Query 021722
Match_columns 308
No_of_seqs 122 out of 519
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 05:10:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021722.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021722hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1860 Nuclear protein export 100.0 8.5E-57 1.8E-61 450.8 22.5 259 5-274 140-422 (927)
2 COG5079 SAC3 Nuclear protein e 100.0 5.7E-55 1.2E-59 412.7 22.1 258 4-275 107-384 (646)
3 KOG1861 Leucine permease trans 100.0 5.4E-49 1.2E-53 369.8 19.8 236 10-283 285-521 (540)
4 PF03399 SAC3_GANP: SAC3/GANP/ 100.0 2.9E-48 6.3E-53 341.9 21.7 201 21-251 2-204 (204)
5 PF10075 PCI_Csn8: COP9 signal 99.2 6.1E-11 1.3E-15 99.0 10.5 129 141-277 3-133 (143)
6 KOG3151 26S proteasome regulat 98.4 2.7E-05 5.9E-10 69.1 16.7 166 78-268 54-222 (260)
7 KOG4414 COP9 signalosome, subu 97.9 6E-05 1.3E-09 62.2 8.2 105 166-276 61-167 (197)
8 PF01399 PCI: PCI domain; Int 96.4 0.042 9E-07 42.2 9.6 74 185-261 4-82 (105)
9 KOG3252 Uncharacterized conser 95.9 0.037 8.1E-07 47.7 7.6 101 171-278 88-189 (217)
10 KOG1464 COP9 signalosome, subu 94.7 3 6.4E-05 38.7 16.3 142 111-265 241-390 (440)
11 smart00088 PINT motif in prote 87.6 1.6 3.5E-05 32.5 5.5 42 217-261 5-46 (88)
12 smart00753 PAM PCI/PINT associ 87.6 1.6 3.5E-05 32.5 5.5 42 217-261 5-46 (88)
13 KOG0687 26S proteasome regulat 87.3 20 0.00043 34.2 13.3 96 173-271 241-353 (393)
14 KOG2581 26S proteasome regulat 84.4 5.8 0.00013 38.6 8.5 112 175-291 308-433 (493)
15 PF04800 ETC_C1_NDUFA4: ETC co 68.4 3.1 6.7E-05 32.6 1.6 22 248-269 52-74 (101)
16 COG5187 RPN7 26S proteasome re 66.8 14 0.0003 34.7 5.6 104 185-298 274-388 (412)
17 PF08784 RPA_C: Replication pr 65.4 14 0.0003 28.4 4.8 51 219-269 45-98 (102)
18 KOG2908 26S proteasome regulat 65.0 51 0.0011 31.6 9.1 85 180-265 233-321 (380)
19 smart00874 B5 tRNA synthetase 64.4 12 0.00026 26.6 3.9 32 239-270 5-38 (71)
20 PF13986 DUF4224: Domain of un 58.4 23 0.0005 23.6 4.1 38 240-277 3-41 (47)
21 PF02042 RWP-RK: RWP-RK domain 57.5 26 0.00056 24.0 4.3 27 240-266 16-42 (52)
22 PF03683 UPF0175: Uncharacteri 56.3 33 0.00071 25.1 5.1 35 234-268 29-63 (76)
23 KOG3389 NADH:ubiquinone oxidor 55.9 7.7 0.00017 32.2 1.8 58 239-304 119-177 (178)
24 PF03484 B5: tRNA synthetase B 53.2 19 0.00042 25.8 3.4 32 239-270 5-38 (70)
25 PF09759 Atx10homo_assoc: Spin 50.6 27 0.00057 27.4 4.0 68 209-278 33-100 (102)
26 PF14555 UBA_4: UBA-like domai 48.8 23 0.0005 22.8 2.9 27 242-268 4-30 (43)
27 PF12324 HTH_15: Helix-turn-he 45.6 83 0.0018 23.4 5.7 44 226-275 29-73 (77)
28 KOG2753 Uncharacterized conser 44.2 2.6E+02 0.0057 26.8 10.1 74 181-260 240-315 (378)
29 PF09494 Slx4: Slx4 endonuclea 43.7 31 0.00067 24.4 3.2 30 239-268 24-62 (64)
30 PF04760 IF2_N: Translation in 42.2 25 0.00055 23.7 2.4 29 239-267 3-32 (54)
31 PRK13239 alkylmercury lyase; P 38.7 93 0.002 27.6 6.0 51 221-276 22-72 (206)
32 PF00627 UBA: UBA/TS-N domain; 36.8 48 0.001 20.4 2.9 25 242-267 6-30 (37)
33 COG1654 BirA Biotin operon rep 35.1 1.4E+02 0.003 22.2 5.6 34 238-271 18-54 (79)
34 PF08279 HTH_11: HTH domain; 34.4 1.2E+02 0.0026 20.0 4.9 42 225-269 4-48 (55)
35 PF08727 P3A: Poliovirus 3A pr 33.4 13 0.00029 25.8 -0.1 27 242-268 17-44 (57)
36 PF13994 PgaD: PgaD-like prote 33.3 63 0.0014 26.5 3.9 53 219-275 84-136 (138)
37 PF03634 TCP: TCP family trans 31.3 31 0.00066 28.3 1.7 18 243-260 33-51 (138)
38 PF04182 B-block_TFIIIC: B-blo 30.8 1.4E+02 0.0031 21.5 5.0 46 222-269 3-51 (75)
39 PF14726 RTTN_N: Rotatin, an a 30.2 94 0.002 24.1 4.1 32 221-253 2-43 (98)
40 KOG1076 Translation initiation 30.1 3E+02 0.0065 29.1 8.7 70 183-254 656-733 (843)
41 PF12833 HTH_18: Helix-turn-he 30.1 2E+02 0.0043 20.4 5.8 46 218-267 27-75 (81)
42 smart00550 Zalpha Z-DNA-bindin 29.7 2E+02 0.0044 20.3 6.4 46 222-270 7-56 (68)
43 PF03374 ANT: Phage antirepres 29.1 1.4E+02 0.0031 23.0 5.2 42 225-269 13-54 (111)
44 PRK11511 DNA-binding transcrip 28.6 1.6E+02 0.0035 23.4 5.5 47 217-268 56-105 (127)
45 PF00165 HTH_AraC: Bacterial r 27.6 1E+02 0.0022 19.3 3.4 29 239-267 8-37 (42)
46 PRK13503 transcriptional activ 27.2 1.4E+02 0.003 26.7 5.5 46 218-268 219-267 (278)
47 cd04764 HTH_MlrA-like_sg1 Heli 26.4 1.1E+02 0.0023 21.3 3.6 28 240-267 1-28 (67)
48 PF11360 DUF3110: Protein of u 26.3 65 0.0014 24.4 2.6 30 249-278 53-83 (86)
49 KOG0775 Transcription factor S 25.9 1.5E+02 0.0032 27.5 5.2 103 163-268 81-218 (304)
50 TIGR03862 flavo_PP4765 unchara 23.6 79 0.0017 30.6 3.2 34 243-276 45-79 (376)
51 PRK13501 transcriptional activ 22.9 2.1E+02 0.0046 25.9 5.9 48 216-268 222-272 (290)
52 PF06056 Terminase_5: Putative 22.7 2.6E+02 0.0056 19.3 4.9 29 239-267 13-41 (58)
53 KOG2758 Translation initiation 21.7 2.4E+02 0.0052 27.1 5.8 66 208-277 322-392 (432)
54 KOG0686 COP9 signalosome, subu 21.2 4.3E+02 0.0093 26.2 7.5 82 185-270 309-400 (466)
55 PF07381 DUF1495: Winged helix 20.6 2.8E+02 0.0061 21.1 5.1 40 220-261 8-47 (90)
56 PF10978 DUF2785: Protein of u 20.6 2.4E+02 0.0053 24.0 5.4 86 113-204 88-173 (175)
57 PF12840 HTH_20: Helix-turn-he 20.0 2.9E+02 0.0064 18.7 5.8 44 221-268 10-56 (61)
No 1
>KOG1860 consensus Nuclear protein export factor [Intracellular trafficking, secretion, and vesicular transport; Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=8.5e-57 Score=450.81 Aligned_cols=259 Identities=34% Similarity=0.555 Sum_probs=232.9
Q ss_pred CCccccccccCCCCCC-CCCCCCCCCHHHHHHHHHHHHHH-HcCCCCCcchhhhhhhhhhhhhhhhhhhhhcCCchhHHH
Q 021722 5 AIHLQPLLLKRTMSAK-EVRASDVRPLPVLEETLNYLLSL-LDSTEHPFEVIHDFVFDRTRSVRQDLIMQNIVNDKAINM 82 (308)
Q Consensus 5 ~~~~~VK~Y~RsaA~~-~~~P~~vRp~~vL~kT~~yL~~~-~~~~~~~~~~~y~Fi~DRlRaIRQDl~vQ~i~~~~~v~v 82 (308)
+|.+|||+|.|+|||+ .|.|++||||+||.+||+||+.+ +...+.++..+|+|+|||+||||||+|+||+.+..||.+
T Consensus 140 ~~~~aVK~ysRPAAgke~pLPsdvRP~~VL~~T~dYLl~~v~~~~~~sl~~~y~FvwDRtRAVR~D~t~Q~~~d~~Av~l 219 (927)
T KOG1860|consen 140 SPSLAVKEYSRPAAGKERPLPSDVRPPPVLVKTVDYLLGKVLCDKDISLREMYDFVWDRTRAVRQDFTIQNYSDQEAVEL 219 (927)
T ss_pred CHHHHHHHhcCcccCCCCCCccccCCHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHHHHHHhccCChHHHHH
Confidence 7899999999999998 45899999999999999999974 455666899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhhhhcCCCCCCChhhhhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCCCchhh
Q 021722 83 FEKIVKFHVISHHKLRSSCSSSSISPLHYLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNGQPVGE 162 (308)
Q Consensus 83 lE~~~Rf~i~~~~~l~~~~~~~~f~~~~~~n~~ql~~cl~~L~~lY~~~~~~~~~~~ne~Ef~~Y~iL~~l~~~~~~~~~ 162 (308)
+|+|+||||++.|+||+++. .|+ .++|+|||++|+.+|.++|++++++|+.|+||+||+||++|++|++++. .+
T Consensus 220 lE~i~RfhI~~~h~Lce~~~--~Fd--a~~nlEQL~K~l~sL~elYdD~r~~g~~cpnE~EFR~Y~vLl~Lgd~~~--~~ 293 (927)
T KOG1860|consen 220 LERIARFHILFRHRLCEEPE--QFD--AQQNLEQLQKCLQSLGELYDDLRKGGIPCPNEPEFRGYYVLLSLGDPQV--VR 293 (927)
T ss_pred HHHHHHHHHHHHHHhccCcc--cCC--hhHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhcCCchH--HH
Confidence 99999999999999999874 675 7899999999999999999999999999999999999999999999862 22
Q ss_pred hHHHHhhhCChhhhcCHhHHHHHHHHHHHHhCCHHHHHH------------------HHHh-cccHHHHHHHhHhHHHHH
Q 021722 163 SLSLWFRHVPSPIIKSKEMWFARQALRYFQMGNYRRFLS------------------TVAA-EASYLQYCIIEPYIDEVR 223 (308)
Q Consensus 163 ~l~~~l~~l~~~i~~s~~v~~Al~v~~a~~~~Ny~rfFk------------------Ll~~-~~~~L~~cl~~~~~~~vR 223 (308)
-++.+|++++++++|++|+.+++++++|||.+||+ +..+ ..++|+.|+++.||+.+|
T Consensus 294 ----~iq~~~~evr~~~~Vk~al~~~~a~~~nn~~~~~r~~~~~t~a~~~l~~~~~~l~q~p~~~~L~~~v~~~~f~~ir 369 (927)
T KOG1860|consen 294 ----DIQAWPDEVRQDSEVKLALCLRRAFQSNNFRRFFRLSSLRTEALQNLYTRFFKLMQSPALPYLMGCVLELFFPDIR 369 (927)
T ss_pred ----HHHhcCcccccchhHHHHHHHHHHhccCCeeeeeeccchhHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHH
Confidence 23467999999999999999999999999988864 4332 578899999999999999
Q ss_pred HHHHHHHHhhhcC--CCCcCHHHHHHHhcCCc-hHHHHHHHHhCCeecccCCCc
Q 021722 224 SLALCCIHNCCYK--LHPYPLGHLSKVLMMEE-SDVELFCNAYGLQTCIDEVGN 274 (308)
Q Consensus 224 ~~aL~~i~~a~yk--~~~ipl~~L~~~L~f~~-~e~~~f~~~~Gl~~~~d~~g~ 274 (308)
..|++.|.+ +|+ ..+||+.++..+|+|+. ++...+|..|||+++.|+.+.
