Query 031345
Match_columns 161
No_of_seqs 106 out of 232
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 12:46:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031345.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031345hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3151 26S proteasome regulat 100.0 2.8E-57 6.1E-62 367.6 14.0 159 1-161 101-260 (260)
2 PF10075 PCI_Csn8: COP9 signal 100.0 3.4E-33 7.4E-38 212.3 8.0 127 2-131 6-134 (143)
3 PF03399 SAC3_GANP: SAC3/GANP/ 99.7 2.3E-17 5E-22 130.4 7.5 102 2-103 101-204 (204)
4 KOG4414 COP9 signalosome, subu 99.7 7.8E-17 1.7E-21 124.2 8.7 127 3-132 42-172 (197)
5 KOG1861 Leucine permease trans 99.0 3.8E-09 8.3E-14 93.8 11.5 126 2-131 389-517 (540)
6 PF01399 PCI: PCI domain; Int 97.5 0.0032 6.8E-08 43.8 10.6 72 42-114 6-82 (105)
7 KOG3252 Uncharacterized conser 97.2 0.0046 9.9E-08 49.7 10.3 122 7-132 69-191 (217)
8 smart00088 PINT motif in prote 95.7 0.063 1.4E-06 36.7 6.7 63 69-132 2-70 (88)
9 smart00753 PAM PCI/PINT associ 95.7 0.063 1.4E-06 36.7 6.7 63 69-132 2-70 (88)
10 KOG2582 COP9 signalosome, subu 88.8 3.3 7.2E-05 36.8 8.7 72 73-149 299-373 (422)
11 COG5079 SAC3 Nuclear protein e 84.0 3.6 7.7E-05 38.1 6.6 94 25-123 261-377 (646)
12 KOG1860 Nuclear protein export 81.6 5.8 0.00013 38.8 7.3 104 20-125 292-418 (927)
13 COG5187 RPN7 26S proteasome re 80.0 8.4 0.00018 33.7 7.1 103 32-135 266-379 (412)
14 KOG0687 26S proteasome regulat 73.2 25 0.00054 31.1 8.2 99 36-135 256-365 (393)
15 PF03374 ANT: Phage antirepres 68.8 11 0.00025 26.6 4.5 45 83-130 16-61 (111)
16 COG2522 Predicted transcriptio 66.5 19 0.00042 26.8 5.4 45 70-119 3-48 (119)
17 KOG2581 26S proteasome regulat 66.2 14 0.0003 33.5 5.3 41 73-113 359-399 (493)
18 KOG3250 COP9 signalosome, subu 65.9 11 0.00023 31.4 4.3 52 5-56 63-141 (258)
19 KOG3389 NADH:ubiquinone oxidor 60.9 3.5 7.6E-05 32.1 0.6 36 86-123 114-149 (178)
20 KOG1464 COP9 signalosome, subu 58.2 60 0.0013 28.4 7.6 82 31-113 299-385 (440)
21 PF09976 TPR_21: Tetratricopep 56.8 66 0.0014 23.5 6.9 64 10-74 58-124 (145)
22 KOG3442 Uncharacterized conser 52.0 66 0.0014 24.4 6.1 60 69-131 16-99 (132)
23 KOG1076 Translation initiation 51.8 85 0.0018 30.5 8.0 95 18-113 633-739 (843)
24 cd02677 MIT_SNX15 MIT: domain 49.4 66 0.0014 21.7 5.3 46 36-88 10-63 (75)
25 PF10098 DUF2336: Uncharacteri 49.2 55 0.0012 26.6 5.9 89 6-102 167-259 (262)
26 PF04800 ETC_C1_NDUFA4: ETC co 46.2 11 0.00024 27.3 1.1 23 99-123 51-73 (101)
27 PF05687 DUF822: Plant protein 45.1 16 0.00036 28.3 2.0 51 73-130 17-71 (150)
28 PF12728 HTH_17: Helix-turn-he 43.5 71 0.0015 19.1 4.6 22 92-114 2-23 (51)
29 PF12833 HTH_18: Helix-turn-he 42.1 95 0.0021 20.1 5.8 41 74-114 28-68 (81)
30 TIGR01764 excise DNA binding d 40.6 71 0.0015 18.2 4.1 22 92-114 2-23 (49)
31 PF09035 Tn916-Xis: Excisionas 36.3 1.1E+02 0.0025 20.4 4.8 40 91-131 13-54 (67)
32 PF06627 DUF1153: Protein of u 35.9 1.3E+02 0.0027 21.5 5.2 38 76-114 34-71 (90)
33 PHA01082 putative transcriptio 35.5 1.2E+02 0.0026 23.0 5.2 43 119-161 80-133 (133)
34 PRK00115 hemE uroporphyrinogen 35.3 1.4E+02 0.003 25.5 6.4 97 14-114 118-223 (346)
35 PLN00156 histone H2AX; Provisi 34.9 1.7E+02 0.0037 22.5 6.1 82 34-128 26-113 (139)
36 KOG2072 Translation initiation 33.5 1.5E+02 0.0032 29.4 6.7 96 63-158 419-529 (988)
37 PRK07003 DNA polymerase III su 31.2 2.6E+02 0.0056 27.6 8.0 80 4-83 202-295 (830)
38 PF12840 HTH_20: Helix-turn-he 31.2 1.3E+02 0.0029 18.7 4.4 43 69-113 3-45 (61)
39 KOG2495 NADH-dehydrogenase (ub 31.1 46 0.001 30.4 2.9 61 63-123 178-251 (491)
40 cd00717 URO-D Uroporphyrinogen 30.9 1.8E+02 0.004 24.4 6.4 97 14-114 109-214 (335)
41 PF10255 Paf67: RNA polymerase 30.7 1.2E+02 0.0026 27.2 5.4 45 67-112 297-341 (404)
42 smart00497 IENR1 Intron encode 30.1 1E+02 0.0022 18.4 3.6 31 92-126 18-48 (53)
43 KOG0104 Molecular chaperones G 29.7 1.8E+02 0.0039 28.6 6.6 77 77-157 69-149 (902)
44 COG3357 Predicted transcriptio 28.7 96 0.0021 22.3 3.6 38 75-112 2-39 (97)
45 PRK09210 RNA polymerase sigma 28.6 2.3E+02 0.0049 24.7 6.7 105 7-113 119-253 (367)
46 TIGR01128 holA DNA polymerase 28.1 3.2E+02 0.007 22.0 10.1 115 4-123 135-266 (302)
47 PF02042 RWP-RK: RWP-RK domain 27.9 1.1E+02 0.0025 19.4 3.5 27 87-114 11-37 (52)
48 cd04762 HTH_MerR-trunc Helix-T 27.6 1.2E+02 0.0026 17.0 4.2 22 92-114 1-22 (49)
49 PLN00155 histone H2A; Provisio 27.5 35 0.00076 22.4 1.1 22 32-53 19-41 (58)
50 PF12169 DNA_pol3_gamma3: DNA 27.3 1.1E+02 0.0025 22.1 4.0 51 37-87 16-68 (143)
51 PF14647 FAM91_N: FAM91 N-term 26.7 89 0.0019 27.1 3.7 52 65-123 88-144 (308)
52 smart00071 Galanin Galanin. Ga 26.6 37 0.00081 24.4 1.2 16 116-131 10-26 (103)
53 PF12959 DUF3848: Protein of u 25.6 1.2E+02 0.0025 22.2 3.6 40 74-121 35-74 (101)
54 PF14559 TPR_19: Tetratricopep 25.4 64 0.0014 19.8 2.1 28 10-37 35-62 (68)
55 PRK11038 hypothetical protein; 24.7 52 0.0011 20.6 1.4 23 3-26 12-34 (47)
56 PF10689 DUF2496: Protein of u 24.7 53 0.0011 20.3 1.5 23 3-26 11-33 (44)
57 PRK14961 DNA polymerase III su 24.6 4.4E+02 0.0096 22.6 7.8 79 4-82 202-294 (363)
58 TIGR01464 hemE uroporphyrinoge 24.5 2.8E+02 0.006 23.4 6.4 75 36-114 138-217 (338)
59 cd04761 HTH_MerR-SF Helix-Turn 24.3 1.1E+02 0.0023 17.8 2.8 25 92-120 1-25 (49)
60 PLN02433 uroporphyrinogen deca 24.2 2.9E+02 0.0064 23.5 6.6 96 14-113 111-215 (345)
61 PF01620 Pollen_allerg_2: Ribo 24.1 27 0.00059 27.3 0.1 63 41-103 51-117 (156)
62 PF12179 IKKbetaNEMObind: I-ka 23.9 67 0.0014 19.3 1.8 19 143-161 1-19 (38)
63 PF08727 P3A: Poliovirus 3A pr 23.7 24 0.00052 23.1 -0.2 17 105-123 28-44 (57)
64 PRK08691 DNA polymerase III su 23.5 4.4E+02 0.0095 25.6 8.0 78 4-81 202-293 (709)
65 KOG1498 26S proteasome regulat 23.2 1.9E+02 0.0041 26.2 5.2 48 65-113 327-374 (439)
66 smart00549 TAFH TAF homology. 23.1 2.2E+02 0.0048 20.3 4.6 72 16-88 5-83 (92)
67 cd04235 AAK_CK AAK_CK: Carbama 22.3 1.6E+02 0.0036 25.3 4.6 26 105-132 133-163 (308)
68 PF10771 DUF2582: Protein of u 22.1 63 0.0014 21.5 1.6 38 89-132 20-57 (65)
69 PHA02992 hypothetical protein; 21.7 56 0.0012 31.4 1.7 33 70-102 4-36 (728)
70 PF09339 HTH_IclR: IclR helix- 21.6 2E+02 0.0043 17.3 4.2 44 80-124 7-51 (52)
71 PF03683 UPF0175: Uncharacteri 21.5 2.6E+02 0.0056 18.6 5.6 37 74-114 18-56 (76)
72 PF10116 Host_attach: Protein 21.4 66 0.0014 23.7 1.8 56 41-99 81-136 (138)
73 COG5071 RPN5 26S proteasome re 21.4 2.3E+02 0.0049 25.2 5.2 46 68-114 330-375 (439)
74 cd02681 MIT_calpain7_1 MIT: do 21.4 2.4E+02 0.0052 19.1 4.4 47 35-88 9-64 (76)
75 PF00010 HLH: Helix-loop-helix 21.3 1.6E+02 0.0035 17.9 3.3 20 139-158 36-55 (55)
76 PF13232 Complex1_LYR_1: Compl 21.2 2E+02 0.0042 18.0 3.8 28 51-78 7-35 (61)
77 PF10436 BCDHK_Adom3: Mitochon 21.1 2.7E+02 0.0058 21.4 5.2 59 15-82 34-96 (164)
78 PF00165 HTH_AraC: Bacterial r 20.7 1.4E+02 0.003 17.1 2.8 23 90-113 7-29 (42)
79 PRK14952 DNA polymerase III su 20.5 5.2E+02 0.011 24.2 7.8 79 4-82 201-294 (584)
No 1
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.8e-57 Score=367.63 Aligned_cols=159 Identities=62% Similarity=0.943 Sum_probs=148.2
Q ss_pred CchHHHHHHHHhcCChhHHHHHHHhcchhhh-cCccchhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHH
Q 031345 1 MILGLNLLRLLVQNRIAEFHTELELLSSTAL-ENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRD 79 (161)
Q Consensus 1 ~i~gL~LL~LLsqN~iaeFh~~lE~ip~~~~-~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~ 79 (161)
+++|||||+||||||+++||++||++|..++ .||||++||+||||+|||+|||||.+++++|+++|.+|||+|++|||+
T Consensus 101 ~l~GLnLL~LLsqNRiaeFHteLe~lp~~~l~~~~~I~~~v~LEq~~MEGaYnKv~~a~~s~p~~~y~~FmdIl~~tiRd 180 (260)
T KOG3151|consen 101 KLLGLNLLYLLSQNRIAEFHTELELLPKKILQHNPYISHPVSLEQSLMEGAYNKVLSAKQSIPSEEYTYFMDILLDTIRD 180 (260)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHhccHHHhhccchhhhHHHHHHHHHhhHHHHHHHHHhcCCcHHHHHHHHHHHHHHHH
Confidence 4799999999999999999999999999998 789999999999999999999999999999999999999999999999
Q ss_pred HHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCCeEEEeCCCCCCCCCCCChHHHHHHHHhHHHHhhh
Q 031345 80 EIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKAKDSAPCKEIPSLQLINQTLSYARELER 159 (161)
Q Consensus 80 eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~~i~f~~~~~~~~~~~~~~~~li~~~l~Ya~elE~ 159 (161)
|||.|+||||+.||+++|++||+|++++++..|+ .+|+|.++.+.+++....+.+...++|+.++++++|+||+|||+
T Consensus 181 EIA~c~EKsYd~l~~s~a~~~L~f~~~~e~~~~~--~~r~W~l~~~~~~~~~~~~~~p~~~~ps~~la~qtlsYar~LE~ 258 (260)
T KOG3151|consen 181 EIAGCIEKSYDKLSASDATQMLLFNNDKELKKFA--TERQWPLDEKGVFSFASKETAPYEEIPSTELAEQTLSYARELEM 258 (260)
T ss_pred HHHHHHHHHHhhcCHHHHHHHHhcCChHHHHHHH--HhcCCcccccccccchhhccCchhccCcHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999997 47899999666666654444444579999999999999999999
Q ss_pred cC
Q 031345 160 IV 161 (161)
Q Consensus 160 IV 161 (161)
||
T Consensus 259 Iv 260 (260)
T KOG3151|consen 259 IV 260 (260)
T ss_pred cC
Confidence 98
No 2
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=100.00 E-value=3.4e-33 Score=212.26 Aligned_cols=127 Identities=29% Similarity=0.462 Sum_probs=102.7
Q ss_pred chHHHHHHHHhcCChhHHHHHHHhcchhhh-cCccchhhHHHHHHHhhcChHHHHHhhh-cCCCCcHHHHHHHHHHHHHH
Q 031345 2 ILGLNLLRLLVQNRIAEFHTELELLSSTAL-ENPCIKHAVELEQSFMEGAYNRVLSAKQ-NVPNETYGYFMDLLAKTVRD 79 (161)
Q Consensus 2 i~gL~LL~LLsqN~iaeFh~~lE~ip~~~~-~~~~I~~~v~LEq~LmeG~Y~kv~~a~~-~~Ps~~~~~fm~~L~~tiR~ 79 (161)
++|++|+.+|.+|++++||++|+|||.+++ .||+|+.+|.|+|+||+|+|+++|...+ +.|++.|.+||..|.++||+
T Consensus 6 ~~~~~Ll~~L~~~~~~df~~~~~rip~~~~~~~~~i~~i~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~iR~ 85 (143)
T PF10075_consen 6 IYALILLKYLMQNDLSDFRLLWKRIPEELKQSDPEIKAIWSLGQALWEGDYSKFWQALRSNPWSPDYKPFVPGFEDTIRE 85 (143)
T ss_dssp HHHHHHHHHHHTTTSTHHHHHHHTS-HHHHTS-TTHHHHHHHHHHHHTT-HHHHHHHS-TT----HHHHTSTTHHHHHHH
T ss_pred HHHHHHHHHHHcCCchHHHHHHHcCCHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence 579999999999999999999999999999 5799999999999999999999999554 56899999999999999999
Q ss_pred HHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCCeEEEeC
Q 031345 80 EIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQK 131 (161)
Q Consensus 80 eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~~i~f~~ 131 (161)
+|+.|+++||++|++++++++||++ ++++.+|++ ++||+++++.++|+.
