDTDALCKAEEVMRFVLKRCN 238 (448)
T ss_pred cccccchhhhhhhHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhH
Confidence 4689999999999999999999999999998888999999999999999988776
No 13
>KOG3522|consensus
Probab=98.79 E-value=7.1e-09 Score=72.72 Aligned_cols=47 Identities=32% Similarity=0.411 Sum_probs=44.7
Q ss_pred hhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 9 VSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 9 ~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
.|+++| |+++|.++++ ++||||.+|||+..|+.|...+.+++.++|+
T Consensus 120 ~l~~kP--r~P~y~lll~-mlkhtp~~Hpdr~~Lq~al~~~~~~ae~ine 166 (925)
T KOG3522|consen 120 ELMIKP--RFPRYELLLQ-MLKHTPLDHPDRLILQLALTLLETLAEKINE 166 (925)
T ss_pred HHHhcc--CCchHHHHHH-HhhcCCcCCCchHHHHHHHHhhHHHHHHHhh
Confidence 367999 9999999999 9999999999999999999999999999984
No 14
>COG5422 ROM1 RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]
Probab=98.68 E-value=2.1e-08 Score=70.96 Aligned_cols=55 Identities=25% Similarity=0.388 Sum_probs=52.4
Q ss_pred ccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhc
Q psy2540 3 SKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57 (58)
Q Consensus 3 ~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN 57 (58)
+++.+.+||-+|.-|..||++|+++++++|.++.||++++-++++.++++...+|
T Consensus 615 ~k~~ld~yLtk~~tr~~Ry~lL~e~vlkftd~d~~D~e~i~kv~d~~reFlsrl~ 669 (1175)
T COG5422 615 RKLELDGYLTKPTTRLARYPLLLEEVLKFTDPDNPDTEDIPKVIDMLREFLSRLN 669 (1175)
T ss_pred hhhcccceecCCcccchhhHHHHhhhcccCCCCCcchhHhHHHHHHHHHHHHHHh
Confidence 4678999999999999999999999999999999999999999999999999887
No 15
>KOG3524|consensus
Probab=98.44 E-value=2.8e-07 Score=64.18 Aligned_cols=55 Identities=31% Similarity=0.336 Sum_probs=51.1
Q ss_pred CccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 2 VSKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 2 ~~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
|.+.+|.+.++.|+||++...++|+++.| ..+++|+..+++|..+++++..+||+
T Consensus 506 cgRq~l~dlmirpvqrlpsvilllndl~k--~s~N~dk~~leea~kaikev~khIne 560 (850)
T KOG3524|consen 506 CGRQKLTDLMIRPVQRLPSVILLLNDMAK--KSDNKDKNNLEEAAKAIKEVLKHINE 560 (850)
T ss_pred hhhhcccchhccchhhhhHHHHHHHHHHh--hccCcchhhHHHhhhhHHHHHHHhch
Confidence 56789999999999999999999999999 35788999999999999999999995
No 16
>KOG2070|consensus
Probab=98.41 E-value=6.5e-07 Score=60.69 Aligned_cols=49 Identities=20% Similarity=0.318 Sum_probs=44.6
Q ss_pred chhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHh
Q psy2540 8 QVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHI 56 (58)
Q Consensus 8 ~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~i 56 (58)
..=|.+|+.|+.||+-||++|-+|++..|||+.+++++....+++...+
T Consensus 230 ttgLSkPfrrldkY~~lLQELERhme~~HpDrgD~qrs~avfk~~~~~C 278 (661)
T KOG2070|consen 230 TTGLSKPFRRLDKYPTLLQELERHMEDYHPDRGDIQRSMAVFKNLSAQC 278 (661)
T ss_pred ecccchHHHHHHHHHHHHHHHHHhccccCCchHHHHHHHHHHHHHHHHH
Confidence 3346799999999999999999999999999999999999999888765
No 17
>KOG4240|consensus
Probab=98.40 E-value=3.3e-07 Score=65.57 Aligned_cols=51 Identities=33% Similarity=0.402 Sum_probs=43.4
Q ss_pred CCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 5 LFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 5 l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
+++.+|+++|+|||++|.++|+++++.+-+ .-..+.+|++.|-.+...+|.
T Consensus 757 l~~~S~l~kpvqritkYqlllkell~~c~e---~~~~lkd~l~~ml~v~k~~nd 807 (1025)
T KOG4240|consen 757 LSISSYLIKPVQRITKYQLLLKELLKCCCE---GTGDLKDALEVMLSVPKKVND 807 (1025)
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHHHHhhhh---chHHHHHHHHHHHhhhhhccc
Confidence 478899999999999999999999995533 456788999999999888873
No 18
>KOG3531|consensus
Probab=97.56 E-value=2.4e-05 Score=55.72 Aligned_cols=49 Identities=20% Similarity=0.157 Sum_probs=43.0
Q ss_pred ccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHH
Q psy2540 3 SKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQL 51 (58)
Q Consensus 3 ~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~ 51 (58)
..|++..|+.+|++|+..|.+.|+.|..|.+++|.||.+...+...+.+
T Consensus 667 cyLP~~~fllkpL~rllhyq~~LeRLc~~~~~~h~d~ad~~a~~~~~~~ 715 (1036)
T KOG3531|consen 667 CYLPLNTFLLKPLSRLLHYQLALERLCGHYSPTHEDFADCKAKPNPITE 715 (1036)
T ss_pred cccccchhhhccccHHHHHHHHHHHhhcccCCCccchHHHhhccccccc
Confidence 4689999999999999999999999999999999999887766554433
No 19
>KOG4269|consensus
Probab=95.42 E-value=0.033 Score=40.71 Aligned_cols=52 Identities=29% Similarity=0.261 Sum_probs=46.8
Q ss_pred cchhhhhhhhhhhchHHHHHHHHhhCCCCCccHH----------HHHHHHHHHHHHHHHhcC
Q psy2540 7 AQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKD----------LLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 7 L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~----------~l~~a~~~~~~~~~~iN~ 58 (58)
..-.|-+|+-|+++..+-+.+++|++|-.|||+- .+++|+...+.++..||+
T Consensus 475 ~~~~l~rpi~~~~ss~~s~~~~lk~ppf~~pd~f~~~~~~i~~~Llrda~d~~~~~is~id~ 536 (1112)
T KOG4269|consen 475 EEWLLYRPIDRVTSSTLSLHDLLKHPPFPHPDWFTNDSSVIQNELLRDALDISQNFISSIDE 536 (1112)
T ss_pred hhhhhccchhhhhHHHHHHHHHhCCCCCCCcccccchhHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3456789999999999999999999999999887 899999999999998874
No 20
>KOG3524|consensus
Probab=85.17 E-value=0.42 Score=34.46 Aligned_cols=56 Identities=9% Similarity=0.008 Sum_probs=46.4
Q ss_pred CCccCCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 1 MVSKLFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 1 ~~~~l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
||+....-..++.|++++.+ .....+.+++.+..++...+..++..-++..+++|+
T Consensus 515 mirpvqrlpsvilllndl~k--~s~N~dk~~leea~kaikev~khInedKrkte~~~~ 570 (850)
T KOG3524|consen 515 MIRPVQRLPSVILLLNDMAK--KSDNKDKNNLEEAAKAIKEVLKHINEDKRKTENFIS 570 (850)
T ss_pred hccchhhhhHHHHHHHHHHh--hccCcchhhHHHhhhhHHHHHHHhchhHHHHHHHHH
Confidence 45555666678999999999 888888889988889999999999988888777653
No 21
>PF15601 Imm42: Immunity protein 42
Probab=82.84 E-value=3.4 Score=23.94 Aligned_cols=39 Identities=21% Similarity=0.225 Sum_probs=28.8
Q ss_pred hhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHH
Q psy2540 12 TVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLE 54 (58)
Q Consensus 12 ~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~ 54 (58)
+.+-.-=+|||+|++++.. ..-.++++.+|.+.++++-.
