Query 023428
Match_columns 282
No_of_seqs 222 out of 520
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 03:57:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023428.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023428hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02097 yccV hemimethylated 99.9 2.8E-28 6E-33 197.7 7.0 74 206-281 2-75 (101)
2 PF08755 YccV-like: Hemimethyl 99.9 3E-28 6.5E-33 195.6 3.6 73 206-281 2-74 (100)
3 PRK14129 heat shock protein Hs 99.9 1.2E-21 2.6E-26 159.5 7.4 73 206-281 4-76 (105)
4 COG3785 Uncharacterized conser 99.7 1.3E-18 2.9E-23 142.4 3.6 74 205-281 12-85 (116)
5 COG3880 Modulator of heat shoc 99.6 2.1E-16 4.6E-21 138.5 4.1 96 91-191 75-171 (176)
6 PF02151 UVR: UvrB/uvrC motif; 98.1 4.7E-06 1E-10 55.9 4.4 34 157-190 3-36 (36)
7 KOG4408 Putative Mg2+ and Co2+ 96.5 0.0016 3.5E-08 63.6 2.4 64 203-266 62-156 (386)
8 COG0556 UvrB Helicase subunit 95.8 0.021 4.4E-07 59.2 6.7 44 149-192 617-660 (663)
9 PRK00558 uvrC excinuclease ABC 94.8 0.048 1E-06 56.5 5.6 36 157-192 203-238 (598)
10 PRK05298 excinuclease ABC subu 94.3 0.064 1.4E-06 55.8 5.3 40 153-192 610-649 (652)
11 TIGR00631 uvrb excinuclease AB 94.2 0.049 1.1E-06 56.9 4.3 36 153-188 620-655 (655)
12 PRK12306 uvrC excinuclease ABC 93.0 0.16 3.5E-06 52.0 5.4 33 158-190 194-226 (519)
13 PRK07883 hypothetical protein; 92.8 0.12 2.5E-06 53.1 4.2 34 158-191 408-441 (557)
14 PRK14672 uvrC excinuclease ABC 92.7 0.18 3.8E-06 53.5 5.3 33 158-190 207-239 (691)
15 TIGR00194 uvrC excinuclease AB 92.6 0.21 4.5E-06 51.7 5.6 33 158-190 196-228 (574)
16 PRK14666 uvrC excinuclease ABC 92.5 0.22 4.8E-06 52.8 5.7 35 158-192 203-237 (694)
17 PRK14669 uvrC excinuclease ABC 91.8 0.29 6.4E-06 51.2 5.7 33 158-190 205-237 (624)
18 PRK14668 uvrC excinuclease ABC 91.1 0.24 5.2E-06 51.3 4.1 33 158-190 201-233 (577)
19 PRK14667 uvrC excinuclease ABC 90.7 0.28 6E-06 50.8 4.2 34 158-191 201-234 (567)
20 PRK14671 uvrC excinuclease ABC 90.6 0.29 6.2E-06 51.2 4.2 33 158-190 217-249 (621)
21 PRK14670 uvrC excinuclease ABC 90.4 0.3 6.5E-06 50.7 4.2 34 158-191 179-212 (574)
22 COG0322 UvrC Nuclease subunit 89.9 0.59 1.3E-05 48.7 5.8 73 158-230 204-279 (581)
23 PF04420 CHD5: CHD5-like prote 83.7 3 6.6E-05 36.3 5.9 47 148-194 39-85 (161)
24 PF02559 CarD_CdnL_TRCF: CarD- 69.9 5.4 0.00012 31.3 3.2 52 207-279 1-52 (98)
25 KOG0412 Golgi transport comple 68.7 14 0.0003 39.9 6.8 45 147-191 116-163 (773)
26 PRK11020 hypothetical protein; 67.4 19 0.00042 30.6 6.1 45 148-192 4-48 (118)
27 PRK00409 recombination and DNA 63.5 68 0.0015 34.7 10.8 23 207-229 636-658 (782)
28 KOG4825 Component of synaptic 63.2 17 0.00037 37.8 6.0 37 157-193 208-244 (666)
29 PF00855 PWWP: PWWP domain; I 54.0 38 0.00082 25.3 5.2 54 208-280 1-57 (86)
30 smart00293 PWWP domain with co 53.2 41 0.00089 24.6 5.2 58 208-280 1-61 (63)
31 TIGR01069 mutS2 MutS2 family p 51.9 1E+02 0.0022 33.4 9.8 21 209-229 626-646 (771)
32 PF11365 DUF3166: Protein of u 49.6 21 0.00046 29.3 3.4 44 160-213 5-48 (96)
33 PF04880 NUDE_C: NUDE protein, 43.4 14 0.0003 33.0 1.5 17 175-191 31-47 (166)
34 PF05852 DUF848: Gammaherpesvi 42.9 1.1E+02 0.0024 27.0 6.9 21 173-193 87-107 (146)
35 cd05162 PWWP The PWWP domain, 39.6 82 0.0018 24.0 5.2 57 208-280 1-60 (87)
36 PF09340 NuA4: Histone acetylt 39.6 50 0.0011 25.9 4.0 14 221-234 39-52 (80)
37 PF13234 rRNA_proc-arch: rRNA- 39.5 2.3E+02 0.0049 26.1 8.9 58 172-232 40-100 (268)
38 PF03961 DUF342: Protein of un 39.4 2.3E+02 0.005 28.2 9.6 18 175-192 389-406 (451)
39 PF05529 Bap31: B-cell recepto 39.2 1.4E+02 0.0029 26.2 7.1 33 152-189 157-189 (192)
40 PF02211 NHase_beta: Nitrile h 38.0 49 0.0011 30.7 4.3 58 200-263 127-197 (222)
41 PF13801 Metal_resist: Heavy-m 37.1 1.9E+02 0.004 22.0 7.3 43 150-192 60-104 (125)
42 PF06476 DUF1090: Protein of u 36.3 1.3E+02 0.0028 25.2 6.1 68 122-192 46-113 (115)
43 PF09465 LBR_tudor: Lamin-B re 35.8 1.2E+02 0.0027 22.7 5.3 27 204-230 2-32 (55)
44 KOG3530 FERM domain protein EH 35.6 38 0.00081 36.0 3.5 30 98-132 106-138 (616)
45 KOG1760 Molecular chaperone Pr 34.8 90 0.002 27.1 5.0 13 204-216 64-76 (131)
46 TIGR02457 TreS_Cterm trehalose 34.3 4.5E+02 0.0097 27.5 10.9 110 118-232 284-407 (528)
47 PF09926 DUF2158: Uncharacteri 33.7 43 0.00092 24.6 2.6 23 208-230 1-23 (53)
48 PF10475 DUF2450: Protein of u 33.6 1.9E+02 0.004 27.2 7.5 34 155-188 124-157 (291)
49 TIGR00002 S16 ribosomal protei 33.2 29 0.00063 27.3 1.8 11 251-261 11-21 (78)
50 cd05835 Dnmt3b_related The PWW 32.8 87 0.0019 24.5 4.4 54 208-280 1-57 (87)
51 KOG3407 Uncharacterized conser 32.0 1.4E+02 0.003 26.5 5.8 40 147-193 103-142 (151)
52 PF15591 Imm17: Immunity prote 31.9 39 0.00085 26.7 2.2 44 216-281 21-64 (74)
53 CHL00005 rps16 ribosomal prote 31.1 33 0.00071 27.4 1.7 12 251-262 12-23 (82)
54 PRK11546 zraP zinc resistance 30.9 2.1E+02 0.0046 25.0 6.8 43 150-192 62-106 (143)
55 PF08317 Spc7: Spc7 kinetochor 30.7 2.7E+02 0.0058 26.7 8.2 13 155-167 208-220 (325)
56 PF04508 Pox_A_type_inc: Viral 30.7 49 0.0011 20.8 2.1 17 176-192 2-18 (23)
57 smart00787 Spc7 Spc7 kinetocho 29.8 2.9E+02 0.0062 26.8 8.2 13 124-136 177-189 (312)
58 KOG3419 Mitochondrial/chloropl 29.6 34 0.00074 28.9 1.7 12 251-262 13-24 (112)
59 PF04380 BMFP: Membrane fusoge 29.0 2.7E+02 0.006 21.5 7.3 25 168-192 46-74 (79)
60 PF12510 Smoothelin: Smootheli 28.8 1.7E+02 0.0036 21.9 5.0 39 149-190 15-53 (54)
61 PRK00040 rpsP 30S ribosomal pr 28.6 39 0.00084 26.5 1.7 12 251-262 12-23 (75)
62 PF00886 Ribosomal_S16: Riboso 28.6 26 0.00057 26.2 0.8 12 251-262 5-16 (62)
63 PF00804 Syntaxin: Syntaxin; 28.5 2.5E+02 0.0055 20.9 9.3 66 116-191 4-72 (103)
64 PF09969 DUF2203: Uncharacteri 27.7 3.4E+02 0.0073 22.8 7.3 19 117-135 4-22 (120)
65 PF12711 Kinesin-relat_1: Kine 27.6 57 0.0012 26.4 2.5 10 179-188 55-64 (86)
66 PRK09039 hypothetical protein; 27.6 4E+02 0.0087 26.0 8.9 44 151-195 139-185 (343)
67 PF07743 HSCB_C: HSCB C-termin 27.4 2.2E+02 0.0048 21.2 5.7 37 153-189 35-71 (78)
68 PRK14525 rpsP 30S ribosomal pr 27.2 42 0.0009 27.2 1.7 11 251-261 13-23 (88)
69 cd05840 SPBC215_ISWI_like The 26.9 1.4E+02 0.003 23.9 4.7 60 208-280 1-63 (93)
70 PHA00743 helix-turn-helix prot 26.3 2.7E+02 0.0058 20.6 5.6 43 122-168 6-49 (51)
71 cd05837 MSH6_like The PWWP dom 26.2 1.2E+02 0.0026 24.7 4.3 62 207-280 2-66 (110)
72 cd05834 HDGF_related The PWWP 25.7 1.6E+02 0.0035 22.9 4.8 52 207-280 2-56 (83)
73 PF13805 Pil1: Eisosome compon 25.7 2.4E+02 0.0052 27.2 6.8 65 110-192 118-182 (271)
74 PF06133 DUF964: Protein of un 24.8 3.4E+02 0.0073 21.2 7.0 74 117-192 2-75 (108)
75 PF15290 Syntaphilin: Golgi-lo 24.7 2.4E+02 0.0052 27.7 6.6 41 152-192 85-134 (305)
76 PF07851 TMPIT: TMPIT-like pro 23.8 4.5E+02 0.0098 26.0 8.4 38 155-192 45-85 (330)
77 PF14357 DUF4404: Domain of un 23.7 1.8E+02 0.0039 22.9 4.7 55 123-186 1-57 (85)
78 PRK14524 rpsP 30S ribosomal pr 23.0 55 0.0012 26.7 1.7 12 251-262 12-23 (94)
79 COG2960 Uncharacterized protei 22.9 4.6E+02 0.01 22.0 7.9 25 168-192 55-83 (103)
80 COG1163 DRG Predicted GTPase [ 22.8 1.4E+02 0.0031 29.9 4.8 44 122-187 2-45 (365)
81 PRK06342 transcription elongat 22.7 2.2E+02 0.0048 25.0 5.5 39 175-215 64-102 (160)
82 KOG0810 SNARE protein Syntaxin 22.5 2.9E+02 0.0063 26.8 6.8 68 117-192 38-106 (297)
83 PF01486 K-box: K-box region; 22.4 3.9E+02 0.0085 21.0 6.6 64 122-192 22-85 (100)
84 PF04568 IATP: Mitochondrial A 22.3 2.2E+02 0.0047 23.5 5.1 28 156-191 72-99 (100)
85 PF04153 NOT2_3_5: NOT2 / NOT3 22.0 94 0.002 26.3 3.0 36 85-127 45-80 (134)
86 COG4026 Uncharacterized protei 21.5 4.2E+02 0.0091 25.5 7.4 40 146-190 125-164 (290)
87 cd05836 N_Pac_NP60 The PWWP do 21.4 2.2E+02 0.0048 22.2 4.8 55 208-280 1-58 (86)
88 PRK14522 rpsP 30S ribosomal pr 21.0 63 0.0014 27.5 1.7 11 251-261 13-23 (116)
89 COG0228 RpsP Ribosomal protein 20.9 64 0.0014 26.2 1.7 12 251-262 12-23 (87)
90 PHA03161 hypothetical protein; 20.8 4.4E+02 0.0094 23.5 6.9 20 173-192 87-106 (150)
91 PRK10884 SH3 domain-containing 20.7 5.7E+02 0.012 23.4 8.0 17 176-192 147-163 (206)
92 KOG3080 Nucleolar protein-like 20.6 5.8E+02 0.013 25.3 8.3 39 153-191 203-241 (328)
No 1
>TIGR02097 yccV hemimethylated DNA binding domain. This model describes the small protein from E. coli YccV and its homologs in other Proteobacteria. YccV is now described as a hemimethylated DNA binding protein. The model also describes a domain in longer eukaryotic proteins.