T Consensus 86 ~i~~~i~~aY~sIs~~~la~~Lg~~-~~el~~~~~--~~gW~~d~~~~~~~~ 134 (143)
T PF10075_consen 86 RIAHLISKAYSSISLSDLAEMLGLS-EEELEKFIK--SRGWTVDGDGVLFPP 134 (143)
T ss_dssp HHHHHHHHH-SEE-HHHHHHHTTS--HHHHHHHHH--HHT-EE-----EE--
T ss_pred HHHHHHHHHHhHcCHHHHHHHhCCC-HHHHHHHHH--HcCCEECCCccEEec
Confidence 9999999999999999999999999 999999985 569999965555553
No 3
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=99.71 E-value=2.3e-17 Score=130.37 Aligned_cols=102 Identities=32% Similarity=0.487 Sum_probs=86.2
Q ss_pred chHHHHHHHHhcCChhHHHHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHHhh-hcCCCCcHHHHHHHHHHHHHHH
Q 031345 2 ILGLNLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAK-QNVPNETYGYFMDLLAKTVRDE 80 (161)
Q Consensus 2 i~gL~LL~LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~-~~~Ps~~~~~fm~~L~~tiR~e 80 (161)
++|++||++|++|+.++||..++.+|.+..+||+|+++++|.+++++|||.++|+.. +.-++..+..+|+.++++||..
T Consensus 101 f~~y~lL~~l~~~~~~~~~~~l~~l~~~~~~~~~i~~al~l~~a~~~gny~~ff~l~~~~~~~~l~~~l~~~~~~~iR~~ 180 (204)
T PF03399_consen 101 FIAYYLLYLLCQNNIPDFHMELELLPSEILSSPYIQFALELCRALMEGNYVRFFRLYRSKSAPYLFACLMERFFNRIRLR 180 (204)
T ss_dssp HHHHHHHHTT-T---THHHHHHTTS-HHHHTSHHHHHHHHHHHHH--TTHHHHHHHHT-TTS-HHHHHHHGGGHHHHHHH
T ss_pred HHHHHHHHHHHcccchHHHHHHHHCchhhhcCHHHHHHHHHHHHHHcCCHHHHHHHHhccCCChHHHHHHHHHHHHHHHH
Confidence 579999999999999999999999999988999999999999999999999999977 2334568999999999999999
Q ss_pred HHHhHHHhcCc-ccHHHHHHhhCC
Q 031345 81 IAGCSEKAYDY-LSIKDAGQMLLF 103 (161)
Q Consensus 81 iA~~ie~AY~s-l~l~~a~~lL~~ 103 (161)
++.|+++||.+ +|++.++++|+|
T Consensus 181 al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 181 ALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp HHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred HHHHHHHHcCCCCCHHHHHHHcCC
Confidence 99999999999 999999999987
No 4
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.69 E-value=7.8e-17 Score=124.18 Aligned_cols=127 Identities=11% Similarity=0.156 Sum_probs=115.2
Q ss_pred hHHHHHHHHhcCChhHHHHHHHhcchhhh-cCccchhhHHHHHHHhhcChHHHHHhhhcCC-CCcHHHHHHHHHHHHHHH
Q 031345 3 LGLNLLRLLVQNRIAEFHTELELLSSTAL-ENPCIKHAVELEQSFMEGAYNRVLSAKQNVP-NETYGYFMDLLAKTVRDE 80 (161)
Q Consensus 3 ~gL~LL~LLsqN~iaeFh~~lE~ip~~~~-~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~P-s~~~~~fm~~L~~tiR~e 80 (161)
.|..|+-.+--||-.+++++|+|||+.++ .+|++.-+|.++|.||..+|..||.+.+... |++....|..+.|..|.+
T Consensus 42 Ya~~L~~Yf~~dD~dnARfLWKRIP~AIKe~k~El~aaWgiGQkiWq~Df~GiYeaI~~~dWSeeak~imaAf~D~~~kR 121 (197)
T KOG4414|consen 42 YAIHLAGYFLHDDCDNARFLWKRIPPAIKEAKPELGAAWGIGQKIWQHDFAGIYEAINAHDWSEEAKDIMAAFRDATRKR 121 (197)
T ss_pred HHHHHHHHHHhccchhHHHHHHhCCHHHhhcCchhhhhhhhhHHHHhcccchHHHHHhhhcchHHHHHHHHHHHHHHHHH
Confidence 46777777778999999999999999999 9999999999999999999999999987655 899999999999999999
Q ss_pred HHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee-CCeEE-EeCC
Q 031345 81 IAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK-DGFVF-FQKA 132 (161)
Q Consensus 81 iA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~-~~~i~-f~~~ 132 (161)
....+..||+||..+|++..||+. +++...++- +.||+.| ..++. .+++
T Consensus 122 ~FaLl~qAYssI~~~D~A~FlGl~-~ddAtk~il--EnGWqaDaasqMasl~kk 172 (197)
T KOG4414|consen 122 AFALLLQAYSSIIADDFAAFLGLP-EDDATKGIL--ENGWQADAASQMASLKKK 172 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCC-HHHHHHHHH--HcccchhhHHHHhhccch
Confidence 999999999999999999999999 889999974 6899999 55665 5543
No 5
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=99.00 E-value=3.8e-09 Score=93.84 Aligned_cols=126 Identities=20% Similarity=0.339 Sum_probs=113.1
Q ss_pred chHHHHHH-HHhcCChhHHHHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHHH
Q 031345 2 ILGLNLLR-LLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDE 80 (161)
Q Consensus 2 i~gL~LL~-LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~e 80 (161)
+++..+|| ++..|.. +.-++|-.|..+++.|+.|.|+++|..+..-|||.|+|......|. .-.++||.+++.-|..
T Consensus 389 F~AYriLY~i~tkN~~-di~sll~~lt~E~ked~~V~hAL~vR~A~~~GNY~kFFrLY~~AP~-M~~yLmdlF~erER~~ 466 (540)
T KOG1861|consen 389 FTAYRILYYIFTKNYP-DILSLLRDLTEEDKEDEAVAHALEVRSAVTLGNYHKFFRLYLTAPN-MSGYLMDLFLERERKK 466 (540)
T ss_pred HHHHHHHHHHHhcCch-HHHHHHHhccHhhccCHHHHHHHHHHHHHHhccHHHHHHHHhhccc-chhHHHHHHHHHHHHH
Confidence 46788888 5666666 9999999999999999999999999999999999999999999885 6688999999999999
Q ss_pred HHHhHHHhcC-cccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee-CCeEEEeC
Q 031345 81 IAGCSEKAYD-YLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK-DGFVFFQK 131 (161)
Q Consensus 81 iA~~ie~AY~-sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~-~~~i~f~~ 131 (161)
...-|.|||. +|+++..++-|-|++-+++..|- .+.+|+-+ .|..+.++
T Consensus 467 Al~ii~KsyrP~i~~~fi~~~laf~~~e~c~~~l--~~~~~~~~~~g~~~~~~ 517 (540)
T KOG1861|consen 467 ALTIICKSYRPTITVDFIASELAFDSMEDCVNFL--NEQNLTYDSLGPQILDK 517 (540)
T ss_pred HHHHHHHHcCCCccHHHHhhhhhhchHHHHHHHH--hccCccccccCCccccc
Confidence 9999999999 99999999999999999999996 57899988 56555544
No 6
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=97.45 E-value=0.0032 Score=43.82 Aligned_cols=72 Identities=15% Similarity=0.245 Sum_probs=51.6
Q ss_pred HHHHHhhcChHHHHHhhhcC-----CCCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh
Q 031345 42 LEQSFMEGAYNRVLSAKQNV-----PNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 42 LEq~LmeG~Y~kv~~a~~~~-----Ps~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~ 114 (161)
|-+.+-.|+|.......... ..+.....++.|...+|......+.+.|+++++++.+++++++ .++++.++.
T Consensus 6 l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~-~~~vE~~l~ 82 (105)
T PF01399_consen 6 LLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLS-EEEVESILI 82 (105)
T ss_dssp HHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCC-HHHHHHHHH
T ss_pred HHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccc-hHHHHHHHH
Confidence 33444444444444433322 1345556888999999999999999999999999999999999 788888873
No 7
>KOG3252 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.24 E-value=0.0046 Score=49.74 Aligned_cols=122 Identities=13% Similarity=0.164 Sum_probs=95.1
Q ss_pred HHHHHhcCChhHHHHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHHHHHHhHH
Q 031345 7 LLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSE 86 (161)
Q Consensus 7 LL~LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~eiA~~ie 86 (161)
||.-|..=--.+|-...=.||...+.+..++.++.|..+|--|+|...|......|. .+.. |.=+-|.||.=+-.-+.
T Consensus 69 LlKaL~~lP~tDF~l~kcli~~~~~~ee~~r~ii~L~~~LEt~~Fq~FW~~~~~N~~-mle~-itGFedsvr~yachvv~ 146 (217)
T KOG3252|consen 69 LLKALTNLPHTDFTLAKCLIDERVQMEEPFRSIIDLGDYLETCRFQQFWQEADENRD-MLEG-ITGFEDSVRKYACHVVG 146 (217)
T ss_pred HHHHHhcCCCcchhHHHHhcCHHHhcccchhHHHhHHHHHhhchHHHHhhhhccchH-HhcC-CCcHHHHHHHHHHHhee
Confidence 344444445567777777888888888999999999999999999999986543321 1111 11247889998888999
Q ss_pred HhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee-CCeEEEeCC
Q 031345 87 KAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK-DGFVFFQKA 132 (161)
Q Consensus 87 ~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~-~~~i~f~~~ 132 (161)
-.|.+|+-.-.+.|||-.+.+++...++ +-||..+ .|.++.+..
T Consensus 147 iTyQkI~k~lLaellG~~sDs~le~~~~--~~GW~a~e~G~ifv~~q 191 (217)
T KOG3252|consen 147 ITYQKIDKWLLAELLGGLSDSQLEVWMT--KYGWIADESGQIFVASQ 191 (217)
T ss_pred chHhhchHHHHHHhhCcccHHHHHHHHH--HccceecCCceEEEecc
Confidence 9999999999999999999999999974 6799999 776666654
No 8
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=95.66 E-value=0.063 Score=36.70 Aligned_cols=63 Identities=17% Similarity=0.281 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh----hcCCCCeee--CCeEEEeCC
Q 031345 69 FMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK----EEHPEWEMK--DGFVFFQKA 132 (161)
Q Consensus 69 fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~----~~~rgW~~~--~~~i~f~~~ 132 (161)
..+.|...+|........+.|++|++++.++.++++ .++++.++. ...-...+| +|.++|...
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~ 70 (88)
T smart00088 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEV 70 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCC
Confidence 356788999999999999999999999999999998 567777763 223367888 667777653
No 9
>smart00753 PAM PCI/PINT associated module.
Probab=95.66 E-value=0.063 Score=36.70 Aligned_cols=63 Identities=17% Similarity=0.281 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh----hcCCCCeee--CCeEEEeCC
Q 031345 69 FMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK----EEHPEWEMK--DGFVFFQKA 132 (161)
Q Consensus 69 fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~----~~~rgW~~~--~~~i~f~~~ 132 (161)
..+.|...+|........+.|++|++++.++.++++ .++++.++. ...-...+| +|.++|...
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~ 70 (88)
T smart00753 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEV 70 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCC
Confidence 356788999999999999999999999999999998 567777763 223367888 667777653
No 10
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=88.81 E-value=3.3 Score=36.79 Aligned_cols=72 Identities=18% Similarity=0.287 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhh---cCCCCeeeCCeEEEeCCCCCCCCCCCChHHHHHH
Q 031345 73 LAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKE---EHPEWEMKDGFVFFQKAKDSAPCKEIPSLQLINQ 149 (161)
Q Consensus 73 L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~---~~rgW~~~~~~i~f~~~~~~~~~~~~~~~~li~~ 149 (161)
.+...--+-.....|.|.||+++|.|++..+.+.+|+.+++-+ ..+..+.-||.|+|-..+. ..+|.++++|
T Consensus 299 av~sl~k~nI~rltktF~sLsL~dIA~~vQLa~~qevek~Ilqmie~~~i~a~iNG~v~f~~n~e-----~~~SpeM~~n 373 (422)
T KOG2582|consen 299 AVSSLYKKNIQRLTKTFLSLSLSDIASRVQLASAQEVEKYILQMIEDGEIFASINGMVFFTDNPE-----KYNSPEMHEN 373 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHHHHHHhccCceEEEecceEEEecCcc-----cCCCHHHHhh
Confidence 3333334444456789999999999999999999999998832 3455555588888876432 2345555554
No 11
>COG5079 SAC3 Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and chromosome partitioning]
Probab=84.01 E-value=3.6 Score=38.13 Aligned_cols=94 Identities=17% Similarity=0.177 Sum_probs=66.2
Q ss_pred hcchhhhcCccchhhHHHHHHHhhcChHHH---------------HHhhhcCCCCcHHHHHHHHHHH----HHHHHHH--
Q 031345 25 LLSSTALENPCIKHAVELEQSFMEGAYNRV---------------LSAKQNVPNETYGYFMDLLAKT----VRDEIAG-- 83 (161)
Q Consensus 25 ~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv---------------~~a~~~~Ps~~~~~fm~~L~~t----iR~eiA~-- 83 (161)
++|..+..++-++-...+-|-...|+|.-. |+. +.|+...+||..|++. ||.-...
T Consensus 261 ~wp~~if~d~~vq~alkl~~laq~nn~r~~~~rnteac~nlytrFfkl---~qSpsv~~lmg~lle~h~~sir~~aLkAm 337 (646)
T COG5079 261 GWPGGIFCDLPVQIALKLMQLAQSNNFRLLGRRNTEACFNLYTRFFKL---IQSPSVQYLMGCLLEKHNISIRGGALKAM 337 (646)
T ss_pred cCCccccccchHHHHHHHHHHhhccCeeeccccchhhhhHHHHHHHHH---HhCccHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 344445566777777777776666665433 333 2356788888888775 4555444
Q ss_pred --hHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee
Q 031345 84 --CSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK 123 (161)
Q Consensus 84 --~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~ 123 (161)
|+++|-..+|.-+...+|.|++.++..+|++ --|-++.