T Consensus 29 lE~~~wGskfP~Lm~~LY~----g~L~~~~~~~A~~eL~~I~~ 67 (134)
T PF15601_consen 29 LENEGWGSKFPLLMNELYR----GYLRYEELEKALKELEEIRK 67 (134)
T ss_pred hhccCCCCcchHHHHHHHc----CCCCHHHHHHHHHHHHHHHH
Confidence 4455555799999999944 34568888888888887754
No 22
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=68.01 E-value=20 Score=20.34 Aligned_cols=33 Identities=21% Similarity=0.180 Sum_probs=24.6
Q ss_pred HHHHHHHHhhCCC-CCccHHHHHHHHHHHHHHHH
Q psy2540 22 PLLLARLYKVTPD-HHTGKDLLIEAQHNIQLHLE 54 (58)
Q Consensus 22 ~LLL~~l~k~t~~-~~~d~~~l~~a~~~~~~~~~ 54 (58)
.|.++.|..+.|. +||||+...+.+...+.-++
T Consensus 84 ~L~~~~LA~f~P~~e~p~y~~~~~e~~~Yr~~LE 117 (131)
T PF09779_consen 84 HLKINQLASFLPDPEDPEYANYEEELPEYRRSLE 117 (131)
T ss_pred HHHHHHHHhcCCCCCCccHHHHHHHHHHHHHHHH
Confidence 4677778888775 56899988888887766554
No 23
>PHA01756 hypothetical protein
Probab=59.30 E-value=3.5 Score=25.76 Aligned_cols=16 Identities=25% Similarity=0.283 Sum_probs=13.7
Q ss_pred Ccchhhhhhhhhhhch
Q psy2540 6 FAQVSITVPVQRVTKY 21 (58)
Q Consensus 6 ~L~~~L~~P~QRi~rY 21 (58)
+.+|+|.+|+||++.-
T Consensus 7 SISsLLA~PFQRLTSs 22 (268)
T PHA01756 7 SISSLLASPFQRLTSS 22 (268)
T ss_pred hHHHHHhhHHHHHHHH
Confidence 5678999999999974
No 24
>PHA02674 ORF107 virion morphogenesis; Provisional
Probab=55.99 E-value=26 Score=17.59 Aligned_cols=29 Identities=17% Similarity=0.282 Sum_probs=17.3
Q ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhc
Q psy2540 23 LLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57 (58)
Q Consensus 23 LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN 57 (58)
.||..|...+ +. +...++..++++...||
T Consensus 12 HlLt~Ls~~~---d~---d~aAtlaaIkelis~IN 40 (60)
T PHA02674 12 HMLTRIAQIC---GG---DAAAAAAAIKMLMDLVN 40 (60)
T ss_pred HHHHHHHcCC---Cc---hHHHHHHHHHHHHHHHH
Confidence 3555555544 33 34556677777777777
No 25
>COG1956 GAF domain-containing protein [Signal transduction mechanisms]
Probab=50.13 E-value=30 Score=20.76 Aligned_cols=42 Identities=21% Similarity=0.226 Sum_probs=35.6
Q ss_pred hhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 17 RVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 17 Ri~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
...+|.++...+....+........+..|...+.+....+|+
T Consensus 12 k~~~Y~~l~~q~~~l~~~e~~~ianlan~sall~~~l~~~nW 53 (163)
T COG1956 12 KEEQYALLLKQLKALLAGETNFIANLANASALLKERLPDVNW 53 (163)
T ss_pred hHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhccCCce
Confidence 567899999999999988888888999998888887776663
No 26
>PF10835 DUF2573: Protein of unknown function (DUF2573); InterPro: IPR020393 This entry contains proteins with no known function.
Probab=47.35 E-value=44 Score=17.79 Aligned_cols=28 Identities=21% Similarity=0.037 Sum_probs=18.6
Q ss_pred HHhhCCCCCcc-HHHHHHHHHHHHHHHHH
Q psy2540 28 LYKVTPDHHTG-KDLLIEAQHNIQLHLEH 55 (58)
Q Consensus 28 l~k~t~~~~~d-~~~l~~a~~~~~~~~~~ 55 (58)
|.+|....||| ...+.+.+..|+++...
T Consensus 47 L~kHWN~~~PeaK~~ik~li~~Ik~lNe~ 75 (82)
T PF10835_consen 47 LAKHWNGTYPEAKEEIKELIEEIKQLNEA 75 (82)
T ss_pred HHHhhcccCchHHHHHHHHHHHHHHHHHH
Confidence 45666667775 55677777777776543
No 27
>PF06015 Chordopox_A30L: Chordopoxvirus A30L protein; InterPro: IPR009257 This family consists of several short Chordopoxvirus proteins which are homologous to the A30L protein of Vaccinia virus. The vaccinia virus A30L protein is required for the association of electron-dense, granular, proteinaceous material with the concave surfaces of crescent membranes, an early step in viral morphogenesis. A30L is known to interact with the G7L protein and it has been shown that the stability of each is dependent on its association with the other [].