Probab=99.95 E-value=2.8e-28 Score=197.69 Aligned_cols=74 Identities=36% Similarity=0.603 Sum_probs=67.8
Q ss_pred cccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccC
Q 023428 206 FAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT 281 (282)
Q Consensus 206 vkFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~ 281 (282)
++|+||||||||+|||+|||+||||.|.++++|+++|.++..+. ++|||||||+++++... .++||||+||+++
T Consensus 2 ~kf~IGqvvrHr~~~yrGVI~gwDp~~~~~eeW~~~~~~~~~p~-~~qPfYhvLv~~~~~~~-~~aYVaE~nL~~~ 75 (101)
T TIGR02097 2 AKFRIGQVVRHKLFGYRGVVIDVDPEYSNTEEWLDAIPVEIRPL-RDQPFYHVLAEDDEGLP-YVAYVAEQNLLYD 75 (101)
T ss_pred ceecCCCEEEecccCCCEEEEeEChhccCChHHHHhhhcccCcc-cCCCceEEEEeCCCCcc-eeEEeehhhcccC
Confidence 68999999999999999999999999999999999999887666 99999999999865433 8999999999985
No 2
>PF08755 YccV-like: Hemimethylated DNA-binding protein YccV like; InterPro: IPR011722 This entry describes the small protein from Escherichia coli YccV and its homologs in other Proteobacteria. YccV is now described as a hemimethylated DNA binding protein []. The model entry describes a domain in longer eukaryotic proteins.; PDB: 1VBV_A.
Probab=99.94 E-value=3e-28 Score=195.55 Aligned_cols=73 Identities=42% Similarity=0.772 Sum_probs=37.5
Q ss_pred cccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccC
Q 023428 206 FAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT 281 (282)
Q Consensus 206 vkFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~ 281 (282)
++|+|||||+||+|||+|||+|||+.|.++++|+.+++++.++. ++||||+||+|++|+ ...+||||+||+++
T Consensus 2 ~~f~vGqvv~Hr~~~y~GVIvgwD~~~~~~~~W~~~~~~~~~~~-~~qPfY~vLv~~~~~--~~~~YVaEenL~~~ 74 (100)
T PF08755_consen 2 VKFRVGQVVRHRRYGYRGVIVGWDPECQAPEEWIEQMGVDNLPR-RNQPFYHVLVDDRDS--PPVRYVAEENLEPD 74 (100)
T ss_dssp -SS-TT-EEEETTT--EEEEEEEE-------------------------EEEEEEE-SS----EEEEEEGGGEEE-
T ss_pred cccccCCEEEEeeeCccEEEECcccccCCCchHHHhcccccccc-CCCCcEEEEEecCCc--cceEEecccccccC
Confidence 68999999999999999999999999999999999999887766 999999999999755 35599999999765
No 3
>PRK14129 heat shock protein HspQ; Provisional
Probab=99.85 E-value=1.2e-21 Score=159.52 Aligned_cols=73 Identities=23% Similarity=0.409 Sum_probs=63.3
Q ss_pred cccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccC
Q 023428 206 FAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT 281 (282)
Q Consensus 206 vkFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~ 281 (282)
-||.|||+||||.|||||||++.||.|..+++|.+.+..+ .+.++|||||||+++. ++...++||||.||.++
T Consensus 4 akF~IGQ~VrHrl~~yrGVV~DVDP~fs~~e~w~~~ia~~--~p~kdqPwYHvl~en~-~~~~v~tYVaE~nL~~d 76 (105)
T PRK14129 4 SKFGIGQQVRHSLLGYLGVVVDIDPEYSLEEPSPDELAVN--DELRAAPWYHVVMEDD-DGQPVHTYLAEAQLSSE 76 (105)
T ss_pred ccccCCcEEEEeecCCCeEEEeeCCCcCCCchhHHhhccC--CCccCCCceEEEEEcC-CCceEEEEeeecccCCC
Confidence 4799999999999999999999999999999999988654 4668999999999763 33345599999999986
No 4
>COG3785 Uncharacterized conserved protein [Function unknown]
Probab=99.73 E-value=1.3e-18 Score=142.41 Aligned_cols=74 Identities=28% Similarity=0.513 Sum_probs=65.7
Q ss_pred ccccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccC
Q 023428 205 RFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT 281 (282)
Q Consensus 205 ~vkFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~ 281 (282)
.-||.|||+|||+.|+|+|||++.||.+...++|.+....+. ++.++|||||+|.++.+ .+.++||+|.||..+
T Consensus 12 ~aKF~IGQvVRHrlfpfrGVV~DvDPeyanteew~~~ip~~~-rp~rdqPfYHllaEnde--~~yvaYvsEqnL~~d 85 (116)
T COG3785 12 AAKFGIGQVVRHRLFPFRGVVFDVDPEYANTEEWPDEIPVNI-RPLRDQPFYHLLAENDE--TEYVAYVSEQNLVSD 85 (116)
T ss_pred HhhcchhhhhhhhhcccceEEEecCcccccCccChhhccccc-cccccCCceeeeeecCC--ccceeeehhhhcccc
Confidence 357999999999999999999999999999999999986554 57789999999998843 679999999999764
No 5
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=99.62 E-value=2.1e-16 Score=138.47 Aligned_cols=96 Identities=23% Similarity=0.270 Sum_probs=85.6
Q ss_pred ccccceeeeeeeecccccccccccHHHHHHHHHHHHHHHHHHHH-HHHHHhhhcCCCcchhHHHHHHHHHHHHHHHHHhh
Q 023428 91 SANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEE-ISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAI 169 (282)
Q Consensus 91 ~~~~~~~~f~~q~~~~~rlgc~~~y~~f~~a~~l~~~l~~v~~~-~~~~~~gK~~~~~~~ea~d~a~qL~~Lk~~Lq~AI 169 (282)
++=+---+=|=||...||+||+.||..|.. .|-|.+.+|+++ + .|+||+| .+....+..+.+|..|+..|+++|
T Consensus 75 l~C~~C~~Tfk~f~~~g~fGCaeCY~tf~~--~i~pi~~rvq~g~~--~H~GK~P-~~~~~~i~~~~~I~~L~e~Lq~~i 149 (176)
T COG3880 75 LGCHNCGMTFKEFIQSGLFGCAECYKTFES--QISPIITRVQGGYV--EHVGKVP-KRIGRKINPKRKIIALKEALQDLI 149 (176)
T ss_pred hcCccccccHHHHHHhcccchHHHHHHHHH--HhhHHHHHhhCCce--eecCcCc-ccccccccHHHHHHHHHHHHHHHH
Confidence 444444466778999999999999999995 999999999998 7 5699999 667777899999999999999999
Q ss_pred chhcHHHHHHHHHHHhhHHHhH
Q 023428 170 DSENYALAADLRDQICKLEAES 191 (282)
Q Consensus 170 e~EeyE~AA~lRD~Ik~Le~e~ 191 (282)
+.||||+||.+||+||.|+++.
T Consensus 150 ~~EefEeAA~iRDqIr~Lk~k~ 171 (176)
T COG3880 150 EREEFEEAAVIRDQIRALKAKN 171 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHhhc
Confidence 9999999999999999999873
No 6
>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.
Probab=98.11 E-value=4.7e-06 Score=55.95 Aligned_cols=34 Identities=35% Similarity=0.556 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428 157 SIIRLRADLQKAIDSENYALAADLRDQICKLEAE 190 (282)
Q Consensus 157 qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e 190 (282)
.|..|+.+|..|++.++||+||.+||+|..|+.+
T Consensus 3 ~i~~l~~~m~~a~~~~dfE~Aa~~Rd~i~~l~~q 36 (36)
T PF02151_consen 3 LIKELEEKMEEAVENEDFEKAARLRDQIKALKKQ 36 (36)
T ss_dssp HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHcC
Confidence 5778999999999999999999999999999864
No 7
>KOG4408 consensus Putative Mg2+ and Co2+ transporter CorD [Inorganic ion transport and metabolism]
Probab=96.47 E-value=0.0016 Score=63.62 Aligned_cols=64 Identities=22% Similarity=0.370 Sum_probs=43.1
Q ss_pred ccccccccCceEEeeecCeeEEE-Eccccccc-----------------CChhhHHhhhhc-------------ccCCCC
Q 023428 203 NARFAFRLGQKVNHKIFGYRAVI-CGMDPVCC-----------------ESSSWMEIAQVE-------------KLQQGP 251 (282)
Q Consensus 203 ~~~vkFrIGQVvrHRryGYrGVI-vGWD~~c~-----------------a~eeW~~~~~v~-------------~l~~gr 251 (282)
+..-+|.-||.|+|+.|||+||| ..|+..-. +.++=.+..... +...|+
T Consensus 62 ~~~~~~etgqsF~h~~f~yvgvv~~~w~arlk~wd~ln~~~~~aal~ega~e~dl~a~e~s~~~kLp~~~r~~yrev~Gq 141 (386)
T KOG4408|consen 62 EKTQKYETGQSFLHDTFGYVGVVLFPWAARLKDWDDLNKYLEPAALKEGAREPDLDAVEASIGCKLPDDYRCSYREVKGQ 141 (386)
T ss_pred ccCCcccccceeeeeecccceEEEEechHhhhhhhhcccccccchhhccCcccchhhhhhcccccCCCccccchhhcCCe
Confidence 34458999999999999999998 57877321 111100011000 335788
Q ss_pred CCCcEEEEEecCCCC
Q 023428 252 SQPFYQVLVDVHADP 266 (282)
Q Consensus 252 ~QPFY~VLVd~rD~~ 266 (282)
.+.||+||++.+|++
T Consensus 142 ~l~~yqvLi~~~d~s 156 (386)
T KOG4408|consen 142 TLTFYQVLIDMRDCS 156 (386)
T ss_pred EEeehheeeecccCc
Confidence 999999999998865
No 8
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=95.83 E-value=0.021 Score=59.18 Aligned_cols=44 Identities=27% Similarity=0.374 Sum_probs=39.4
Q ss_pred hhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428 149 SEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESL 192 (282)
Q Consensus 149 ~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~ 192 (282)
....+.+..|.+|+.+|++|-++-+||+||++||+|++|+++..
T Consensus 617 ~~~~e~~~~I~~Le~~M~~aA~~l~FE~Aa~lRD~i~~L~~~~~ 660 (663)
T COG0556 617 MSKKELEKLIKKLEKEMKEAAKNLEFEEAARLRDEIKELKEELL 660 (663)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhc
Confidence 45667788899999999999999999999999999999998754
No 9
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=94.76 E-value=0.048 Score=56.45 Aligned_cols=36 Identities=25% Similarity=0.307 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428 157 SIIRLRADLQKAIDSENYALAADLRDQICKLEAESL 192 (282)
Q Consensus 157 qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~ 192 (282)
-+..|+.+|++|.++.+||+||++||+|+.|+.-..
T Consensus 203 ~i~~L~~~M~~aa~~l~FE~Aa~~RD~i~aL~~~~~ 238 (598)
T PRK00558 203 VLKELEEKMEEASENLEFERAARYRDQIQALRRVQE 238 (598)
T ss_pred HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHh
Confidence 466799999999999999999999999999997544
No 10
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=94.32 E-value=0.064 Score=55.77 Aligned_cols=40 Identities=30% Similarity=0.378 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428 153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESL 192 (282)
Q Consensus 153 d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~ 192 (282)
.....+..|+.+|++|.+..+||+||++||+|+.|+..+.