T Consensus 338 ~k~~~sahk~ipf~~l~~il~f~~~~e~~efck--yy~lei~ 377 (646)
T COG5079 338 EKEIESAHKNIPFVDLSGILDFEEKGEGEEFCK--YYGLEIR 377 (646)
T ss_pred HHHHHHhhcCCCeehhhhhccccccchhHHHhh--hcceeee
Confidence 6666667899999999999999999999985 4577775
No 12
>KOG1860 consensus Nuclear protein export factor [Intracellular trafficking, secretion, and vesicular transport; Cell cycle control, cell division, chromosome partitioning]
Probab=81.58 E-value=5.8 Score=38.82 Aligned_cols=104 Identities=16% Similarity=0.269 Sum_probs=83.4
Q ss_pred HHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHH-----------------hhhcCC-CC-cHHHHHHHHHHHHHHH
Q 031345 20 HTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLS-----------------AKQNVP-NE-TYGYFMDLLAKTVRDE 80 (161)
Q Consensus 20 h~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~-----------------a~~~~P-s~-~~~~fm~~L~~tiR~e 80 (161)
-.....+|+++..++.++....+-++.-.|+|-..+. .....| .+ .-..++..+...||.-
T Consensus 292 ~~~iq~~~~evr~~~~Vk~al~~~~a~~~nn~~~~~r~~~~~t~a~~~l~~~~~~l~q~p~~~~L~~~v~~~~f~~ir~~ 371 (927)
T KOG1860|consen 292 VRDIQAWPDEVRQDSEVKLALCLRRAFQSNNFRRFFRLSSLRTEALQNLYTRFFKLMQSPALPYLMGCVLELFFPDIRWA 371 (927)
T ss_pred HHHHHhcCcccccchhHHHHHHHHHHhccCCeeeeeeccchhHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHH
Confidence 3456778888889999999999999999999988852 122334 22 3456777788889988
Q ss_pred HHHhHHHhcC----cccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCC
Q 031345 81 IAGCSEKAYD----YLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDG 125 (161)
Q Consensus 81 iA~~ie~AY~----sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~ 125 (161)
.-.-++.+|. .+|+.+...+|.|+++++...++ ..+|=+++.+
T Consensus 372 al~~~~~~~~~~~~~vp~~~l~~~l~f~~~e~~~~~~--~~y~Leis~~ 418 (927)
T KOG1860|consen 372 ALRAMSHAYNSKHVPVPLGKLDRILLFDGEEELKVVC--NYYGLEISVD 418 (927)
T ss_pred HHHHHHHHHhccCCCcchhHHHHHHhcCChhhhHhhh--hheeeEeecc
Confidence 8888888886 68999999999999999999997 4788888733
No 13
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=79.96 E-value=8.4 Score=33.65 Aligned_cols=103 Identities=18% Similarity=0.194 Sum_probs=76.0
Q ss_pred cCccchhhHHHHHHHhhcChHHHHHh------hhcCCCCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCC-
Q 031345 32 ENPCIKHAVELEQSFMEGAYNRVLSA------KQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFT- 104 (161)
Q Consensus 32 ~~~~I~~~v~LEq~LmeG~Y~kv~~a------~~~~Ps~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~- 104 (161)
++.-++..+++--.|-+-+|..-|.. .+-.|+....-+.+.++--+|.++-.-.-.+|+.++++..|.-+|.+
T Consensus 266 ~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQlLESYr~lsl~sMA~tFgVSV 345 (412)
T COG5187 266 SSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQLLESYRLLSLESMAQTFGVSV 345 (412)
T ss_pred chhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhCccH
Confidence 55667777888889999999866552 22335666677788888889999988888899999999999999987
Q ss_pred --CHHHHHHHHhhcCCCCeee--CCeEEEeCCCCC
Q 031345 105 --SDQELLEYVKEEHPEWEMK--DGFVFFQKAKDS 135 (161)
Q Consensus 105 --~~~e~~~f~~~~~rgW~~~--~~~i~f~~~~~~ 135 (161)
-..++-+|+- ..|-|-+- =+.|++.++|+.
T Consensus 346 ~yvdrDLg~FIp-~~~LncvIDRvnGvVetnrpde 379 (412)
T COG5187 346 EYVDRDLGEFIP-EGRLNCVIDRVNGVVETNRPDE 379 (412)
T ss_pred HHHhhhHHhhCC-CCceeeeeecccceEeccCcch
Confidence 2347888984 45666554 245666666543
No 14
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=73.22 E-value=25 Score=31.05 Aligned_cols=99 Identities=13% Similarity=0.151 Sum_probs=67.1
Q ss_pred chhhHHHHHHHhhcChHHHHHhhh------cCCCCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCC---CH
Q 031345 36 IKHAVELEQSFMEGAYNRVLSAKQ------NVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFT---SD 106 (161)
Q Consensus 36 I~~~v~LEq~LmeG~Y~kv~~a~~------~~Ps~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~---~~ 106 (161)
+....++--+|-+-+|...|...- --+.-...++.+..+--+|.++-+-.--+|.+++++..|+-+|.+ =.
T Consensus 256 l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlLESYrsl~l~~MA~aFgVSVefiD 335 (393)
T KOG0687|consen 256 LPSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLLESYRSLTLESMAKAFGVSVEFID 335 (393)
T ss_pred CchHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHH
Confidence 445555666778899999887542 113333444444455577888888777899999999999999987 24
Q ss_pred HHHHHHHhhcCCCCe-ee-CCeEEEeCCCCC
Q 031345 107 QELLEYVKEEHPEWE-MK-DGFVFFQKAKDS 135 (161)
Q Consensus 107 ~e~~~f~~~~~rgW~-~~-~~~i~f~~~~~~ 135 (161)
.|+..|+. ..|=|- +| =+.|+..++|+.
T Consensus 336 reL~rFI~-~grL~ckIDrVnGVVEtNrpD~ 365 (393)
T KOG0687|consen 336 RELGRFIA-AGRLHCKIDRVNGVVETNRPDE 365 (393)
T ss_pred hHHHHhhc-cCceeeeeecccceeecCCccc
Confidence 68999995 456564 44 355666666543
No 15
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=68.82 E-value=11 Score=26.62 Aligned_cols=45 Identities=11% Similarity=0.234 Sum_probs=33.8
Q ss_pred HhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee-CCeEEEe
Q 031345 83 GCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK-DGFVFFQ 130 (161)
Q Consensus 83 ~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~-~~~i~f~ 130 (161)
+.+-.+=.++++.++|++|++. +..+.++- ++.||-.+ .++-..|
T Consensus 16 d~~~~~~~~~ti~~~AK~L~i~-~~~l~~~L--r~~g~l~~~~~~~~~p 61 (111)
T PF03374_consen 16 DAFVDSDGLYTIREAAKLLGIG-RNKLFQWL--REKGWLYRRGKGRNLP 61 (111)
T ss_pred HHHHcCCCCccHHHHHHHhCCC-HHHHHHHH--HhCCceEECCCCCccc
Confidence 3333445789999999999999 99999997 46899887 3333333
No 16
>COG2522 Predicted transcriptional regulator [General function prediction only]
Probab=66.45 E-value=19 Score=26.82 Aligned_cols=45 Identities=18% Similarity=0.211 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHH-hHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCC
Q 031345 70 MDLLAKTVRDEIAG-CSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPE 119 (161)
Q Consensus 70 m~~L~~tiR~eiA~-~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rg 119 (161)
.+.++-+||-.+|. .+++ -+|..+.|+|||++ +..|..|+. ..||
T Consensus 3 ~~~vlPaiRa~lA~~L~ee---G~Sq~~iA~LLGlt-qaAVS~Yls-~krg 48 (119)
T COG2522 3 VEEVLPAIRALLAKELIEE---GLSQYRIAKLLGLT-QAAVSQYLS-GKRG 48 (119)
T ss_pred hHHHHHHHHHHHHHHHHHc---CCcHHHHHHHhCCC-HHHHHHHHc-cCCc
Confidence 45678899999997 4454 78889999999998 999999985 3454
No 17
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=66.16 E-value=14 Score=33.51 Aligned_cols=41 Identities=20% Similarity=0.180 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHH
Q 031345 73 LAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYV 113 (161)
Q Consensus 73 L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~ 113 (161)
|...|=..-...|.-+|+.||+.|.|+-|+++|++++.-.+
T Consensus 359 LR~NVIkTgIR~ISlsYSRISl~DIA~kL~l~Seed~EyiV 399 (493)
T KOG2581|consen 359 LRHNVIKTGIRKISLSYSRISLQDIAKKLGLNSEEDAEYIV 399 (493)
T ss_pred HHHHHHHHhhhheeeeeeeccHHHHHHHhcCCCchhHHHHH
Confidence 33333344456889999999999999999999888766555
No 18
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=65.94 E-value=11 Score=31.40 Aligned_cols=52 Identities=25% Similarity=0.335 Sum_probs=43.7
Q ss_pred HHHHHHHhcCChhHHHHHHHhcchh--------------------------hh-cCccchhhHHHHHHHhhcChHHHHH
Q 031345 5 LNLLRLLVQNRIAEFHTELELLSST--------------------------AL-ENPCIKHAVELEQSFMEGAYNRVLS 56 (161)
Q Consensus 5 L~LL~LLsqN~iaeFh~~lE~ip~~--------------------------~~-~~~~I~~~v~LEq~LmeG~Y~kv~~ 56 (161)
|.||.+.+.|.++++..+|.|+|.- .+ ..+..+..-+||-++||-=|+.|..
T Consensus 63 lrlL~lFa~Gt~~Dy~aea~rlp~Ls~~q~~kLk~ltV~slas~~k~lpy~~Ll~~l~~~nvrelEd~iieamya~Ilr 141 (258)
T KOG3250|consen 63 LRLLELFAYGTYRDYSAEALRLPKLSLAQLNKLKHLTVVSLASFEKCLPYLVLLRLLPSRNVRELEDLIIEAMYADILR 141 (258)
T ss_pred HHHHHHHhcCchhhhhhhhhcCCCCCHHHHHhhhcceehhhhhhchhhhHHHHHhhccCCchhHHHHHHHHHHHHHHHH
Confidence 7899999999999999999999941 11 4566677789999999999999976
No 19
>KOG3389 consensus NADH:ubiquinone oxidoreductase, NDUFS4/18 kDa subunit [Energy production and conversion]
Probab=60.89 E-value=3.5 Score=32.10 Aligned_cols=36 Identities=14% Similarity=0.341 Sum_probs=28.6
Q ss_pred HHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee
Q 031345 86 EKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK 123 (161)
Q Consensus 86 e~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~ 123 (161)
.-+-.-=|+++...-|-|++.++..+|| +..||..|
T Consensus 114 GWtsTaDPlsNvgm~L~F~tkEdA~sFa--EkngW~yd 149 (178)
T KOG3389|consen 114 GWTSTADPLSNVGMALAFDTKEDAKSFA--EKNGWDYD 149 (178)
T ss_pred cccccCCcccccceeeeeccHHHHHHHH--HHcCCccc
Confidence 3344455778878889999999999997 46899987
No 20
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=58.18 E-value=60 Score=28.36 Aligned_cols=82 Identities=13% Similarity=0.223 Sum_probs=61.1
Q ss_pred hcCccchhhHHHHHHHhhcC---hHHHHHhhh--cCCCCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCC
Q 031345 31 LENPCIKHAVELEQSFMEGA---YNRVLSAKQ--NVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTS 105 (161)
Q Consensus 31 ~~~~~I~~~v~LEq~LmeG~---Y~kv~~a~~--~~Ps~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~ 105 (161)
+++|+|-....|-++-...+ |.+|+++.. -+..|....-|+-|+..||-.+.--.-+-|..|.+...++-|..+
T Consensus 299 KNdPEIlAMTnlv~aYQ~NdI~eFE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~- 377 (440)
T KOG1464|consen 299 KNDPEILAMTNLVAAYQNNDIIEFERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYTNIGIPFISKELNVP- 377 (440)
T ss_pred CCCHHHHHHHHHHHHHhcccHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhccccccCchhhHhhcCCC-
Confidence 37787777777666655554 444555432 222556667788899999999999889999999999999999998
Q ss_pred HHHHHHHH
Q 031345 106 DQELLEYV 113 (161)
Q Consensus 106 ~~e~~~f~ 113 (161)
+.++.+..
T Consensus 378 ~~dV~~LL 385 (440)
T KOG1464|consen 378 EADVESLL 385 (440)
T ss_pred HHHHHHHH
Confidence 78877664
No 21
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=56.77 E-value=66 Score=23.46 Aligned_cols=64 Identities=23% Similarity=0.339 Sum_probs=44.3
Q ss_pred HHhcCChhHHHHHHHhcchhhhcCccchhhHHH---HHHHhhcChHHHHHhhhcCCCCcHHHHHHHHH
Q 031345 10 LLVQNRIAEFHTELELLSSTALENPCIKHAVEL---EQSFMEGAYNRVLSAKQNVPNETYGYFMDLLA 74 (161)
Q Consensus 10 LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~L---Eq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~ 74 (161)
+..+|+..+....|+.+.... .++.++....+ .-.+-+|.|.+.......+|.+.|.++...+.
T Consensus 58 ~~~~g~~~~A~~~l~~~~~~~-~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~ 124 (145)
T PF09976_consen 58 AYEQGDYDEAKAALEKALANA-PDPELKPLARLRLARILLQQGQYDEALATLQQIPDEAFKALAAELL 124 (145)
T ss_pred HHHCCCHHHHHHHHHHHHhhC-CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHH
Confidence 345788888888888876544 55666655554 23466888988888877777777777655443
No 22
>KOG3442 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.95 E-value=66 Score=24.41 Aligned_cols=60 Identities=18% Similarity=0.324 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHhHH-----------------HhcCcccHHHHHHhhCCC---CHHHHHHHHhhcCCCCeee----C
Q 031345 69 FMDLLAKTVRDEIAGCSE-----------------KAYDYLSIKDAGQMLLFT---SDQELLEYVKEEHPEWEMK----D 124 (161)
Q Consensus 69 fm~~L~~tiR~eiA~~ie-----------------~AY~sl~l~~a~~lL~~~---~~~e~~~f~~~~~rgW~~~----~ 124 (161)
+=..+..+.|++||.+.. .+|..|++.+|+.+|+.+ |.+++..-- +.=+.++ +
T Consensus 16 vgrAf~~A~RQeia~s~~aa~~~~a~k~g~~~~~~~~~~~iTlqEa~qILnV~~~ln~eei~k~y---ehLFevNdkskG 92 (132)
T KOG3442|consen 16 VGRAFVQAYRQEIAASQQAAARQAAGKSGTRSAEANSNGKITLQEAQQILNVKEPLNREEIEKRY---EHLFEVNDKSKG 92 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccccccccccccHHHHhhHhCCCCCCCHHHHHHHH---HHHHhccCcccC
Confidence 445577788888877543 236789999999999997 555654421 1233333 4
Q ss_pred CeEEEeC
Q 031345 125 GFVFFQK 131 (161)
Q Consensus 125 ~~i~f~~ 131 (161)
|.+|...