Probab=44.46 E-value=47 Score=17.27 Aligned_cols=30 Identities=20% Similarity=0.173 Sum_probs=17.9
Q ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhc
Q psy2540 23 LLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57 (58)
Q Consensus 23 LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN 57 (58)
.||..|...+. ++|+ ..++..+++++..||
T Consensus 11 HlL~~Ls~~~~--d~e~---~atls~i~eli~~IN 40 (71)
T PF06015_consen 11 HLLTNLSNNKD--DSEF---AATLSAIKELISQIN 40 (71)
T ss_pred HHHHHHhcCCC--cHHH---HHHHHHHHHHHHHHH
Confidence 35555555442 4444 456667777777777
No 28
>PHA03044 IMV membrane protein; Provisional
Probab=44.35 E-value=30 Score=18.08 Aligned_cols=30 Identities=20% Similarity=0.183 Sum_probs=18.3
Q ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHhc
Q psy2540 23 LLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57 (58)
Q Consensus 23 LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~iN 57 (58)
.+|..|...+. ++|+ ..++..|++++..||
T Consensus 13 HlLt~Lsn~~~--d~ef---aAtls~ikElis~IN 42 (74)
T PHA03044 13 HLLTNLSNNSD--DSEF---SATLSTIKEIISQIN 42 (74)
T ss_pred HHHHHHHcCCC--ChhH---HHHHHHHHHHHHHHH
Confidence 35555555432 4444 556777788888877
No 29
>COG0380 OtsA Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]
Probab=42.29 E-value=64 Score=22.50 Aligned_cols=45 Identities=18% Similarity=0.176 Sum_probs=32.0
Q ss_pred hhhhhhchHHHHHHHHhh---------CCCCCccHHHHHHHHHHHHHHHHHhcC
Q psy2540 14 PVQRVTKYPLLLARLYKV---------TPDHHTGKDLLIEAQHNIQLHLEHINS 58 (58)
Q Consensus 14 P~QRi~rY~LLL~~l~k~---------t~~~~~d~~~l~~a~~~~~~~~~~iN~ 58 (58)
-.||+--|.-||++-..+ ++++..+.+.-+.....+++.+.+||+
T Consensus 297 i~~rl~Afe~lL~~~Pe~~~kvvliQi~~pSr~~v~~y~~~~~~i~~~V~rIN~ 350 (486)
T COG0380 297 IPQRLLAFERLLEEYPEWRGKVVLLQIAPPSREDVEEYQALRLQIEELVGRING 350 (486)
T ss_pred cHHHHHHHHHHHHhChhhhCceEEEEecCCCccccHHHHHHHHHHHHHHHHHHh
Confidence 357777787777665554 445555656557788889999999995
No 30
>smart00808 FABD F-actin binding domain (FABD). FABD is the F-actin binding domain of Bcr-Abl and its cellular counterpart c-Abl. The Bcr-Abl tyrosine kinase causes different forms of leukemia in humans. Depending on its position within the cell, Bcr-Abl differentially affects cellular growth. The FABD forms a compact left-handed four-helix bundle in solution.
Probab=41.77 E-value=58 Score=18.77 Aligned_cols=36 Identities=19% Similarity=0.229 Sum_probs=20.1
Q ss_pred hhchHHHHHHHH-hhC----CCCCccHHHHHHHHHHHHHHH
Q psy2540 18 VTKYPLLLARLY-KVT----PDHHTGKDLLIEAQHNIQLHL 53 (58)
Q Consensus 18 i~rY~LLL~~l~-k~t----~~~~~d~~~l~~a~~~~~~~~ 53 (58)
++|-...+++|. -+. +.+..+...+...++.|.+++
T Consensus 84 vsrlE~~~r~Lr~sa~~~~~~~~~~~~~~l~~svkeIsdvV 124 (126)
T smart00808 84 VSRLELQLRELRISAGSRNSPGATQDFSKLLSSVKEISDVV 124 (126)
T ss_pred HHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHHHh
Confidence 566677777777 222 233345555555555555554
No 31
>PF08597 eIF3_subunit: Translation initiation factor eIF3 subunit; InterPro: IPR013906 This shows protein subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae (Baker's yeast) protein Q05775 from SWISSPROT has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p []. ; PDB: 3BPJ_D 2KRB_B.
Probab=41.48 E-value=74 Score=19.69 Aligned_cols=41 Identities=10% Similarity=0.188 Sum_probs=27.4
Q ss_pred hhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHH
Q psy2540 12 TVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHL 53 (58)
Q Consensus 12 ~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~ 53 (58)
+.+...-+.|+.+|++|++.... +-.-..+++....+..++
T Consensus 154 l~~~~ks~~y~~fl~~l~r~l~~-~L~~~~ikki~s~l~~l~ 194 (245)
T PF08597_consen 154 LTSFEKSPHYPSFLKELIRDLCK-NLTSEDIKKISSSLTVLA 194 (245)
T ss_dssp HGGGTTSTTHHHHHHHHHHHHHT-TS-HHHHHHHHHHHHHHH
T ss_pred HHcccChHHHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHH
Confidence 56667788999999999997633 334555666555555544
No 32
>KOG4025|consensus
Probab=40.90 E-value=86 Score=19.24 Aligned_cols=44 Identities=20% Similarity=0.305 Sum_probs=31.4
Q ss_pred hhhhhhchHHHHHHHHhhCCCCCccHHH----HHHHHHHHHHHHHHhc
Q psy2540 14 PVQRVTKYPLLLARLYKVTPDHHTGKDL----LIEAQHNIQLHLEHIN 57 (58)
Q Consensus 14 P~QRi~rY~LLL~~l~k~t~~~~~d~~~----l~~a~~~~~~~~~~iN 57 (58)
|.|-+.+-..-|+.++...|++-.|+.. +..-.++|+++++.||
T Consensus 94 ~fqeLn~ka~aLk~iLSriPdEinDR~~FLeTIK~IASaIKkLLd~vN 141 (207)
T KOG4025|consen 94 DFQELNKKAIALKRILSRIPDEINDRHAFLETIKLIASAIKKLLDAVN 141 (207)
T ss_pred cHHHHHHHHHHHHHHHHhCcHhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7888888888899999988876556554 3444455666666666
No 33
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=39.27 E-value=35 Score=16.31 Aligned_cols=32 Identities=22% Similarity=0.235 Sum_probs=20.4
Q ss_pred hhhhhhchHHHHHHHHhhCCCCCccHHHHHHHH
Q psy2540 14 PVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQ 46 (58)
Q Consensus 14 P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~ 46 (58)
-++|++.|--.|+.+...- .+.-.-..+.+++
T Consensus 7 ti~RL~~Y~r~L~~l~~~G-~~~vSS~~La~~~ 38 (50)
T PF06971_consen 7 TIRRLPLYLRYLEQLKEEG-VERVSSQELAEAL 38 (50)
T ss_dssp HHHHHHHHHHHHHHHHHTT--SEE-HHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcC-CeeECHHHHHHHH
Confidence 4789999999999998743 2233344444443
No 34
>PHA02892 hypothetical protein; Provisional
Probab=37.70 E-value=46 Score=17.38 Aligned_cols=18 Identities=17% Similarity=0.049 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHhc
Q psy2540 40 DLLIEAQHNIQLHLEHIN 57 (58)
Q Consensus 40 ~~l~~a~~~~~~~~~~iN 57 (58)
.+....+..+++++..||
T Consensus 29 ~efsATls~vkElIs~IN 46 (75)
T PHA02892 29 PEFSASISLMQEIIKIIN 46 (75)
T ss_pred chHHHHHHHHHHHHHHHH
Confidence 344566777888888877
No 35
>PTZ00081 enolase; Provisional
Probab=36.82 E-value=65 Score=22.00 Aligned_cols=53 Identities=17% Similarity=-0.009 Sum_probs=31.7
Q ss_pred ccCCcchhhhhhh---------hhhhchHHHHHHHHhhC-CC----------CCccHHHHHHHHHHHHHHHHH
Q psy2540 3 SKLFAQVSITVPV---------QRVTKYPLLLARLYKVT-PD----------HHTGKDLLIEAQHNIQLHLEH 55 (58)
Q Consensus 3 ~~l~L~~~L~~P~---------QRi~rY~LLL~~l~k~t-~~----------~~~d~~~l~~a~~~~~~~~~~ 55 (58)
..+++++|++.|. +.....-..|+++++.- .. -.|+....++|++.+.+.+..