T Consensus 370 ~~al~~~~~-~~~~~~~~vp~~~l~~~l~f~~~e~~~~~~~~y~Leis~~~~~~ 422 (927)
T KOG1860|consen 370 WAALRAMSH-AYNSKHVPVPLGKLDRILLFDGEEELKVVCNYYGLEISVDDKIV 422 (927)
T ss_pred HHHHHHHHH-HHhccCCCcchhHHHHHHhcCChhhhHhhhhheeeEeecccccc
Confidence 999999998 573 45899999999999995 779999999999997665444
No 2
>COG5079 SAC3 Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and chromosome partitioning]
Probab=100.00 E-value=5.7e-55 Score=412.75 Aligned_cols=258 Identities=32% Similarity=0.455 Sum_probs=230.0
Q ss_pred cCCccccccccCCCCCCC-CCCCCCCCHHHHHHHHHHHHHHHcCCCCCcchhhhhhhhhhhhhhhhhhhhhcCCchhHHH
Q 021722 4 LAIHLQPLLLKRTMSAKE-VRASDVRPLPVLEETLNYLLSLLDSTEHPFEVIHDFVFDRTRSVRQDLIMQNIVNDKAINM 82 (308)
Q Consensus 4 ~~~~~~VK~Y~RsaA~~~-~~P~~vRp~~vL~kT~~yL~~~~~~~~~~~~~~y~Fi~DRlRaIRQDl~vQ~i~~~~~v~v 82 (308)
.++.+|||.|.|+|||+. +.|+|||||+||++|+|||+..+.. .++...|.|+|||+||||||+|+||..+.+||.|
T Consensus 107 a~~~lAvKay~RPAAgk~p~LPsDVRPp~VLvktidylv~~c~~--d~l~e~~~Fv~drtRavrqDftiQN~~g~dAV~c 184 (646)
T COG5079 107 ASRTLAVKAYHRPAAGKHPELPSDVRPPEVLVKTIDYLVKLCAG--DQLIEMHRFVRDRTRAVRQDFTIQNEKGKDAVEC 184 (646)
T ss_pred cchhhHHHHhcCccccCCCCCcccCCChHHHHHHHHHHHHHhcC--cchHHHHHHHHhhhHHHHhhceeecccCchHHHH
Confidence 467888999999999994 4899999999999999999966643 3567899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhhhhcCCCCCCChhhhhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCCCchhh
Q 021722 83 FEKIVKFHVISHHKLRSSCSSSSISPLHYLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNGQPVGE 162 (308)
Q Consensus 83 lE~~~Rf~i~~~~~l~~~~~~~~f~~~~~~n~~ql~~cl~~L~~lY~~~~~~~~~~~ne~Ef~~Y~iL~~l~~~~~~~~~ 162 (308)
+|+++||||++.|.||..+ +|+ .+|++|||.+.|.+|.++|++++..+..|+||+||+||.||.+|+|+.- +.
T Consensus 185 ~EriaRfhIl~lh~L~~~p---~Fs--~qqeleQL~ksL~sL~elYdd~r~~~~~cpneaEFraYaiL~slgDp~y--v~ 257 (646)
T COG5079 185 HERIARFHILFLHLLHDHP---HFS--KQQELEQLKKSLASLIELYDDGRAGKKECPNEAEFRAYAILASLGDPRY--VA 257 (646)
T ss_pred HHHHHHHHHHHHHHHhcCc---ccc--HHhHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhCCchh--hh
Confidence 9999999999999999875 788 4799999999999999999999999899999999999999999998752 32
Q ss_pred hHHHHhhhCChhhhcCHhHHHHHHHHHHHHhCC---------------HHHHHHHHHh-cccHHHHHHHhHhHHHHHHHH
Q 021722 163 SLSLWFRHVPSPIIKSKEMWFARQALRYFQMGN---------------YRRFLSTVAA-EASYLQYCIIEPYIDEVRSLA 226 (308)
Q Consensus 163 ~l~~~l~~l~~~i~~s~~v~~Al~v~~a~~~~N---------------y~rfFkLl~~-~~~~L~~cl~~~~~~~vR~~a 226 (308)
.. +.+|..++..+.|+.|+++.+-.+.|| |.|||+++.+ +++|||+|+++.|+..+|..|
T Consensus 258 ~i----q~wp~~if~d~~vq~alkl~~laq~nn~r~~~~rnteac~nlytrFfkl~qSpsv~~lmg~lle~h~~sir~~a 333 (646)
T COG5079 258 GI----QGWPGGIFCDLPVQIALKLMQLAQSNNFRLLGRRNTEACFNLYTRFFKLIQSPSVQYLMGCLLEKHNISIRGGA 333 (646)
T ss_pred cc----ccCCccccccchHHHHHHHHHHhhccCeeeccccchhhhhHHHHHHHHHHhCccHHHHHHHHHHHhhHHHHHHH
Confidence 23 456999999999999999998887777 7899999876 899999999999999999999
Q ss_pred HHHHHhhhcC--CCCcCHHHHHHHhcCCc-hHHHHHHHHhCCeecccCCCcc
Q 021722 227 LCCIHNCCYK--LHPYPLGHLSKVLMMEE-SDVELFCNAYGLQTCIDEVGNK 275 (308)
Q Consensus 227 L~~i~~a~yk--~~~ipl~~L~~~L~f~~-~e~~~f~~~~Gl~~~~d~~g~~ 275 (308)
|..|.++ +. ..++|..++..+|.|++ +|+++||+.||+++..+.+|++
T Consensus 334 LkAm~k~-~~sahk~ipf~~l~~il~f~~~~e~~efckyy~lei~~ed~~~l 384 (646)
T COG5079 334 LKAMEKE-IESAHKNIPFVDLSGILDFEEKGEGEEFCKYYGLEIRIEDSVKL 384 (646)
T ss_pred HHHHHHH-HHHhhcCCCeehhhhhccccccchhHHHhhhcceeeeccccccc
Confidence 9999884 41 23799999999999996 7899999999999975555655
No 3
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=100.00 E-value=5.4e-49 Score=369.80 Aligned_cols=236 Identities=22% Similarity=0.341 Sum_probs=207.5
Q ss_pred cccccCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHcCCCCCcchhhhhhhhhhhhhhhhhhhhhcCCchhHHHHHHHHHH
Q 021722 10 PLLLKRTMSAKEVRASDVRPLPVLEETLNYLLSLLDSTEHPFEVIHDFVFDRTRSVRQDLIMQNIVNDKAINMFEKIVKF 89 (308)
Q Consensus 10 VK~Y~RsaA~~~~~P~~vRp~~vL~kT~~yL~~~~~~~~~~~~~~y~Fi~DRlRaIRQDl~vQ~i~~~~~v~vlE~~~Rf 89 (308)
.|.|+|+|++ |+|+.|||++||++++.-|..++..+ ..|.|++|||||||||||||+|+++|+|+|||+
T Consensus 285 EKsyLRLTsA--PdPstVRP~~VL~ksL~~vkdk~k~~-----~~Y~y~CdQ~KSiRQDLTVQ~IrneFTveVYEt---- 353 (540)
T KOG1861|consen 285 EKSYLRLTSA--PDPSTVRPLEVLKKSLCLVKDKWKAK-----ANYAYLCDQFKSIRQDLTVQRIRNEFTVEVYET---- 353 (540)
T ss_pred HHhHhhhccC--CCccccCCHHHHHHHHHHHHHHHHhh-----ccHHHHHHHHHHHhhhhhhheeccceeeeeehh----
Confidence 5999999998 78999999999999999999999764 579999999999999999999999999999999
Q ss_pred HHHHHhhhhhcCCCCCCChhhhhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCCCchhhhHHHHhh
Q 021722 90 HVISHHKLRSSCSSSSISPLHYLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNGQPVGESLSLWFR 169 (308)
Q Consensus 90 ~i~~~~~l~~~~~~~~f~~~~~~n~~ql~~cl~~L~~lY~~~~~~~~~~~ne~Ef~~Y~iL~~l~~~~~~~~~~l~~~l~ 169 (308)
|+|++.+++ |+++||||+++|+.||.+. + ..+-.||.||+|||.+-..+. .+ +...++
T Consensus 354 ----HARIALEkG----------D~~EfNQCQtQLk~LY~eg----i-pg~~~EF~AYriLY~i~tkN~--~d-i~sll~ 411 (540)
T KOG1861|consen 354 ----HARIALEKG----------DLEEFNQCQTQLKALYSEG----I-PGAYLEFTAYRILYYIFTKNY--PD-ILSLLR 411 (540)
T ss_pred ----hhHHHHhcC----------CHHHHHHHHHHHHHHHccC----C-CCchhhHHHHHHHHHHHhcCc--hH-HHHHHH
Confidence 666777765 6899999999999999653 2 334899999999998643332 12 234578
Q ss_pred hCChhhhcCHhHHHHHHHHHHHHhCCHHHHHHHHHhcccHHHHHHHhHhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHh
Q 021722 170 HVPSPIIKSKEMWFARQALRYFQMGNYRRFLSTVAAEASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVL 249 (308)
Q Consensus 170 ~l~~~i~~s~~v~~Al~v~~a~~~~Ny~rfFkLl~~~~~~L~~cl~~~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L 249 (308)
.|+.|++.++.|.+||+|+.|+..|||++||+| +..+|.|..|||+.|+.+.|..||.+|+| +|++ .||+++|++.|
T Consensus 412 ~lt~E~ked~~V~hAL~vR~A~~~GNY~kFFrL-Y~~AP~M~~yLmdlF~erER~~Al~ii~K-syrP-~i~~~fi~~~l 488 (540)
T KOG1861|consen 412 DLTEEDKEDEAVAHALEVRSAVTLGNYHKFFRL-YLTAPNMSGYLMDLFLERERKKALTIICK-SYRP-TITVDFIASEL 488 (540)
T ss_pred hccHhhccCHHHHHHHHHHHHHHhccHHHHHHH-HhhcccchhHHHHHHHHHHHHHHHHHHHH-HcCC-CccHHHHhhhh
Confidence 899999999999999999999999999999996 67999999999999999999999999999 6997 59999999999
Q ss_pred cCCc-hHHHHHHHHhCCeecccCCCcccccCCCCc
Q 021722 250 MMEE-SDVELFCNAYGLQTCIDEVGNKLLPTKQTT 283 (308)
Q Consensus 250 ~f~~-~e~~~f~~~~Gl~~~~d~~g~~~l~~k~~~ 283 (308)
.|++ ++|.+|++++|++- |..|..+++++.+.