T Consensus 610 ~~~~~~~~l~~~M~~aa~~l~fE~Aa~~Rd~i~~l~~~~~ 649 (652)
T PRK05298 610 ELEKLIKELEKQMKEAAKNLEFEEAARLRDEIKELKEELL 649 (652)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhc
Confidence 4445677899999999999999999999999999997654
No 11
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=94.25 E-value=0.049 Score=56.92 Aligned_cols=36 Identities=28% Similarity=0.399 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHH
Q 023428 153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLE 188 (282)
Q Consensus 153 d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le 188 (282)
+....|..|+.+|++|.++.+||+||++||+|+.|+
T Consensus 620 ~~~~~i~~l~~~M~~aa~~l~FE~Aa~~RD~i~~L~ 655 (655)
T TIGR00631 620 ELKKLIKQLEKEMKQAARNLEFEEAARLRDEILELK 655 (655)
T ss_pred HHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence 445567789999999999999999999999999874
No 12
>PRK12306 uvrC excinuclease ABC subunit C; Reviewed
Probab=92.96 E-value=0.16 Score=51.98 Aligned_cols=33 Identities=21% Similarity=0.382 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE 190 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e 190 (282)
+..|+.+|++|-++.+||+||++||+|+.|+.=
T Consensus 194 ~~~L~~~M~~aa~~l~FE~Aa~~RD~l~~l~~~ 226 (519)
T PRK12306 194 IEKLEEEMAEKAKNQQFERALVIRDEINAIENL 226 (519)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 556889999999999999999999999999863
No 13
>PRK07883 hypothetical protein; Validated
Probab=92.84 E-value=0.12 Score=53.14 Aligned_cols=34 Identities=29% Similarity=0.436 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAES 191 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~ 191 (282)
+.+|+.+|++|-++.+||+||++||+|..|+.=.
T Consensus 408 ~~~l~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~~~ 441 (557)
T PRK07883 408 LAALRARIDRLAAAERFEEAARLRDRLAALLRAL 441 (557)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence 5578999999999999999999999999998643
No 14
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=92.68 E-value=0.18 Score=53.45 Aligned_cols=33 Identities=27% Similarity=0.507 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE 190 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e 190 (282)
+..|+.+|++|-+..+||+||++||+|+.|+.=
T Consensus 207 l~~L~~~M~~AA~~l~FE~AA~lRD~i~aL~~~ 239 (691)
T PRK14672 207 VARLEKRMKRAVRQEAFEAAARIRDDIQAIRCI 239 (691)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH
Confidence 457899999999999999999999999999853
No 15
>TIGR00194 uvrC excinuclease ABC, C subunit. This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments.
Probab=92.57 E-value=0.21 Score=51.73 Aligned_cols=33 Identities=30% Similarity=0.427 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE 190 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e 190 (282)
+.+|+.+|++|-++.+||+||++||+|+.|+.=
T Consensus 196 ~~~L~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~~ 228 (574)
T TIGR00194 196 IKELEQKMEKASENLEFEEAARIRDQIAAVREL 228 (574)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 556889999999999999999999999999864
No 16
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=92.47 E-value=0.22 Score=52.78 Aligned_cols=35 Identities=31% Similarity=0.387 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL 192 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~ 192 (282)
+..|+.+|++|-++.+||+||++||+|+.|+.-..
T Consensus 203 ~~~L~~~M~~AAe~l~FE~AA~lRD~i~aL~~~~~ 237 (694)
T PRK14666 203 VDALRTEMEAASEALEFERAAVLRDQIRAVERTVE 237 (694)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHh
Confidence 55689999999999999999999999999987443
No 17
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=91.81 E-value=0.29 Score=51.20 Aligned_cols=33 Identities=33% Similarity=0.369 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE 190 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e 190 (282)
+..|+.+|+.|-++.+||+||++||+|+.|+.=
T Consensus 205 ~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~~ 237 (624)
T PRK14669 205 ARSLRARMEAAALEMQFELAAKYRDLITTVEEL 237 (624)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH
Confidence 457899999999999999999999999998864
No 18
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=91.07 E-value=0.24 Score=51.30 Aligned_cols=33 Identities=30% Similarity=0.442 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE 190 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e 190 (282)
+..|+.+|++|-++.+||+||++||+|+.|+.=
T Consensus 201 ~~~l~~~m~~aa~~l~FE~Aa~~Rd~i~~l~~~ 233 (577)
T PRK14668 201 ADPLRREMEAAAQAQEFERAANLRDRLEAVEAF 233 (577)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 557899999999999999999999999999864
No 19
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=90.69 E-value=0.28 Score=50.84 Aligned_cols=34 Identities=26% Similarity=0.250 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAES 191 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~ 191 (282)
+..|+.+|+.|-++.+||+||++||+|+.|+.=.
T Consensus 201 ~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~~~ 234 (567)
T PRK14667 201 LPELYDKIEEYSQKLMFEKAAVIRDQILALENLI 234 (567)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence 5578999999999999999999999999988643
No 20
>PRK14671 uvrC excinuclease ABC subunit C; Provisional
Probab=90.56 E-value=0.29 Score=51.17 Aligned_cols=33 Identities=33% Similarity=0.430 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE 190 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e 190 (282)
+..|+.+|++|-++.+||+||++||+|+.|+.=
T Consensus 217 ~~~L~~~M~~as~~l~FE~Aa~~RD~i~~l~~~ 249 (621)
T PRK14671 217 IRSLTEEMQRAAAELKFEEAAELKDQIESLKRY 249 (621)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence 557899999999999999999999999999863
No 21
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=90.43 E-value=0.3 Score=50.67 Aligned_cols=34 Identities=21% Similarity=0.355 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAES 191 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~ 191 (282)
+..|+.+|+.|-++.+||+||++||+|..|+.=.
T Consensus 179 ~~~L~~~M~~aa~~l~FE~Aa~~RD~i~al~~~~ 212 (574)
T PRK14670 179 LSQIEIKMKEAIQKEDFEAAIKLKETKRSLIEIS 212 (574)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence 5578999999999999999999999999998743
No 22
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=89.90 E-value=0.59 Score=48.67 Aligned_cols=73 Identities=23% Similarity=0.214 Sum_probs=46.0
Q ss_pred HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh--HhhHhh-hhccccccccccCceEEeeecCeeEEEEcccc
Q 023428 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL--AASATA-LAFENARFAFRLGQKVNHKIFGYRAVICGMDP 230 (282)
Q Consensus 158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~--aasa~~-~~~~~~~vkFrIGQVvrHRryGYrGVIvGWD~ 230 (282)
+..|++++++|-+..+||.||++||.|..|+.=.. +++... ....--...+.-|....+..+-..|-++|=+.
T Consensus 204 ~~~L~~~M~~As~~l~FE~Aa~~RD~i~al~~l~~~q~v~~~~~~~~Dv~a~~~~~~~~~v~vf~~R~Gkllg~~~ 279 (581)
T COG0322 204 LQELEEKMEEASENLDFERAARLRDQIKALEKLQEKQAVSLFKLQDLDVIAGAVDGGEACVQVFFVRGGKLLGRRA 279 (581)
T ss_pred HHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhccccccCCccchhhheeeecCCeEEEEEEEeecchhcCCcc
Confidence 55788999999999999999999999999986332 111110 01111122344444555555555577776554
No 23
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=83.72 E-value=3 Score=36.27 Aligned_cols=47 Identities=23% Similarity=0.295 Sum_probs=39.5
Q ss_pred chhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHhHh
Q 023428 148 KSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAA 194 (282)
Q Consensus 148 ~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~aa 194 (282)
..+-.....|+.++++++...=..+||.+.|+++-++.++++|+++.
T Consensus 39 ~~~~~~l~~Ei~~l~~E~~~iS~qDeFAkwaKl~Rk~~kl~~el~~~ 85 (161)
T PF04420_consen 39 SKEQRQLRKEILQLKRELNAISAQDEFAKWAKLNRKLDKLEEELEKL 85 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHTTS-TTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556777889999999999888999999999999999999998743
No 24
>PF02559 CarD_CdnL_TRCF: CarD-like/TRCF domain; InterPro: IPR003711 The bacterium Myxococcus xanthus responds to blue light by producing carotenoids. It also responds to starvation conditions by developing fruiting bodies, where the cells differentiate into myxospores. Each response entails the transcriptional activation of a separate set of genes. A single gene, carD, is required for the activation of both light- and starvation-inducible genes []. The predicted protein contains four repeats of a DNA-binding domain present in mammalian high mobility group I(Y) proteins and other nuclear proteins from animals and plants. Other peptide stretches on CarD also resemble functional domains typical of eukaryotic transcription factors, including a very acidic region and a leucine zipper. High mobility group yI(Y) proteins are known to bind the minor groove of A+T-rich DNA [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3MLQ_H 2EYQ_A.
Probab=69.90 E-value=5.4 Score=31.30 Aligned_cols=52 Identities=23% Similarity=0.315 Sum_probs=33.1
Q ss_pred ccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcc
Q 023428 207 AFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLD 279 (282)
Q Consensus 207 kFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe 279 (282)
.|++|+.|.|.-+| .|+|.|.....- .+..+.||.+-.... ...|||-+++.
T Consensus 1 mf~~GD~VVh~~~G-v~~i~~i~~~~~---------------~~~~~~yy~L~~~~~-----~~i~vPv~~~~ 52 (98)
T PF02559_consen 1 MFKIGDYVVHPNHG-VGRIEGIEEIEF---------------GGEKQEYYVLEYADD-----DTIYVPVDNAD 52 (98)
T ss_dssp T--TTSEEEETTTE-EEEEEEEEEEEC---------------TTEEEEEEEEEECCC-----EEEEEECCCGG
T ss_pred CCCCCCEEEECCCc-eEEEEEEEEEee---------------CCeeEEEEEEEECCC-----CEEEEEcCChh
Confidence 48999999999888 477777655322 222355565555442 28999998865
No 25
>KOG0412 consensus Golgi transport complex COD1 protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.68 E-value=14 Score=39.89 Aligned_cols=45 Identities=20% Similarity=0.293 Sum_probs=36.3
Q ss_pred cchhHHHHHHHHHHHHH---HHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428 147 SKSEAQDKALSIIRLRA---DLQKAIDSENYALAADLRDQICKLEAES 191 (282)
Q Consensus 147 ~~~ea~d~a~qL~~Lk~---~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~ 191 (282)
+.++.+....++..|+. -.+.|++.||||+||..-.++..+-+++
T Consensus 116 Rv~~clq~v~dvrdlk~C~~gv~~Al~seDyE~AA~~IhRflslD~~~ 163 (773)
T KOG0412|consen 116 RVNECLQRVDDVRDLKNCIEGVDTALESEDYEKAATHIHRFLSLDQAL 163 (773)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCHHH
Confidence 35666777777777776 7789999999999999999988886543
No 26
>PRK11020 hypothetical protein; Provisional
Probab=67.39 E-value=19 Score=30.61 Aligned_cols=45 Identities=22% Similarity=0.152 Sum_probs=38.8
Q ss_pred chhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428 148 KSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESL 192 (282)
Q Consensus 148 ~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~ 192 (282)
+.|-.....+|..++.+|..|+...|-+..++..++|..|+.+|.