T Consensus 168 ~~~~~qefmi~P~ga~s~~ea~~~~~ev~~~l~~il~~~~g~~~~~vgdeGgfap~~~~~eeal~ll~eAi~~ 240 (439)
T PTZ00081 168 NKLAFQEFMIAPVGAPSFKEALRMGAEVYHSLKSVIKKKYGLDATNVGDEGGFAPNIKDPEEALDLLVEAIKK 240 (439)
T ss_pred ccccceEEeeccCCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCccccccCCCcCCCCCCHHHHHHHHHHHHHH
Confidence 3578899999994 44444445556665542 11 124455667777777666553
No 36
>KOG3519|consensus
Probab=36.51 E-value=3.6 Score=29.60 Aligned_cols=42 Identities=31% Similarity=0.363 Sum_probs=34.3
Q ss_pred chhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHH
Q psy2540 8 QVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNI 49 (58)
Q Consensus 8 ~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~ 49 (58)
.++.++|.||...|+.++-+....++..|+++-....|..+-
T Consensus 110 ~~~~~~~~~r~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~ 151 (756)
T KOG3519|consen 110 GSLVIKPFQRVMEYLLLLSELRASSPSSHADQLPKTEANIAN 151 (756)
T ss_pred Cccccccccccccchhccccccccccccchhhcchhhhcccc
Confidence 345789999999999999999999998888877666665443
No 37
>COG5590 Uncharacterized conserved protein [Function unknown]
Probab=35.47 E-value=76 Score=20.05 Aligned_cols=31 Identities=23% Similarity=0.322 Sum_probs=24.4
Q ss_pred hchHHHHHHHHhhCCCCCccHHHHHHHHHHH
Q psy2540 19 TKYPLLLARLYKVTPDHHTGKDLLIEAQHNI 49 (58)
Q Consensus 19 ~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~ 49 (58)
.+|..+++++++..|.....-..+.+|.++.
T Consensus 27 ~kk~~~l~~llelvP~~gwnn~li~eal~a~ 57 (229)
T COG5590 27 IKKIVFLQSLLELVPFNGWNNRLIVEALEAL 57 (229)
T ss_pred HHHHHHHHHHHHhccccccchhHHHHHHHhc
Confidence 4788999999999987766777777776653
No 38
>PF12311 DUF3632: Protein of unknown function (DUF3632); InterPro: IPR022085 This domain family is found in eukaryotes, and is approximately 170 amino acids in length. There is a conserved ALE sequence motif.
Probab=32.93 E-value=84 Score=17.98 Aligned_cols=28 Identities=21% Similarity=0.338 Sum_probs=21.0
Q ss_pred HHHHHhhCCCCCccHHHHHHHHHHHHHH
Q psy2540 25 LARLYKVTPDHHTGKDLLIEAQHNIQLH 52 (58)
Q Consensus 25 L~~l~k~t~~~~~d~~~l~~a~~~~~~~ 52 (58)
+-++.+.+|.+|+....|-+-+..+++.
T Consensus 4 l~~~A~~~p~~~~~qdrLv~ll~~l~~~ 31 (184)
T PF12311_consen 4 LIEVAKQIPYDHPAQDRLVDLLQALRKL 31 (184)
T ss_pred HHHHHHhCCCCCccHHHHHHHHHHHHcC
Confidence 4567788888888888887777777654
No 39
>smart00428 H3 Histone H3.
Probab=32.52 E-value=71 Score=17.69 Aligned_cols=34 Identities=15% Similarity=0.131 Sum_probs=16.9
Q ss_pred hhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHH
Q psy2540 13 VPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHL 53 (58)
Q Consensus 13 ~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~ 53 (58)
.|+||+.| ++....... .++.--..|+.++++.+
T Consensus 33 ~pF~RLVR------EI~~~~~~~-~~~R~~~~Al~aLQeas 66 (105)
T smart00428 33 APFQRLVR------EIAQKFTTG-VDLRFQSSAIMALQEAA 66 (105)
T ss_pred ccHHHHHH------HHHHHcCCC-CCceeeHHHHHHHHHHH
Confidence 58888765 555543221 23444444444444443
No 40
>PF10193 Telomere_reg-2: Telomere length regulation protein; InterPro: IPR019337 This entry represents a conserved domain found in a group of proteins called telomere-length regulation, or clock abnormal protein-2, which are conserved from plants to humans. These proteins regulate telomere length and contribute to silencing of sub-telomeric regions []. In vitro the protein binds to telomeric DNA repeats. ; PDB: 3O4Z_B.
Probab=32.11 E-value=31 Score=19.03 Aligned_cols=32 Identities=9% Similarity=0.089 Sum_probs=14.6
Q ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHH
Q psy2540 23 LLLARLYKVTPDHHTGKDLLIEAQHNIQLHLE 54 (58)
Q Consensus 23 LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~ 54 (58)
.-+++++.....++.+++..+.|+.....++.