T Consensus 489 af~~~e~c~~~l~~~~~~~--~~~g~~~~~~~~~s 521 (540)
T KOG1861|consen 489 AFDSMEDCVNFLNEQNLTY--DSLGPQILDKNASS 521 (540)
T ss_pred hhchHHHHHHHHhccCccc--cccCCccccccccc
Confidence 9997 77999999999775 66788888766544
No 4
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=100.00 E-value=2.9e-48 Score=341.91 Aligned_cols=201 Identities=39% Similarity=0.615 Sum_probs=161.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHcCCCCCcchhhhhhhhhhhhhhhhhhhhhcCCchhHHHHHHHHHHHHHHHhhhhhc
Q 021722 21 EVRASDVRPLPVLEETLNYLLSLLDSTEHPFEVIHDFVFDRTRSVRQDLIMQNIVNDKAINMFEKIVKFHVISHHKLRSS 100 (308)
Q Consensus 21 ~~~P~~vRp~~vL~kT~~yL~~~~~~~~~~~~~~y~Fi~DRlRaIRQDl~vQ~i~~~~~v~vlE~~~Rf~i~~~~~l~~~ 100 (308)
+|+|++|||++||++|++||++++ ++.++|+|||||+||||||+++||+.+++++.|||.+|||+|.+
T Consensus 2 ~p~p~~vRp~~vL~~t~~~l~~~~-----~~~~~y~fi~drlRsiRqDl~vQ~~~~~~~i~v~E~~ar~~i~~------- 69 (204)
T PF03399_consen 2 EPNPSDVRPPEVLKKTLNYLLRKI-----PFKDDYNFIWDRLRSIRQDLTVQNIENDFAIKVYERIARFAIES------- 69 (204)
T ss_dssp ---------HHHHHHHHHHHHHHT-----CCCCHHHHHHHHHHHHHHHHHHTT--SHHHHHHHHHHHHHHHHH-------
T ss_pred CCChHhCCCHHHHHHHHHHHHHHh-----hhhhhhHHHHHHhHHHHhhHHHHhcCCHHHHHHHHHHHHHHhhc-------
Confidence 468999999999999999999998 34579999999999999999999999999999999999999988
Q ss_pred CCCCCCChhhhhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCC-CCchhhhHHHHhhhCChhhhcCH
Q 021722 101 CSSSSISPLHYLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSN-GQPVGESLSLWFRHVPSPIIKSK 179 (308)
Q Consensus 101 ~~~~~f~~~~~~n~~ql~~cl~~L~~lY~~~~~~~~~~~ne~Ef~~Y~iL~~l~~~-~~~~~~~l~~~l~~l~~~i~~s~ 179 (308)
.|.+||++|+++|+++|++.+. +.+++|++||.||+||+++.++ .+. +...+..+|++++++|
T Consensus 70 -----------~d~~qf~~c~~~L~~lY~~~~~-~~~~~~~~ef~~y~lL~~l~~~~~~~----~~~~l~~l~~~~~~~~ 133 (204)
T PF03399_consen 70 -----------GDLEQFNQCLSQLKELYDDLRD-LPPSPNEAEFIAYYLLYLLCQNNIPD----FHMELELLPSEILSSP 133 (204)
T ss_dssp -----------HHHHHHHHHHHHHHHHHHHHHH-T---TTHHHHHHHHHHHTT-T---TH----HHHHHTTS-HHHHTSH
T ss_pred -----------CCHHHHHHHHHHHHHHHHhhcc-CCCCCCHHHHHHHHHHHHHHcccchH----HHHHHHHCchhhhcCH
Confidence 1588999999999999999743 5578999999999999998443 222 3344567899999999
Q ss_pred hHHHHHHHHHHHHhCCHHHHHHHHH-hcccHHHHHHHhHhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcC
Q 021722 180 EMWFARQALRYFQMGNYRRFLSTVA-AEASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMM 251 (308)
Q Consensus 180 ~v~~Al~v~~a~~~~Ny~rfFkLl~-~~~~~L~~cl~~~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f 251 (308)
.|++|++|.+|+..|||++||+++. +.+|++++|+++.+++.||..||++|++ +|++ ++|++.+++||+|
T Consensus 134 ~i~~al~l~~a~~~gny~~ff~l~~~~~~~~l~~~l~~~~~~~iR~~al~~i~~-ay~~-~i~l~~l~~~L~F 204 (204)
T PF03399_consen 134 YIQFALELCRALMEGNYVRFFRLYRSKSAPYLFACLMERFFNRIRLRALQSISK-AYRS-SIPLSFLAELLGF 204 (204)
T ss_dssp HHHHHHHHHHHH--TTHHHHHHHHT-TTS-HHHHHHHGGGHHHHHHHHHHHHHH-HS-T--EEHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHhccCCChHHHHHHHHHHHHHHHHHHHHHHH-HcCC-CCCHHHHHHHcCC
Confidence 9999999999999999999999762 4899999999999999999999999998 6874 5999999999997
No 5
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=99.24 E-value=6.1e-11 Score=98.96 Aligned_cols=129 Identities=19% Similarity=0.277 Sum_probs=90.8
Q ss_pred HHHHHHHHHHHhhcCCCCchhhhHHHHhhhCChhhhcC-HhHHHHHHHHHHHHhCCHHHHHHHHHh-cccHHHHHHHhHh
Q 021722 141 EAEFRSFYVLLHLDSNGQPVGESLSLWFRHVPSPIIKS-KEMWFARQALRYFQMGNYRRFLSTVAA-EASYLQYCIIEPY 218 (308)
Q Consensus 141 e~Ef~~Y~iL~~l~~~~~~~~~~l~~~l~~l~~~i~~s-~~v~~Al~v~~a~~~~Ny~rfFkLl~~-~~~~L~~cl~~~~ 218 (308)
.+++.+-.++..|-+.+. .+ ....+.++|.++..+ |.|+..+.|.++++.++|.+|+..+++ ..+.-..-.+..+
T Consensus 3 ~~~~~~~~Ll~~L~~~~~--~d-f~~~~~rip~~~~~~~~~i~~i~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 79 (143)
T PF10075_consen 3 NPEIYALILLKYLMQNDL--SD-FRLLWKRIPEELKQSDPEIKAIWSLGQALWEGDYSKFWQALRSNPWSPDYKPFVPGF 79 (143)
T ss_dssp -HHHHHHHHHHHHHTTTS--TH-HHHHHHTS-HHHHTS-TTHHHHHHHHHHHHTT-HHHHHHHS-TT----HHHHTSTTH
T ss_pred chhHHHHHHHHHHHcCCc--hH-HHHHHHcCCHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHhccchHHHHHHHHHH
Confidence 467777766666644432 22 223357899999995 999999999999999999999997754 2233445557778
Q ss_pred HHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHHHHHhCCeecccCCCcccc
Q 021722 219 IDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNAYGLQTCIDEVGNKLL 277 (308)
Q Consensus 219 ~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f~~~~Gl~~~~d~~g~~~l 277 (308)
...+|.+++..+.+ +|. +|+++.++++||++++|+.++|+..||++ |++|..+.
T Consensus 80 ~~~iR~~i~~~i~~-aY~--sIs~~~la~~Lg~~~~el~~~~~~~gW~~--d~~~~~~~ 133 (143)
T PF10075_consen 80 EDTIRERIAHLISK-AYS--SISLSDLAEMLGLSEEELEKFIKSRGWTV--DGDGVLFP 133 (143)
T ss_dssp HHHHHHHHHHHHHH-H-S--EE-HHHHHHHTTS-HHHHHHHHHHHT-EE-------EE-
T ss_pred HHHHHHHHHHHHHH-HHh--HcCHHHHHHHhCCCHHHHHHHHHHcCCEE--CCCccEEe
Confidence 88999999999998 697 79999999999999889999999999999 44566554
No 6
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=2.7e-05 Score=69.06 Aligned_cols=166 Identities=15% Similarity=0.237 Sum_probs=128.3
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhcCCCCCCChhhhhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCC
Q 021722 78 KAINMFEKIVKFHVISHHKLRSSCSSSSISPLHYLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNG 157 (308)
Q Consensus 78 ~~v~vlE~~~Rf~i~~~~~l~~~~~~~~f~~~~~~n~~ql~~cl~~L~~lY~~~~~~~~~~~ne~Ef~~Y~iL~~l~~~~ 157 (308)
.+-+|||..|=.-|.. -|.+.|..-+.+|+..|-+....=..+++.--+.+..+|+-|..+.
T Consensus 54 ~aR~ilEi~vl~SI~t------------------~D~~sFerY~~Qlk~YY~d~~~~l~~S~~~~~l~GLnLL~LLsqNR 115 (260)
T KOG3151|consen 54 IARDILEIGVLLSILT------------------KDFESFERYMNQLKPYYFDYNEKLSESEKKHKLLGLNLLYLLSQNR 115 (260)
T ss_pred HHHHHHHHHHHHHHHh------------------ccHHHHHHHHHHhcchhcccccccCcchhhhHHHHHHHHHHHHhcc
Confidence 4678899855333322 2567889999999999988754333567888899999998886665
Q ss_pred CchhhhHHHHhhhCChhhhcC-HhHHHHHHHHHHHHhCCHHHHHHHHHhcccH-HHHHHHhHhHHHHHHHHHHHHHhhhc
Q 021722 158 QPVGESLSLWFRHVPSPIIKS-KEMWFARQALRYFQMGNYRRFLSTVAAEASY-LQYCIIEPYIDEVRSLALCCIHNCCY 235 (308)
Q Consensus 158 ~~~~~~l~~~l~~l~~~i~~s-~~v~~Al~v~~a~~~~Ny~rfFkLl~~~~~~-L~~cl~~~~~~~vR~~aL~~i~~a~y 235 (308)
.+ + +-.-+..+|..++.+ |.|++++++=+.++.|-|-+.+... +++|. .-...|+.-...+|...-..+-+ +|
T Consensus 116 ia--e-FHteLe~lp~~~l~~~~~I~~~v~LEq~~MEGaYnKv~~a~-~s~p~~~y~~FmdIl~~tiRdEIA~c~EK-sY 190 (260)
T KOG3151|consen 116 IA--E-FHTELELLPKKILQHNPYISHPVSLEQSLMEGAYNKVLSAK-QSIPSEEYTYFMDILLDTIRDEIAGCIEK-SY 190 (260)
T ss_pred HH--H-HHHHHHhccHHHhhccchhhhHHHHHHHHHhhHHHHHHHHH-hcCCcHHHHHHHHHHHHHHHHHHHHHHHH-HH
Confidence 22 1 333467889888877 9999999999999999999999865 46663 23445666677799988888888 68
Q ss_pred CCCCcCHHHHHHHhcCC-chHHHHHHHHhCCeec
Q 021722 236 KLHPYPLGHLSKVLMME-ESDVELFCNAYGLQTC 268 (308)
Q Consensus 236 k~~~ipl~~L~~~L~f~-~~e~~~f~~~~Gl~~~ 268 (308)
. .+|++..+.+|+|+ ++|...|..+-+|.+.
T Consensus 191 d--~l~~s~a~~~L~f~~~~e~~~~~~~r~W~l~ 222 (260)
T KOG3151|consen 191 D--KLSASDATQMLLFNNDKELKKFATERQWPLD 222 (260)
T ss_pred h--hcCHHHHHHHHhcCChHHHHHHHHhcCCccc
Confidence 7 69999999999999 5789999999999984
No 7
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.90 E-value=6e-05 Score=62.24 Aligned_cols=105 Identities=18% Similarity=0.221 Sum_probs=84.8
Q ss_pred HHhhhCChhhhc-CHhHHHHHHHHHHHHhCCHHHHHHHHHh-cccHHHHHHHhHhHHHHHHHHHHHHHhhhcCCCCcCHH
Q 021722 166 LWFRHVPSPIIK-SKEMWFARQALRYFQMGNYRRFLSTVAA-EASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLG 243 (308)
Q Consensus 166 ~~l~~l~~~i~~-s~~v~~Al~v~~a~~~~Ny~rfFkLl~~-~~~~L~~cl~~~~~~~vR~~aL~~i~~a~yk~~~ipl~ 243 (308)
.| +++|+.|+. .|++--||.|.+.+|+.+|...+..++. .-+--..-+|..+-..-|.+++..+.+ +|. +|...
T Consensus 61 LW-KRIP~AIKe~k~El~aaWgiGQkiWq~Df~GiYeaI~~~dWSeeak~imaAf~D~~~kR~FaLl~q-AYs--sI~~~ 136 (197)
T KOG4414|consen 61 LW-KRIPPAIKEAKPELGAAWGIGQKIWQHDFAGIYEAINAHDWSEEAKDIMAAFRDATRKRAFALLLQ-AYS--SIIAD 136 (197)
T ss_pred HH-HhCCHHHhhcCchhhhhhhhhHHHHhcccchHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHH-HHH--HHHHH
Confidence 46 789999986 5899999999999999999999988763 233333444444455589999999987 687 69999
Q ss_pred HHHHHhcCCchHHHHHHHHhCCeecccCCCccc
Q 021722 244 HLSKVLMMEESDVELFCNAYGLQTCIDEVGNKL 276 (308)
Q Consensus 244 ~L~~~L~f~~~e~~~f~~~~Gl~~~~d~~g~~~ 276 (308)
+++-.||+.++|+....-+.||+. |....+.
T Consensus 137 D~A~FlGl~~ddAtk~ilEnGWqa--DaasqMa 167 (197)
T KOG4414|consen 137 DFAAFLGLPEDDATKGILENGWQA--DAASQMA 167 (197)
T ss_pred HHHHHhCCCHHHHHHHHHHcccch--hhHHHHh
Confidence 999999999999999999999998 4455554
No 8
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=96.37 E-value=0.042 Score=42.22 Aligned_cols=74 Identities=20% Similarity=0.314 Sum_probs=54.8
Q ss_pred HHHHHHHHhCCHHHHHHHHHhcccHHH-----HHHHhHhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHH
Q 021722 185 RQALRYFQMGNYRRFLSTVAAEASYLQ-----YCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELF 259 (308)
Q Consensus 185 l~v~~a~~~~Ny~rfFkLl~~~~~~L~-----~cl~~~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f 259 (308)
.++.+++..||+..|...+.+....+. .-.+......+|..+|..+.+ .|+ +++++.+++.|+++.+|++.+
T Consensus 4 ~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~-~y~--~i~~~~ia~~l~~~~~~vE~~ 80 (105)
T PF01399_consen 4 SELLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSK-PYS--SISISEIAKALQLSEEEVESI 80 (105)
T ss_dssp HHHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHH-C-S--EEEHHHHHHHHTCCHHHHHHH
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHH-Hhc--ccchHHHHHHhccchHHHHHH
Confidence 357789999999999998864312211 235566677899999999988 677 799999999999998776666
Q ss_pred HH
Q 021722 260 CN 261 (308)
Q Consensus 260 ~~ 261 (308)
+.