T Consensus 93 GSFYLQS 99 (132)
T KOG3442|consen 93 GSFYLQS 99 (132)
T ss_pred cceeehH
Confidence 6677654
No 23
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=51.82 E-value=85 Score=30.46 Aligned_cols=95 Identities=16% Similarity=0.314 Sum_probs=65.8
Q ss_pred HHHHHHHhcchhhh-cCcc--chhhHHHHHHHhhcChHHHHHhhhc-CC----CCcHHHHHHHHHHHHHHHHHH----hH
Q 031345 18 EFHTELELLSSTAL-ENPC--IKHAVELEQSFMEGAYNRVLSAKQN-VP----NETYGYFMDLLAKTVRDEIAG----CS 85 (161)
Q Consensus 18 eFh~~lE~ip~~~~-~~~~--I~~~v~LEq~LmeG~Y~kv~~a~~~-~P----s~~~~~fm~~L~~tiR~eiA~----~i 85 (161)
.||-.||....... .=|+ =.|++.--++|..|++.+-+.-.-+ .- -|.-.-..++|.+.||.|-.. .-
T Consensus 633 ~frr~Le~serqsf~gPPEn~RehVvaAsKAm~~Gnw~~c~~fi~nn~KvW~Lfpn~d~V~~Ml~~rIqEEsLRTYLftY 712 (843)
T KOG1076|consen 633 SFRRQLEHSERQSFTGPPENTREHVVAASKAMQKGNWQKCFEFIVNNIKVWDLFPNADTVLDMLTERIQEESLRTYLFTY 712 (843)
T ss_pred HHHHHHHHHhhccccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHhhhhHHHhcccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 57888876644333 2221 2467777888999999877662211 11 223455788899999998776 33
Q ss_pred HHhcCcccHHHHHHhhCCCCHHHHHHHH
Q 031345 86 EKAYDYLSIKDAGQMLLFTSDQELLEYV 113 (161)
Q Consensus 86 e~AY~sl~l~~a~~lL~~~~~~e~~~f~ 113 (161)
...|.|+|+...|.|+-++ +..|.+.+
T Consensus 713 ss~Y~SvSl~~LA~mFdLp-~~~VhsIi 739 (843)
T KOG1076|consen 713 SSVYDSVSLAKLADMFDLP-EPKVHSII 739 (843)
T ss_pred hhhhhhccHHHHHHHhCCC-chhHHHHH
Confidence 4568999999999999998 77777766
No 24
>cd02677 MIT_SNX15 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in sorting nexin 15 and related proteins. The molecular function of the MIT domain is unclear.
Probab=49.35 E-value=66 Score=21.75 Aligned_cols=46 Identities=22% Similarity=0.329 Sum_probs=32.4
Q ss_pred chhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHH--------HHHHHHHHHHHHhHHHh
Q 031345 36 IKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD--------LLAKTVRDEIAGCSEKA 88 (161)
Q Consensus 36 I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~--------~L~~tiR~eiA~~ie~A 88 (161)
|+..++.++. |+|...+....+ -...||. ...+++|.+++.++.+|
T Consensus 10 ~~~Ave~d~~---~~y~eA~~~Y~~----~i~~~~~~~k~e~~~~~k~~ir~K~~eYl~RA 63 (75)
T cd02677 10 IRLALEKEEE---GDYEAAFEFYRA----GVDLLLKGVQGDSSPERREAVKRKIAEYLKRA 63 (75)
T ss_pred HHHHHHHHHH---hhHHHHHHHHHH----HHHHHHHHhccCCCHHHHHHHHHHHHHHHHHH
Confidence 4444555554 999988876544 2345555 45899999999999987
No 25
>PF10098 DUF2336: Uncharacterized protein conserved in bacteria (DUF2336); InterPro: IPR019285 Members of this family of hypothetical bacterial proteins have no known function.
Probab=49.20 E-value=55 Score=26.64 Aligned_cols=89 Identities=25% Similarity=0.237 Sum_probs=65.9
Q ss_pred HHHHHHhcCChhHHHHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHHhhh--cCCCCcHHHHHHHHHHHHHH--HH
Q 031345 6 NLLRLLVQNRIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQ--NVPNETYGYFMDLLAKTVRD--EI 81 (161)
Q Consensus 6 ~LL~LLsqN~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~--~~Ps~~~~~fm~~L~~tiR~--ei 81 (161)
-|++.+.+|+...|-..|-.+..- .+-.+++.|.+++...+.-.-+ .+|.+.|..|...+....+. .-
T Consensus 167 lL~~a~~~g~~~~f~aaLA~lsgl--------~~~~v~~il~d~~~~~L~~l~kaaGL~~~~~~~~~~~~~~~~~~~~~~ 238 (262)
T PF10098_consen 167 LLLRAACSGRLAFFAAALAELSGL--------PPARVRRILADGGGEALAALCKAAGLPWATFPAFLAALAPWRRISRGD 238 (262)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHCc--------CHHHHHHHHhCCCchHHHHHHHHcCCCHHHHHHHHHHHhhhcccCcch
Confidence 367899999999999999776421 1346788899999988866433 66777888888877655442 23
Q ss_pred HHhHHHhcCcccHHHHHHhhC
Q 031345 82 AGCSEKAYDYLSIKDAGQMLL 102 (161)
Q Consensus 82 A~~ie~AY~sl~l~~a~~lL~ 102 (161)
..-....|..|+...|..+|.
T Consensus 239 ~~~~~~~y~~L~~~~A~~~L~ 259 (262)
T PF10098_consen 239 LEEALALYDRLSPDAAQRVLR 259 (262)
T ss_pred HHHHHHHHHcCCHHHHHHHHH
Confidence 444677999999999988874
No 26
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=46.17 E-value=11 Score=27.31 Aligned_cols=23 Identities=22% Similarity=0.585 Sum_probs=18.1
Q ss_pred HhhCCCCHHHHHHHHhhcCCCCeee
Q 031345 99 QMLLFTSDQELLEYVKEEHPEWEMK 123 (161)
Q Consensus 99 ~lL~~~~~~e~~~f~~~~~rgW~~~ 123 (161)
.-|.|+|.+++++||+ ..||...
T Consensus 51 v~l~F~skE~Ai~yae--r~G~~Y~ 73 (101)
T PF04800_consen 51 VRLKFDSKEDAIAYAE--RNGWDYE 73 (101)
T ss_dssp CEEEESSHHHHHHHHH--HCT-EEE
T ss_pred eEeeeCCHHHHHHHHH--HcCCeEE
Confidence 5678999999999984 5799873
No 27
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=45.13 E-value=16 Score=28.26 Aligned_cols=51 Identities=16% Similarity=0.222 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhHH---HhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee-CCeEEEe
Q 031345 73 LAKTVRDEIAGCSE---KAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK-DGFVFFQ 130 (161)
Q Consensus 73 L~~tiR~eiA~~ie---~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~-~~~i~f~ 130 (161)
+.+.=|.-||+-|- ++|-.-.|.- +-|+.+-+.+.| .+-||+|+ ||..|-.
T Consensus 17 ~RERrRRAIaakIfaGLR~~Gny~Lp~-----~aD~NeVLkALc--~eAGw~Ve~DGTtyr~ 71 (150)
T PF05687_consen 17 RRERRRRAIAAKIFAGLRAHGNYKLPK-----HADNNEVLKALC--REAGWTVEPDGTTYRK 71 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCC-----cCCHHHHHHHHH--HhCCEEEccCCCeecc
Confidence 45556666666553 2333211111 114334444776 46899999 7877753
No 28
>PF12728 HTH_17: Helix-turn-helix domain
Probab=43.53 E-value=71 Score=19.09 Aligned_cols=22 Identities=18% Similarity=0.545 Sum_probs=19.6
Q ss_pred ccHHHHHHhhCCCCHHHHHHHHh
Q 031345 92 LSIKDAGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 92 l~l~~a~~lL~~~~~~e~~~f~~ 114 (161)
++..++|.+|+++ ..-+..+++
T Consensus 2 lt~~e~a~~l~is-~~tv~~~~~ 23 (51)
T PF12728_consen 2 LTVKEAAELLGIS-RSTVYRWIR 23 (51)
T ss_pred CCHHHHHHHHCcC-HHHHHHHHH
Confidence 6889999999997 888999984
No 29
>PF12833 HTH_18: Helix-turn-helix domain; PDB: 2K9S_A 3LSG_C 3OIO_A 1D5Y_B 3GBG_A 3OOU_A 1BL0_A 1XS9_A 3MN2_B 3MKL_B ....
Probab=42.13 E-value=95 Score=20.12 Aligned_cols=41 Identities=20% Similarity=0.120 Sum_probs=26.8
Q ss_pred HHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh
Q 031345 74 AKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 74 ~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~ 114 (161)
+...|-+.|.-.=..+...|+.+++..+||+|...+....+
T Consensus 28 ~~~~R~~~a~~~L~~~~~~~i~~ia~~~Gf~~~~~f~~~fk 68 (81)
T PF12833_consen 28 LRELRLQRAKELLRQNTDLSIAEIAEECGFSSQSHFSRAFK 68 (81)
T ss_dssp HHHHHHHHHHHHHHHHTT--HHHHHHHTT-SSHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhcccHHHHHHHcCCCCHHHHHHHHH
Confidence 44555555544333478999999999999999988876653
No 30
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=40.56 E-value=71 Score=18.23 Aligned_cols=22 Identities=14% Similarity=0.385 Sum_probs=19.4
Q ss_pred ccHHHHHHhhCCCCHHHHHHHHh
Q 031345 92 LSIKDAGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 92 l~l~~a~~lL~~~~~~e~~~f~~ 114 (161)
+++.++|.+|+++ ..-+...++
T Consensus 2 lt~~e~a~~lgis-~~ti~~~~~ 23 (49)
T TIGR01764 2 LTVEEAAEYLGVS-KDTVYRLIH 23 (49)
T ss_pred CCHHHHHHHHCCC-HHHHHHHHH
Confidence 6889999999997 889999974
No 31
>PF09035 Tn916-Xis: Excisionase from transposon Tn916; InterPro: IPR015122 The phage-encoded excisionase protein Tn916-Xis adopts a winged-helix structure that consists of a three-stranded anti-parallel beta-sheet that packs against a helix-turn-helix (HTH) motif and a third C-terminal alpha-helix. It is encoded for by Tn916, which also codes for the integrase Tn916-Int. The protein interacts with DNA by the insertion of helix alpha-2 into the major groove and the contact of the hairpin that connects strands beta-2 and beta-3 with the adjacent phosphodiester backbone and/or minor groove. Tn916-Xis stimulates phage excision and inhibits viral integration by stabilising distorted DNA structures []. ; PDB: 1Y6U_A.
Probab=36.25 E-value=1.1e+02 Score=20.37 Aligned_cols=40 Identities=13% Similarity=0.220 Sum_probs=28.5
Q ss_pred cccHHHHHHhhCCCCHHHHHHHH-hhcCCCCeee-CCeEEEeC
Q 031345 91 YLSIKDAGQMLLFTSDQELLEYV-KEEHPEWEMK-DGFVFFQK 131 (161)
Q Consensus 91 sl~l~~a~~lL~~~~~~e~~~f~-~~~~rgW~~~-~~~i~f~~ 131 (161)
.|++++|+.+.|+. .+-+.+.+ ....-+|.+. ++++.+..
T Consensus 13 ~LTi~EAa~Y~gIG-~~klr~l~~~~~~~~f~~~~G~r~lIkR 54 (67)
T PF09035_consen 13 TLTIEEAAEYFGIG-EKKLRELAEENPDCPFVLWIGNRRLIKR 54 (67)
T ss_dssp EEEHHHHHHHT-S--HHHHHHHHHH-TT-SSEEEETTEEEEES
T ss_pred ccCHHHHHHHhCcc-HHHHHHHHHhCCCCCEEEEECCEEEEeH
Confidence 58999999999998 89999998 3344578888 55666554
No 32
>PF06627 DUF1153: Protein of unknown function (DUF1153); InterPro: IPR009534 This family consists of several short, hypothetical bacterial proteins of unknown function.; PDB: 2OA4_A 2JRT_A.
Probab=35.88 E-value=1.3e+02 Score=21.49 Aligned_cols=38 Identities=13% Similarity=0.191 Sum_probs=30.9
Q ss_pred HHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh
Q 031345 76 TVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 76 tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~ 114 (161)
++|.+.|=-..-.|--||.++|+..-+++ ++|+.++..
T Consensus 34 va~RKAaVV~aV~~Glis~~EA~~rY~Ls-~eEf~~W~~ 71 (90)
T PF06627_consen 34 VARRKAAVVRAVRGGLISVEEACRRYGLS-EEEFESWQR 71 (90)
T ss_dssp -HHHHHHHHHHHHCTTS-HHHHHHCTTSS-HHHHHHHHH
T ss_pred hhhHHHHHHHHHHcCCCCHHHHHHHhCCC-HHHHHHHHH
Confidence 46777777777789999999999999998 999988864
No 33
>PHA01082 putative transcription regulator
Probab=35.49 E-value=1.2e+02 Score=22.99 Aligned_cols=43 Identities=23% Similarity=0.353 Sum_probs=29.8
Q ss_pred CCeeeCCeEEEeCCCCCC-----------CCCCCChHHHHHHHHhHHHHhhhcC
Q 031345 119 EWEMKDGFVFFQKAKDSA-----------PCKEIPSLQLINQTLSYARELERIV 161 (161)
Q Consensus 119 gW~~~~~~i~f~~~~~~~-----------~~~~~~~~~li~~~l~Ya~elE~IV 161 (161)
||.+..++..+|.-+-.. .-..-+......+.|.||+-|-+|+
T Consensus 80 ~FrM~~~rLelPTGq~VtpQqILtGiALLEIgAe~D~~~~~kiLKyAR~L~~i~ 133 (133)
T PHA01082 80 GFRMEGGRLIFPTGDRVAPQQLLAAIAILQIQAPDDAMTRSKLLKYARAMARIK 133 (133)
T ss_pred hhhhccCceecCCcCcccHHHHHHHhHhhhccCcchHHHHHHHHHHHHHHHhcC
Confidence 888888999999753111 0112345667889999999998764
No 34
>PRK00115 hemE uroporphyrinogen decarboxylase; Validated
Probab=35.34 E-value=1.4e+02 Score=25.46 Aligned_cols=97 Identities=20% Similarity=0.188 Sum_probs=64.1
Q ss_pred CChhHHHHHHHhcchhhhc-Cc---cchhhHHHHHHHhhcC----hHHHHHhhhcCCCCcHHHHHHHHHHHHHHHHHHhH
Q 031345 14 NRIAEFHTELELLSSTALE-NP---CIKHAVELEQSFMEGA----YNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCS 85 (161)
Q Consensus 14 N~iaeFh~~lE~ip~~~~~-~~---~I~~~v~LEq~LmeG~----Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~eiA~~i 85 (161)
+++..+--..+++-.+... -| .+.-|+++=.+|++|. +.++......-| +...-+|+.+.+.++.-+-.++
T Consensus 118 ~~~~~~leai~~l~~~~~~~~~vig~v~gP~Tla~~l~~~~~~~~~~~~~~~~~~~P-e~v~~ll~~~t~~~~~~~~~~~ 196 (346)
T PRK00115 118 EDLPYVLEAVRLLRRELGGEVPLIGFAGAPWTLATYMVEGGGSKDYAKTKAMMYAEP-ELLHALLDKLADATIAYLNAQI 196 (346)
T ss_pred hccHHHHHHHHHHHHHhCCCceEEeeCCcHHHHHHHHHcCCCCccHHHHHHHHHhCH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555444322 22 3566999999999843 677766544445 5788888988888888888888
Q ss_pred HHhcCcccHHH-HHHhhCCCCHHHHHHHHh
Q 031345 86 EKAYDYLSIKD-AGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 86 e~AY~sl~l~~-a~~lL~~~~~~e~~~f~~ 114 (161)
+..-.-|.+.| .+.++ |+++..+|+.