T Consensus 3 vYlrDll~~L~~~~~~~e~~e~aL~~a~~LIR 34 (114)
T PF10193_consen 3 VYLRDLLEYLRSDDEDYEKFEAALKSAEKLIR 34 (114)
T ss_dssp --HHHHHHHHT------S-SHHHHHHHHHHHH
T ss_pred chHHHHHHHHhcCcCCHHHHHHHHHHHHHHHh
Confidence 34666666554344456666777766666554
No 41
>KOG3391|consensus
Probab=31.91 E-value=16 Score=21.56 Aligned_cols=45 Identities=20% Similarity=0.334 Sum_probs=33.6
Q ss_pred hhhhhhhchHHHHHHHHhhCCCCCc--cHHH-------------HHHHHHHHHHHHHHhc
Q psy2540 13 VPVQRVTKYPLLLARLYKVTPDHHT--GKDL-------------LIEAQHNIQLHLEHIN 57 (58)
Q Consensus 13 ~P~QRi~rY~LLL~~l~k~t~~~~~--d~~~-------------l~~a~~~~~~~~~~iN 57 (58)
+|+-|.--.|+||.-..++....|. +|+. +...+.++..++..+|
T Consensus 16 ~piDrektCPlLlrVf~~~~g~hH~~def~~g~vPs~elQiYtW~datL~ELtsLvkevn 75 (151)
T KOG3391|consen 16 KPIDREKTCPLLLRVFTQFNGRHHVMDEFEDGNVPSSELQIYTWMDATLRELTSLVKEVN 75 (151)
T ss_pred CcccccccCcceeeeeeecCCCCcchhhhhcCCCCchheeEeehhhhhHHHHHHHHHHcC
Confidence 5999999999999998886655553 4444 5667777777777766
No 42
>PF14409 Herpeto_peptide: Ribosomally synthesized peptide in Herpetosiphon
Probab=31.64 E-value=75 Score=15.83 Aligned_cols=10 Identities=40% Similarity=0.793 Sum_probs=8.2
Q ss_pred hhhhhchHHH
Q psy2540 15 VQRVTKYPLL 24 (58)
Q Consensus 15 ~QRi~rY~LL 24 (58)
+-|+++||++
T Consensus 7 ~dr~~~~~li 16 (58)
T PF14409_consen 7 ADRTTEYQLI 16 (58)
T ss_pred hhhhhhhHHH
Confidence 5688899888
No 43
>PF07253 Gypsy: Gypsy protein; InterPro: IPR009882 This family consists of several Gypsy/Env proteins from Drosophila and Ceratitis fruit fly species. Gypsy is an endogenous retrovirus of Drosophila melanogaster. Phylogenetic studies suggest that occasional horizontal transfer events of gypsy occur between Drosophila species. Gypsy possesses infective properties associated with the products of the envelope gene that might be at the origin of these interspecies transfers [].
Probab=31.29 E-value=1e+02 Score=21.55 Aligned_cols=43 Identities=9% Similarity=-0.008 Sum_probs=31.9
Q ss_pred hhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHH
Q psy2540 12 TVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEH 55 (58)
Q Consensus 12 ~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~ 55 (58)
+.|-+|..|---++...+|.- ...||.+++..-......+++.
T Consensus 74 l~~~~R~~Rsld~~g~a~k~i-ag~pd~~d~~~i~~~~~~lv~~ 116 (472)
T PF07253_consen 74 LMPHHRGRRSLDWLGTAWKWI-AGTPDASDWEAILNTQENLVKN 116 (472)
T ss_pred hhhhhccccchhhhhHhHHHH-cCCCChHHHHHHHHHHHHHhhc
Confidence 568889999988999999986 4677777776666555555544
No 44
>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]
Probab=31.20 E-value=16 Score=24.33 Aligned_cols=14 Identities=14% Similarity=0.116 Sum_probs=11.1
Q ss_pred cCCcchhhhhhhhh
Q psy2540 4 KLFAQVSITVPVQR 17 (58)
Q Consensus 4 ~l~L~~~L~~P~QR 17 (58)
++.+.+|++||+++
T Consensus 90 ~~n~~dYl~KPvt~ 103 (361)
T COG3947 90 GMNLDDYLPKPVTP 103 (361)
T ss_pred ccchHhhccCCCCH
Confidence 45678899999986
No 45
>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=30.98 E-value=75 Score=18.84 Aligned_cols=44 Identities=23% Similarity=0.322 Sum_probs=28.8
Q ss_pred hhhhhhchHHHHHHHHhhCCCCCccHHHH----HHHHHHHHHHHHHhc
Q psy2540 14 PVQRVTKYPLLLARLYKVTPDHHTGKDLL----IEAQHNIQLHLEHIN 57 (58)
Q Consensus 14 P~QRi~rY~LLL~~l~k~t~~~~~d~~~l----~~a~~~~~~~~~~iN 57 (58)
.+|++.+-.--|+.++..-|.+=.|+... ++-.++|+++++.+|
T Consensus 90 ~~~el~~~A~~LK~iLSrIPdei~dR~~FL~tIK~IAsaIK~lLdAvn 137 (154)
T PF06840_consen 90 EFQELNKRATALKRILSRIPDEISDRRTFLETIKEIASAIKKLLDAVN 137 (154)
T ss_dssp HHHHHHHHHHHHHHHHHTHHHHTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhcCcHhhcchHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777777777888888777666666653 344445566666665
No 46
>KOG4127|consensus
Probab=30.72 E-value=1.2e+02 Score=20.86 Aligned_cols=22 Identities=32% Similarity=0.520 Sum_probs=17.5
Q ss_pred hhhhhhhhhchHHHHHHHHhhC
Q psy2540 11 ITVPVQRVTKYPLLLARLYKVT 32 (58)
Q Consensus 11 L~~P~QRi~rY~LLL~~l~k~t 32 (58)
..+-+--+.+||.|+.+|+...
T Consensus 349 ~PkGLEDVSkYP~LiaeLl~r~ 370 (419)
T KOG4127|consen 349 VPKGLEDVSKYPDLIAELLERG 370 (419)
T ss_pred CCcchhhhhhhHHHHHHHHhcC
Confidence 3455667889999999999864
No 47
>cd06225 HAMP Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The structure of the HAMP dimer from Archaeoglobus fulgidus has been solved using nuclear magnetic resonance, revealing a parallel four-helix bundle; this structure has been confirmed by cross-linking analysis of HAMP domains from the Escherichia coli aerotaxis receptor Aer. It has been suggested that the four-helix arrangement can rotate between the unusually packed conformation observed in the NMR structure and a canonical coiled-coil arrangement. Such rotation may coincide with signal transduction, but a common mechanism by which HAMP domains relay a variety of input signals has yet to be established.