T Consensus 4 K~Eiq~L~drLD~~~~Klaaa~~rgd~~~i~qf~~E~~~l~k~I~ 48 (118)
T PRK11020 4 KNEIKRLSDRLDAIRHKLAAASLRGDAEKYAQFEKEKATLEAEIA 48 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH
Confidence 445556677788899999999999999999999999999998886
No 27
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=63.46 E-value=68 Score=34.72 Aligned_cols=23 Identities=13% Similarity=0.368 Sum_probs=21.4
Q ss_pred ccccCceEEeeecCeeEEEEccc
Q 023428 207 AFRLGQKVNHKIFGYRAVICGMD 229 (282)
Q Consensus 207 kFrIGQVvrHRryGYrGVIvGWD 229 (282)
.|++|+.|+.+.+|-.|.|+.-+
T Consensus 636 ~~~~Gd~V~v~~~~~~g~v~~i~ 658 (782)
T PRK00409 636 ELKVGDEVKYLSLGQKGEVLSIP 658 (782)
T ss_pred CCCCCCEEEEccCCceEEEEEEc
Confidence 49999999999999999999885
No 28
>KOG4825 consensus Component of synaptic membrane glycine-, glutamate- and thienylcyclohexylpiperidine-binding glycoprotein (43kDa) [Signal transduction mechanisms]
Probab=63.23 E-value=17 Score=37.77 Aligned_cols=37 Identities=38% Similarity=0.480 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHhH
Q 023428 157 SIIRLRADLQKAIDSENYALAADLRDQICKLEAESLA 193 (282)
Q Consensus 157 qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~a 193 (282)
+|.+|..+.-.||++|||..|-.+.|+|..+.+++.|
T Consensus 208 eleelEndKgcAVadEDfdlAkdkkdeiealRaeila 244 (666)
T KOG4825|consen 208 ELEELENDKGCAVADEDFDLAKDKKDEIEALRAEILA 244 (666)
T ss_pred HHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHH
Confidence 4566666777899999999999999999999998763
No 29
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=54.02 E-value=38 Score=25.30 Aligned_cols=54 Identities=24% Similarity=0.221 Sum_probs=37.6
Q ss_pred cccCceEEeeecCee---EEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCccc
Q 023428 208 FRLGQKVNHKIFGYR---AVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDP 280 (282)
Q Consensus 208 FrIGQVvrHRryGYr---GVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~ 280 (282)
|++|++|--|.-||. |+|+.-+.... ..+....|.|..=+. ...+.|...+|.+
T Consensus 1 f~~GdlVWaK~~g~pwWPa~V~~~~~~~~---------------~~~~~~~~~V~Ffg~----~~~~wv~~~~i~~ 57 (86)
T PF00855_consen 1 FRPGDLVWAKLKGYPWWPARVCDPDEKSK---------------KKRKDGHVLVRFFGD----NDYAWVKPSNIKP 57 (86)
T ss_dssp -STTEEEEEEETTSEEEEEEEEECCHCTS---------------CSSSSTEEEEEETTT----TEEEEEEGGGEEE
T ss_pred CCCCCEEEEEeCCCCCCceEEeecccccc---------------cCCCCCEEEEEecCC----CCEEEECHHHhhC
Confidence 789999999999986 99988772211 123456788886442 2578888888764
No 30
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=53.16 E-value=41 Score=24.58 Aligned_cols=58 Identities=21% Similarity=0.225 Sum_probs=39.5
Q ss_pred cccCceEEeeecCee---EEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCccc
Q 023428 208 FRLGQKVNHKIFGYR---AVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDP 280 (282)
Q Consensus 208 FrIGQVvrHRryGYr---GVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~ 280 (282)
|++|++|-=|..||. |.|++.+..-.. . . ...+....|.|..=+. ...++|..++|.+
T Consensus 1 f~~GdlVwaK~~G~p~WPa~V~~~~~~~~~----~-----~--~~~~~~~~~~V~Ffg~----~~~awv~~~~l~p 61 (63)
T smart00293 1 FKPGDLVWAKMKGFPWWPALVVSPKETPDN----I-----R--KRKRFENLYPVLFFGD----KDTAWISSSKLFP 61 (63)
T ss_pred CCCCCEEEEECCCCCCCCeEEcCcccCChh----H-----h--hccCCCCEEEEEEeCC----CCEEEECccceee
Confidence 789999999999985 999887753111 0 0 1233456688886431 2458999999876
No 31
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=51.86 E-value=1e+02 Score=33.41 Aligned_cols=21 Identities=29% Similarity=0.550 Sum_probs=19.8
Q ss_pred ccCceEEeeecCeeEEEEccc
Q 023428 209 RLGQKVNHKIFGYRAVICGMD 229 (282)
Q Consensus 209 rIGQVvrHRryGYrGVIvGWD 229 (282)
++|+.|+-+.+|-.|.|+.-+
T Consensus 626 ~~Gd~V~v~~~~~~g~v~~i~ 646 (771)
T TIGR01069 626 KIGDKVRIRYFGQKGKIVQIL 646 (771)
T ss_pred CCCCEEEEccCCceEEEEEEc
Confidence 999999999999999999875
No 32
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=49.59 E-value=21 Score=29.33 Aligned_cols=44 Identities=30% Similarity=0.327 Sum_probs=32.6
Q ss_pred HHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHhHhhHhhhhccccccccccCce
Q 023428 160 RLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQK 213 (282)
Q Consensus 160 ~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~aasa~~~~~~~~~vkFrIGQV 213 (282)
.||.+||-+- |+|+-+|-+|.+|+.+..+ +...-..++|.-|+.
T Consensus 5 eLR~qLqFvE-----EEa~LlRRkl~ele~eN~~-----l~~EL~kyk~~~g~~ 48 (96)
T PF11365_consen 5 ELRRQLQFVE-----EEAELLRRKLSELEDENKQ-----LTEELNKYKSKYGDL 48 (96)
T ss_pred HHHHHHHHHH-----HHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHhcCCC
Confidence 6788888886 8999999999999998762 222344566666654
No 33
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=43.36 E-value=14 Score=33.05 Aligned_cols=17 Identities=24% Similarity=0.345 Sum_probs=2.0
Q ss_pred HHHHHHHHHHhhHHHhH
Q 023428 175 ALAADLRDQICKLEAES 191 (282)
Q Consensus 175 E~AA~lRD~Ik~Le~e~ 191 (282)
++...|||++++|+.++
T Consensus 31 ~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 31 EEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HCH--------------
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 56788999999998887
No 34
>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae.
Probab=42.93 E-value=1.1e+02 Score=27.00 Aligned_cols=21 Identities=19% Similarity=0.128 Sum_probs=17.1
Q ss_pred cHHHHHHHHHHHhhHHHhHhH
Q 023428 173 NYALAADLRDQICKLEAESLA 193 (282)
Q Consensus 173 eyE~AA~lRD~Ik~Le~e~~a 193 (282)
..+.+.+|.|++.+|+.++..
T Consensus 87 kv~~~E~L~d~v~eLkeel~~ 107 (146)
T PF05852_consen 87 KVEDLEKLTDRVEELKEELEF 107 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 348888999999999988773
No 35
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=39.65 E-value=82 Score=24.01 Aligned_cols=57 Identities=23% Similarity=0.220 Sum_probs=37.9
Q ss_pred cccCceEEeeecCe---eEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCccc
Q 023428 208 FRLGQKVNHKIFGY---RAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDP 280 (282)
Q Consensus 208 FrIGQVvrHRryGY---rGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~ 280 (282)
|++|++|-=|.-|| .|+|++.+..-.. + ........|.|..=+ +...++|..++|.+
T Consensus 1 f~~GdlVwaK~~g~pwWPa~V~~~~~~~~~---------~---~~~~~~~~~~V~Ffg----~~~~~wv~~~~l~p 60 (87)
T cd05162 1 FRPGDLVWAKMKGYPWWPALVVDPPKDSKK---------A---KKKAKEGKVLVLFFG----DKTFAWVGAERLKP 60 (87)
T ss_pred CCCCCEEEEeCCCCCCCCEEEccccccchh---------h---hccCCCCEEEEEEeC----CCcEEEeCccceee
Confidence 78999998888887 4888887653211 0 112234678888643 13578888888765
No 36
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=39.56 E-value=50 Score=25.90 Aligned_cols=14 Identities=29% Similarity=0.404 Sum_probs=9.2
Q ss_pred eeEEEEcccccccC
Q 023428 221 YRAVICGMDPVCCE 234 (282)
Q Consensus 221 YrGVIvGWD~~c~a 234 (282)
|-.||-|||--...
T Consensus 39 ~GNiikGfd~y~k~ 52 (80)
T PF09340_consen 39 YGNIIKGFDGYLKS 52 (80)
T ss_pred CCCCeeChhhhhcc
Confidence 45667799885443
No 37
>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A.
Probab=39.46 E-value=2.3e+02 Score=26.07 Aligned_cols=58 Identities=16% Similarity=0.043 Sum_probs=37.5
Q ss_pred hcHHHHHHHHHHHhhHHHhHhHhhHhhhhccccccccccCceEEeeecCe---eEEEEcccccc
Q 023428 172 ENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGY---RAVICGMDPVC 232 (282)
Q Consensus 172 EeyE~AA~lRD~Ik~Le~e~~aasa~~~~~~~~~vkFrIGQVvrHRryGY---rGVIvGWD~~c 232 (282)
++.+.-..++.+|..++.++.+. ...+.+....+..|-+|+-+.-++ -|||+..+...
T Consensus 40 ~~v~~y~~l~~~l~~~~~~~~~~---i~~p~~~~~fL~~GRlV~v~~~~~~~~wgvvv~~~~~~ 100 (268)
T PF13234_consen 40 EDVEEYYDLRQELEELRKELRKI---ITSPKYCLPFLQPGRLVVVRDGDRDFGWGVVVNFAKKS 100 (268)
T ss_dssp TCCHHHHHHHHHHHHHHHHHHHH---HCTCCCHHHHS-TTEEEEEEETTCEEEEEEEEEEEE--
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH---HhCcHHHHHhCCCCCEEEEecCCCccceeEEEeccccc
Confidence 44577788888988888876622 234444445789999998763333 38888877654
No 38
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=39.36 E-value=2.3e+02 Score=28.25 Aligned_cols=18 Identities=17% Similarity=0.270 Sum_probs=11.1
Q ss_pred HHHHHHHHHHhhHHHhHh
Q 023428 175 ALAADLRDQICKLEAESL 192 (282)
Q Consensus 175 E~AA~lRD~Ik~Le~e~~ 192 (282)
++.+++..++.+|+.++.
T Consensus 389 ~~~~~l~~~~~~l~~~l~ 406 (451)
T PF03961_consen 389 EELKELKEELKELKEELE 406 (451)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 445666666666666654
No 39
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=39.18 E-value=1.4e+02 Score=26.23 Aligned_cols=33 Identities=21% Similarity=0.226 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHH
Q 023428 152 QDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEA 189 (282)
Q Consensus 152 ~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~ 189 (282)
.....++.+|+.+|.++- .....++.+++.+++
T Consensus 157 ~~~~~ei~~lk~el~~~~-----~~~~~LkkQ~~~l~~ 189 (192)
T PF05529_consen 157 KKLSEEIEKLKKELEKKE-----KEIEALKKQSEGLQK 189 (192)
T ss_pred hhhHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHh
Confidence 344556667777776653 334445555554443
No 40
>PF02211 NHase_beta: Nitrile hydratase beta subunit; InterPro: IPR024690 Nitrile hydratases (EC:4.2.1.84) are unusual metalloenzymes that catalyse the hydration of nitriles to their corresponding amides. They are used as biocatalysts in acrylamide production, one of the few commercial scale bioprocesses, as well as in environmental remediation for the removal of nitriles from waste streams. Nitrile hydratases are composed of two subunits, alpha and beta, and they contain one iron atom per alpha beta unit []. This entry represents the structural domain of nitrile hydratase beta subunit which contains irregular array of helices in the N-terminal extension.; GO: 0018822 nitrile hydratase activity; PDB: 2DXB_H 2DD5_K 2DD4_H 2ZZD_B 2DXC_H 1AHJ_F 2ZPE_B 2ZCF_B 2D0Q_B 2CZ7_B ....
Probab=37.97 E-value=49 Score=30.67 Aligned_cols=58 Identities=22% Similarity=0.263 Sum_probs=29.6
Q ss_pred hccccccccccCceEEee-------------ecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecC
Q 023428 200 AFENARFAFRLGQKVNHK-------------IFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVH 263 (282)
Q Consensus 200 ~~~~~~vkFrIGQVvrHR-------------ryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~r 263 (282)
++.....+|+||+.|+-| .-|-.|+|.-....+--++. .. .. .....||+|+|-++..