T Consensus 81 l~ 82 (105)
T PF01399_consen 81 LI 82 (105)
T ss_dssp HH
T ss_pred HH
Confidence 44
No 9
>KOG3252 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.90 E-value=0.037 Score=47.66 Aligned_cols=101 Identities=17% Similarity=0.234 Sum_probs=79.0
Q ss_pred CChhhhcCHhHHHHHHHHHHHHhCCHHHHHHHHHhcccHHHHHHHhHhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhc
Q 021722 171 VPSPIIKSKEMWFARQALRYFQMGNYRRFLSTVAAEASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLM 250 (308)
Q Consensus 171 l~~~i~~s~~v~~Al~v~~a~~~~Ny~rfFkLl~~~~~~L~~cl~~~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~ 250 (308)
+++....+..++..+.+...+.++||..|+...... +.| ---+..|-..+|..|=..+.- .|. .|+-..|+++||
T Consensus 88 i~~~~~~ee~~r~ii~L~~~LEt~~Fq~FW~~~~~N-~~m-le~itGFedsvr~yachvv~i-TyQ--kI~k~lLaellG 162 (217)
T KOG3252|consen 88 IDERVQMEEPFRSIIDLGDYLETCRFQQFWQEADEN-RDM-LEGITGFEDSVRKYACHVVGI-TYQ--KIDKWLLAELLG 162 (217)
T ss_pred cCHHHhcccchhHHHhHHHHHhhchHHHHhhhhccc-hHH-hcCCCcHHHHHHHHHHHheec-hHh--hchHHHHHHhhC
Confidence 677777888999999999999999999999854322 221 122445667788888777765 464 699999999999
Q ss_pred CC-chHHHHHHHHhCCeecccCCCccccc
Q 021722 251 ME-ESDVELFCNAYGLQTCIDEVGNKLLP 278 (308)
Q Consensus 251 f~-~~e~~~f~~~~Gl~~~~d~~g~~~l~ 278 (308)
-. |++.+.+.+.+||.. +++|..+++
T Consensus 163 ~~sDs~le~~~~~~GW~a--~e~G~ifv~ 189 (217)
T KOG3252|consen 163 GLSDSQLEVWMTKYGWIA--DESGQIFVA 189 (217)
T ss_pred cccHHHHHHHHHHcccee--cCCceEEEe
Confidence 65 789999999999998 678877775
No 10
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=94.74 E-value=3 Score=38.74 Aligned_cols=142 Identities=18% Similarity=0.265 Sum_probs=99.7
Q ss_pred hhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhh--cCCCCchhhhHHHHhhhCChhhhcCHhHHHHHHHH
Q 021722 111 YLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHL--DSNGQPVGESLSLWFRHVPSPIIKSKEMWFARQAL 188 (308)
Q Consensus 111 ~~n~~ql~~cl~~L~~lY~~~~~~~~~~~ne~Ef~~Y~iL~~l--~~~~~~~~~~l~~~l~~l~~~i~~s~~v~~Al~v~ 188 (308)
|+--+++.+.-+...+.+.-...+| +|.+.-..-|.+|.++ .+.-..+ + .+--...+++|+|--.-.+.
T Consensus 241 Hlreg~fe~AhTDFFEAFKNYDEsG--spRRttCLKYLVLANMLmkS~iNPF-D------sQEAKPyKNdPEIlAMTnlv 311 (440)
T KOG1464|consen 241 HLREGEFEKAHTDFFEAFKNYDESG--SPRRTTCLKYLVLANMLMKSGINPF-D------SQEAKPYKNDPEILAMTNLV 311 (440)
T ss_pred ccccchHHHHHhHHHHHHhcccccC--CcchhHHHHHHHHHHHHHHcCCCCC-c------ccccCCCCCCHHHHHHHHHH
Confidence 5667788888888877755444444 6788888889888775 2211000 0 01112356789998888999
Q ss_pred HHHHhCCHHHHHHHHHhc------ccHHHHHHHhHhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHHHHH
Q 021722 189 RYFQMGNYRRFLSTVAAE------ASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNA 262 (308)
Q Consensus 189 ~a~~~~Ny~rfFkLl~~~------~~~L~~cl~~~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f~~~ 262 (308)
.|++.++...|=+++++. .|++- --++-.+..+|.+.|-.+.+ .|. .|-+.++++-|..+..|..+++-.
T Consensus 312 ~aYQ~NdI~eFE~Il~~~~~~IM~DpFIR-eh~EdLl~niRTQVLlkLIk-PYt--~i~Ipfis~~Lnv~~~dV~~LLV~ 387 (440)
T KOG1464|consen 312 AAYQNNDIIEFERILKSNRSNIMDDPFIR-EHIEDLLRNIRTQVLLKLIK-PYT--NIGIPFISKELNVPEADVESLLVS 387 (440)
T ss_pred HHHhcccHHHHHHHHHhhhccccccHHHH-HHHHHHHHHHHHHHHHHHhc-ccc--ccCchhhHhhcCCCHHHHHHHHHH
Confidence 999999999999988753 33333 33455577899999888887 587 588889999999988777777766
Q ss_pred hCC
Q 021722 263 YGL 265 (308)
Q Consensus 263 ~Gl 265 (308)
+=+
T Consensus 388 ~IL 390 (440)
T KOG1464|consen 388 CIL 390 (440)
T ss_pred HHh
Confidence 533
No 11
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=87.59 E-value=1.6 Score=32.51 Aligned_cols=42 Identities=21% Similarity=0.304 Sum_probs=34.0
Q ss_pred HhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHHHH
Q 021722 217 PYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCN 261 (308)
Q Consensus 217 ~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f~~ 261 (308)
.....+|..++..+++ .|+ .++++.+++.++++.++++.++.
T Consensus 5 ~l~~~~~~~~l~~l~~-~y~--~i~~~~i~~~~~l~~~~vE~~i~ 46 (88)
T smart00088 5 RLQRKIRLTNLLQLSE-PYS--SISLSDLAKLLGLSVPEVEKLVS 46 (88)
T ss_pred HHHHHHHHHHHHHHhH-Hhc--eeeHHHHHHHhCcCHHHHHHHHH
Confidence 3456799999999998 687 69999999999999766655544
No 12
>smart00753 PAM PCI/PINT associated module.
Probab=87.59 E-value=1.6 Score=32.51 Aligned_cols=42 Identities=21% Similarity=0.304 Sum_probs=34.0
Q ss_pred HhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHHHH
Q 021722 217 PYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCN 261 (308)
Q Consensus 217 ~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f~~ 261 (308)
.....+|..++..+++ .|+ .++++.+++.++++.++++.++.
T Consensus 5 ~l~~~~~~~~l~~l~~-~y~--~i~~~~i~~~~~l~~~~vE~~i~ 46 (88)
T smart00753 5 RLQRKIRLTNLLQLSE-PYS--SISLSDLAKLLGLSVPEVEKLVS 46 (88)
T ss_pred HHHHHHHHHHHHHHhH-Hhc--eeeHHHHHHHhCcCHHHHHHHHH
Confidence 3456799999999998 687 69999999999999766655544
No 13
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=87.35 E-value=20 Score=34.16 Aligned_cols=96 Identities=23% Similarity=0.280 Sum_probs=66.1
Q ss_pred hhhhcCHhHHHHH-------HHHHHHHhCCHHHHHHHHHhc-ccHHH-----HHHHhHhHHHHHHHHHHHHHhhhcCCCC
Q 021722 173 SPIIKSKEMWFAR-------QALRYFQMGNYRRFLSTVAAE-ASYLQ-----YCIIEPYIDEVRSLALCCIHNCCYKLHP 239 (308)
Q Consensus 173 ~~i~~s~~v~~Al-------~v~~a~~~~Ny~rfFkLl~~~-~~~L~-----~cl~~~~~~~vR~~aL~~i~~a~yk~~~ 239 (308)
..+.++|+|.-.+ +...++-.-||..||..|..- +.-|. .--...|...||.++-..+-- +|| +
T Consensus 241 tKVi~~~Evl~vl~~l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlLE-SYr--s 317 (393)
T KOG0687|consen 241 TKVIKCPEVLEVLHKLPSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLLE-SYR--S 317 (393)
T ss_pred hhhcCcHHHHHHhhcCchHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHHH-HHH--H
Confidence 4455667665433 445677889999999977531 22222 222355777899999988876 698 6
Q ss_pred cCHHHHHHHhcCCc----hHHHHHHHHhCCeecccC
Q 021722 240 YPLGHLSKVLMMEE----SDVELFCNAYGLQTCIDE 271 (308)
Q Consensus 240 ipl~~L~~~L~f~~----~e~~~f~~~~Gl~~~~d~ 271 (308)
++++.+++-+|.+- .|...|.-.--|.+..|.
T Consensus 318 l~l~~MA~aFgVSVefiDreL~rFI~~grL~ckIDr 353 (393)
T KOG0687|consen 318 LTLESMAKAFGVSVEFIDRELGRFIAAGRLHCKIDR 353 (393)
T ss_pred HHHHHHHHHhCchHHHHHhHHHHhhccCceeeeeec
Confidence 99999999999873 578888876655554455
No 14
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=84.39 E-value=5.8 Score=38.64 Aligned_cols=112 Identities=14% Similarity=0.118 Sum_probs=64.9
Q ss_pred hhcCHh----HHHHHHHHHHHHhCCHHHHHHHHHhcccHHHHHHHhHhHHHHHHH----HHHHHHhhhcCCCCcCHHHHH
Q 021722 175 IIKSKE----MWFARQALRYFQMGNYRRFLSTVAAEASYLQYCIIEPYIDEVRSL----ALCCIHNCCYKLHPYPLGHLS 246 (308)
Q Consensus 175 i~~s~~----v~~Al~v~~a~~~~Ny~rfFkLl~~~~~~L~~cl~~~~~~~vR~~----aL~~i~~a~yk~~~ipl~~L~ 246 (308)
++..|. ++.=+++.+|+..||-.+|=.-+.+-.+-+++-=....+-++|+. +++.|.- +|+ .|++.+++
T Consensus 308 ~F~Qp~~~ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISl-sYS--RISl~DIA 384 (493)
T KOG2581|consen 308 VFRQPGMRKSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISL-SYS--RISLQDIA 384 (493)
T ss_pred hhcCccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheee-eee--eccHHHHH
Confidence 445563 444456778999999999988665423333221111222234444 4556655 576 69999999
Q ss_pred HHhcCCchHHHHHHH----HhCCeec--ccCCCcccccCCCCcccCCCCCC
Q 021722 247 KVLMMEESDVELFCN----AYGLQTC--IDEVGNKLLPTKQTTFCRPKGGL 291 (308)
Q Consensus 247 ~~L~f~~~e~~~f~~----~~Gl~~~--~d~~g~~~l~~k~~~f~~~~~~~ 291 (308)
..|+.+++|..||+- +-|+.-. .+++| ++..|.+...-.+.++
T Consensus 385 ~kL~l~Seed~EyiVakAIRDGvIea~Id~~~g--~m~skE~~diy~t~ep 433 (493)
T KOG2581|consen 385 KKLGLNSEEDAEYIVAKAIRDGVIEAKIDHEDG--FMQSKETFDIYSTREP 433 (493)
T ss_pred HHhcCCCchhHHHHHHHHHHhccceeeeccccC--ceehhhhhhhhccCCc
Confidence 999999877656644 3355221 24445 5554544444444433
No 15
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=68.43 E-value=3.1 Score=32.58 Aligned_cols=22 Identities=14% Similarity=0.240 Sum_probs=16.8
Q ss_pred HhcCCc-hHHHHHHHHhCCeecc
Q 021722 248 VLMMEE-SDVELFCNAYGLQTCI 269 (308)
Q Consensus 248 ~L~f~~-~e~~~f~~~~Gl~~~~ 269 (308)
.|.|++ ++|+.||+.+|+....