Probab=29.65 E-value=48 Score=13.01 Aligned_cols=10 Identities=20% Similarity=0.458 Sum_probs=6.2
Q ss_pred hhhhhhhhch
Q psy2540 12 TVPVQRVTKY 21 (58)
Q Consensus 12 ~~P~QRi~rY 21 (58)
.+|++++..+
T Consensus 2 ~~~i~~l~~~ 11 (48)
T cd06225 2 LRPLRRLAEA 11 (48)
T ss_pred cHHHHHHHHH
Confidence 3567766665
No 48
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=28.77 E-value=43 Score=21.09 Aligned_cols=26 Identities=19% Similarity=0.091 Sum_probs=16.6
Q ss_pred CCcchhhhhhh------hhhhchHHHHHHHHh
Q psy2540 5 LFAQVSITVPV------QRVTKYPLLLARLYK 30 (58)
Q Consensus 5 l~L~~~L~~P~------QRi~rY~LLL~~l~k 30 (58)
.+.-+||+||+ |++++|.---+.+.+
T Consensus 95 ~Gv~DYLiKPf~~eRl~~aL~~y~~~r~~l~~ 126 (224)
T COG4565 95 YGVVDYLIKPFTFERLQQALTRYRQKRHALES 126 (224)
T ss_pred cCchhheecceeHHHHHHHHHHHHHHHHHHhh
Confidence 46778999997 456666554443333
No 49
>PLN00158 histone H2B; Provisional
Probab=28.30 E-value=1.1e+02 Score=17.37 Aligned_cols=37 Identities=11% Similarity=0.269 Sum_probs=26.5
Q ss_pred hhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHH
Q psy2540 16 QRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEH 55 (58)
Q Consensus 16 QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~ 55 (58)
.|.-.|..-+..++|.. |||...-.+|+..|..++..
T Consensus 24 kr~esy~~YI~kVLKQV---hPd~gIS~kaM~ImnSfvnD 60 (116)
T PLN00158 24 SKTETYKIYIYKVLKQV---HPDTGISSKAMSIMNSFIND 60 (116)
T ss_pred cccccHHHHHHHHHHHh---CCCCCccHHHHHHHHHHHHH
Confidence 35667778788888854 77777777887777766654
No 50
>PF05713 MobC: Bacterial mobilisation protein (MobC); InterPro: IPR008687 This family consists of several bacterial MobC-like, mobilisation proteins. MobC proteins belong to the group of relaxases. Together with MobA and MobB they bind to a single cis-active site of a mobilising plasmid, the origin of transfer (oriT) region []. The absence of MobC has several different effects on oriT DNA. Site- and strand-specific nicking by MobA protein is severely reduced, accounting for the lower frequency of mobilisation. The localised DNA strand separation required for this nicking is less affected, but becomes more sensitive to the level of active DNA gyrase in the cell. In addition, strand separation is not efficiently extended through the region containing the nick site. These effects suggest a model in which MobC acts as a molecular wedge for the relaxosome-induced melting of oriT DNA. The effect of MobC on strand separation may be partially complemented by the helical distortion induced by supercoiling. However, MobC extends the melted region through the nick site, thus providing the single-stranded substrate required for cleavage by MobA [].
Probab=27.11 E-value=77 Score=14.54 Aligned_cols=30 Identities=7% Similarity=0.011 Sum_probs=13.4
Q ss_pred HHHHHhhCCCCCccHHHHHHHHHHHHHHHH
Q psy2540 25 LARLYKVTPDHHTGKDLLIEAQHNIQLHLE 54 (58)
Q Consensus 25 L~~l~k~t~~~~~d~~~l~~a~~~~~~~~~ 54 (58)
+..+.|+......+.....+.+..+.++..
T Consensus 12 lNQiAk~~N~~~~~~~~~~~~~~~L~~i~~ 41 (48)
T PF05713_consen 12 LNQIAKHANSGQVDEQEYEKLIEELREIEK 41 (48)
T ss_pred HHHHHHHHhCCCCcHHHHHHHHHHHHHHHH
Confidence 455666554433334344433444444433
No 51
>KOG0718|consensus
Probab=26.82 E-value=85 Score=22.23 Aligned_cols=52 Identities=19% Similarity=-0.027 Sum_probs=36.8
Q ss_pred CCcchhhhhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHh
Q psy2540 5 LFAQVSITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHI 56 (58)
Q Consensus 5 l~L~~~L~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~i 56 (58)
+.+.-|.++|.-+=-+-...+...-+.......-+.....|+..|++.+..|
T Consensus 389 F~l~k~v~rP~~~~~k~~~~~~~~ek~~~~~~~Kk~eA~~av~LMq~t~~Ri 440 (546)
T KOG0718|consen 389 FGLKKFVLRPYLLKRKKRERLLRREKLKDSVEAKKVEAERAVKLMQETAERI 440 (546)
T ss_pred HHHHHHeecHHHHhhHhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455677788777666666777666654444455777888999999998875
No 52
>PF12536 DUF3734: Patatin phospholipase ; InterPro: IPR021095 This entry represents bacterial proteins of approximately 110 amino acids in length. These proteins are found in association with PF01734 from PFAM. There are two completely conserved residues (F and G) that may be functionally important. The proteins in this family are frequently annotated as patatin family phospholipases however there is little accompanying literature to confirm this.
Probab=24.81 E-value=1.1e+02 Score=16.65 Aligned_cols=27 Identities=15% Similarity=0.249 Sum_probs=21.1
Q ss_pred hhhhhhhhchHHHHHHHHhhCCCCCcc
Q psy2540 12 TVPVQRVTKYPLLLARLYKVTPDHHTG 38 (58)
Q Consensus 12 ~~P~QRi~rY~LLL~~l~k~t~~~~~d 38 (58)
+-=..++-+|.-++.+|++..|++-.+
T Consensus 11 td~~~~~~~lr~~i~~Ll~~lP~~~r~ 37 (108)
T PF12536_consen 11 TDRFRRIQRLRHAIRELLERLPEELRD 37 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCHHHhC
Confidence 344678889999999999999875444
No 53
>PLN00191 enolase
Probab=24.58 E-value=1.5e+02 Score=20.49 Aligned_cols=53 Identities=17% Similarity=0.062 Sum_probs=30.3
Q ss_pred ccCCcchhhhhhhhh---------hhchHHHHHHHHhhC-CC----------CCccHHHHHHHHHHHHHHHHH
Q psy2540 3 SKLFAQVSITVPVQR---------VTKYPLLLARLYKVT-PD----------HHTGKDLLIEAQHNIQLHLEH 55 (58)
Q Consensus 3 ~~l~L~~~L~~P~QR---------i~rY~LLL~~l~k~t-~~----------~~~d~~~l~~a~~~~~~~~~~ 55 (58)
..+++++|++.|.-- ...--..|+.+++.- .. -.|.....++|++.+.+.+..