T Consensus 127 r~~~~~~~F~vGd~Vrv~~~~~~~HtR~P~Y~rg~~G~I~~~~g~~~~pd~---~a--~g-~~~~~~~lY~V~F~~~ 197 (222)
T PF02211_consen 127 RPVDAPPRFAVGDRVRVRNLPPPGHTRLPRYVRGKTGTIERVHGAFVFPDS---NA--HG-RGEAPQPLYTVRFDAR 197 (222)
T ss_dssp ETTSSS-SS-TT-EEEE-----SS--SS-GGGTT-EEEEEEEEEEE--HHH---HT--TT-SSTT-EEEEEEEEEHH
T ss_pred CCCCCCCCCCCCCEEEECCCCCCCcccccHhhCCCeeEEEEEecCCCCcch---hc--cC-CCCCCcceEEEEecch
Confidence 344456799999999763 23558999843333333322 11 11 1222689999999753
No 41
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=37.08 E-value=1.9e+02 Score=22.01 Aligned_cols=43 Identities=19% Similarity=0.159 Sum_probs=30.9
Q ss_pred hHHHHHHHHHHHHHHHHHhhchhcH--HHHHHHHHHHhhHHHhHh
Q 023428 150 EAQDKALSIIRLRADLQKAIDSENY--ALAADLRDQICKLEAESL 192 (282)
Q Consensus 150 ea~d~a~qL~~Lk~~Lq~AIe~Eey--E~AA~lRD~Ik~Le~e~~ 192 (282)
+..+...++..++.+|..++..+.+ +....+.++|.+++.+..
T Consensus 60 ~~~~~r~~~~~~r~~l~~ll~~~~~D~~~i~a~~~~~~~~~~~l~ 104 (125)
T PF13801_consen 60 EMRALRQELRAARQELRALLAAPPPDEAAIEALLEEIREAQAELR 104 (125)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCCSSS-HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 3344556778888999999988887 566667777777766654
No 42
>PF06476 DUF1090: Protein of unknown function (DUF1090); InterPro: IPR009468 This family consists of several bacterial proteins of unknown function and is known as YqjC in Escherichia coli.
Probab=36.30 E-value=1.3e+02 Score=25.21 Aligned_cols=68 Identities=18% Similarity=0.234 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCCCcchhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428 122 QQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESL 192 (282)
Q Consensus 122 ~~l~~~l~~v~~~~~~~~~gK~~~~~~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~ 192 (282)
.+|..-|.+|..-... .+=.- ....+-.+...++.+-+.+|++|...-+.++.++-+++|.+-+.++.
T Consensus 46 ~GLe~AL~~v~~~Ctd--~~l~~-e~q~ki~~~~~kV~ere~eL~eA~~~G~~~KI~K~~~KL~ea~~eL~ 113 (115)
T PF06476_consen 46 AGLEKALEEVKAHCTD--EGLKA-ERQQKIAEKQQKVAEREAELKEAQAKGDSDKIAKRQKKLAEAKAELK 113 (115)
T ss_pred HHHHHHHHHHHhhcCC--chhhH-HHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHh
Confidence 4666667776544422 00000 11223345666777788899999999999999999999887777665
No 43
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=35.77 E-value=1.2e+02 Score=22.66 Aligned_cols=27 Identities=22% Similarity=0.361 Sum_probs=18.7
Q ss_pred cccccccCceEEeeecC----eeEEEEcccc
Q 023428 204 ARFAFRLGQKVNHKIFG----YRAVICGMDP 230 (282)
Q Consensus 204 ~~vkFrIGQVvrHRryG----YrGVIvGWD~ 230 (282)
++.+|.+|.+|.=|+=| |.|.|.+-|+
T Consensus 2 p~~k~~~Ge~V~~rWP~s~lYYe~kV~~~d~ 32 (55)
T PF09465_consen 2 PSRKFAIGEVVMVRWPGSSLYYEGKVLSYDS 32 (55)
T ss_dssp SSSSS-SS-EEEEE-TTTS-EEEEEEEEEET
T ss_pred CcccccCCCEEEEECCCCCcEEEEEEEEecc
Confidence 45789999999876544 5788888776
No 44
>KOG3530 consensus FERM domain protein EHM2 [General function prediction only]
Probab=35.64 E-value=38 Score=35.95 Aligned_cols=30 Identities=33% Similarity=0.603 Sum_probs=20.1
Q ss_pred eeeeeec---ccccccccccHHHHHHHHHHHHHHHHHH
Q 023428 98 FFFFQLD---LATRVQCALNMEEYDIAQQLRNKLTEVE 132 (282)
Q Consensus 98 ~f~~q~~---~~~rlgc~~~y~~f~~a~~l~~~l~~v~ 132 (282)
.||-|+. +.|||.||.+ .|.+|.-++-+.|
T Consensus 106 qfflQlKqDll~GRL~Cp~~-----~AaeLaAl~lQsE 138 (616)
T KOG3530|consen 106 QFFLQLKQDLLSGRLYCPFE-----TAAELAALILQSE 138 (616)
T ss_pred HHHHHHHHHHhcCCCCCchh-----hHHHHHHHHHHHH
Confidence 4666775 6899999964 4556655555544
No 45
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=34.77 E-value=90 Score=27.10 Aligned_cols=13 Identities=23% Similarity=0.554 Sum_probs=11.5
Q ss_pred cccccccCceEEe
Q 023428 204 ARFAFRLGQKVNH 216 (282)
Q Consensus 204 ~~vkFrIGQVvrH 216 (282)
..+.|+||.+|.|
T Consensus 64 ~~Ip~~vGdvF~~ 76 (131)
T KOG1760|consen 64 EDIPFKVGDVFIH 76 (131)
T ss_pred cccceehhhhhee
Confidence 5778999999987
No 46
>TIGR02457 TreS_Cterm trehalose synthase-fused probable maltokinase. Three pathways for the biosynthesis of trehalose, an osmoprotectant that in some species is also a precursor of certain cell wall glycolipids. Trehalose synthase, TreS, can interconvert maltose and trehalose, but while the equilibrium may favor trehalose, physiological concentrations of trehalose may be much greater than that of maltose and TreS may act largely in its degradation. This model describes a domain found only as a C-terminal fusion to TreS proteins. The most closely related proteins outside this family, Pep2 of Streptomyces coelicolor and Mak1 of Actinoplanes missouriensis, have known maltokinase activity. We suggest this domain acts as a maltokinase and helps drive conversion of trehalose to maltose.
Probab=34.31 E-value=4.5e+02 Score=27.46 Aligned_cols=110 Identities=18% Similarity=0.140 Sum_probs=52.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcCC-Ccch-hHHHHHHHHHHHHHHHHHhhc----------hhcHHHHHHHHHHHh
Q 023428 118 YDIAQQLRNKLTEVEEEISRQLEAKRGL-SSKS-EAQDKALSIIRLRADLQKAID----------SENYALAADLRDQIC 185 (282)
Q Consensus 118 f~~a~~l~~~l~~v~~~~~~~~~gK~~~-~~~~-ea~d~a~qL~~Lk~~Lq~AIe----------~EeyE~AA~lRD~Ik 185 (282)
.+.|..|...+.+||...+. ...-|. ...+ ...+...-...++..+..+.+ .+.-+.++.|.+.-.
T Consensus 284 ~~~a~~LG~rtAemH~aLA~--~~~~~aF~pep~~~~~~~~~~~~~~~~~~~a~~~L~~~~~~l~~~~~~~~~~l~~~~~ 361 (528)
T TIGR02457 284 LEFAGLLGRRLAELHLALAA--GGEDPAFAPEPISTLYQRSWYQDMRAQAERALQLLAQSRDGLPAAARALADRLLAQRK 361 (528)
T ss_pred HHHHHHHHHHHHHHHHHHhc--CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCChhHHHHHHHHHHHHH
Confidence 34467999999999998865 222221 0011 112222222233333333332 122234555555555
Q ss_pred hHHHhHhHhhHhhhhccc--cccccccCceEEeeecCeeEEEEcccccc
Q 023428 186 KLEAESLAASATALAFEN--ARFAFRLGQKVNHKIFGYRAVICGMDPVC 232 (282)
Q Consensus 186 ~Le~e~~aasa~~~~~~~--~~vkFrIGQVvrHRryGYrGVIvGWD~~c 232 (282)
.|.+.+.+.......... -+.-|..|||.+= +=..||++|+-.-
T Consensus 362 ~l~~~~~~l~~~~~~~~k~RiHGD~HLgqvL~t---~~d~~IiDFEGEP 407 (528)
T TIGR02457 362 ELAAHLRPLVKREIDGLKIRIHGDFHLGQVLVV---QDDAVLIDFEGEP 407 (528)
T ss_pred HHHHHHHHHhhcCCCcceEeEecCcchhcEEEe---CCCeEEEcCCCCC
Confidence 555443321111000011 1235999999963 2245699998754
No 47
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=33.67 E-value=43 Score=24.57 Aligned_cols=23 Identities=30% Similarity=0.512 Sum_probs=19.6
Q ss_pred cccCceEEeeecCeeEEEEcccc
Q 023428 208 FRLGQKVNHKIFGYRAVICGMDP 230 (282)
Q Consensus 208 FrIGQVvrHRryGYrGVIvGWD~ 230 (282)
|++|++|+.|.-|-+.+|..-.+
T Consensus 1 f~~GDvV~LKSGGp~MTV~~v~~ 23 (53)
T PF09926_consen 1 FKIGDVVQLKSGGPRMTVTEVGP 23 (53)
T ss_pred CCCCCEEEEccCCCCeEEEEccc
Confidence 89999999999999999975433
No 48
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=33.62 E-value=1.9e+02 Score=27.18 Aligned_cols=34 Identities=21% Similarity=0.305 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHH
Q 023428 155 ALSIIRLRADLQKAIDSENYALAADLRDQICKLE 188 (282)
Q Consensus 155 a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le 188 (282)
-..+.+....++.+++..+|..|-.+-.+.+.+-
T Consensus 124 i~~v~~~~~~l~~ll~~~dy~~Al~li~~~~~~l 157 (291)
T PF10475_consen 124 IKTVQQTQSRLQELLEEGDYPGALDLIEECQQLL 157 (291)
T ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence 3344455568999999999987777766665543
No 49
>TIGR00002 S16 ribosomal protein S16. This model describes ribosomal S16 of bacteria and organelles.
Probab=33.25 E-value=29 Score=27.34 Aligned_cols=11 Identities=36% Similarity=0.996 Sum_probs=9.1
Q ss_pred CCCCcEEEEEe
Q 023428 251 PSQPFYQVLVD 261 (282)
Q Consensus 251 r~QPFY~VLVd 261 (282)
+++|||+|.|-
T Consensus 11 k~~PfYrIVv~ 21 (78)
T TIGR00002 11 KKRPFYRIVVA 21 (78)
T ss_pred CCCCeEEEEEE
Confidence 46999999974
No 50
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=32.80 E-value=87 Score=24.46 Aligned_cols=54 Identities=19% Similarity=0.108 Sum_probs=36.5
Q ss_pred cccCceEEeeecCee---EEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCccc
Q 023428 208 FRLGQKVNHKIFGYR---AVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDP 280 (282)
Q Consensus 208 FrIGQVvrHRryGYr---GVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~ 280 (282)
|.||++|-=|.-||. |.|+.++..... ....+.|+|..=+. ...++|..++|.+
T Consensus 1 f~vGDlVWaK~kg~pwWP~~V~~~~~~~~~---------------~~~~~~~~V~fFGs----~~~a~v~~~~l~p 57 (87)
T cd05835 1 FNVGDLVWGKIKGFPWWPGRVVSITVTSKR---------------PPVVGMRWVTWFGS----GTFSEVSVDKLSP 57 (87)
T ss_pred CCCCCEEEEecCCCCCCCeEEechhhcccc---------------cCCCCeEEEEEeCC----CCEeEECHHHCcC
Confidence 789999988888884 999987653211 12345577775431 3577887777754
No 51
>KOG3407 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.96 E-value=1.4e+02 Score=26.48 Aligned_cols=40 Identities=20% Similarity=0.202 Sum_probs=33.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHhH
Q 023428 147 SKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLA 193 (282)
Q Consensus 147 ~~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~a 193 (282)
.|.-..|.+..|..|...-|+|| |-.+|..|++++..+.+
T Consensus 103 dWDLkRDv~kKL~kLErrtQkAi-------a~lIrerlke~~~~la~ 142 (151)
T KOG3407|consen 103 DWDLKRDVKKKLEKLERRTQKAI-------AELIRERLKEQKRDLAT 142 (151)
T ss_pred CchHhHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHhHHHHHH
Confidence 56777899999999999999998 78899999987766653
No 52
>PF15591 Imm17: Immunity protein 17
Probab=31.94 E-value=39 Score=26.71 Aligned_cols=44 Identities=25% Similarity=0.198 Sum_probs=29.8
Q ss_pred eeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccC
Q 023428 216 HKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT 281 (282)
Q Consensus 216 HRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~ 281 (282)
|+.+|-+|||+|....=.. .- =|.||+.+- ..+.|..++.|+++
T Consensus 21 ~ei~Gk~GVVlG~SeeD~~-------------~~-----gY~Vli~d~----e~~~~~ee~~l~~T 64 (74)
T PF15591_consen 21 AEIWGKRGVVLGISEEDGG-------------NF-----GYSVLIFDM----ECCWYIEEDELEAT 64 (74)
T ss_pred hhhcCceeEEEEEecCCCc-------------EE-----EEEEEEeee----eeEEEechHHeeec
Confidence 5889999999996542111 01 188998752 46788888877764
No 53
>CHL00005 rps16 ribosomal protein S16
Probab=31.06 E-value=33 Score=27.38 Aligned_cols=12 Identities=17% Similarity=0.288 Sum_probs=9.5
Q ss_pred CCCCcEEEEEec
Q 023428 251 PSQPFYQVLVDV 262 (282)
Q Consensus 251 r~QPFY~VLVd~ 262 (282)
+++|||+|.|-+
T Consensus 12 kk~P~YrIVvad 23 (82)
T CHL00005 12 KQQAVYRIVAID 23 (82)
T ss_pred CCCCeEEEEEEe
Confidence 469999999743
No 54
>PRK11546 zraP zinc resistance protein; Provisional
Probab=30.90 E-value=2.1e+02 Score=25.05 Aligned_cols=43 Identities=5% Similarity=0.052 Sum_probs=27.3
Q ss_pred hHHHHHHHHHHHHHHHHHhhchhcH--HHHHHHHHHHhhHHHhHh
Q 023428 150 EAQDKALSIIRLRADLQKAIDSENY--ALAADLRDQICKLEAESL 192 (282)
Q Consensus 150 ea~d~a~qL~~Lk~~Lq~AIe~Eey--E~AA~lRD~Ik~Le~e~~ 192 (282)
+..+...+|-.-+.+|+........ +++.++..||..|+.++.