T Consensus 52 ~l~F~skE~Ai~yaer~G~~Y~V 74 (101)
T PF04800_consen 52 RLKFDSKEDAIAYAERNGWDYEV 74 (101)
T ss_dssp EEEESSHHHHHHHHHHCT-EEEE
T ss_pred EeeeCCHHHHHHHHHHcCCeEEE
Confidence 357886 6799999999998754
No 16
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=66.78 E-value=14 Score=34.69 Aligned_cols=104 Identities=18% Similarity=0.184 Sum_probs=68.6
Q ss_pred HHHHHHHHhCCHHHHHHHH-HhcccHHHHHH-----HhHhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCc----h
Q 021722 185 RQALRYFQMGNYRRFLSTV-AAEASYLQYCI-----IEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEE----S 254 (308)
Q Consensus 185 l~v~~a~~~~Ny~rfFkLl-~~~~~~L~~cl-----~~~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~----~ 254 (308)
-++..++-.-||..||.-+ +--+..|+.|. ...|...||.++...+-- +|+ .++++.++.-+|.+- -
T Consensus 274 ~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQlLE-SYr--~lsl~sMA~tFgVSV~yvdr 350 (412)
T COG5187 274 VQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQLLE-SYR--LLSLESMAQTFGVSVEYVDR 350 (412)
T ss_pred HHHHHHHHHhccchhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHH-HHH--HhhHHHHHHHhCccHHHHhh
Confidence 3455667788999888743 32445555444 356788999999888876 688 688898999888773 3
Q ss_pred HHHHHHHHhCCeecccC-CCcccccCCCCcccCCCCCCccccchh
Q 021722 255 DVELFCNAYGLQTCIDE-VGNKLLPTKQTTFCRPKGGLQNYSFLG 298 (308)
Q Consensus 255 e~~~f~~~~Gl~~~~d~-~g~~~l~~k~~~f~~~~~~~~~~~~~~ 298 (308)
|.-+|.-.-.+....|- +|.+.. +.|.++-++++..+
T Consensus 351 DLg~FIp~~~LncvIDRvnGvVet-------nrpdekn~qy~~vV 388 (412)
T COG5187 351 DLGEFIPEGRLNCVIDRVNGVVET-------NRPDEKNQQYSSVV 388 (412)
T ss_pred hHHhhCCCCceeeeeecccceEec-------cCcchhhhhHHHHH
Confidence 57788765544333333 454432 45777766666544
No 17
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=65.40 E-value=14 Score=28.43 Aligned_cols=51 Identities=14% Similarity=0.078 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCch---HHHHHHHHhCCeecc
Q 021722 219 IDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEES---DVELFCNAYGLQTCI 269 (308)
Q Consensus 219 ~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~---e~~~f~~~~Gl~~~~ 269 (308)
+..++.+.|..|....-....++++.|++.|+++.. ++.++|..-|...++
T Consensus 45 ~~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~IYsT 98 (102)
T PF08784_consen 45 LSPLQDKVLNFIKQQPNSEEGVHVDEIAQQLGMSENEVRKALDFLSNEGHIYST 98 (102)
T ss_dssp S-HHHHHHHHHHHC----TTTEEHHHHHHHSTS-HHHHHHHHHHHHHTTSEEES
T ss_pred CCHHHHHHHHHHHhcCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHhCCeEecc
Confidence 455677777777541122457999999999999864 478889889997765
No 18
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=65.04 E-value=51 Score=31.56 Aligned_cols=85 Identities=20% Similarity=0.241 Sum_probs=58.9
Q ss_pred hHHHHHHHHHHHHhCCHHHHHHHHHh--cccHHHHHHHhHhHHHHHHHHHHHHHhhhc-CCCCcCHHHHHHHhcCCchHH
Q 021722 180 EMWFARQALRYFQMGNYRRFLSTVAA--EASYLQYCIIEPYIDEVRSLALCCIHNCCY-KLHPYPLGHLSKVLMMEESDV 256 (308)
Q Consensus 180 ~v~~Al~v~~a~~~~Ny~rfFkLl~~--~~~~L~~cl~~~~~~~vR~~aL~~i~~a~y-k~~~ipl~~L~~~L~f~~~e~ 256 (308)
..++-.++..|+..||..+|+++... ..|-|.+.- .....++|.-||--|+-+-. ...++|++.+++....+..|.
T Consensus 233 ~~eWL~dll~Afn~Gdl~~f~~l~~~~~~~p~L~~~e-~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~~eV 311 (380)
T KOG2908|consen 233 NREWLKDLLIAFNSGDLKRFESLKGVWGKQPDLASNE-DFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPNKEV 311 (380)
T ss_pred cHHHHHHHHHHhccCCHHHHHHHHHHhccCchHHHHH-HHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCHHHH
Confidence 45778889999999999999997543 455555433 22355688888877754210 124799999999999987665
Q ss_pred HHH-HHHhCC
Q 021722 257 ELF-CNAYGL 265 (308)
Q Consensus 257 ~~f-~~~~Gl 265 (308)
+-. +++.|+
T Consensus 312 E~LVMKAlsl 321 (380)
T KOG2908|consen 312 ELLVMKALSL 321 (380)
T ss_pred HHHHHHHHhc
Confidence 433 555555
No 19
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=64.37 E-value=12 Score=26.64 Aligned_cols=32 Identities=9% Similarity=0.297 Sum_probs=27.6
Q ss_pred CcCHHHHHHHhcCC--chHHHHHHHHhCCeeccc
Q 021722 239 PYPLGHLSKVLMME--ESDVELFCNAYGLQTCID 270 (308)
Q Consensus 239 ~ipl~~L~~~L~f~--~~e~~~f~~~~Gl~~~~d 270 (308)
.++.+.+.++||.+ ++++.+.|+..|+.+..+
T Consensus 5 ~~~~~~i~~llG~~i~~~ei~~~L~~lg~~~~~~ 38 (71)
T smart00874 5 TLRRERINRLLGLDLSAEEIEEILKRLGFEVEVS 38 (71)
T ss_pred EecHHHHHHHHCCCCCHHHHHHHHHHCCCeEEec
Confidence 47899999999987 477999999999998654
No 20
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=58.41 E-value=23 Score=23.59 Aligned_cols=38 Identities=11% Similarity=0.125 Sum_probs=31.4
Q ss_pred cCHHHHHHHhcCCc-hHHHHHHHHhCCeecccCCCcccc
Q 021722 240 YPLGHLSKVLMMEE-SDVELFCNAYGLQTCIDEVGNKLL 277 (308)
Q Consensus 240 ipl~~L~~~L~f~~-~e~~~f~~~~Gl~~~~d~~g~~~l 277 (308)
++-++|.++-|..- ..-.++|..+|+.+..+.+|.+.+
T Consensus 3 LT~~El~elTG~k~~~~Q~~~L~~~Gi~~~~~~~G~p~V 41 (47)
T PF13986_consen 3 LTDEELQELTGYKRPSKQIRWLRRNGIPFVVRADGRPIV 41 (47)
T ss_pred CCHHHHHHHHCCCCHHHHHHHHHHCCCeeEECCCCCEEe
Confidence 56678999999884 567899999999998888897765
No 21
>PF02042 RWP-RK: RWP-RK domain; InterPro: IPR003035 This domain is named RWP-RK after a conserved motif at the C terminus of the domain. The domain is found in algal minus dominance proteins as well as plant proteins involved in nitrogen-controlled development [].
Probab=57.47 E-value=26 Score=24.00 Aligned_cols=27 Identities=19% Similarity=0.381 Sum_probs=24.9
Q ss_pred cCHHHHHHHhcCCchHHHHHHHHhCCe
Q 021722 240 YPLGHLSKVLMMEESDVELFCNAYGLQ 266 (308)
Q Consensus 240 ipl~~L~~~L~f~~~e~~~f~~~~Gl~ 266 (308)
+|+.+.++.||+.......-|.++|+.
T Consensus 16 lp~~eAA~~Lgv~~T~LKr~CR~~GI~ 42 (52)
T PF02042_consen 16 LPIKEAAKELGVSVTTLKRRCRRLGIP 42 (52)
T ss_pred CCHHHHHHHhCCCHHHHHHHHHHcCCC
Confidence 899999999999988899999999975
No 22
>PF03683 UPF0175: Uncharacterised protein family (UPF0175); InterPro: IPR005368 This entry contains small proteins of unknown function.
Probab=56.27 E-value=33 Score=25.14 Aligned_cols=35 Identities=14% Similarity=0.163 Sum_probs=30.9
Q ss_pred hcCCCCcCHHHHHHHhcCCchHHHHHHHHhCCeec
Q 021722 234 CYKLHPYPLGHLSKVLMMEESDVELFCNAYGLQTC 268 (308)
Q Consensus 234 ~yk~~~ipl~~L~~~L~f~~~e~~~f~~~~Gl~~~ 268 (308)
.|+.+.+++..-++++|++-.+-.++|.++|+.+.
T Consensus 29 lY~~g~iS~gkAAelag~s~~eF~~~L~~~gI~~~ 63 (76)
T PF03683_consen 29 LYEEGKISLGKAAELAGMSRWEFLELLKERGIPIN 63 (76)
T ss_pred HHHcCCCCHHHHHHHhCCCHHHHHHHHHHCCCCCC
Confidence 46556899999999999998999999999999953
No 23
>KOG3389 consensus NADH:ubiquinone oxidoreductase, NDUFS4/18 kDa subunit [Energy production and conversion]
Probab=55.86 E-value=7.7 Score=32.24 Aligned_cols=58 Identities=19% Similarity=0.225 Sum_probs=35.2
Q ss_pred CcCHHHHHHHhcCCc-hHHHHHHHHhCCeecccCCCcccccCCCCcccCCCCCCccccchhhhhccc
Q 021722 239 PYPLGHLSKVLMMEE-SDVELFCNAYGLQTCIDEVGNKLLPTKQTTFCRPKGGLQNYSFLGFQQLGR 304 (308)
Q Consensus 239 ~ipl~~L~~~L~f~~-~e~~~f~~~~Gl~~~~d~~g~~~l~~k~~~f~~~~~~~~~~~~~~~~~~~~ 304 (308)
.=|++-+--.|.|+. ++|..||+.+||...-. +...-.++. +---++.||.+.-|.++
T Consensus 119 aDPlsNvgm~L~F~tkEdA~sFaEkngW~ydve-ep~~pk~K~-------KsYg~NFsWn~rtr~~t 177 (178)
T KOG3389|consen 119 ADPLSNVGMALAFDTKEDAKSFAEKNGWDYDVE-EPNTPKLKV-------KSYGDNFSWNGRTRPET 177 (178)
T ss_pred CCcccccceeeeeccHHHHHHHHHHcCCccccc-CCCCCcccc-------ccccccccccCCCCCCC
Confidence 456666666788985 67999999999997532 222222211 22234566776665543
No 24
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=53.19 E-value=19 Score=25.77 Aligned_cols=32 Identities=13% Similarity=0.223 Sum_probs=25.7
Q ss_pred CcCHHHHHHHhcCC--chHHHHHHHHhCCeeccc
Q 021722 239 PYPLGHLSKVLMME--ESDVELFCNAYGLQTCID 270 (308)
Q Consensus 239 ~ipl~~L~~~L~f~--~~e~~~f~~~~Gl~~~~d 270 (308)
.++.+.+.++||++ .++..+.++..|+.+...
T Consensus 5 ~~~~~~i~~~lG~~i~~~~i~~~L~~lg~~~~~~ 38 (70)
T PF03484_consen 5 TLSLDKINKLLGIDISPEEIIKILKRLGFKVEKI 38 (70)
T ss_dssp EEEHHHHHHHHTS---HHHHHHHHHHTT-EEEE-
T ss_pred EecHHHHHHHhCCCCCHHHHHHHHHHCCCEEEEC
Confidence 47899999999987 377999999999999763
No 25
>PF09759 Atx10homo_assoc: Spinocerebellar ataxia type 10 protein domain; InterPro: IPR019156 This is the conserved C-terminal 100 residues of Ataxin-10. Ataxin-10 belongs to the family of armadillo repeat proteins and in solution it tends to form homotrimeric complexes, which associate via a tip-to-tip association in a horseshoe-shaped contact with the concave sides of the molecules facing each other. This domain may represent the homo-association site since that is located near the C terminus of Ataxin-10. The protein does not contain a signal sequence for secretion or any subcellular compartment confirming its cytoplasmic localisation, specifically to the olivocerebellar region [].
Probab=50.59 E-value=27 Score=27.41 Aligned_cols=68 Identities=22% Similarity=0.189 Sum_probs=43.4
Q ss_pred HHHHHHHhHhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHHHHHhCCeecccCCCccccc
Q 021722 209 YLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNAYGLQTCIDEVGNKLLP 278 (308)
Q Consensus 209 ~L~~cl~~~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f~~~~Gl~~~~d~~g~~~l~ 278 (308)
-|..|..+.+-+.+|.+|+-.+..-.-. .-.-..+..-|--....-.+.+++.|+.+..|++|++.+-
T Consensus 33 iL~~c~iD~~nP~irEwai~aiRnL~e~--n~eNQ~~I~~L~~~~~~~~~~L~~~G~~v~~d~~Gk~~l~ 100 (102)
T PF09759_consen 33 ILSCCNIDDHNPFIREWAIFAIRNLCEG--NPENQEFIAQLEPQGVADNEELEELGLEVEIDKDGKVRLK 100 (102)
T ss_pred HHHhcCCCcccHHHHHHHHHHHHHHHhC--CHHHHHHHHhccccCCcchHHHHHcCCeEEEcCCCeEeee
Confidence 3566778889999999998887542111 2222223333332223445678889999998888988663
No 26
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=48.78 E-value=23 Score=22.80 Aligned_cols=27 Identities=7% Similarity=0.055 Sum_probs=21.1
Q ss_pred HHHHHHHhcCCchHHHHHHHHhCCeec
Q 021722 242 LGHLSKVLMMEESDVELFCNAYGLQTC 268 (308)
Q Consensus 242 l~~L~~~L~f~~~e~~~f~~~~Gl~~~ 268 (308)
+..+.++.|.+++.|..+|+.+||.+.