T Consensus 183 ~~~~~qefmi~P~ga~s~~ea~~~~~ev~~~l~~il~~~~g~~~~~vgdeGg~ap~~~~~~eal~ll~eAi~~ 255 (457)
T PLN00191 183 NKLAMQEFMILPVGASSFKEAMQMGSEVYHHLKAVIKKKYGQDACNVGDEGGFAPNIQDNKEGLELLKEAIEK 255 (457)
T ss_pred cccchheeeecCCCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCcCccCCCCCcCCCCCCHHHHHHHHHHHHHH
Confidence 357889999999543 223233444554432 11 123455677777777776653
No 54
>PTZ00463 histone H2B; Provisional
Probab=24.04 E-value=1.4e+02 Score=17.05 Aligned_cols=36 Identities=17% Similarity=0.265 Sum_probs=25.2
Q ss_pred hhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHH
Q psy2540 17 RVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEH 55 (58)
Q Consensus 17 Ri~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~~ 55 (58)
|.-.|..-+-.++|.. |||...-.+|+..|..++..
T Consensus 26 r~esy~~YI~KVLKqV---hPd~gIS~kaM~ImnSfvnD 61 (117)
T PTZ00463 26 RYDSYGLYIFKVLKQV---HPDTGISRKSMNIMNSFLVD 61 (117)
T ss_pred ccchHHHHHHHHHHhh---CCCCCccHHHHHHHHHHHHH
Confidence 4556777777778754 77777777888777666554
No 55
>smart00595 MADF subfamily of SANT domain.
Probab=24.00 E-value=1.1e+02 Score=15.34 Aligned_cols=24 Identities=13% Similarity=0.033 Sum_probs=12.5
Q ss_pred CCCccHHHHHHHHHHHHHHHHHhc
Q psy2540 34 DHHTGKDLLIEAQHNIQLHLEHIN 57 (58)
Q Consensus 34 ~~~~d~~~l~~a~~~~~~~~~~iN 57 (58)
..|++|..-..--.+-.+|+..+|
T Consensus 15 ~~~~~y~~~~~r~~aW~~Ia~~l~ 38 (89)
T smart00595 15 RRHPDYRNKEEKRKAWEEIAEELG 38 (89)
T ss_pred CCChhhcChHHHHHHHHHHHHHHC
Confidence 556666654444445555555443
No 56
>PRK10807 paraquat-inducible protein B; Provisional
Probab=23.66 E-value=1.9e+02 Score=20.38 Aligned_cols=29 Identities=7% Similarity=0.066 Sum_probs=18.0
Q ss_pred HHHhhCCCCCccHHHHHHHHHHHHHHHHH
Q psy2540 27 RLYKVTPDHHTGKDLLIEAQHNIQLHLEH 55 (58)
Q Consensus 27 ~l~k~t~~~~~d~~~l~~a~~~~~~~~~~ 55 (58)
..++...++.+-+..+++++..++..+..
T Consensus 487 ~~l~~~~~~s~~~~~l~~tl~~l~~~~r~ 515 (547)
T PRK10807 487 RSMQGFQPGSPAYNKMVADMQRLDQVLRE 515 (547)
T ss_pred HHHhhcCCCChHHHHHHHHHHHHHHHHHH
Confidence 34444445777788877776666665554
No 57
>PF07136 DUF1385: Protein of unknown function (DUF1385); InterPro: IPR010787 This family contains a number of hypothetical bacterial proteins of unknown function approximately 300 residues in length. Some family members are predicted to be metal-dependent.
Probab=23.27 E-value=2.1e+02 Score=18.16 Aligned_cols=37 Identities=30% Similarity=0.372 Sum_probs=26.0
Q ss_pred hhhhhhchHH-HHHHHHhhCCCCCccHHHHHHHHHHHHHHHH
Q psy2540 14 PVQRVTKYPL-LLARLYKVTPDHHTGKDLLIEAQHNIQLHLE 54 (58)
Q Consensus 14 P~QRi~rY~L-LL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~ 54 (58)
|+.|+..+|- .+|.+ | ...||.+.++-|+.+++.+..
T Consensus 197 ~l~~~l~~PGl~lQ~l---T-T~EPdd~qlEvAI~Al~~~l~ 234 (236)
T PF07136_consen 197 PLVRILSAPGLWLQRL---T-TREPDDDQLEVAIAALKAVLD 234 (236)
T ss_pred HHHHHHHhHHHHHHHH---H-cCCCCHHHHHHHHHHHHHHhc
Confidence 5666666663 55552 2 356899999999999988764
No 58
>PHA00489 scaffolding protein
Probab=22.10 E-value=91 Score=17.09 Aligned_cols=27 Identities=22% Similarity=0.245 Sum_probs=17.8
Q ss_pred HHHHHHhhCCCCCccHHHHHHHHHHHH
Q psy2540 24 LLARLYKVTPDHHTGKDLLIEAQHNIQ 50 (58)
Q Consensus 24 LL~~l~k~t~~~~~d~~~l~~a~~~~~ 50 (58)
.|+.+......-|.+|+.+..|.....
T Consensus 28 aLqqlr~~ygSf~sEy~elT~a~eKl~ 54 (101)
T PHA00489 28 ALQQLRESYGSFHSEYEELTEALEKLT 54 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555556778888888877654
No 59
>PF06833 MdcE: Malonate decarboxylase gamma subunit (MdcE); InterPro: IPR009648 This family consists of several bacterial malonate decarboxylase gamma subunit proteins. Malonate decarboxylase of Klebsiella pneumoniae consists of four different subunits and catalyses the conversion of malonate plus H+ to acetate and CO2. The catalysis proceeds via acetyl and malonyl thioester residues with the phosphribosyl-dephospho-CoA prosthetic group of the acyl carrier protein (ACP) subunit. MdcD and E together probably function as malonyl-S-ACP decarboxylase []. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase, while the gamma subunit appears either to mediate subunit interaction or to act as a co-decarboxylase with the beta subunit. The beta and gamma subunits exhibit some local sequence similarity.