T Consensus 197 eaGad~i~i~d~~~~~l---sp~~f~ef~~ 223 (346)
T PRK00115 197 EAGAQAVQIFDSWAGAL---SPADYREFVL 223 (346)
T ss_pred HcCCCEEEEecCccccC---CHHHHHHHHH
Confidence 86666554443 44443 4888888873
No 35
>PLN00156 histone H2AX; Provisional
Probab=34.93 E-value=1.7e+02 Score=22.47 Aligned_cols=82 Identities=15% Similarity=0.244 Sum_probs=51.4
Q ss_pred ccchhhH-HHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHHHHHHhHHHhc-----CcccHHHHHHhhCCCCHH
Q 031345 34 PCIKHAV-ELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAY-----DYLSIKDAGQMLLFTSDQ 107 (161)
Q Consensus 34 ~~I~~~v-~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~eiA~~ie~AY-----~sl~l~~a~~lL~~~~~~ 107 (161)
.-++||| .++++|.+|+|.+=..+ .. ..|+...++-+=.||..+...+= ..|+.... .|-+.|.+
T Consensus 26 AgL~FPVgRi~R~Lk~g~ya~RVga--~A-----pVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi--~lAIrnDe 96 (139)
T PLN00156 26 AGLQFPVGRIARFLKAGKYAERVGA--GA-----PVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHI--QLAVRNDE 96 (139)
T ss_pred cCcccchHHHHHHHhcCChhhccCC--cc-----HHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHH--HhhccCcH
Confidence 3678888 59999999999873222 22 34555555555555555444431 24444443 34456789
Q ss_pred HHHHHHhhcCCCCeeeCCeEE
Q 031345 108 ELLEYVKEEHPEWEMKDGFVF 128 (161)
Q Consensus 108 e~~~f~~~~~rgW~~~~~~i~ 128 (161)
|+..+. .++++-.|.|+
T Consensus 97 EL~~Ll----~~vTIa~GGV~ 113 (139)
T PLN00156 97 ELSKLL----GSVTIAAGGVL 113 (139)
T ss_pred HHHHHH----CCCccCCCccC
Confidence 999885 48999866553
No 36
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=33.51 E-value=1.5e+02 Score=29.38 Aligned_cols=96 Identities=17% Similarity=0.208 Sum_probs=66.2
Q ss_pred CCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhh--cCC--CCeee--CCeEEEeCC----
Q 031345 63 NETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKE--EHP--EWEMK--DGFVFFQKA---- 132 (161)
Q Consensus 63 s~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~--~~r--gW~~~--~~~i~f~~~---- 132 (161)
+++++.++..|-+-+=-+...-+.+-|.||++...-+|--|=|.-++..++-. ++. .=.+| .+.|+|.+.
T Consensus 419 ~~~~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~lEk~~v~a~k~~~v~iriDH~~~~v~FgsDl~~s 498 (988)
T KOG2072|consen 419 SPDKSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFELEKLLVEAAKHNDVSIRIDHESNSVSFGSDLFLS 498 (988)
T ss_pred CCCccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHHHHHHHHHHHhccceeEEeccccceeeeccccccc
Confidence 46678888888888888899999999999999999888877778898888632 222 23444 467788742
Q ss_pred -----CCCCCCCCCChHHHHHHHHhHHHHhh
Q 031345 133 -----KDSAPCKEIPSLQLINQTLSYARELE 158 (161)
Q Consensus 133 -----~~~~~~~~~~~~~li~~~l~Ya~elE 158 (161)
+++...+.+||..+=++.-..|+-|.
T Consensus 499 ~~~~~~eg~~lqs~~sE~ir~~L~~m~~~L~ 529 (988)
T KOG2072|consen 499 KEEDEPEGPELQSMPSEGIRSQLTAMAESLS 529 (988)
T ss_pred cccccCCCchhhcCchHhHHHHHHHHHHHHH
Confidence 12223345777766555555555444
No 37
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=31.21 E-value=2.6e+02 Score=27.56 Aligned_cols=80 Identities=15% Similarity=0.108 Sum_probs=58.2
Q ss_pred HHHHHHHHhcCChhHHHHHHHhcc--------hh----hhcCccchhhHHHHHHHhhcChHHHHHhhhcCC--CCcHHHH
Q 031345 4 GLNLLRLLVQNRIAEFHTELELLS--------ST----ALENPCIKHAVELEQSFMEGAYNRVLSAKQNVP--NETYGYF 69 (161)
Q Consensus 4 gL~LL~LLsqN~iaeFh~~lE~ip--------~~----~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~P--s~~~~~f 69 (161)
+|.++.-+++|++.++-..|++.- .+ +.....-..+++|=..|..|++.+++....++- +-+|..|
T Consensus 202 AL~lIA~~A~GsmRdALsLLdQAia~~~~~It~~~V~~~LG~~d~~~i~~ll~aL~~~d~~~~l~~~~~l~~~g~~~~~~ 281 (830)
T PRK07003 202 ALRLLARAAQGSMRDALSLTDQAIAYSANEVTETAVSGMLGALDQTYMVRLLDALAAGDGPEILAVADEMALRSLSFSTA 281 (830)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHhccCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHH
Confidence 456777788899888888876522 21 123444567889999999999999988554332 4578999
Q ss_pred HHHHHHHHHHHHHH
Q 031345 70 MDLLAKTVRDEIAG 83 (161)
Q Consensus 70 m~~L~~tiR~eiA~ 83 (161)
+..|++.+|+-...
T Consensus 282 l~dLl~~l~~~~~~ 295 (830)
T PRK07003 282 LQDLASLLHRIAWA 295 (830)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999986554
No 38
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=31.20 E-value=1.3e+02 Score=18.71 Aligned_cols=43 Identities=9% Similarity=0.096 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHH
Q 031345 69 FMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYV 113 (161)
Q Consensus 69 fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~ 113 (161)
+.+.|.+..|.+|...+ ..-...+..+.+..++++ ...+..-.
T Consensus 3 i~~aL~~p~R~~Il~~L-~~~~~~t~~ela~~l~~~-~~t~s~hL 45 (61)
T PF12840_consen 3 IFKALSDPTRLRILRLL-ASNGPMTVSELAEELGIS-QSTVSYHL 45 (61)
T ss_dssp HHHHHTSHHHHHHHHHH-HHCSTBEHHHHHHHHTS--HHHHHHHH
T ss_pred HHHHhCCHHHHHHHHHH-hcCCCCCHHHHHHHHCCC-HHHHHHHH
Confidence 56778889999999999 678899999999999998 55544433
No 39
>KOG2495 consensus NADH-dehydrogenase (ubiquinone) [Energy production and conversion]
Probab=31.11 E-value=46 Score=30.43 Aligned_cols=61 Identities=23% Similarity=0.260 Sum_probs=47.4
Q ss_pred CCcHHHHHHHH--HHHHHHHHHHhHHHhcC-cccHHHHHHhhCC----------CCHHHHHHHHhhcCCCCeee
Q 031345 63 NETYGYFMDLL--AKTVRDEIAGCSEKAYD-YLSIKDAGQMLLF----------TSDQELLEYVKEEHPEWEMK 123 (161)
Q Consensus 63 s~~~~~fm~~L--~~tiR~eiA~~ie~AY~-sl~l~~a~~lL~~----------~~~~e~~~f~~~~~rgW~~~ 123 (161)
-.++.+|+... ...||.++..|+|+|-. .++-.+-+++|+| .=..|+.+|+.+.-|.|--+
T Consensus 178 V~e~~~FLKEv~dAqeIR~~~~~~le~a~~~~l~~eerkRlLh~VVVGGGPTGVEFAaEL~Dfi~~Dl~k~yp~ 251 (491)
T KOG2495|consen 178 VEENAHFLKEVEDAQEIRRKVIDNLEKAELPGLSDEERKRLLHFVVVGGGPTGVEFAAELADFIPEDLRKIYPE 251 (491)
T ss_pred hhhchhhhhhhhHHHHHHHHHHHHHHHhhcCCCChHHhhheEEEEEECCCCcceeehHHHHHHHHHHHHHhhhc
Confidence 56889999876 56799999999999976 7888889999987 22468999986555555543
No 40
>cd00717 URO-D Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction is located at the branching point of the tetrapyrrole biosynthetic pathway, leading to the biosynthesis of heme, chlorophyll or bacteriochlorophyll. URO-D deficiency is responsible for the human genetic diseases familial porphyria cutanea tarda (fPCT) and hepatoerythropoietic porphyria (HEP).
Probab=30.91 E-value=1.8e+02 Score=24.41 Aligned_cols=97 Identities=15% Similarity=0.209 Sum_probs=63.5
Q ss_pred CChhHHHHHHHhcchhhhc-Cc---cchhhHHHHHHHhhc----ChHHHHHhhhcCCCCcHHHHHHHHHHHHHHHHHHhH
Q 031345 14 NRIAEFHTELELLSSTALE-NP---CIKHAVELEQSFMEG----AYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCS 85 (161)
Q Consensus 14 N~iaeFh~~lE~ip~~~~~-~~---~I~~~v~LEq~LmeG----~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~eiA~~i 85 (161)
+++....-..+++-.+... -| .+.-|+++=.+|+.| +|.++......-| +...-+++.+.+.+++=+-.++
T Consensus 109 ~~~~~~leai~~l~~~~~~~~~i~g~v~gP~Tla~~l~~~~~~~~~~~~~~~l~~~P-e~v~~~l~~it~~~~~~~~~~i 187 (335)
T cd00717 109 EELSYVYEAIKLTRKELPGEVPLIGFAGAPWTLASYMIEGGGSKDFAKAKKMMYTDP-EAFHALLDKLTDATIEYLKAQI 187 (335)
T ss_pred hhhHHHHHHHHHHHHHcCCCceEEeecCCHHHHHHHHHCCCCCccHHHHHHHHHhCH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555544322 23 345699999999975 3467766554434 5788888888888888888888
Q ss_pred HHhcCcccHHH-HHHhhCCCCHHHHHHHHh
Q 031345 86 EKAYDYLSIKD-AGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 86 e~AY~sl~l~~-a~~lL~~~~~~e~~~f~~ 114 (161)
+.--.-+.+.| .+.+ + |+++..+|+.
T Consensus 188 eaGad~i~i~d~~~~~--l-sp~~f~ef~~ 214 (335)
T cd00717 188 EAGAQAVQIFDSWAGA--L-SPEDFEEFVL 214 (335)
T ss_pred HhCCCEEEEeCccccc--C-CHHHHHHHHH
Confidence 86665454333 4443 3 4888888874
No 41
>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 [].
Probab=30.70 E-value=1.2e+02 Score=27.20 Aligned_cols=45 Identities=16% Similarity=0.208 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHH
Q 031345 67 GYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEY 112 (161)
Q Consensus 67 ~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f 112 (161)
..||+.+.....--..++--|=|++|+++-+|++|..+ ++++..-
T Consensus 297 ~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd-~~~lr~~ 341 (404)
T PF10255_consen 297 KLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVD-EEELRSQ 341 (404)
T ss_pred HHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCC-HHHHHHH
Confidence 34555554444445556677888999999999999997 6655443
No 42
>smart00497 IENR1 Intron encoded nuclease repeat motif. Repeat of unknown function, but possibly DNA-binding via helix-turn-helix motif (Ponting, unpublished).
Probab=30.06 E-value=1e+02 Score=18.38 Aligned_cols=31 Identities=23% Similarity=0.458 Sum_probs=22.5
Q ss_pred ccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCCe
Q 031345 92 LSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGF 126 (161)
Q Consensus 92 l~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~~ 126 (161)
-|+.+|++.|+++ ...+..+++ .|+...+|.
T Consensus 18 ~S~~eAa~~lg~~-~~~I~~~~~---~~~~~~ggy 48 (53)
T smart00497 18 SSIREAAKYLGIS-HSSISKYLN---TGKKFKGGY 48 (53)
T ss_pred cCHHHHHHHhCCC-HHHHHHHHh---CCCccCCeE
Confidence 3678999999997 778888874 366664433
No 43
>KOG0104 consensus Molecular chaperones GRP170/SIL1, HSP70 superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=29.69 E-value=1.8e+02 Score=28.57 Aligned_cols=77 Identities=19% Similarity=0.294 Sum_probs=57.6
Q ss_pred HHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee-C---CeEEEeCCCCCCCCCCCChHHHHHHHHh
Q 031345 77 VRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK-D---GFVFFQKAKDSAPCKEIPSLQLINQTLS 152 (161)
Q Consensus 77 iR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~-~---~~i~f~~~~~~~~~~~~~~~~li~~~l~ 152 (161)
+=-+.|.++...|..-++.....|||=+-.+.+.++-+.+-.+..+. | +.|.|+.. ...+-+-++|+.+.|.