T Consensus 4 i~~F~~iTg~~~~~A~~~L~~~~wdle 30 (43)
T PF14555_consen 4 IAQFMSITGADEDVAIQYLEANNWDLE 30 (43)
T ss_dssp HHHHHHHH-SSHHHHHHHHHHTTT-HH
T ss_pred HHHHHHHHCcCHHHHHHHHHHcCCCHH
Confidence 456788888877889999999999874
No 27
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=45.60 E-value=83 Score=23.38 Aligned_cols=44 Identities=18% Similarity=0.171 Sum_probs=29.0
Q ss_pred HHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHHHHHh-CCeecccCCCcc
Q 021722 226 ALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNAY-GLQTCIDEVGNK 275 (308)
Q Consensus 226 aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f~~~~-Gl~~~~d~~g~~ 275 (308)
.|+.+++ +.|++++.|+.-+|.+.++....++.. +.+. |++|..
T Consensus 29 LLr~LA~----G~PVt~~~LA~a~g~~~e~v~~~L~~~p~tEy--D~~GrI 73 (77)
T PF12324_consen 29 LLRLLAK----GQPVTVEQLAAALGWPVEEVRAALAAMPDTEY--DDQGRI 73 (77)
T ss_dssp HHHHHTT----TS-B-HHHHHHHHT--HHHHHHHHHH-TTSEE--ETTSEE
T ss_pred HHHHHHc----CCCcCHHHHHHHHCCCHHHHHHHHHhCCCceE--cCCCCe
Confidence 4566643 559999999999999988888888765 5554 567765
No 28
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=44.18 E-value=2.6e+02 Score=26.79 Aligned_cols=74 Identities=20% Similarity=0.314 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHhcccHHHHHHH--hHhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHH
Q 021722 181 MWFARQALRYFQMGNYRRFLSTVAAEASYLQYCII--EPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVEL 258 (308)
Q Consensus 181 v~~Al~v~~a~~~~Ny~rfFkLl~~~~~~L~~cl~--~~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~ 258 (308)
|-..++|+..=...+|+.|..- .-.+++..-+ +....+||...|..++. - +..||.+.+++.|..+++|.+.
T Consensus 240 i~qLL~IF~s~~L~aYveF~~~---N~~Fvqs~gl~~E~~~~KMRLLTlm~LA~--e-s~eisy~~l~k~LqI~edeVE~ 313 (378)
T KOG2753|consen 240 IHQLLKIFVSGKLDAYVEFVAA---NSGFVQSQGLVHEQNMAKMRLLTLMSLAE--E-SNEISYDTLAKELQINEDEVEL 313 (378)
T ss_pred HHHHHHHHHhcchHHHHHHHHh---ChHHHHHhcccHHHHHHHHHHHHHHHHhc--c-CCCCCHHHHHHHhccCHHHHHH
Confidence 5667888888888899998862 3344443322 34556799988888865 2 3379999999999999877666
Q ss_pred HH
Q 021722 259 FC 260 (308)
Q Consensus 259 f~ 260 (308)
|.
T Consensus 314 fV 315 (378)
T KOG2753|consen 314 FV 315 (378)
T ss_pred HH
Confidence 63
No 29
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=43.65 E-value=31 Score=24.37 Aligned_cols=30 Identities=20% Similarity=0.283 Sum_probs=24.5
Q ss_pred CcCHHHHHHHhcCC---------chHHHHHHHHhCCeec
Q 021722 239 PYPLGHLSKVLMME---------ESDVELFCNAYGLQTC 268 (308)
Q Consensus 239 ~ipl~~L~~~L~f~---------~~e~~~f~~~~Gl~~~ 268 (308)
||.+++|..+|..+ ..+..+||...|+++.
T Consensus 24 PI~L~el~~~L~~~g~~~~~~~~~~~l~~~lD~~gIt~~ 62 (64)
T PF09494_consen 24 PINLEELHAWLKASGIGFDRKVDPSKLKEWLDSQGITFT 62 (64)
T ss_pred CccHHHHHHHHHHcCCCccceeCHHHHHHHHHHCCceee
Confidence 89999999999732 1358999999999874
No 30
>PF04760 IF2_N: Translation initiation factor IF-2, N-terminal region; InterPro: IPR006847 This region is found in the N-terminal half of translation initiation factor IF-2. It is found in two copies in IF-2 alpha isoforms, and in only one copy in the N-terminally truncated beta and gamma isoforms []. Its function is unknown.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1ND9_A.
Probab=42.22 E-value=25 Score=23.67 Aligned_cols=29 Identities=14% Similarity=0.164 Sum_probs=23.7
Q ss_pred CcCHHHHHHHhcCCchHHHHHH-HHhCCee
Q 021722 239 PYPLGHLSKVLMMEESDVELFC-NAYGLQT 267 (308)
Q Consensus 239 ~ipl~~L~~~L~f~~~e~~~f~-~~~Gl~~ 267 (308)
++.+.+|++.||.+..+..+.| +..|+.+
T Consensus 3 ~i~V~elAk~l~v~~~~ii~~l~~~~Gi~~ 32 (54)
T PF04760_consen 3 KIRVSELAKELGVPSKEIIKKLFKELGIMV 32 (54)
T ss_dssp EE-TTHHHHHHSSSHHHHHHHH-HHHTS--
T ss_pred ceEHHHHHHHHCcCHHHHHHHHHHhCCcCc
Confidence 5788999999999999999999 6699994
No 31
>PRK13239 alkylmercury lyase; Provisional
Probab=38.71 E-value=93 Score=27.57 Aligned_cols=51 Identities=20% Similarity=0.137 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHHHHHhCCeecccCCCccc
Q 021722 221 EVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNAYGLQTCIDEVGNKL 276 (308)
Q Consensus 221 ~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f~~~~Gl~~~~d~~g~~~ 276 (308)
.+....|+.+.+ +.+++++.|++.++.+.+++..-|+..+.... |++|..+
T Consensus 22 ~~~~~llr~la~----G~pvt~~~lA~~~~~~~~~v~~~L~~l~~~~~-d~~g~iv 72 (206)
T PRK13239 22 TLLVPLLRLLAK----GRPVSVTTLAAALGWPVEEVEAVLEAMPDTEY-DEDGRII 72 (206)
T ss_pred HHHHHHHHHHHc----CCCCCHHHHHHHhCCCHHHHHHHHHhCCCeEE-CCCCCEE
Confidence 355556666653 55899999999999998999999999876654 6677763
No 32
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=36.81 E-value=48 Score=20.44 Aligned_cols=25 Identities=8% Similarity=0.003 Sum_probs=18.8
Q ss_pred HHHHHHHhcCCchHHHHHHHHhCCee
Q 021722 242 LGHLSKVLMMEESDVELFCNAYGLQT 267 (308)
Q Consensus 242 l~~L~~~L~f~~~e~~~f~~~~Gl~~ 267 (308)
+..|.++ ||+.++|++-|+..|-.+
T Consensus 6 v~~L~~m-Gf~~~~~~~AL~~~~~nv 30 (37)
T PF00627_consen 6 VQQLMEM-GFSREQAREALRACNGNV 30 (37)
T ss_dssp HHHHHHH-TS-HHHHHHHHHHTTTSH
T ss_pred HHHHHHc-CCCHHHHHHHHHHcCCCH
Confidence 4567777 999889999998887644
No 33
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=35.11 E-value=1.4e+02 Score=22.23 Aligned_cols=34 Identities=9% Similarity=-0.088 Sum_probs=28.7
Q ss_pred CCcCHHHHHHHhcCCch---HHHHHHHHhCCeecccC
Q 021722 238 HPYPLGHLSKVLMMEES---DVELFCNAYGLQTCIDE 271 (308)
Q Consensus 238 ~~ipl~~L~~~L~f~~~---e~~~f~~~~Gl~~~~d~ 271 (308)
..++-+.|++.||.+.. ..++-++..|+++....
T Consensus 18 ~~~SGe~La~~LgiSRtaVwK~Iq~Lr~~G~~I~s~~ 54 (79)
T COG1654 18 NFVSGEKLAEELGISRTAVWKHIQQLREEGVDIESVR 54 (79)
T ss_pred CcccHHHHHHHHCccHHHHHHHHHHHHHhCCceEecC
Confidence 37999999999999964 47888999999997643
No 34
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=34.40 E-value=1.2e+02 Score=20.01 Aligned_cols=42 Identities=12% Similarity=0.036 Sum_probs=27.5
Q ss_pred HHHHHHHhhhcCCCCcCHHHHHHHhcCCch---HHHHHHHHhCCeecc
Q 021722 225 LALCCIHNCCYKLHPYPLGHLSKVLMMEES---DVELFCNAYGLQTCI 269 (308)
Q Consensus 225 ~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~---e~~~f~~~~Gl~~~~ 269 (308)
+.|..+..+ ..+++.++|++.|+.+.. .-.+.++..|+.+..
T Consensus 4 ~il~~L~~~---~~~it~~eLa~~l~vS~rTi~~~i~~L~~~~~~I~~ 48 (55)
T PF08279_consen 4 QILKLLLES---KEPITAKELAEELGVSRRTIRRDIKELREWGIPIES 48 (55)
T ss_dssp HHHHHHHHT---TTSBEHHHHHHHCTS-HHHHHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHHc---CCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeEEe
Confidence 345555432 336999999999999863 356677888876654
No 35
>PF08727 P3A: Poliovirus 3A protein like; InterPro: IPR014838 The 3A protein is found in positive-strand RNA viruses. It is a critical component of the poliovirus replication complex, and is also an inhibitor of host cell ER to Golgi transport. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1NG7_A.
Probab=33.39 E-value=13 Score=25.85 Aligned_cols=27 Identities=15% Similarity=0.260 Sum_probs=18.6
Q ss_pred HHHHHHHhcCC-chHHHHHHHHhCCeec
Q 021722 242 LGHLSKVLMME-ESDVELFCNAYGLQTC 268 (308)
Q Consensus 242 l~~L~~~L~f~-~~e~~~f~~~~Gl~~~ 268 (308)
-..++++|.-. ++|.+++|+..||.+-
T Consensus 17 P~~I~DLL~SV~~~eV~~YC~~~GWIip 44 (57)
T PF08727_consen 17 PPAIADLLRSVDSPEVREYCEEQGWIIP 44 (57)
T ss_dssp S-TTHHHHHHH--HHHHHHHHHHT--TT
T ss_pred CHHHHHHHHhcCCHHHHHHHHHCCcccc
Confidence 45678888754 5789999999999873
No 36
>PF13994 PgaD: PgaD-like protein
Probab=33.35 E-value=63 Score=26.47 Aligned_cols=53 Identities=13% Similarity=0.090 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHHHHHhCCeecccCCCcc
Q 021722 219 IDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNAYGLQTCIDEVGNK 275 (308)
Q Consensus 219 ~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f~~~~Gl~~~~d~~g~~ 275 (308)
.++.|.++.+.-.. +.+++.+++++.++.++++..+.-+..-+++..|++|..
T Consensus 84 yn~~Rf~~~~rr~~----~~~~~~~elA~~f~l~~~~l~~lr~~k~~~V~~d~~G~I 136 (138)
T PF13994_consen 84 YNRLRFRGRRRRRR----PPPVSDEELARSFGLSPEQLQQLRQAKVLTVHHDDHGRI 136 (138)
T ss_pred HHHHHhcchhhccC----CCCCCHHHHHHHcCCCHHHHHHHHhCCeEEEEeCCCCCc
Confidence 34455555554322 224999999999999877777776666667777888875
No 37
>PF03634 TCP: TCP family transcription factor; InterPro: IPR005333 The TCP transcription factor family was named after: teosinte branched 1 (tb1, Zea mays (Maize)) [], cycloidea (cyc) (Antirrhinum majus) (Garden snapdragon) [] and PCF in rice (Oryza sativa) [, ]. The TCP proteins code for structurally related proteins implicated in the evolution of key morphological traits []. However, the biochemical function of CYC and TB1 proteins remains to be demonstrated. One of the conserved regions is predicted to form a non-canonical basic-Helix-Loop-Helix (bHLP) structure. This domain is also found in two rice DNA-binding proteins, PCF1 and PCF2, where it has been shown to be involved in DNA-binding and dimerization. This family of transcription factors are exclusive to higher plants. They can be divided into two groups, TCP-C and TCP-P, that appear to have separated following an early gene duplication event []. This duplication event may have led to functional divergence and it has been proposed that that the TCP-P subfamily are transcriptional repressors, while the TPC-C subfamily are transcription activators [].