Probab=21.56 E-value=1.3e+02 Score=19.05 Aligned_cols=29 Identities=34% Similarity=0.408 Sum_probs=23.6
Q ss_pred hhhhhhchHH-HHHHHHhhCCCCCccHHHH
Q psy2540 14 PVQRVTKYPL-LLARLYKVTPDHHTGKDLL 42 (58)
Q Consensus 14 P~QRi~rY~L-LL~~l~k~t~~~~~d~~~l 42 (58)
-+-||||-++ -|+++.|.+|.--+|-+..
T Consensus 146 s~ARVTk~~ve~Le~la~s~PvfA~gi~ny 175 (234)
T PF06833_consen 146 SAARVTKRPVEELEELAKSVPVFAPGIENY 175 (234)
T ss_pred HhHHHhhcCHHHHHHHhhcCCCcCCCHHHH
Confidence 3679999998 8999999999877765553
No 60
>PF09190 DALR_2: DALR domain; InterPro: IPR015273 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This DALR domain is found in cysteinyl-tRNA-synthetases []. ; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1LI5_B 1LI7_B 1U0B_B 3TQO_A.
Probab=21.38 E-value=93 Score=14.94 Aligned_cols=16 Identities=25% Similarity=0.129 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHhc
Q psy2540 42 LIEAQHNIQLHLEHIN 57 (58)
Q Consensus 42 l~~a~~~~~~~~~~iN 57 (58)
...|+..+-+++..+|
T Consensus 12 T~~Ala~lf~l~~~~N 27 (63)
T PF09190_consen 12 TPEALAALFELVKEIN 27 (63)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHH
Confidence 4567777777777776
No 61
>PF04010 DUF357: Protein of unknown function (DUF357); InterPro: IPR023140 This domain is found in a family of proteins, which have no known function.; PDB: 2OO2_A 2PMR_A.
Probab=21.17 E-value=1.4e+02 Score=15.36 Aligned_cols=14 Identities=14% Similarity=0.259 Sum_probs=10.6
Q ss_pred chHHHHHHHHhhCC
Q psy2540 20 KYPLLLARLYKVTP 33 (58)
Q Consensus 20 rY~LLL~~l~k~t~ 33 (58)
||.-++++-++...
T Consensus 2 rY~~~l~~al~~i~ 15 (75)
T PF04010_consen 2 RYIRMLEEALESIE 15 (75)
T ss_dssp HHHHHHHHHHHHCC
T ss_pred cHHHHHHHHHHHhh
Confidence 67777888888766
No 62
>PF12641 Flavodoxin_3: Flavodoxin domain
Probab=20.93 E-value=80 Score=18.46 Aligned_cols=16 Identities=19% Similarity=0.202 Sum_probs=13.0
Q ss_pred CCCccHHHHHHHHHHH
Q psy2540 34 DHHTGKDLLIEAQHNI 49 (58)
Q Consensus 34 ~~~~d~~~l~~a~~~~ 49 (58)
..|||-.+++.|...+
T Consensus 144 ~~HPde~Dl~~a~~~~ 159 (160)
T PF12641_consen 144 ASHPDEEDLQNAKAFF 159 (160)
T ss_pred hcCCCHHHHHHHHHHh
Confidence 4799999999987654
No 63
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=20.77 E-value=1.2e+02 Score=14.75 Aligned_cols=23 Identities=9% Similarity=-0.094 Sum_probs=9.9
Q ss_pred CCCccHHHHHHHHHHHHHHHHHh
Q psy2540 34 DHHTGKDLLIEAQHNIQLHLEHI 56 (58)
Q Consensus 34 ~~~~d~~~l~~a~~~~~~~~~~i 56 (58)
+.|++|..-..--++-++|+..+
T Consensus 14 ~~~~~y~~~~~r~~aw~~Ia~~l 36 (85)
T PF10545_consen 14 PSHPDYKNRQLREEAWQEIAREL 36 (85)
T ss_pred CCCcccCCHHHHHHHHHHHHHHH
Confidence 34455444443333444444433
No 64
>COG3872 Predicted metal-dependent enzyme [General function prediction only]
Probab=20.69 E-value=1.6e+02 Score=19.43 Aligned_cols=40 Identities=25% Similarity=0.281 Sum_probs=27.8
Q ss_pred hhhhhhhhchHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHH
Q psy2540 12 TVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLE 54 (58)
Q Consensus 12 ~~P~QRi~rY~LLL~~l~k~t~~~~~d~~~l~~a~~~~~~~~~ 54 (58)
-+|+-++..||-|.=.++- ...||-++++-|+.++++...
T Consensus 262 ~~pvlKlL~~PGl~LQ~LT---TkEP~ddQlEVAI~a~~~~lg 301 (318)
T COG3872 262 NKPVLKLLGYPGLWLQLLT---TKEPDDDQLEVAIVAFKEALG 301 (318)
T ss_pred CCcceeeecCcHHHHHHHh---cCCCchHHHHHHHHHHHHHhc
Confidence 3577788888876544443 245677888889888877653
No 65
>smart00304 HAMP HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain.
Probab=20.67 E-value=79 Score=12.35 Aligned_cols=11 Identities=27% Similarity=0.537 Sum_probs=6.9
Q ss_pred hhhhhhhhhch
Q psy2540 11 ITVPVQRVTKY 21 (58)
Q Consensus 11 L~~P~QRi~rY 21 (58)
+..|+.++.++
T Consensus 3 ~~~~l~~l~~~ 13 (53)
T smart00304 3 ILRPLRRLAEA 13 (53)
T ss_pred cchHHHHHHHH
Confidence 45677776664
No 66
>PHA02595 tk.4 hypothetical protein; Provisional
Probab=20.06 E-value=1.9e+02 Score=16.58 Aligned_cols=23 Identities=13% Similarity=0.182 Sum_probs=18.3
Q ss_pred CCCCccHHHHHHHHHHHHHHHHH
Q psy2540 33 PDHHTGKDLLIEAQHNIQLHLEH 55 (58)
Q Consensus 33 ~~~~~d~~~l~~a~~~~~~~~~~ 55 (58)
+...++|+.++.+++.+.+.+..
T Consensus 87 ~~~~~~y~ai~~~l~~l~~~~~~ 109 (154)
T PHA02595 87 PGPNLEYSALMNCFEELNEVFEG 109 (154)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHh
Confidence 34567899999999999887764
Done!