T Consensus 69 ~fg~~A~~ma~r~P~~~~~~l~~llgk~~~~~~v~ly~~~~p~~e~v~d~~rstV~F~i~----d~~~ysvEellAMil~ 144 (902)
T KOG0104|consen 69 IFGEAAASMATRFPQSTYRQLKDLLGKSLDDPTVDLYQKRFPFFELVEDPQRSTVVFKIS----DQEEYSVEELLAMILQ 144 (902)
T ss_pred ehhhhhhhhhhcCcHHHHHHHHHHhCcccCCcHHHHHHhcCCceeecccCccceEEEEeC----CccccCHHHHHHHHHH
Confidence 33567889999999999999999999874454666655455567666 3 35677652 2356788999999999
Q ss_pred HHHHh
Q 031345 153 YAREL 157 (161)
Q Consensus 153 Ya~el 157 (161)
||+.+
T Consensus 145 ~a~~~ 149 (902)
T KOG0104|consen 145 YAKSL 149 (902)
T ss_pred HHHHH
Confidence 99875
No 44
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=28.71 E-value=96 Score=22.30 Aligned_cols=38 Identities=16% Similarity=0.211 Sum_probs=32.0
Q ss_pred HHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHH
Q 031345 75 KTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEY 112 (161)
Q Consensus 75 ~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f 112 (161)
.|.|++|.+....+=+-++++.+..+++...++++.+-
T Consensus 2 ~t~rEkii~lL~e~~eplt~~ei~~~~~~~~~~~v~~~ 39 (97)
T COG3357 2 ETTREKIISLLLESDEPLTVAEIFELLNGEKEKEVYDH 39 (97)
T ss_pred chHHHHHHHHHHcCCCcchHHHHHHHHcCCchHHHHHH
Confidence 58899999998888889999999999999867766443
No 45
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=28.61 E-value=2.3e+02 Score=24.65 Aligned_cols=105 Identities=9% Similarity=0.039 Sum_probs=63.6
Q ss_pred HHHHHhcCChhHHHHHHHhcchhhh--cCccchhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHHHHHHh
Q 031345 7 LLRLLVQNRIAEFHTELELLSSTAL--ENPCIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGC 84 (161)
Q Consensus 7 LL~LLsqN~iaeFh~~lE~ip~~~~--~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~eiA~~ 84 (161)
|+.....|+-..|..+.+.--.-+. ...|.+.....+--+.|| +=++|.+..+.....-..|.....-.||..|-.+
T Consensus 119 L~~~~~~Gd~~A~~~Li~~~~~lV~~iA~~~~~~~~~~eDLiQEg-~igL~~a~~~fd~~~g~~FsTyA~~wIr~aI~~~ 197 (367)
T PRK09210 119 LAKRIEEGDEEAKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEG-NMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRA 197 (367)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHH-HHHHHHHHHhcCCCCCCchHHHHHHHHHHHHHHH
Confidence 4444556676777766664333332 455566666777777888 6678887776543222245555556677777666
Q ss_pred HHHhcCcc----------------------------cHHHHHHhhCCCCHHHHHHHH
Q 031345 85 SEKAYDYL----------------------------SIKDAGQMLLFTSDQELLEYV 113 (161)
Q Consensus 85 ie~AY~sl----------------------------~l~~a~~lL~~~~~~e~~~f~ 113 (161)
+...-.++ +..+.|..|+++ ++++.+.-
T Consensus 198 i~~~~r~irip~~~~~~~~~~~~~~~~l~~~lgr~pt~~EiA~~l~~~-~~~v~~~~ 253 (367)
T PRK09210 198 IADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEEIAEEMDMP-PEKVREIL 253 (367)
T ss_pred HHHcCCceeccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcC-HHHHHHHH
Confidence 65544322 356677888887 77776653
No 46
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=28.10 E-value=3.2e+02 Score=22.04 Aligned_cols=115 Identities=17% Similarity=0.193 Sum_probs=72.9
Q ss_pred HHHHHHHHhcCChhHHHHHHHhcchh----------h---hcCccchhhHHHHHHHhhcChHHHHHhhhcCC--CCcHHH
Q 031345 4 GLNLLRLLVQNRIAEFHTELELLSST----------A---LENPCIKHAVELEQSFMEGAYNRVLSAKQNVP--NETYGY 68 (161)
Q Consensus 4 gL~LL~LLsqN~iaeFh~~lE~ip~~----------~---~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~P--s~~~~~ 68 (161)
+++.|.-.+.|++...+.|++.|-.- + .....-..++++-.++..|+..+.+.....+- ....-.
T Consensus 135 a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~~~if~l~dal~~~~~~~a~~~l~~l~~~~~~~~~ 214 (302)
T TIGR01128 135 AVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSARFNVFDLTDALLEGKAARALRILKGLLGEGEEPLI 214 (302)
T ss_pred HHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCcHHH
Confidence 34555666789999999999987431 1 12222234788999999999998876443211 233355
Q ss_pred HHHHHHHHHHH--HHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeee
Q 031345 69 FMDLLAKTVRD--EIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMK 123 (161)
Q Consensus 69 fm~~L~~tiR~--eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~ 123 (161)
++..|...+|. .+..+.+..+ +.+++++-+++. +.....+.+ ..+.|+.+
T Consensus 215 il~~l~~~~~~L~~~k~~~~~~~---~~~~i~~~~~~~-~~~~~~~~~-~~~~~s~~ 266 (302)
T TIGR01128 215 LLALLQRQLRLLLQLKRLAQQGG---PLAQLASKLGIW-PYRRKLALK-ALRRLSLA 266 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCC---CHHHHHHHcCCC-HHHHHHHHH-HHhcCCHH
Confidence 66667766666 3334444433 677888888875 666666653 46788864
No 47
>PF02042 RWP-RK: RWP-RK domain; InterPro: IPR003035 This domain is named RWP-RK after a conserved motif at the C terminus of the domain. The domain is found in algal minus dominance proteins as well as plant proteins involved in nitrogen-controlled development [].
Probab=27.88 E-value=1.1e+02 Score=19.40 Aligned_cols=27 Identities=26% Similarity=0.237 Sum_probs=22.7
Q ss_pred HhcCcccHHHHHHhhCCCCHHHHHHHHh
Q 031345 87 KAYDYLSIKDAGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 87 ~AY~sl~l~~a~~lL~~~~~~e~~~f~~ 114 (161)
++|=.+|+.+||+-||+. ...+..-+.
T Consensus 11 ~~~fhlp~~eAA~~Lgv~-~T~LKr~CR 37 (52)
T PF02042_consen 11 SQYFHLPIKEAAKELGVS-VTTLKRRCR 37 (52)
T ss_pred HHHhCCCHHHHHHHhCCC-HHHHHHHHH
Confidence 467789999999999998 788877773
No 48
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=27.61 E-value=1.2e+02 Score=17.01 Aligned_cols=22 Identities=32% Similarity=0.481 Sum_probs=18.9
Q ss_pred ccHHHHHHhhCCCCHHHHHHHHh
Q 031345 92 LSIKDAGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 92 l~l~~a~~lL~~~~~~e~~~f~~ 114 (161)
+++.++|.+|+.+ ..-+..+++
T Consensus 1 ~s~~e~a~~lgvs-~~tl~~~~~ 22 (49)
T cd04762 1 LTTKEAAELLGVS-PSTLRRWVK 22 (49)
T ss_pred CCHHHHHHHHCcC-HHHHHHHHH
Confidence 4788999999998 889998974
No 49
>PLN00155 histone H2A; Provisional
Probab=27.48 E-value=35 Score=22.38 Aligned_cols=22 Identities=14% Similarity=0.391 Sum_probs=18.3
Q ss_pred cCccchhhH-HHHHHHhhcChHH
Q 031345 32 ENPCIKHAV-ELEQSFMEGAYNR 53 (161)
Q Consensus 32 ~~~~I~~~v-~LEq~LmeG~Y~k 53 (161)
+..-++||| .++++|.+|+|++
T Consensus 19 ~rAgL~FPVgri~r~Lr~g~~a~ 41 (58)
T PLN00155 19 AKAGLQFPVGRIARYLKKGKYAE 41 (58)
T ss_pred cccccccchHHHHHHHhcCChhh
Confidence 344788998 5799999999997
No 50
>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length. It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.
Probab=27.25 E-value=1.1e+02 Score=22.11 Aligned_cols=51 Identities=20% Similarity=0.205 Sum_probs=37.0
Q ss_pred hhhHHHHHHHhhcChHHHHHhhhcCC--CCcHHHHHHHHHHHHHHHHHHhHHH
Q 031345 37 KHAVELEQSFMEGAYNRVLSAKQNVP--NETYGYFMDLLAKTVRDEIAGCSEK 87 (161)
Q Consensus 37 ~~~v~LEq~LmeG~Y~kv~~a~~~~P--s~~~~~fm~~L~~tiR~eiA~~ie~ 87 (161)
....++=+++-+|+..+++...+++- +.++..|++.|.+.+|+=..-....
T Consensus 16 ~~i~~l~~ai~~~d~~~~l~~~~~l~~~G~d~~~~l~~L~~~~R~ll~~k~~~ 68 (143)
T PF12169_consen 16 EQIFELLDAILEGDAAEALELLNELLEQGKDPKQFLDDLIEYLRDLLLYKITG 68 (143)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHHHHTTSG
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhCC
Confidence 45678889999999999988654322 5688999999999999977654433
No 51
>PF14647 FAM91_N: FAM91 N-terminus
Probab=26.73 E-value=89 Score=27.08 Aligned_cols=52 Identities=23% Similarity=0.559 Sum_probs=38.3
Q ss_pred cHHHHHHHHHHHHHHHHHHhHHHhcCccc---HHHHHHhhCCCCHHHHHHHHhh--cCCCCeee
Q 031345 65 TYGYFMDLLAKTVRDEIAGCSEKAYDYLS---IKDAGQMLLFTSDQELLEYVKE--EHPEWEMK 123 (161)
Q Consensus 65 ~~~~fm~~L~~tiR~eiA~~ie~AY~sl~---l~~a~~lL~~~~~~e~~~f~~~--~~rgW~~~ 123 (161)
-|++..+++.+.+++ ||+|.+|| ..||-++||+. .+|..+..++ .++.|..+
T Consensus 88 PF~YY~~ml~~lm~~------ekSYDsLPNFTAaD~LRllGIG-RNqYIdlmn~~RS~~~~~~~ 144 (308)
T PF14647_consen 88 PFSYYIDMLAELMKS------EKSYDSLPNFTAADCLRLLGIG-RNQYIDLMNKCRSKKRWFRN 144 (308)
T ss_pred cHHHHHHHHHHHHHc------CCCcccCCCCcHHHHHHHhcch-HHHHHHHHHHhchhHHHhhh
Confidence 478888888888876 59999886 66778899998 7777776642 13457764
No 52
>smart00071 Galanin Galanin. Galanin [1,2,3] is a neuropeptide that controls various biological activities: it regulates the release growth hormone, inhibits the release of insulin and somatostatin, contracts smooth muscle of the gastrointestinal and genitourinary tract and may be involved in the control of adrenal secretion
Probab=26.56 E-value=37 Score=24.39 Aligned_cols=16 Identities=19% Similarity=0.638 Sum_probs=12.2
Q ss_pred cCCCCeee-CCeEEEeC
Q 031345 116 EHPEWEMK-DGFVFFQK 131 (161)
Q Consensus 116 ~~rgW~~~-~~~i~f~~ 131 (161)
.+|||+++ .|+..=|.
T Consensus 10 eKRgwtlnsagyllgp~ 26 (103)
T smart00071 10 EKRGWTLNSAGYLLGPH 26 (103)
T ss_pred cccCceeccCceeeCcc
Confidence 57999998 77776553
No 53
>PF12959 DUF3848: Protein of unknown function (DUF3848); InterPro: IPR024380 This domain is found in a family of uncharacterised proteins found by clustering human gut metagenomic sequences[].
Probab=25.63 E-value=1.2e+02 Score=22.15 Aligned_cols=40 Identities=30% Similarity=0.351 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCe
Q 031345 74 AKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWE 121 (161)
Q Consensus 74 ~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~ 121 (161)
-=+||++|+-|+|-. -||-..++.||.-.++ +... -+.|.
T Consensus 35 Ey~VkeDi~m~~ee~--~l~~~qa~ALl~sp~P--L~~i----Y~~w~ 74 (101)
T PF12959_consen 35 EYTVKEDILMAMEEL--ELPDQQAKALLKSPSP--LADI----YREWE 74 (101)
T ss_pred HHHHHHHHHHHHHHc--cCCHHHHHHHHcCCCh--HHHH----HHHHH
Confidence 458999999999976 4999999999966644 3333 24676
No 54
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=25.43 E-value=64 Score=19.81 Aligned_cols=28 Identities=29% Similarity=0.256 Sum_probs=17.5
Q ss_pred HHhcCChhHHHHHHHhcchhhhcCccch
Q 031345 10 LLVQNRIAEFHTELELLSSTALENPCIK 37 (161)
Q Consensus 10 LLsqN~iaeFh~~lE~ip~~~~~~~~I~ 37 (161)
++.+|+..++...|++++....+||.+.
T Consensus 35 ~~~~g~~~~A~~~l~~~~~~~~~~~~~~ 62 (68)
T PF14559_consen 35 YLKQGQYDEAEELLERLLKQDPDNPEYQ 62 (68)
T ss_dssp HHHTT-HHHHHHHHHCCHGGGTTHHHHH
T ss_pred HHHcCCHHHHHHHHHHHHHHCcCHHHHH
Confidence 5567777777777777765554445444
No 55
>PRK11038 hypothetical protein; Provisional
Probab=24.74 E-value=52 Score=20.64 Aligned_cols=23 Identities=39% Similarity=0.569 Sum_probs=16.6
Q ss_pred hHHHHHHHHhcCChhHHHHHHHhc
Q 031345 3 LGLNLLRLLVQNRIAEFHTELELL 26 (161)
Q Consensus 3 ~gL~LL~LLsqN~iaeFh~~lE~i 26 (161)
+++.|++||-+|+|.- ++.|.-+
T Consensus 12 LAVDLI~LLE~n~i~p-~~aL~AL 34 (47)
T PRK11038 12 LAVDLIYLLEENEIPP-RTALAAL 34 (47)
T ss_pred HHHHHHHHHHhcCCCH-HHHHHHH
Confidence 5788999999999853 4444443
No 56
>PF10689 DUF2496: Protein of unknown function (DUF2496); InterPro: IPR019630 This family consists of proteins from Gammaproteobacteria species. Many members are annotated as being like the Escherichia coli protein; YbaM.
Probab=24.67 E-value=53 Score=20.32 Aligned_cols=23 Identities=39% Similarity=0.535 Sum_probs=16.4
Q ss_pred hHHHHHHHHhcCChhHHHHHHHhc
Q 031345 3 LGLNLLRLLVQNRIAEFHTELELL 26 (161)
Q Consensus 3 ~gL~LL~LLsqN~iaeFh~~lE~i 26 (161)
+++.|++||-+|+|.- ++.|+-+
T Consensus 11 LAVDLI~LLE~n~i~p-~~aL~AL 33 (44)
T PF10689_consen 11 LAVDLIYLLESNEIDP-ETALAAL 33 (44)
T ss_pred HHHHHHHHHHhcCCCH-HHHHHHH
Confidence 5788999999999853 4444433
No 57
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=24.60 E-value=4.4e+02 Score=22.57 Aligned_cols=79 Identities=9% Similarity=0.071 Sum_probs=54.0
Q ss_pred HHHHHHHHhcCChhHHHHHHHhcch------------hhhcCccchhhHHHHHHHhhcChHHHHHhhhcC--CCCcHHHH
Q 031345 4 GLNLLRLLVQNRIAEFHTELELLSS------------TALENPCIKHAVELEQSFMEGAYNRVLSAKQNV--PNETYGYF 69 (161)
Q Consensus 4 gL~LL~LLsqN~iaeFh~~lE~ip~------------~~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~--Ps~~~~~f 69 (161)
++.++.-.+.|++..+-.+++..-. +....+--..+.++=.++.+|+..+++.....+ -..+...|
T Consensus 202 al~~ia~~s~G~~R~al~~l~~~~~~~~~~It~~~v~~~l~~~~~~~i~~l~~ai~~~~~~~~~~~~~~l~~~g~~~~~i 281 (363)
T PRK14961 202 ALKLIAYHAHGSMRDALNLLEHAINLGKGNINIKNVTDMLGLLNEKQSFLLTDALLKKDSKKTMLLLNKISSIGIEWENI 281 (363)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHH
Confidence 4556677889999999888876521 112444555666777788899999887754322 14567778
Q ss_pred HHHHHHHHHHHHH
Q 031345 70 MDLLAKTVRDEIA 82 (161)
Q Consensus 70 m~~L~~tiR~eiA 82 (161)
++.+...+|+=..