Probab=31.35 E-value=31 Score=28.26 Aligned_cols=18 Identities=17% Similarity=0.121 Sum_probs=13.4
Q ss_pred HHHHHHhcCC-chHHHHHH
Q 021722 243 GHLSKVLMME-ESDVELFC 260 (308)
Q Consensus 243 ~~L~~~L~f~-~~e~~~f~ 260 (308)
-+|.++|||| ++.+++||
T Consensus 33 FdLQDmLGfDKaSKTveWL 51 (138)
T PF03634_consen 33 FDLQDMLGFDKASKTVEWL 51 (138)
T ss_pred HHHHHHhcCCCCCchHHHH
Confidence 3599999999 56666664
No 38
>PF04182 B-block_TFIIIC: B-block binding subunit of TFIIIC; InterPro: IPR007309 Yeast transcription factor IIIC (TFIIIC) is a multisubunit protein complex that interacts with two control elements of class III promoters called the A and B blocks. This family represents the subunit within TFIIIC involved in B-block binding []. Although defined as a yeast protein, it is also found in a number of other organisms.
Probab=30.76 E-value=1.4e+02 Score=21.53 Aligned_cols=46 Identities=20% Similarity=0.098 Sum_probs=36.3
Q ss_pred HHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchH---HHHHHHHhCCeecc
Q 021722 222 VRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESD---VELFCNAYGLQTCI 269 (308)
Q Consensus 222 vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e---~~~f~~~~Gl~~~~ 269 (308)
+...+|+.|.++.+. .+...+|.+.++.|... ....|+..|+.+..
T Consensus 3 ~~~~~Le~I~rsR~~--Gi~q~~L~~~~~~D~r~i~~~~k~L~~~gLI~k~ 51 (75)
T PF04182_consen 3 IQYCLLERIARSRYN--GITQSDLSKLLGIDPRSIFYRLKKLEKKGLIVKQ 51 (75)
T ss_pred hHHHHHHHHHhcCCC--CEehhHHHHHhCCCchHHHHHHHHHHHCCCEEEE
Confidence 456778999886555 58889999999988654 68889999998753
No 39
>PF14726 RTTN_N: Rotatin, an armadillo repeat protein, centriole functioning
Probab=30.16 E-value=94 Score=24.10 Aligned_cols=32 Identities=22% Similarity=0.112 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHhhhcCCCCcC----------HHHHHHHhcCCc
Q 021722 221 EVRSLALCCIHNCCYKLHPYP----------LGHLSKVLMMEE 253 (308)
Q Consensus 221 ~vR~~aL~~i~~a~yk~~~ip----------l~~L~~~L~f~~ 253 (308)
.+|.+||..|.. .+..+-++ +..|-+|++|++
T Consensus 2 EIR~RAL~~I~~-Kl~~~Li~~~dl~~~~~Ll~~LleWFnf~~ 43 (98)
T PF14726_consen 2 EIRVRALESIEF-KLEHGLISEEDLVKERLLLKQLLEWFNFPP 43 (98)
T ss_pred hHHHHHHHHHHH-HHHhccccHHHHccHHHHHHHHHHHhCCCC
Confidence 589999999876 34322233 444557999985
No 40
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=30.13 E-value=3e+02 Score=29.11 Aligned_cols=70 Identities=13% Similarity=0.207 Sum_probs=49.8
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHh------cccHHHHHHHhHhHHHHHHHHHHHHHhhhcCC--CCcCHHHHHHHhcCCch
Q 021722 183 FARQALRYFQMGNYRRFLSTVAA------EASYLQYCIIEPYIDEVRSLALCCIHNCCYKL--HPYPLGHLSKVLMMEES 254 (308)
Q Consensus 183 ~Al~v~~a~~~~Ny~rfFkLl~~------~~~~L~~cl~~~~~~~vR~~aL~~i~~a~yk~--~~ipl~~L~~~L~f~~~ 254 (308)
+.+...+|+..|||.+-|.-+.. -.|. +--+......+|+-.+|++.-- +|+. .+++++.|++++-++..
T Consensus 656 hVvaAsKAm~~Gnw~~c~~fi~nn~KvW~Lfpn-~d~V~~Ml~~rIqEEsLRTYLf-tYss~Y~SvSl~~LA~mFdLp~~ 733 (843)
T KOG1076|consen 656 HVVAASKAMQKGNWQKCFEFIVNNIKVWDLFPN-ADTVLDMLTERIQEESLRTYLF-TYSSVYDSVSLAKLADMFDLPEP 733 (843)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHhhhhHHHhccc-HHHHHHHHHHHHHHHHHHHHHH-HhhhhhhhccHHHHHHHhCCCch
Confidence 56667789999999999983332 1222 3345566667799999998765 3432 37999999999988753
No 41
>PF12833 HTH_18: Helix-turn-helix domain; PDB: 2K9S_A 3LSG_C 3OIO_A 1D5Y_B 3GBG_A 3OOU_A 1BL0_A 1XS9_A 3MN2_B 3MKL_B ....
Probab=30.13 E-value=2e+02 Score=20.41 Aligned_cols=46 Identities=11% Similarity=0.231 Sum_probs=27.4
Q ss_pred hHHHHHHHH-HHHHHhhhcCCCCcCHHHHHHHhcCCchH--HHHHHHHhCCee
Q 021722 218 YIDEVRSLA-LCCIHNCCYKLHPYPLGHLSKVLMMEESD--VELFCNAYGLQT 267 (308)
Q Consensus 218 ~~~~vR~~a-L~~i~~a~yk~~~ipl~~L~~~L~f~~~e--~~~f~~~~Gl~~ 267 (308)
++..+|... ...|.. .. ..|+.+++..+||++.. ...|-+.+|.+.
T Consensus 27 ~~~~~R~~~a~~~L~~--~~--~~~i~~ia~~~Gf~~~~~f~~~fk~~~g~tP 75 (81)
T PF12833_consen 27 YLRELRLQRAKELLRQ--NT--DLSIAEIAEECGFSSQSHFSRAFKRYFGMTP 75 (81)
T ss_dssp HHHHHHHHHHHHHHHH--HT--T--HHHHHHHTT-SSHHHHHHHHHHHHSS-H
T ss_pred HHHHHHHHHHHHHHHH--hh--cccHHHHHHHcCCCCHHHHHHHHHHHHCcCH
Confidence 455566644 344433 22 59999999999999754 466667778765
No 42
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=29.72 E-value=2e+02 Score=20.26 Aligned_cols=46 Identities=15% Similarity=0.018 Sum_probs=33.5
Q ss_pred HHHHHHHHHHhhhcCCC-CcCHHHHHHHhcCCchHH---HHHHHHhCCeeccc
Q 021722 222 VRSLALCCIHNCCYKLH-PYPLGHLSKVLMMEESDV---ELFCNAYGLQTCID 270 (308)
Q Consensus 222 vR~~aL~~i~~a~yk~~-~ipl~~L~~~L~f~~~e~---~~f~~~~Gl~~~~d 270 (308)
.+.+.|..+... +. .+++.+|++.||.+...+ ..-++..|+.....
T Consensus 7 ~~~~IL~~L~~~---g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~~~ 56 (68)
T smart00550 7 LEEKILEFLENS---GDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCKQG 56 (68)
T ss_pred HHHHHHHHHHHC---CCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecC
Confidence 456777777652 22 399999999999997654 55577889987543
No 43
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=29.09 E-value=1.4e+02 Score=22.96 Aligned_cols=42 Identities=10% Similarity=-0.004 Sum_probs=33.7
Q ss_pred HHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHHHHHhCCeecc
Q 021722 225 LALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNAYGLQTCI 269 (308)
Q Consensus 225 ~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f~~~~Gl~~~~ 269 (308)
.+...+..+ ...+.+.++++.|++...+..++|...|+....
T Consensus 13 ~~~d~~~~~---~~~~ti~~~AK~L~i~~~~l~~~Lr~~g~l~~~ 54 (111)
T PF03374_consen 13 EFYDAFVDS---DGLYTIREAAKLLGIGRNKLFQWLREKGWLYRR 54 (111)
T ss_pred HHHHHHHcC---CCCccHHHHHHHhCCCHHHHHHHHHhCCceEEC
Confidence 344555432 347999999999999999999999999999863
No 44
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=28.64 E-value=1.6e+02 Score=23.44 Aligned_cols=47 Identities=15% Similarity=0.162 Sum_probs=34.0
Q ss_pred HhHHHHHHH-HHHHHHhhhcCCCCcCHHHHHHHhcCCchH--HHHHHHHhCCeec
Q 021722 217 PYIDEVRSL-ALCCIHNCCYKLHPYPLGHLSKVLMMEESD--VELFCNAYGLQTC 268 (308)
Q Consensus 217 ~~~~~vR~~-aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e--~~~f~~~~Gl~~~ 268 (308)
.|+..+|.. |...+.. . ..|+..++..+||++.. ...|-+.+|.+-.
T Consensus 56 ~~l~~~Rl~~A~~~L~~----t-~~~i~eIA~~~Gf~s~s~F~r~Fkk~~G~tP~ 105 (127)
T PRK11511 56 QYIRSRKMTEIAQKLKE----S-NEPILYLAERYGFESQQTLTRTFKNYFDVPPH 105 (127)
T ss_pred HHHHHHHHHHHHHHHHc----C-CCCHHHHHHHhCCCCHHHHHHHHHHHHCcCHH
Confidence 346667874 4554432 1 48999999999999855 6788889998754
No 45
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=27.60 E-value=1e+02 Score=19.29 Aligned_cols=29 Identities=17% Similarity=0.217 Sum_probs=19.7
Q ss_pred CcCHHHHHHHhcCCchH-HHHHHHHhCCee
Q 021722 239 PYPLGHLSKVLMMEESD-VELFCNAYGLQT 267 (308)
Q Consensus 239 ~ipl~~L~~~L~f~~~e-~~~f~~~~Gl~~ 267 (308)
+++++++++.+||+..- ...|=+..|++.
T Consensus 8 ~~~l~~iA~~~g~S~~~f~r~Fk~~~g~tp 37 (42)
T PF00165_consen 8 KLTLEDIAEQAGFSPSYFSRLFKKETGMTP 37 (42)
T ss_dssp S--HHHHHHHHTS-HHHHHHHHHHHTSS-H
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHCcCH
Confidence 69999999999996544 566667778875
No 46
>PRK13503 transcriptional activator RhaS; Provisional
Probab=27.24 E-value=1.4e+02 Score=26.68 Aligned_cols=46 Identities=13% Similarity=0.216 Sum_probs=34.4
Q ss_pred hHHHHHH-HHHHHHHhhhcCCCCcCHHHHHHHhcCCchH--HHHHHHHhCCeec
Q 021722 218 YIDEVRS-LALCCIHNCCYKLHPYPLGHLSKVLMMEESD--VELFCNAYGLQTC 268 (308)
Q Consensus 218 ~~~~vR~-~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e--~~~f~~~~Gl~~~ 268 (308)
|+..+|. .|.+.+.. ...|+.+++..+||++.- ...|=+.+|.+-.
T Consensus 219 yi~~~Rl~~A~~LL~~-----~~~sI~eIA~~~GF~~~s~F~r~FKk~~G~TP~ 267 (278)
T PRK13503 219 YLNRLRLLKARHLLRH-----SDASVTDIAYRCGFGDSNHFSTLFRREFSWSPR 267 (278)
T ss_pred HHHHHHHHHHHHHHHc-----CCCCHHHHHHHhCCCCHHHHHHHHHHHHCcCHH
Confidence 5666777 45555543 158999999999999854 6888889998764
No 47
>cd04764 HTH_MlrA-like_sg1 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 1). The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen in the N-terminal domains of typical MerR-like proteins.
Probab=26.40 E-value=1.1e+02 Score=21.26 Aligned_cols=28 Identities=11% Similarity=0.382 Sum_probs=22.3
Q ss_pred cCHHHHHHHhcCCchHHHHHHHHhCCee
Q 021722 240 YPLGHLSKVLMMEESDVELFCNAYGLQT 267 (308)
Q Consensus 240 ipl~~L~~~L~f~~~e~~~f~~~~Gl~~ 267 (308)
++++++++.+|.+..-..-+.+..|+..
T Consensus 1 ~~i~evA~~~gvs~~tlR~~~~~g~l~~ 28 (67)
T cd04764 1 YTIKEVSEIIGVKPHTLRYYEKEFNLYI 28 (67)
T ss_pred CCHHHHHHHHCcCHHHHHHHHHhcCCCC
Confidence 4678899999998887887777777764
No 48
>PF11360 DUF3110: Protein of unknown function (DUF3110); InterPro: IPR021503 This family of proteins has no known function.