T Consensus 62 ~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~ 106 (143)
T PRK11546 62 QTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQSLD 106 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 3444555566666677776665554 556777777777776654
No 55
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=30.71 E-value=2.7e+02 Score=26.70 Aligned_cols=13 Identities=23% Similarity=0.332 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHH
Q 023428 155 ALSIIRLRADLQK 167 (282)
Q Consensus 155 a~qL~~Lk~~Lq~ 167 (282)
..+|..+|.+|..
T Consensus 208 ~~eL~~lr~eL~~ 220 (325)
T PF08317_consen 208 QEELEALRQELAE 220 (325)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444433
No 56
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=30.69 E-value=49 Score=20.76 Aligned_cols=17 Identities=29% Similarity=0.343 Sum_probs=14.0
Q ss_pred HHHHHHHHHhhHHHhHh
Q 023428 176 LAADLRDQICKLEAESL 192 (282)
Q Consensus 176 ~AA~lRD~Ik~Le~e~~ 192 (282)
+.-.+|++|+.||.++.
T Consensus 2 E~~rlr~rI~dLer~L~ 18 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLS 18 (23)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 35678999999999876
No 57
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=29.76 E-value=2.9e+02 Score=26.83 Aligned_cols=13 Identities=38% Similarity=0.685 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHH
Q 023428 124 LRNKLTEVEEEIS 136 (282)
Q Consensus 124 l~~~l~~v~~~~~ 136 (282)
|+.+.+.+..++.
T Consensus 177 l~~~~~~L~~e~~ 189 (312)
T smart00787 177 LRDRKDALEEELR 189 (312)
T ss_pred HHHHHHHHHHHHH
Confidence 3333444444443
No 58
>KOG3419 consensus Mitochondrial/chloroplast ribosomal protein S16 [Translation, ribosomal structure and biogenesis]
Probab=29.64 E-value=34 Score=28.92 Aligned_cols=12 Identities=33% Similarity=0.855 Sum_probs=9.5
Q ss_pred CCCCcEEEEEec
Q 023428 251 PSQPFYQVLVDV 262 (282)
Q Consensus 251 r~QPFY~VLVd~ 262 (282)
+|.|||+|+|-+
T Consensus 13 knRPfY~Ivva~ 24 (112)
T KOG3419|consen 13 KNRPFYRIVVAD 24 (112)
T ss_pred cCCCeeEEEEee
Confidence 478999999743
No 59
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=29.00 E-value=2.7e+02 Score=21.52 Aligned_cols=25 Identities=28% Similarity=0.408 Sum_probs=20.6
Q ss_pred hhchhcH----HHHHHHHHHHhhHHHhHh
Q 023428 168 AIDSENY----ALAADLRDQICKLEAESL 192 (282)
Q Consensus 168 AIe~Eey----E~AA~lRD~Ik~Le~e~~ 192 (282)
.|-.|+| +.+++.|.+|.+||+++.
T Consensus 46 lVtREEFd~q~~~L~~~r~kl~~LEarl~ 74 (79)
T PF04380_consen 46 LVTREEFDAQKAVLARTREKLEALEARLA 74 (79)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888 478899999999999876
No 60
>PF12510 Smoothelin: Smoothelin cytoskeleton protein; InterPro: IPR022189 This domain family is found in eukaryotes, and is approximately 50 amino acids in length. The family is found in association with PF00307 from PFAM. Smoothelin is a cytoskeletal protein specifically expressed in differentiated smooth muscle cells and has been shown to co-localize with smooth muscle alpha actin.
Probab=28.80 E-value=1.7e+02 Score=21.88 Aligned_cols=39 Identities=21% Similarity=0.209 Sum_probs=29.7
Q ss_pred hhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428 149 SEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAE 190 (282)
Q Consensus 149 ~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e 190 (282)
.+.++.-..+..|+.-|..+ .+||+=..+|..|++|.++
T Consensus 15 ~~~l~~I~De~~L~kmLe~~---~dyeeRr~IRaaiR~lr~~ 53 (54)
T PF12510_consen 15 SEELESIEDEEVLEKMLEAT---TDYEERRRIRAAIRELRKK 53 (54)
T ss_pred HHHHHHhhhHHHHHHHHHHh---ccHHHHHHHHHHHHHHHhc
Confidence 34455555566677777777 5999999999999998865
No 61
>PRK00040 rpsP 30S ribosomal protein S16; Reviewed
Probab=28.59 E-value=39 Score=26.45 Aligned_cols=12 Identities=33% Similarity=0.833 Sum_probs=9.5
Q ss_pred CCCCcEEEEEec
Q 023428 251 PSQPFYQVLVDV 262 (282)
Q Consensus 251 r~QPFY~VLVd~ 262 (282)
+++|||+|.|-+
T Consensus 12 k~~P~YrIVv~d 23 (75)
T PRK00040 12 KKRPFYRIVVAD 23 (75)
T ss_pred CCCCeEEEEEEe
Confidence 479999999743
No 62
>PF00886 Ribosomal_S16: Ribosomal protein S16; InterPro: IPR000307 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S16 is one of the proteins from the small ribosomal subunit. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [], groups: Eubacterial S16. Algal and plant chloroplast S16. Cyanelle S16. Neurospora crassa mitochondrial S24 (cyt-21). S16 proteins have about 100 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2Y14_P 3UZ6_S 2J02_P 1HNZ_P 3V26_P 3KNL_P 1N34_P 2J00_P 1HNW_P 3OHC_P ....
Probab=28.56 E-value=26 Score=26.21 Aligned_cols=12 Identities=33% Similarity=0.833 Sum_probs=9.5
Q ss_pred CCCCcEEEEEec
Q 023428 251 PSQPFYQVLVDV 262 (282)
Q Consensus 251 r~QPFY~VLVd~ 262 (282)
+++|||+|.|-+
T Consensus 5 k~~P~YrIVv~d 16 (62)
T PF00886_consen 5 KKRPFYRIVVAD 16 (62)
T ss_dssp TTEEEEEEEEEE
T ss_pred CCCCeEEEEEEe
Confidence 478999999743
No 63
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=28.47 E-value=2.5e+02 Score=20.93 Aligned_cols=66 Identities=17% Similarity=0.323 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH---HHhhhcCCCcchhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428 116 EEYDIAQQLRNKLTEVEEEISR---QLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAES 191 (282)
Q Consensus 116 ~~f~~a~~l~~~l~~v~~~~~~---~~~gK~~~~~~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~ 191 (282)
+.|+.+++|+..|..|...+.. .|. +.- +......+...+|..|-.+.. ..+..|+..|+.|++..
T Consensus 4 ~f~~~v~~i~~~i~~i~~~~~~l~~l~~-~~l-~~~~~d~~~~~el~~l~~~i~--------~~~~~~~~~lk~l~~~~ 72 (103)
T PF00804_consen 4 EFFDEVQEIREDIDKIKEKLNELRKLHK-KIL-SSPDQDSELKRELDELTDEIK--------QLFQKIKKRLKQLSKDN 72 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH-TSSSHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hhc-CCCCcchhHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHh
Confidence 4577788888888888866533 221 111 111111233444444333333 45688899999888774
No 64
>PF09969 DUF2203: Uncharacterized conserved protein (DUF2203); InterPro: IPR018699 This family has no known function.
Probab=27.69 E-value=3.4e+02 Score=22.80 Aligned_cols=19 Identities=32% Similarity=0.289 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 023428 117 EYDIAQQLRNKLTEVEEEI 135 (282)
Q Consensus 117 ~f~~a~~l~~~l~~v~~~~ 135 (282)
+.++|+.|.|.|..+=.++
T Consensus 4 Tl~EA~~lLP~l~~~~~~~ 22 (120)
T PF09969_consen 4 TLEEANALLPLLRPILEEI 22 (120)
T ss_pred CHHHHHHHHHHHHHHHHHH
Confidence 4678999999888877666
No 65
>PF12711 Kinesin-relat_1: Kinesin motor; InterPro: IPR024658 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. Kinesin-like proteins KLP2 (or KIF15) also contain a kinesin 'motor' domain. They are involved in mitotic spindle assembly, playing a role in positioning spindle poles during mitosis, specifically at prometaphase []. This entry represents a domain of unknown function found in this type of kinesin-like proteins.
Probab=27.61 E-value=57 Score=26.35 Aligned_cols=10 Identities=30% Similarity=0.727 Sum_probs=5.9
Q ss_pred HHHHHHhhHH
Q 023428 179 DLRDQICKLE 188 (282)
Q Consensus 179 ~lRD~Ik~Le 188 (282)
.||++++.++
T Consensus 55 rL~ee~rrl~ 64 (86)
T PF12711_consen 55 RLREELRRLQ 64 (86)
T ss_pred HHHHHHHHHH
Confidence 4566666555
No 66
>PRK09039 hypothetical protein; Validated
Probab=27.59 E-value=4e+02 Score=25.96 Aligned_cols=44 Identities=20% Similarity=0.185 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHH---hhchhcHHHHHHHHHHHhhHHHhHhHhh
Q 023428 151 AQDKALSIIRLRADLQK---AIDSENYALAADLRDQICKLEAESLAAS 195 (282)
Q Consensus 151 a~d~a~qL~~Lk~~Lq~---AIe~EeyE~AA~lRD~Ik~Le~e~~aas 195 (282)
-.....||..||.+|.. +|+.-+ +.-+..+.+|..|++++.++-
T Consensus 139 V~~L~~qI~aLr~Qla~le~~L~~ae-~~~~~~~~~i~~L~~~L~~a~ 185 (343)
T PRK09039 139 VELLNQQIAALRRQLAALEAALDASE-KRDRESQAKIADLGRRLNVAL 185 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence 34555566666664433 332111 233677778888888777553
No 67
>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein). HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.
Probab=27.40 E-value=2.2e+02 Score=21.20 Aligned_cols=37 Identities=19% Similarity=0.258 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHH
Q 023428 153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEA 189 (282)
Q Consensus 153 d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~ 189 (282)
+....+..+..++..+.+..+|+.|+..-.+++=+..