T Consensus 282 l~~l~~~~~d~l~ 294 (363)
T PRK14961 282 LIEMLRFLHHISM 294 (363)
T ss_pred HHHHHHHHHHHHH
Confidence 8888888886544
No 58
>TIGR01464 hemE uroporphyrinogen decarboxylase. This model represents uroporphyrinogen decarboxylase (HemE), which converts uroporphyrinogen III to coproporphyrinogen III. This step takes the pathway toward protoporphyrin IX, a common precursor of both heme and chlorophyll, rather than toward precorrin 2 and its products.
Probab=24.55 E-value=2.8e+02 Score=23.41 Aligned_cols=75 Identities=15% Similarity=0.192 Sum_probs=49.0
Q ss_pred chhhHHHHHHHhhcC----hHHHHHhhhcCCCCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHH-HHHhhCCCCHHHHH
Q 031345 36 IKHAVELEQSFMEGA----YNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKD-AGQMLLFTSDQELL 110 (161)
Q Consensus 36 I~~~v~LEq~LmeG~----Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~-a~~lL~~~~~~e~~ 110 (161)
+.-|++|=.+|++|. +.++......-| +...-+|+.+.+.+..=+-.+++..-.-+-+.| .+.+ + |+++..
T Consensus 138 ~~gP~Tla~~l~~g~~~~~~~~~~~~~~~~P-e~v~~ll~~~t~~~~~~~~~~~eaGad~i~i~d~~~~~--l-sp~~f~ 213 (338)
T TIGR01464 138 AGAPWTLASYMIEGGGSKDFAKAKRFMYQEP-EVLHALLNKLTDATIEYLVEQVKAGAQAVQIFDSWAGA--L-SPEDFE 213 (338)
T ss_pred CCchHHHHHHHHcCCCCccHHHHHHHHHhCH-HHHHHHHHHHHHHHHHHHHHHHHcCCCEEEEECCcccc--C-CHHHHH
Confidence 455999999999865 456655444434 467777887777777766667765544343333 3333 3 488888
Q ss_pred HHHh
Q 031345 111 EYVK 114 (161)
Q Consensus 111 ~f~~ 114 (161)
+|+.
T Consensus 214 ef~~ 217 (338)
T TIGR01464 214 EFVL 217 (338)
T ss_pred HHHH
Confidence 8873
No 59
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=24.25 E-value=1.1e+02 Score=17.77 Aligned_cols=25 Identities=12% Similarity=0.102 Sum_probs=20.1
Q ss_pred ccHHHHHHhhCCCCHHHHHHHHhhcCCCC
Q 031345 92 LSIKDAGQMLLFTSDQELLEYVKEEHPEW 120 (161)
Q Consensus 92 l~l~~a~~lL~~~~~~e~~~f~~~~~rgW 120 (161)
+++.++|++++++ +.-+..++ ++|+
T Consensus 1 ~~~~e~a~~~gv~-~~tlr~~~---~~g~ 25 (49)
T cd04761 1 YTIGELAKLTGVS-PSTLRYYE---RIGL 25 (49)
T ss_pred CcHHHHHHHHCcC-HHHHHHHH---HCCC
Confidence 4678999999998 88888885 3465
No 60
>PLN02433 uroporphyrinogen decarboxylase
Probab=24.24 E-value=2.9e+02 Score=23.50 Aligned_cols=96 Identities=15% Similarity=0.170 Sum_probs=61.9
Q ss_pred CChhHHHHHHHhcchhhhc-Cc---cchhhHHHHHHHhhcCh----HHHHHhhhcCCCCcHHHHHHHHHHHHHHHHHHhH
Q 031345 14 NRIAEFHTELELLSSTALE-NP---CIKHAVELEQSFMEGAY----NRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCS 85 (161)
Q Consensus 14 N~iaeFh~~lE~ip~~~~~-~~---~I~~~v~LEq~LmeG~Y----~kv~~a~~~~Ps~~~~~fm~~L~~tiR~eiA~~i 85 (161)
+++..+--..+++-.+... -| ++.-|+++-.+|++|++ .++......-| +...-+|+.+.+.+.+=+-.++
T Consensus 111 ~~l~~~leai~~l~~~~~~~v~iig~v~gP~Tla~~l~gg~~~~~~~~~~~~l~~~P-e~v~~ll~~it~~~~~~~~~~i 189 (345)
T PLN02433 111 EKLPFVGEALKILRKEVGNEAAVLGFVGAPWTLATYIVEGGSSKNYKVIKKMAFTAP-EVLHALLDKLTDAVIEYVDYQI 189 (345)
T ss_pred hhhHHHHHHHHHHHHHhCCCCceeeeCCcHHHHHHHHHcCCCCccHHHHHHHHHhCH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555444332 23 55669999999999864 55555444434 5788888888888888887788
Q ss_pred HHhcCcccHHH-HHHhhCCCCHHHHHHHH
Q 031345 86 EKAYDYLSIKD-AGQMLLFTSDQELLEYV 113 (161)
Q Consensus 86 e~AY~sl~l~~-a~~lL~~~~~~e~~~f~ 113 (161)
+..-.-+.+.| .+.+ + |+++..+|+
T Consensus 190 eaGa~~i~i~d~~~~~--l-sp~~f~ef~ 215 (345)
T PLN02433 190 DAGAQVVQIFDSWAGH--L-SPVDFEEFS 215 (345)
T ss_pred HcCCCEEEEecCcccc--C-CHHHHHHHH
Confidence 76655444433 2332 3 488888887
No 61
>PF01620 Pollen_allerg_2: Ribonuclease (pollen allergen); InterPro: IPR002914 Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Lol p 5, Pha a 5, Phl p 5, Phl p 6, Phl p 11 and Poa p 9. Grass pollen allergens are one of the major causes of type I allergies (including allergic rhinoconjunctivitis, allergic bronchial asthma and hayfever), afflicting 15-20% of a genetically predisposed population []. The predicted molecular masses of the known pollen allergen proteins range from 28.3 to 37.8kDa []. Northern analysis indicates that expression of the genes is confined to pollen tissue. A low level of similarity is observed between the Phl p 5 allergens and the N-terminal sequences of Poa pratensis (Kentucky bluegrass) p 9 proteins [] (see IPR001778 from INTERPRO). The N-terminal region of P. pratensis p 9 has been shown to possess epitopes that cross-react with the acidic group V allergens of Phleum pratense (Common timothy) []. Comparison of amino acid sequences of recombinant P. pratensis p 9 proteins with those of Lol p 5 isoallergens revealed a low level of similarity between the N-terminal sequences of these proteins []. A C-terminal region (IPR001778 from INTERPRO), conserved in P. pratensis p 9 allergens, appears to contain epitopes unique to these proteins []. ; GO: 0016068 type I hypersensitivity; PDB: 1L3P_A 1NLX_J.
Probab=24.05 E-value=27 Score=27.26 Aligned_cols=63 Identities=25% Similarity=0.469 Sum_probs=45.6
Q ss_pred HHHHHHhhcC---hHHHHHhhhcCC-CCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCC
Q 031345 41 ELEQSFMEGA---YNRVLSAKQNVP-NETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLF 103 (161)
Q Consensus 41 ~LEq~LmeG~---Y~kv~~a~~~~P-s~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~ 103 (161)
.-||.|||+= |.--..+-..+| .+.|..|-..+...+|..++..-.++|..+|--|++-.+..
T Consensus 51 t~Eqklie~InaafkaA~aAAa~~P~aDKfk~Fe~aF~~a~k~~~~~~~~~~~~f~~kLdaA~k~AY 117 (156)
T PF01620_consen 51 TEEQKLIEDINAAFKAAVAAAAAVPPADKFKTFEAAFNKAIKASTAGAYAKAYKFIPKLDAAYKLAY 117 (156)
T ss_dssp HHHHCCHHHHHHHHHHHHHHCCTS-HHHHHHHHHHHHHHHHHHHCCCCHCH-CCHCHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHhccCCchhHHHHHHHHHccccccccccccccchhccHhHHHHHHHHH
Confidence 6688888642 222233444556 78899999999999999999888899998887777766644
No 62
>PF12179 IKKbetaNEMObind: I-kappa-kinase-beta NEMO binding domain; InterPro: IPR022007 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with PF00069 from PFAM. These proteins are involved in inflammatory reactions. They cause release of NF-kappa-B into the nucleus of inflammatory cells and upregulation of transcription of proinflammatory cytokines. They perform this function by phosphorylating I-kappa-B proteins which are targeted for degradation to release NF-kappa-B. This kinase (I-kappa-kinase-beta) is found in association with IKK-alpha and NEMO (NF-kappa-B essential modulator). This domain is the binding site of IKK-beta for NEMO. ; GO: 0008384 IkappaB kinase activity; PDB: 3BRT_C 3BRV_C.
Probab=23.86 E-value=67 Score=19.30 Aligned_cols=19 Identities=32% Similarity=0.553 Sum_probs=16.2
Q ss_pred hHHHHHHHHhHHHHhhhcC
Q 031345 143 SLQLINQTLSYARELERIV 161 (161)
Q Consensus 143 ~~~li~~~l~Ya~elE~IV 161 (161)
+.++|..+..|-.+|++++
T Consensus 1 s~~lv~En~~~lsqL~s~m 19 (38)
T PF12179_consen 1 SEQLVEENQNYLSQLESLM 19 (38)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHH
Confidence 4689999999999999863
No 63
>PF08727 P3A: Poliovirus 3A protein like; InterPro: IPR014838 The 3A protein is found in positive-strand RNA viruses. It is a critical component of the poliovirus replication complex, and is also an inhibitor of host cell ER to Golgi transport. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1NG7_A.
Probab=23.70 E-value=24 Score=23.07 Aligned_cols=17 Identities=24% Similarity=0.577 Sum_probs=10.7
Q ss_pred CHHHHHHHHhhcCCCCeee
Q 031345 105 SDQELLEYVKEEHPEWEMK 123 (161)
Q Consensus 105 ~~~e~~~f~~~~~rgW~~~ 123 (161)
+.+|+.+||+ ++||.+.
T Consensus 28 ~~~eV~~YC~--~~GWIip 44 (57)
T PF08727_consen 28 DSPEVREYCE--EQGWIIP 44 (57)
T ss_dssp --HHHHHHHH--HHT--TT
T ss_pred CCHHHHHHHH--HCCcccc
Confidence 4678999995 5799985
No 64
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=23.50 E-value=4.4e+02 Score=25.55 Aligned_cols=78 Identities=13% Similarity=0.082 Sum_probs=56.3
Q ss_pred HHHHHHHHhcCChhHHHHHHHhcc--------hh----hhcCccchhhHHHHHHHhhcChHHHHHhhhcCC--CCcHHHH
Q 031345 4 GLNLLRLLVQNRIAEFHTELELLS--------ST----ALENPCIKHAVELEQSFMEGAYNRVLSAKQNVP--NETYGYF 69 (161)
Q Consensus 4 gL~LL~LLsqN~iaeFh~~lE~ip--------~~----~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~P--s~~~~~f 69 (161)
++.+|.-.+.|++.++..+|+.+- .+ .....--..+.+|=..|..|++.+++.....+- ..++..|
T Consensus 202 AL~~Ia~~A~GslRdAlnLLDqaia~g~g~It~e~V~~lLG~~d~~~If~LldAL~~~d~~~al~~l~~L~~~G~d~~~~ 281 (709)
T PRK08691 202 ALQLLGRAAAGSMRDALSLLDQAIALGSGKVAENDVRQMIGAVDKQYLYELLTGIINQDGAALLAKAQEMAACAVGFDNA 281 (709)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHHhcCCCcCHHHHHHHHcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHH
Confidence 466777888999999999997532 21 112233446888899999999999988544222 5578899
Q ss_pred HHHHHHHHHHHH
Q 031345 70 MDLLAKTVRDEI 81 (161)
Q Consensus 70 m~~L~~tiR~ei 81 (161)
+..|...+|+-.
T Consensus 282 l~~L~~~l~~l~ 293 (709)
T PRK08691 282 LGELAILLQQLA 293 (709)
T ss_pred HHHHHHHHHHHH
Confidence 999999998843
No 65
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=23.16 E-value=1.9e+02 Score=26.20 Aligned_cols=48 Identities=13% Similarity=0.119 Sum_probs=38.6
Q ss_pred cHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHH
Q 031345 65 TYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYV 113 (161)
Q Consensus 65 ~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~ 113 (161)
+-..-.+.|...|=+-=.+-+++=|++||+...+.+|++. ++++.+|.
T Consensus 327 ~gek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl~-~ee~E~~L 374 (439)
T KOG1498|consen 327 EGEKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDLP-VEEMEKFL 374 (439)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCCC-HHHHHHHH
Confidence 3444555566666666667889999999999999999998 89999997
No 66
>smart00549 TAFH TAF homology. Domain in Drosophila nervy, CBFA2T1, human TAF105, human TAF130, and Drosophila TAF110. Also known as nervy homology region 1 (NHR1).
Probab=23.14 E-value=2.2e+02 Score=20.34 Aligned_cols=72 Identities=19% Similarity=0.216 Sum_probs=52.9
Q ss_pred hhHHHHHHHhcchhhhcCccchh-hHHHHHHHhhcCh------HHHHHhhhcCCCCcHHHHHHHHHHHHHHHHHHhHHHh
Q 031345 16 IAEFHTELELLSSTALENPCIKH-AVELEQSFMEGAY------NRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKA 88 (161)
Q Consensus 16 iaeFh~~lE~ip~~~~~~~~I~~-~v~LEq~LmeG~Y------~kv~~a~~~~Ps~~~~~fm~~L~~tiR~eiA~~ie~A 88 (161)
..+|-+.|=.+..+.-. |.+.- +=+|=+.|.+|.- .++..+.+..|-|..-+|+..=+..+|++++.|....
T Consensus 5 ~k~FL~tLi~ls~~~~q-pe~~~~Vr~LV~~L~~~~i~~EeF~~~Lq~~lns~~qP~lvPFLK~slp~Lr~~l~~~~~~i 83 (92)
T smart00549 5 CKRFLTTLIQLSNDISQ-PEVAERVRTLVLGLVNGTITAEEFTSRLQEALNSPLQPYLIPFLKNSLPLLRRELLHCARLI 83 (92)
T ss_pred HHHHHHHHHHHhcCCCc-chHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHcCCCCchhHHHHHHhhHHHHHHHHHHHHHh
Confidence 45666666666555433 55554 4467888888874 3556677787899999999999999999999987643
No 67
>cd04235 AAK_CK AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an essential precursor of arginine and pyrimidine bases, in the presence of ATP, bicarbonate, and ammonia. CK is a homodimer of 33 kDa subunits and is a member of the Amino Acid Kinase Superfamily (AAK).
Probab=22.32 E-value=1.6e+02 Score=25.26 Aligned_cols=26 Identities=23% Similarity=0.363 Sum_probs=19.5
Q ss_pred CHHHHHHHHhhcCCCCeee-CC----eEEEeCC
Q 031345 105 SDQELLEYVKEEHPEWEMK-DG----FVFFQKA 132 (161)
Q Consensus 105 ~~~e~~~f~~~~~rgW~~~-~~----~i~f~~~ 132 (161)
+++|+.+.. +++||++. |+ +-++|.+
T Consensus 133 ~~~~a~~~~--~~~g~~~~~d~~~g~rrvV~SP 163 (308)
T cd04235 133 SEEEAEELA--AEKGWTFKEDAGRGYRRVVPSP 163 (308)
T ss_pred CHHHHHHHH--HHcCCEEEEeCCCCceeeeCCC
Confidence 588999985 46799999 76 5566664
No 68
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=22.10 E-value=63 Score=21.47 Aligned_cols=38 Identities=11% Similarity=0.232 Sum_probs=27.9
Q ss_pred cCcccHHHHHHhhCCCCHHHHHHHHhhcCCCCeeeCCeEEEeCC
Q 031345 89 YDYLSIKDAGQMLLFTSDQELLEYVKEEHPEWEMKDGFVFFQKA 132 (161)
Q Consensus 89 Y~sl~l~~a~~lL~~~~~~e~~~f~~~~~rgW~~~~~~i~f~~~ 132 (161)
-..+|+++.++.+++++ .++..-+ ||-...|.|.|...
T Consensus 20 ~~~~s~~el~k~~~l~~-~~~~~Ai-----GWLarE~KI~~~~~ 57 (65)
T PF10771_consen 20 NGEWSVSELKKATGLSD-KEVYLAI-----GWLARENKIEFEEK 57 (65)
T ss_dssp SSSEEHHHHHHHCT-SC-HHHHHHH-----HHHHCTTSEEEEEE
T ss_pred CCCcCHHHHHHHhCcCH-HHHHHHH-----HHHhccCceeEEee
Confidence 35789999999999984 4443332 99999899988753
No 69
>PHA02992 hypothetical protein; Provisional
Probab=21.70 E-value=56 Score=31.38 Aligned_cols=33 Identities=21% Similarity=0.292 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhC
Q 031345 70 MDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLL 102 (161)
Q Consensus 70 m~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~ 102 (161)
+..|.+.....-+.++.+||.+|+++||-+|+-
T Consensus 4 v~~Lr~~f~~~~~~~l~~aF~~L~i~da~~Li~ 36 (728)
T PHA02992 4 VSPLREAFLSNNCHTLTKAFKKLRIDDAMRLII 36 (728)
T ss_pred cHHHHHHHHhCccchHHHHHHhcCHHHHHHHHH
Confidence 345777777777788999999999999999873
No 70
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=21.63 E-value=2e+02 Score=17.33 Aligned_cols=44 Identities=9% Similarity=0.141 Sum_probs=31.0
Q ss_pred HHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHhh-cCCCCeeeC
Q 031345 80 EIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVKE-EHPEWEMKD 124 (161)
Q Consensus 80 eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~~-~~rgW~~~~ 124 (161)
.|..++..+=..+++.+.++-++++ ..-+..+.+. .+.||.-.|
T Consensus 7 ~iL~~l~~~~~~~t~~eia~~~gl~-~stv~r~L~tL~~~g~v~~d 51 (52)
T PF09339_consen 7 RILEALAESGGPLTLSEIARALGLP-KSTVHRLLQTLVEEGYVERD 51 (52)
T ss_dssp HHHHCHHCTBSCEEHHHHHHHHTS--HHHHHHHHHHHHHTTSEEEC
T ss_pred HHHHHHHcCCCCCCHHHHHHHHCcC-HHHHHHHHHHHHHCcCeecC
Confidence 4667777787889999999999998 6655555421 246887654
No 71
>PF03683 UPF0175: Uncharacterised protein family (UPF0175); InterPro: IPR005368 This entry contains small proteins of unknown function.
Probab=21.52 E-value=2.6e+02 Score=18.62 Aligned_cols=37 Identities=30% Similarity=0.475 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhHHHhcC--cccHHHHHHhhCCCCHHHHHHHHh
Q 031345 74 AKTVRDEIAGCSEKAYD--YLSIKDAGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 74 ~~tiR~eiA~~ie~AY~--sl~l~~a~~lL~~~~~~e~~~f~~ 114 (161)
...+|.++|- .-|. .||+..||.++|++ .-++.++.+
T Consensus 18 ~~~~r~~~Ai---~lY~~g~iS~gkAAelag~s-~~eF~~~L~ 56 (76)
T PF03683_consen 18 EQELREELAI---KLYEEGKISLGKAAELAGMS-RWEFLELLK 56 (76)
T ss_pred HHHHHHHHHH---HHHHcCCCCHHHHHHHhCCC-HHHHHHHHH
Confidence 4455666653 3454 89999999999996 999999974
No 72
>PF10116 Host_attach: Protein required for attachment to host cells; InterPro: IPR019291 Members of this family of bacterial proteins are required for the attachment of the bacterium to host cells [, ].
Probab=21.45 E-value=66 Score=23.70 Aligned_cols=56 Identities=23% Similarity=0.423 Sum_probs=43.8
Q ss_pred HHHHHHhhcChHHHHHhhhcCCCCcHHHHHHHHHHHHHHHHHHhHHHhcCcccHHHHHH
Q 031345 41 ELEQSFMEGAYNRVLSAKQNVPNETYGYFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQ 99 (161)
Q Consensus 41 ~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~ 99 (161)
.|++..-+|.|.+++-.- |......+-+.|-..+|..+...+.|-+..+|..+..+
T Consensus 81 ~L~~~~~~~~~~~LvlvA---~p~~LG~LR~~L~~~~~~~V~~ei~kDlt~~~~~ei~~ 136 (138)
T PF10116_consen 81 RLEKARRAGKFDRLVLVA---PPRFLGLLREHLSKAVRKRVVGEIDKDLTKLPADEIEK 136 (138)
T ss_pred HHHHHHHhCCCCeEEEEE---CHHHHHHHHHHhCHHHHHHHHHHHhhhhhcCCHHHHHh
Confidence 466677777777765542 55577888888999999999999999999999877654
No 73
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=21.37 E-value=2.3e+02 Score=25.18 Aligned_cols=46 Identities=15% Similarity=0.143 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHHhHHHhcCcccHHHHHHhhCCCCHHHHHHHHh
Q 031345 68 YFMDLLAKTVRDEIAGCSEKAYDYLSIKDAGQMLLFTSDQELLEYVK 114 (161)
Q Consensus 68 ~fm~~L~~tiR~eiA~~ie~AY~sl~l~~a~~lL~~~~~~e~~~f~~ 114 (161)
...+-|...|-+-=.+-|++-|++|++.....+|.++ +++...|+.
T Consensus 330 ~~w~DL~krviEHN~RvI~~yYSrI~~~rl~~lld~~-~s~te~~IS 375 (439)
T COG5071 330 KRWSDLRKRVIEHNIRVIANYYSRIHCSRLGVLLDMS-PSETEQFIS 375 (439)
T ss_pred hhHHHHHHHHHHhhHhHHHHHhhhhhHHHHHHHHcCC-HHHHHHHHH
Confidence 5666777777777788999999999999999999987 999999873
No 74
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=21.36 E-value=2.4e+02 Score=19.10 Aligned_cols=47 Identities=19% Similarity=0.255 Sum_probs=30.2
Q ss_pred cchhhHHHHHHHhhcChHHHHHhhhcCCCCcHHHHHH---------HHHHHHHHHHHHhHHHh
Q 031345 35 CIKHAVELEQSFMEGAYNRVLSAKQNVPNETYGYFMD---------LLAKTVRDEIAGCSEKA 88 (161)
Q Consensus 35 ~I~~~v~LEq~LmeG~Y~kv~~a~~~~Ps~~~~~fm~---------~L~~tiR~eiA~~ie~A 88 (161)
+++-.|+.++ +|+|...+....+. ...||. .-.+++|.++...++||
T Consensus 9 ~a~~Ave~D~---~g~y~eA~~~Y~~a----ie~l~~~~~~~~~n~~~k~~ir~K~~eYl~RA 64 (76)
T cd02681 9 FARLAVQRDQ---EGRYSEAVFYYKEA----AQLLIYAEMAGTLNDSHLKTIQEKSNEYLDRA 64 (76)
T ss_pred HHHHHHHHHH---ccCHHHHHHHHHHH----HHHHHHHHHhcCCChHHHHHHHHHHHHHHHHH
Confidence 3344444443 68888887765442 244555 34677899999998886
No 75
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=21.28 E-value=1.6e+02 Score=17.89 Aligned_cols=20 Identities=10% Similarity=0.584 Sum_probs=17.4
Q ss_pred CCCChHHHHHHHHhHHHHhh
Q 031345 139 KEIPSLQLINQTLSYARELE 158 (161)
Q Consensus 139 ~~~~~~~li~~~l~Ya~elE 158 (161)
...+...++..++.|-++|+
T Consensus 36 ~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 36 RKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp SSSSHHHHHHHHHHHHHHHH
T ss_pred ccCCHHHHHHHHHHHHHHhC
Confidence 34788999999999999985
No 76
>PF13232 Complex1_LYR_1: Complex1_LYR-like
Probab=21.24 E-value=2e+02 Score=18.00 Aligned_cols=28 Identities=21% Similarity=0.542 Sum_probs=15.4
Q ss_pred hHHHHHhhhcCCCCcHH-HHHHHHHHHHH
Q 031345 51 YNRVLSAKQNVPNETYG-YFMDLLAKTVR 78 (161)
Q Consensus 51 Y~kv~~a~~~~Ps~~~~-~fm~~L~~tiR 78 (161)
|-.++...+.+|++.+. +|.....+..|
T Consensus 7 YR~lLR~~~~~~~~~~r~~~~~~ir~~Fr 35 (61)
T PF13232_consen 7 YRQLLREASKFPDYNFRSYFRRRIRDRFR 35 (61)
T ss_pred HHHHHHHhhhcCCcchHHHHHHHHHHHHH
Confidence 44555566677877776 34444344333
No 77
>PF10436 BCDHK_Adom3: Mitochondrial branched-chain alpha-ketoacid dehydrogenase kinase; InterPro: IPR018955 Catabolism and synthesis of leucine, isoleucine and valine are finely balanced, allowing the body to make the most of dietary input but removing excesses to prevent toxic build-up of their corresponding keto-acids. Regulating the activity of the branched-chain alpha-ketoacid dehydrogenase (BCDH) complex is the primary means by which these processes are coordinated. BCDH kinase regulates BCDH by phosphorylation, thereby inactivating it when synthesis is required. Pyruvate dehydrogenase kinase inhibits the pyruvate dehydrogenase complex by phosphorylation of the E1 alpha subunit, thus contributing to the regulation of glucose metabolism. It is also involved in telomere maintenance. This entry is associated with IPR003594 from INTERPRO which is found towards the C terminus. ; PDB: 1GKX_A 1GJV_A 1GKZ_A 1JM6_B 3CRL_B 3CRK_B 1Y8O_A 2PNR_A 1Y8P_A 1Y8N_A ....
Probab=21.15 E-value=2.7e+02 Score=21.41 Aligned_cols=59 Identities=25% Similarity=0.359 Sum_probs=36.6
Q ss_pred ChhHHHHHHHhcchhhhcCccchhhHHHHHHHhhcChHHHHHhhhcCC----CCcHHHHHHHHHHHHHHHHH
Q 031345 15 RIAEFHTELELLSSTALENPCIKHAVELEQSFMEGAYNRVLSAKQNVP----NETYGYFMDLLAKTVRDEIA 82 (161)
Q Consensus 15 ~iaeFh~~lE~ip~~~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~P----s~~~~~fm~~L~~tiR~eiA 82 (161)
|+|.-=.+++.+|..+..||.|+.+.+. |-+-|....+.| .++-.-|.+ ++..++++.+
T Consensus 34 RlA~ri~~l~~LP~~l~~~p~i~~V~~~--------Y~~sF~~L~~~~~~~~~~~~~~F~~-~l~~i~~~H~ 96 (164)
T PF10436_consen 34 RLAHRIRELQNLPYILVSNPSIQQVYEW--------YLQSFEELRSFPPPKTLEDNEKFTE-LLERILDRHS 96 (164)
T ss_dssp HHHHHHHHHTTS-HHHHTSHHHHHHHHH--------HHHHHHHHHTTSTTTSCCHHHHHHH-HHHHHHHHTT
T ss_pred HHHHHHHHHHhCChhhccChhHHHHHHH--------HHHHHHHHHhcCCCCCHHHHHHHHH-HHHHHHHHhc
Confidence 3555556788899888899999988776 555555444433 333455664 5555666633
No 78
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=20.74 E-value=1.4e+02 Score=17.12 Aligned_cols=23 Identities=17% Similarity=0.208 Sum_probs=15.4
Q ss_pred CcccHHHHHHhhCCCCHHHHHHHH
Q 031345 90 DYLSIKDAGQMLLFTSDQELLEYV 113 (161)
Q Consensus 90 ~sl~l~~a~~lL~~~~~~e~~~f~ 113 (161)
+++++++.|..+|+ |+.-+..--
T Consensus 7 ~~~~l~~iA~~~g~-S~~~f~r~F 29 (42)
T PF00165_consen 7 QKLTLEDIAEQAGF-SPSYFSRLF 29 (42)
T ss_dssp SS--HHHHHHHHTS--HHHHHHHH
T ss_pred CCCCHHHHHHHHCC-CHHHHHHHH
Confidence 47999999999999 576665443
No 79
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=20.54 E-value=5.2e+02 Score=24.25 Aligned_cols=79 Identities=14% Similarity=0.051 Sum_probs=53.6
Q ss_pred HHHHHHHHhcCChhHHHHHHHhcchh-------------hhcCccchhhHHHHHHHhhcChHHHHHhhhcC--CCCcHHH
Q 031345 4 GLNLLRLLVQNRIAEFHTELELLSST-------------ALENPCIKHAVELEQSFMEGAYNRVLSAKQNV--PNETYGY 68 (161)
Q Consensus 4 gL~LL~LLsqN~iaeFh~~lE~ip~~-------------~~~~~~I~~~v~LEq~LmeG~Y~kv~~a~~~~--Ps~~~~~ 68 (161)
++.++.-++.|++.++-.+|+.+-.- +....--...-++=.+|.+|+..+++.....+ -..+...
T Consensus 201 al~~Ia~~s~GdlR~aln~Ldql~~~~~~~~It~~~v~~llg~~~~~~i~~lv~al~~~d~~~al~~l~~l~~~g~d~~~ 280 (584)
T PRK14952 201 VYPLVIRAGGGSPRDTLSVLDQLLAGAADTHVTYQRALGLLGATDVALIDDAVDALAADDAAALFGAIESVIDAGHDPRR 280 (584)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHhccCCCCcCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHH
Confidence 46777788999999999999875321 11333344455666789999999998865432 2455667
Q ss_pred HHHHHHHHHHHHHH
Q 031345 69 FMDLLAKTVRDEIA 82 (161)
Q Consensus 69 fm~~L~~tiR~eiA 82 (161)
|++.|+..+|+=..
T Consensus 281 ~l~~L~~~~RdLll 294 (584)
T PRK14952 281 FATDLLERFRDLIV 294 (584)
T ss_pred HHHHHHHHHHHHHH
Confidence 77777777776543
Done!