T Consensus 35 ~~~~~~~~~~~~l~~~f~~~d~~~A~~~~~kLky~~k 71 (78)
T PF07743_consen 35 EIEERIKELIKELAEAFDAKDWEEAKEALRKLKYLQK 71 (78)
T ss_dssp HHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHH
Confidence 3344455677788888889999999988888876654
No 68
>PRK14525 rpsP 30S ribosomal protein S16; Provisional
Probab=27.17 E-value=42 Score=27.17 Aligned_cols=11 Identities=36% Similarity=0.839 Sum_probs=9.0
Q ss_pred CCCCcEEEEEe
Q 023428 251 PSQPFYQVLVD 261 (282)
Q Consensus 251 r~QPFY~VLVd 261 (282)
+++|||+|.|-
T Consensus 13 k~~P~YrIVv~ 23 (88)
T PRK14525 13 HKAPFYHVVAT 23 (88)
T ss_pred CCCCeEEEEEe
Confidence 46999999874
No 69
>cd05840 SPBC215_ISWI_like The PWWP domain is a component of the S. pombe hypothetical protein SPBC215, as well as ISWI complex protein 4. The ISWI (imitation switch) proteins are ATPases responsible for chromatin remodeling in eukaryotes, and SPBC215 is proposed to also bind chromatin. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=26.91 E-value=1.4e+02 Score=23.85 Aligned_cols=60 Identities=20% Similarity=0.232 Sum_probs=38.9
Q ss_pred cccCceEEeeecCee---EEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCccc
Q 023428 208 FRLGQKVNHKIFGYR---AVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDP 280 (282)
Q Consensus 208 FrIGQVvrHRryGYr---GVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~ 280 (282)
|++|++|-=|.-||. |+|+..+.. +.. + -+....+...-|.|..=+. ...++|...+|.+
T Consensus 1 f~~GDlVwaK~~GyPwWPA~V~~~~~~---p~~----~--l~~~~~~~~~~~~V~FFg~----~~~~Wv~~~~l~p 63 (93)
T cd05840 1 FQPGDRVLAKVKGFPAWPAIVVPEEML---PDS----V--LKGKKKKNKRTYPVMFFPD----GDYYWVPNKDLKP 63 (93)
T ss_pred CCCCCEEEEeCCCCCCCCEEECChHHC---CHH----H--HhcccCCCCCeEEEEEeCC----CcEEEEChhhccc
Confidence 789999999999995 999876531 111 1 0001223456688886431 3678888888765
No 70
>PHA00743 helix-turn-helix protein
Probab=26.32 E-value=2.7e+02 Score=20.64 Aligned_cols=43 Identities=19% Similarity=0.266 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCCCcchhHHHHHHHHHH-HHHHHHHh
Q 023428 122 QQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIR-LRADLQKA 168 (282)
Q Consensus 122 ~~l~~~l~~v~~~~~~~~~gK~~~~~~~ea~d~a~qL~~-Lk~~Lq~A 168 (282)
.++|++|+-||+=-+-.-.++.+ .+.++.|.-|-+ .+.+|++.
T Consensus 6 ~~iReLLs~iheIKID~i~~~~~----k~kvekAl~Ls~~I~aeLy~~ 49 (51)
T PHA00743 6 EDVRELLSIIHEIKIDIITQSYD----KEKIEKAIFLSQKIQAELYQL 49 (51)
T ss_pred HHHHHHHHHHHHHhhhhhcccCC----HHHHHHHHHHHHHHHHHHHHH
Confidence 38999999998655554455554 344444444332 34444443
No 71
>cd05837 MSH6_like The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been linked to increased cancer susceptibility, particularly in hereditary nonpolyposis colorectal cancer in humans. The role of the PWWP domain in MSH6 is not clear; MSH6 orthologs found in S. cerevisiae, Caenorhabditis elegans and Arabidopsis thaliana lack the PWWP domain. Histone methyltransferases (HMTases) induce the posttranslational methylation of lysine residues in histones and play a role in apoptosis. In the HMTase Whistle, the PWWP domain is necessary for HMTase activity. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain pro
Probab=26.25 E-value=1.2e+02 Score=24.73 Aligned_cols=62 Identities=24% Similarity=0.369 Sum_probs=37.6
Q ss_pred ccccCceEEeeecCe---eEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCccc
Q 023428 207 AFRLGQKVNHKIFGY---RAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDP 280 (282)
Q Consensus 207 kFrIGQVvrHRryGY---rGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~ 280 (282)
.|.+|++|-=|.-|| .|+|+. |+.... ... .....+.-.-|+|..=+. ....++|++.+|.+
T Consensus 2 ~~~~GdlVWaK~~g~PwWPa~V~~-~~~~~~---~~~-----~~~~~~~~~~~~V~FFG~---~~~~aWv~~~~l~p 66 (110)
T cd05837 2 KYQVGDLVWAKVSGYPWWPCMVCS-DPLLGT---YTK-----TKRNKRKPRQYHVQFFGD---NPERAWISEKSLKP 66 (110)
T ss_pred CCCCCCEEEEeCCCCCCCCEEEec-ccccch---hhh-----hhhccCCCCeEEEEEcCC---CCCEEEecHHHccc
Confidence 599999998888888 488885 332111 110 011222345699975321 13578999888875
No 72
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=25.74 E-value=1.6e+02 Score=22.94 Aligned_cols=52 Identities=25% Similarity=0.206 Sum_probs=36.3
Q ss_pred ccccCceEEeeecCee---EEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCccc
Q 023428 207 AFRLGQKVNHKIFGYR---AVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDP 280 (282)
Q Consensus 207 kFrIGQVvrHRryGYr---GVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~ 280 (282)
.|.+|++|-=|..||. |.|+..+.. .....-|+|..=+. ...++|+..+|.+
T Consensus 2 ~f~~GdlVwaK~kGyp~WPa~I~~~~~~------------------~~~~~~~~V~FfGt----~~~a~v~~~~l~p 56 (83)
T cd05834 2 QFKAGDLVFAKVKGYPAWPARVDEPEDW------------------KPPGKKYPVYFFGT----HETAFLKPEDLFP 56 (83)
T ss_pred CCCCCCEEEEecCCCCCCCEEEeccccc------------------CCCCCEEEEEEeCC----CCEeEECHHHcee
Confidence 5899999999999995 888876542 11234588886431 3568888877754
No 73
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=25.74 E-value=2.4e+02 Score=27.22 Aligned_cols=65 Identities=23% Similarity=0.330 Sum_probs=34.9
Q ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcchhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHH
Q 023428 110 QCALNMEEYDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEA 189 (282)
Q Consensus 110 gc~~~y~~f~~a~~l~~~l~~v~~~~~~~~~gK~~~~~~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~ 189 (282)
.++..|++|+. ...-|-++|+.++-.+..|. ....+|.+|+.. ++ +..+...|+++|...|+
T Consensus 118 ~~a~~~d~yR~---~LK~IR~~E~sl~p~R~~r~---------~l~d~I~kLk~k-----~P-~s~kl~~LeqELvraEa 179 (271)
T PF13805_consen 118 QYADRLDQYRI---HLKSIRNREESLQPSRDRRR---------KLQDEIAKLKYK-----DP-QSPKLVVLEQELVRAEA 179 (271)
T ss_dssp HHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHH------T-TTTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH---HHHHHHHHHHHHhHHHHHhH---------HHHHHHHHHHhc-----CC-CChHHHHHHHHHHHHHH
Confidence 47788888884 33446667777754333333 223334444332 11 23456666666666666
Q ss_pred hHh
Q 023428 190 ESL 192 (282)
Q Consensus 190 e~~ 192 (282)
+..
T Consensus 180 e~l 182 (271)
T PF13805_consen 180 ENL 182 (271)
T ss_dssp HHH
T ss_pred Hhh
Confidence 544
No 74
>PF06133 DUF964: Protein of unknown function (DUF964); InterPro: IPR010368 This entry consists of several relatively short bacterial and archaeal hypothetical sequences. It also includes YlbF and YmcA proteins which are involved in the formation of biofilms []. YlbF regulates sporulation prior to stage II, positively controlling the competence regulator ComK at a post-transcriptional level. It may also modulate the translation, stability or activity of ComS and may work together with YmcA to regulate community development [].; PDB: 2IAZ_C 2OEE_A 2OEQ_D 2PIH_A.
Probab=24.83 E-value=3.4e+02 Score=21.16 Aligned_cols=74 Identities=26% Similarity=0.307 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcchhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428 117 EYDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESL 192 (282)
Q Consensus 117 ~f~~a~~l~~~l~~v~~~~~~~~~gK~~~~~~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~ 192 (282)
.|+.|.+|.+.|.+-+. +..-+..+.-...-+++...-.+...++.+++.+=..-. ..+.+...++.+++.++.
T Consensus 2 I~~~a~eL~~~I~~s~e-y~~~~~a~~~l~~d~e~~~l~~~f~~~q~~~~~~q~~g~-~~~~e~~~~l~~~~~~l~ 75 (108)
T PF06133_consen 2 IYDKANELAEAIKESEE-YKRYKAAEEALEADPEAQKLIEEFQKLQQELQNAQMYGK-EPPKEEIEELQELQEELM 75 (108)
T ss_dssp HHHHHHHHHHHHHTSHH-HHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCHH-HHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHhhcc-CCcHHHHHHHHHHHHHHH
Confidence 46677777777766542 222222222212334444444444445555544321111 222555555565555544
No 75
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=24.73 E-value=2.4e+02 Score=27.67 Aligned_cols=41 Identities=24% Similarity=0.345 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHh----hchhcHHHHH-----HHHHHHhhHHHhHh
Q 023428 152 QDKALSIIRLRADLQKA----IDSENYALAA-----DLRDQICKLEAESL 192 (282)
Q Consensus 152 ~d~a~qL~~Lk~~Lq~A----Ie~EeyE~AA-----~lRD~Ik~Le~e~~ 192 (282)
.|...+|.+||.+|... ||+|=...-| +-|.+|+.|++-++
T Consensus 85 ~dRetEI~eLksQL~RMrEDWIEEECHRVEAQLALKEARkEIkQLkQvie 134 (305)
T PF15290_consen 85 HDRETEIDELKSQLARMREDWIEEECHRVEAQLALKEARKEIKQLKQVIE 134 (305)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666788888887765 3333333333 45888888887665
No 76
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=23.84 E-value=4.5e+02 Score=26.02 Aligned_cols=38 Identities=16% Similarity=0.312 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHh---hchhcHHHHHHHHHHHhhHHHhHh
Q 023428 155 ALSIIRLRADLQKA---IDSENYALAADLRDQICKLEAESL 192 (282)
Q Consensus 155 a~qL~~Lk~~Lq~A---Ie~EeyE~AA~lRD~Ik~Le~e~~ 192 (282)
.++|..|+..|++. ...|+-+.+.+++.+|++.+..+.
T Consensus 45 kkrLk~L~~sLk~~~~~~~~e~~~~i~~L~~~Ik~r~~~l~ 85 (330)
T PF07851_consen 45 KKRLKELKKSLKRCKKSLSAEERELIEKLEEDIKERRCQLF 85 (330)
T ss_pred HHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHhhHH
Confidence 44567777777777 455667777888888877665443
No 77
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=23.70 E-value=1.8e+02 Score=22.94 Aligned_cols=55 Identities=16% Similarity=0.293 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCCcchhHHHHHHHHHHHHHHHHHhhch--hcHHHHHHHHHHHhh
Q 023428 123 QLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDS--ENYALAADLRDQICK 186 (282)
Q Consensus 123 ~l~~~l~~v~~~~~~~~~gK~~~~~~~ea~d~a~qL~~Lk~~Lq~AIe~--EeyE~AA~lRD~Ik~ 186 (282)
+|+..|+..|.++.+ .+ +.....+..|..|..+++.++.. +....-..+.|.++.
T Consensus 1 kL~~~L~~L~~eL~~-----~~----~ld~~~~~~L~~l~~dIe~~L~~~~~~~~~~~~l~d~l~~ 57 (85)
T PF14357_consen 1 KLQELLEKLHQELEQ-----NP----PLDEETRAELSSLDDDIEAQLAEEDEAEAEDESLVDRLNE 57 (85)
T ss_pred CHHHHHHHHHHHHhc-----CC----CCCHHHHHHHHHHHHHHHHHHhcCCcccccchhHHHHHHH
Confidence 367888888887732 22 12234455667777778777766 444555666666664
No 78
>PRK14524 rpsP 30S ribosomal protein S16; Provisional
Probab=23.03 E-value=55 Score=26.74 Aligned_cols=12 Identities=42% Similarity=0.786 Sum_probs=9.5
Q ss_pred CCCCcEEEEEec
Q 023428 251 PSQPFYQVLVDV 262 (282)
Q Consensus 251 r~QPFY~VLVd~ 262 (282)
++.|||+|.|-|
T Consensus 12 KkrPfYrIVvad 23 (94)
T PRK14524 12 RKQPFYRIVVVD 23 (94)
T ss_pred CCCCeEEEEEEe
Confidence 469999999743
No 79
>COG2960 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.87 E-value=4.6e+02 Score=22.02 Aligned_cols=25 Identities=20% Similarity=0.361 Sum_probs=20.3
Q ss_pred hhchhcH----HHHHHHHHHHhhHHHhHh
Q 023428 168 AIDSENY----ALAADLRDQICKLEAESL 192 (282)
Q Consensus 168 AIe~Eey----E~AA~lRD~Ik~Le~e~~ 192 (282)
.|..|+| +++++-|+++..|++.+.
T Consensus 55 lVsREEFdvq~qvl~rtR~kl~~Leari~ 83 (103)
T COG2960 55 LVSREEFDVQRQVLLRTREKLAALEARIE 83 (103)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4778898 578888999888888765
No 80
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=22.77 E-value=1.4e+02 Score=29.93 Aligned_cols=44 Identities=30% Similarity=0.566 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCCCcchhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhH
Q 023428 122 QQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKL 187 (282)
Q Consensus 122 ~~l~~~l~~v~~~~~~~~~gK~~~~~~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~L 187 (282)
..+.++|..||+++.+ .-++.+.+.-.-+++ .+.|+||.++.+-
T Consensus 2 ~tieEkIk~iEeeia~--------tpknKaTe~hig~lK--------------aklA~Lr~El~~~ 45 (365)
T COG1163 2 MTIEEKIKAIEEEIAR--------TPKNKATEHHIGLLK--------------AKLAELREELEKR 45 (365)
T ss_pred CCHHHHHHHHHHHHHh--------cccchhhHHHHHHHH--------------HHHHHHHHHHhhh
Confidence 3577899999999966 446666665544443 4567788877754
No 81
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=22.68 E-value=2.2e+02 Score=24.99 Aligned_cols=39 Identities=15% Similarity=0.059 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhhHHHhHhHhhHhhhhccccccccccCceEE
Q 023428 175 ALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVN 215 (282)
Q Consensus 175 E~AA~lRD~Ik~Le~e~~aasa~~~~~~~~~vkFrIGQVvr 215 (282)
++.+.+-.+|+.|+..+.. +.+..+..+.-...+|..|.
T Consensus 64 ~~~~~~e~rI~~L~~~L~~--A~Ii~~~~~~d~V~~Gs~V~ 102 (160)
T PRK06342 64 RQMARPLRDLRYLAARRRT--AQLMPDPASTDVVAFGSTVT 102 (160)
T ss_pred HHHHHHHHHHHHHHHHHcc--CEEECCCCCCCEEEeCcEEE
Confidence 4555676789999988873 33322222233456677765
No 82
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.51 E-value=2.9e+02 Score=26.78 Aligned_cols=68 Identities=15% Similarity=0.294 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcchhHHHHHHHHHHHHHHHHHhhchhcH-HHHHHHHHHHhhHHHhHh
Q 023428 117 EYDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENY-ALAADLRDQICKLEAESL 192 (282)
Q Consensus 117 ~f~~a~~l~~~l~~v~~~~~~~~~gK~~~~~~~ea~d~a~qL~~Lk~~Lq~AIe~Eey-E~AA~lRD~Ik~Le~e~~ 192 (282)
+|+....|+.-|+.+...+-+ ..+-. ...+........+|.+|...+ .++ ..|-.+|-+|+.++.+..
T Consensus 38 Ff~~ve~Ir~~i~~l~~~~~~--l~~~h----s~~l~~~~~~~~~k~~l~~~~--~~~~~~a~~Ik~kL~~~e~~~~ 106 (297)
T KOG0810|consen 38 FFEDVEEIRDDIEKLDEDVEK--LQKLH----SKSLHSPNADKELKRKLESLV--DEIRRRARKIKTKLKALEKENE 106 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHhh----hhHhccccccHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence 445555666666666544411 22211 222333333445666666666 444 678899999999998765
No 83
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=22.40 E-value=3.9e+02 Score=21.03 Aligned_cols=64 Identities=17% Similarity=0.192 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCCCcchhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428 122 QQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESL 192 (282)
Q Consensus 122 ~~l~~~l~~v~~~~~~~~~gK~~~~~~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~ 192 (282)
..|+..++.++....+ -.|.- -..=.-.+|.+|..+|..++....-.+...+.++|..|+.+..
T Consensus 22 ~~L~~~~~~L~~~~R~-~~Ged------L~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~ 85 (100)
T PF01486_consen 22 AKLRKENESLQKELRH-LMGED------LESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKER 85 (100)
T ss_pred HHHHHHHHHHHHHHhc-ccccc------ccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555556665555422 23322 2222334677888899999988887888888888888887643
No 84
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=22.32 E-value=2.2e+02 Score=23.54 Aligned_cols=28 Identities=25% Similarity=0.381 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428 156 LSIIRLRADLQKAIDSENYALAADLRDQICKLEAES 191 (282)
Q Consensus 156 ~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~ 191 (282)
.||..||.+|.+-| ..-+.+|++|++.|
T Consensus 72 EqL~~Lk~kl~~e~--------~~~~k~i~~le~~I 99 (100)
T PF04568_consen 72 EQLKKLKEKLKEEI--------EHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHH--------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH--------HHHHHHHHHHHHhc
Confidence 34555555554432 33445555555543
No 85
>PF04153 NOT2_3_5: NOT2 / NOT3 / NOT5 family; InterPro: IPR007282 NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that negatively regulates the basal and activated transcription of many genes. This family includes NOT2, NOT3 and NOT5.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=21.95 E-value=94 Score=26.25 Aligned_cols=36 Identities=22% Similarity=0.370 Sum_probs=29.2
Q ss_pred chhhhcccccceeeeeeeecccccccccccHHHHHHHHHHHHH
Q 023428 85 SSERSESANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNK 127 (282)
Q Consensus 85 ~~~~s~~~~~~~~~f~~q~~~~~rlgc~~~y~~f~~a~~l~~~ 127 (282)
+.+.-..-++|.|+|+|= -+|-++.++-||++|..+
T Consensus 45 ~~~~~~k~~~eTLFyiFY-------~~p~~~~Q~~AA~eL~~R 80 (134)
T PF04153_consen 45 SPEKFQKFSEETLFYIFY-------YMPGDYQQLLAAKELYKR 80 (134)
T ss_pred chHHHhhcCCceEEEEEe-------ecCCcHHHHHHHHHHHHC
Confidence 456777889999999984 467799999999999764
No 86
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=21.51 E-value=4.2e+02 Score=25.52 Aligned_cols=40 Identities=23% Similarity=0.208 Sum_probs=23.7
Q ss_pred CcchhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428 146 SSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAE 190 (282)
Q Consensus 146 ~~~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e 190 (282)
.+-++-.|.+...+.+|.+|++.+ ++-..|++++.+|+.+
T Consensus 125 ~~v~~~~d~ke~~ee~kekl~E~~-----~EkeeL~~eleele~e 164 (290)
T COG4026 125 QRVPEYMDLKEDYEELKEKLEELQ-----KEKEELLKELEELEAE 164 (290)
T ss_pred hccchhhHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHH
Confidence 344555677777778888888777 3333444444444443
No 87
>cd05836 N_Pac_NP60 The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the nucleus. In addition to the PWWP domain, NP60 also contains an AT-hook and a C-terminal NAD-binding domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=21.39 E-value=2.2e+02 Score=22.24 Aligned_cols=55 Identities=18% Similarity=0.169 Sum_probs=36.6
Q ss_pred cccCceEEeeecCee---EEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCccc
Q 023428 208 FRLGQKVNHKIFGYR---AVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDP 280 (282)
Q Consensus 208 FrIGQVvrHRryGYr---GVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~ 280 (282)
|.+|++|-=|.-||. |.|+.-.. . +.. ...+.+-|.|..-+. ...+.|.+.+|.+
T Consensus 1 f~~GDlVwaK~~g~P~WPa~V~~~~~------~------~~~--~~~~~~~~~V~FFG~----~~~~wv~~~~l~p 58 (86)
T cd05836 1 LKLGDLVWAKMKGFPPWPGRIVKPPK------D------LKK--PRGKAKCFFVFFFGS----ENHAWIKEENIKP 58 (86)
T ss_pred CCCCCEEEEeCCCCCCCCEEEechhh------h------ccc--ccCCCCeEEEEEeCC----CCEEEECHHhCee
Confidence 789999998888885 88876311 0 111 112346799987652 3678888888865
No 88
>PRK14522 rpsP 30S ribosomal protein S16; Provisional
Probab=20.97 E-value=63 Score=27.54 Aligned_cols=11 Identities=9% Similarity=0.422 Sum_probs=9.1
Q ss_pred CCCCcEEEEEe
Q 023428 251 PSQPFYQVLVD 261 (282)
Q Consensus 251 r~QPFY~VLVd 261 (282)
+++|||+|.|-
T Consensus 13 KkrPfYrIVVa 23 (116)
T PRK14522 13 RNHVVYRLVLA 23 (116)
T ss_pred CCCCeEEEEEe
Confidence 46999999974
No 89
>COG0228 RpsP Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]
Probab=20.94 E-value=64 Score=26.21 Aligned_cols=12 Identities=33% Similarity=0.833 Sum_probs=9.4
Q ss_pred CCCCcEEEEEec
Q 023428 251 PSQPFYQVLVDV 262 (282)
Q Consensus 251 r~QPFY~VLVd~ 262 (282)
++.|||+|.|.|
T Consensus 12 kk~P~YrIVVaD 23 (87)
T COG0228 12 KKRPFYRIVVAD 23 (87)
T ss_pred ccCCeEEEEEec
Confidence 468999999743
No 90
>PHA03161 hypothetical protein; Provisional
Probab=20.75 E-value=4.4e+02 Score=23.48 Aligned_cols=20 Identities=30% Similarity=0.458 Sum_probs=16.4
Q ss_pred cHHHHHHHHHHHhhHHHhHh
Q 023428 173 NYALAADLRDQICKLEAESL 192 (282)
Q Consensus 173 eyE~AA~lRD~Ik~Le~e~~ 192 (282)
..+.+.+|.|++.+|+.++.
T Consensus 87 kl~~~E~L~drv~eLkeel~ 106 (150)
T PHA03161 87 KLSAAEDLQDKILELKEDIH 106 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34788889999999998876
No 91
>PRK10884 SH3 domain-containing protein; Provisional
Probab=20.68 E-value=5.7e+02 Score=23.37 Aligned_cols=17 Identities=0% Similarity=-0.205 Sum_probs=8.0
Q ss_pred HHHHHHHHHhhHHHhHh
Q 023428 176 LAADLRDQICKLEAESL 192 (282)
Q Consensus 176 ~AA~lRD~Ik~Le~e~~ 192 (282)
+-+.++.++..|+++..
T Consensus 147 ~l~~~~~~~~~l~~~~~ 163 (206)
T PRK10884 147 QLIVAQKKVDAANLQLD 163 (206)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444555555554443
No 92
>KOG3080 consensus Nucleolar protein-like/EBNA1-binding protein [RNA processing and modification]
Probab=20.62 E-value=5.8e+02 Score=25.33 Aligned_cols=39 Identities=21% Similarity=0.168 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428 153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAES 191 (282)
Q Consensus 153 d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~ 191 (282)
....++...=.++|.++..+.--+-...-+.|+.++...
T Consensus 203 rk~RelKKfgKqVQ~~~l~~Rq~EKk~~lekiKk~kk~~ 241 (328)
T KOG3080|consen 203 RKQRELKKFGKQVQKAKLQERQREKKETLEKIKKLKKGR 241 (328)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 333333333347788777776666667777777776543
Done!