Probab=26.35 E-value=65 Score=24.37 Aligned_cols=30 Identities=27% Similarity=0.531 Sum_probs=19.7
Q ss_pred hcCCchHHHHHHHHhCCeecccCCC-ccccc
Q 021722 249 LMMEESDVELFCNAYGLQTCIDEVG-NKLLP 278 (308)
Q Consensus 249 L~f~~~e~~~f~~~~Gl~~~~d~~g-~~~l~ 278 (308)
..++.++..+||+.+|-...--..| .++.|
T Consensus 53 e~id~~~i~~fC~~~gy~~~iv~~g~~l~~P 83 (86)
T PF11360_consen 53 EEIDPEEIEEFCRSAGYEYEIVPPGRDLLIP 83 (86)
T ss_pred EEECHHHHHHHHHHCCceEEEECCCCCeeCC
Confidence 3456678999999998765433345 55444
No 49
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=25.91 E-value=1.5e+02 Score=27.55 Aligned_cols=103 Identities=18% Similarity=0.360 Sum_probs=67.4
Q ss_pred hHHHHhhhCC--hhhhcCHhHHHHHHHHHHHHhCCHHHHHHHHHh------cccHHHHHHHhHhH---HHHHHHHHHHHH
Q 021722 163 SLSLWFRHVP--SPIIKSKEMWFARQALRYFQMGNYRRFLSTVAA------EASYLQYCIIEPYI---DEVRSLALCCIH 231 (308)
Q Consensus 163 ~l~~~l~~l~--~~i~~s~~v~~Al~v~~a~~~~Ny~rfFkLl~~------~~~~L~~cl~~~~~---~~vR~~aL~~i~ 231 (308)
.|..|+-.|| .++..+..|-.|..+ .|+..|||.-.|++|.. .-+.|+.-=++-|. .++|-+-|-.+.
T Consensus 81 rL~rFlwsLp~~~~~~~nEsvLkArA~-vafH~gnf~eLY~iLE~h~Fs~~~h~~LQ~lWl~AhY~EAek~RGR~LgaV~ 159 (304)
T KOG0775|consen 81 RLGRFLWSLPVCEELLKNESVLKARAV-VAFHSGNFRELYHILENHKFSPHNHPKLQALWLKAHYKEAEKLRGRPLGAVD 159 (304)
T ss_pred HHHHHHHcCchHHHHhhhHHHHHHHHH-HHHhcccHHHHHHHHHhccCChhhhHHHHHHHHHHHHHHHHHhcCCcCCccc
Confidence 4666777888 677778778777655 68999999999999874 23345554444332 255666666665
Q ss_pred hhhcCC-CCcC-------------------HHHHHHHhcCCc----hHHHHHHHHhCCeec
Q 021722 232 NCCYKL-HPYP-------------------LGHLSKVLMMEE----SDVELFCNAYGLQTC 268 (308)
Q Consensus 232 ~a~yk~-~~ip-------------------l~~L~~~L~f~~----~e~~~f~~~~Gl~~~ 268 (308)
| |+- .++| =+.|.+|-.-++ .|=+++.+.-||+++
T Consensus 160 K--YRvRrKfPlPrTIWDGEet~yCFKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~t 218 (304)
T KOG0775|consen 160 K--YRVRRKFPLPRTIWDGEETVYCFKEKSRSLLREWYLQNPYPSPREKRELAEATGLTIT 218 (304)
T ss_pred c--ceeeccCCCCCccccCceeeeehhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchh
Confidence 4 531 1233 245677766442 567889999999875
No 50
>TIGR03862 flavo_PP4765 uncharacterized flavoprotein, PP_4765 family. This model describes a sharply distinctive clade of proteins within the larger family of flavoproteins described by Pfam model pfam03486 and TIGRFAMs model TIGR00275. The function is unknown.
Probab=23.61 E-value=79 Score=30.63 Aligned_cols=34 Identities=15% Similarity=0.316 Sum_probs=25.5
Q ss_pred HHHHHHhc-CCchHHHHHHHHhCCeecccCCCccc
Q 021722 243 GHLSKVLM-MEESDVELFCNAYGLQTCIDEVGNKL 276 (308)
Q Consensus 243 ~~L~~~L~-f~~~e~~~f~~~~Gl~~~~d~~g~~~ 276 (308)
.++...|. |+..|+.+|++.+|+.....++|.+|
T Consensus 45 ~fl~~al~~f~~~d~~~fF~~~Gi~~~~e~~grvf 79 (376)
T TIGR03862 45 EWLAPWLEAFDAVALQDWARGLGIETFVGSSGRVF 79 (376)
T ss_pred HHHHHHHHhCCHHHHHHHHHHCCCceEECCCCEEC
Confidence 44555554 67788999999999987766678776
No 51
>PRK13501 transcriptional activator RhaR; Provisional
Probab=22.90 E-value=2.1e+02 Score=25.88 Aligned_cols=48 Identities=17% Similarity=0.351 Sum_probs=35.4
Q ss_pred hHhHHHHHH-HHHHHHHhhhcCCCCcCHHHHHHHhcCCchH--HHHHHHHhCCeec
Q 021722 216 EPYIDEVRS-LALCCIHNCCYKLHPYPLGHLSKVLMMEESD--VELFCNAYGLQTC 268 (308)
Q Consensus 216 ~~~~~~vR~-~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e--~~~f~~~~Gl~~~ 268 (308)
..|+...|. .|.+.+.. ...|+++++..+||++.- ...|=+..|.+-.
T Consensus 222 ~qyi~~~Ri~~A~~LL~~-----t~~sI~eIA~~~GF~~~s~F~r~FKk~~G~TP~ 272 (290)
T PRK13501 222 SHYLRQIRLCHAKCLLRG-----SEHRISDIAARCGFEDSNYFSAVFTREAGMTPR 272 (290)
T ss_pred HHHHHHHHHHHHHHHHHc-----CCCCHHHHHHHhCCCCHHHHHHHHHHHHCcCHH
Confidence 346777787 44555532 258999999999999855 6888888898764
No 52
>PF06056 Terminase_5: Putative ATPase subunit of terminase (gpP-like); InterPro: IPR010332 This family of proteins are annotated as ATPase subunits of phage terminase after []. Terminases are viral proteins that are involved in packaging viral DNA into the capsid.; GO: 0005524 ATP binding, 0019069 viral capsid assembly
Probab=22.74 E-value=2.6e+02 Score=19.31 Aligned_cols=29 Identities=14% Similarity=0.234 Sum_probs=25.3
Q ss_pred CcCHHHHHHHhcCCchHHHHHHHHhCCee
Q 021722 239 PYPLGHLSKVLMMEESDVELFCNAYGLQT 267 (308)
Q Consensus 239 ~ipl~~L~~~L~f~~~e~~~f~~~~Gl~~ 267 (308)
.+++..+++.||.+..-.-.+...+|+.-
T Consensus 13 G~~~~eIA~~Lg~~~~TV~~W~~r~~W~~ 41 (58)
T PF06056_consen 13 GWSIKEIAEELGVPRSTVYSWKDRYKWDE 41 (58)
T ss_pred CCCHHHHHHHHCCChHHHHHHHHhhCccc
Confidence 48899999999999777889999999864
No 53
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=21.74 E-value=2.4e+02 Score=27.10 Aligned_cols=66 Identities=17% Similarity=0.325 Sum_probs=45.4
Q ss_pred cHHHHHHHhHhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHH----HHHhCCeeccc-CCCcccc
Q 021722 208 SYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELF----CNAYGLQTCID-EVGNKLL 277 (308)
Q Consensus 208 ~~L~~cl~~~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f----~~~~Gl~~~~d-~~g~~~l 277 (308)
.+|.+ ++..|+...|.-...+.++- . +-|+++.|++-|.++++|++.+ ..-.-+....| +-|.+++
T Consensus 322 fFLva-~l~~F~E~ARl~ifEtfCRI-H--qcIti~mLA~kLnm~~eeaErwivnlIr~~rl~AkidSklg~Vvm 392 (432)
T KOG2758|consen 322 FFLVA-LLDEFLENARLLIFETFCRI-H--QCITIDMLADKLNMDPEEAERWIVNLIRTARLDAKIDSKLGHVVM 392 (432)
T ss_pred hhHHH-HHHHHHHHHHHHHHHHHHHH-H--HheeHHHHHHHhcCCHHHHHHHHHHHHHHhhhhhhhccccCceee
Confidence 34544 45667888999888888873 2 2499999999999998886544 55555544333 3576665
No 54
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=21.15 E-value=4.3e+02 Score=26.17 Aligned_cols=82 Identities=17% Similarity=0.183 Sum_probs=57.6
Q ss_pred HHHHHHHHhCCHHHHHHHHHhccc------HHHHHHHhHhHHHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCc----h
Q 021722 185 RQALRYFQMGNYRRFLSTVAAEAS------YLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEE----S 254 (308)
Q Consensus 185 l~v~~a~~~~Ny~rfFkLl~~~~~------~L~~cl~~~~~~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~----~ 254 (308)
+++..++.++-|.+-+.++++..| ||... +...+..||.++|-.... .|. +++++.++.-++.+. .
T Consensus 309 r~il~~fy~sky~~cl~~L~~~k~~llLD~yLaph-Vd~Ly~~IR~r~llqy~~-py~--s~~m~~mA~af~~sv~~le~ 384 (466)
T KOG0686|consen 309 REILFKFYSSKYASCLELLREIKPRLLLDMYLAPH-VDNLYSLIRNRALLQYLS-PYS--SADMSKMAEAFNTSVAILES 384 (466)
T ss_pred HHHHHHHhhhhHHHHHHHHHHhccceeechhcchh-HHHHHHHHHHhhHHHhcC-ccc--cchHHHHHHHhcccHHHHHH
Confidence 456778889999999999876333 33333 344578899999988876 576 699999999999885 3
Q ss_pred HHHHHHHHhCCeeccc
Q 021722 255 DVELFCNAYGLQTCID 270 (308)
Q Consensus 255 e~~~f~~~~Gl~~~~d 270 (308)
+..++..+--+....|
T Consensus 385 ~l~~LI~~~~i~~rID 400 (466)
T KOG0686|consen 385 ELLELILEGKISGRID 400 (466)
T ss_pred HHHHHHHccchheeec
Confidence 4566666544443334
No 55
>PF07381 DUF1495: Winged helix DNA-binding domain (DUF1495); InterPro: IPR010863 This family consists of several hypothetical archaeal proteins of around 110 residues in length. The function of this family is unknown, although one sequence (Q8U3W1 from SWISSPROT) is described as a putative HTH transcription regulator.
Probab=20.60 E-value=2.8e+02 Score=21.13 Aligned_cols=40 Identities=18% Similarity=0.135 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchHHHHHHH
Q 021722 220 DEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCN 261 (308)
Q Consensus 220 ~~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e~~~f~~ 261 (308)
.++|.++|.-+.+ .| +.+..+..+++..+.+.++....+.
T Consensus 8 S~~R~~vl~~L~~-~y-p~~~~~~eIar~v~~~~snV~GaL~ 47 (90)
T PF07381_consen 8 SKVRKKVLEYLCS-IY-PEPAYPSEIARSVGSDYSNVLGALR 47 (90)
T ss_pred HHHHHHHHHHHHH-cC-CCcCCHHHHHHHHCCCHHHHHHHHh
Confidence 5789999999987 45 4478889999999998776544433
No 56
>PF10978 DUF2785: Protein of unknown function (DUF2785); InterPro: IPR021247 Some members in this family are annotated as hypothetical membrane spanning proteins however this cannot be confirmed. The family has no known function.
Probab=20.59 E-value=2.4e+02 Score=24.00 Aligned_cols=86 Identities=16% Similarity=0.261 Sum_probs=48.1
Q ss_pred cHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCCCchhhhHHHHhhhCChhhhcCHhHHHHHHHHHHHH
Q 021722 113 NLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNGQPVGESLSLWFRHVPSPIIKSKEMWFARQALRYFQ 192 (308)
Q Consensus 113 n~~ql~~cl~~L~~lY~~~~~~~~~~~ne~Ef~~Y~iL~~l~~~~~~~~~~l~~~l~~l~~~i~~s~~v~~Al~v~~a~~ 192 (308)
......+.+..+.+.|..... .....|+|-.+..+...+..+.-. .+.+..|++.++..+-.. +-.......+.
T Consensus 88 ~~~~~~~lL~~i~~~~~~~~~--~~~~~EdeRLa~~~~~~l~~~~l~-~~~~~~wl~~~~~~l~~~---~~~~~~~~~~~ 161 (175)
T PF10978_consen 88 DRADKIELLAAILEKYKRLST--PFIDGEDERLATALIELLNRNKLY-QEELLSWLKSWRQDLPTQ---RPPYSEADWYR 161 (175)
T ss_pred CHHHHHHHHHHHHHHHcCCCc--ceeCCChhHHHHHHHHHHHcCCCC-HHHHHHHHHHHHHHhhhc---ccccchHHHHH
Confidence 456677778888888876432 234578999998777666554322 223556776653322111 00000123455
Q ss_pred hCCHHHHHHHHH
Q 021722 193 MGNYRRFLSTVA 204 (308)
Q Consensus 193 ~~Ny~rfFkLl~ 204 (308)
..|+.+|++.|+
T Consensus 162 ~~N~~~fL~sLy 173 (175)
T PF10978_consen 162 FSNIKRFLRSLY 173 (175)
T ss_pred HHHHHHHHHHHh
Confidence 677777777553
No 57
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=20.02 E-value=2.9e+02 Score=18.67 Aligned_cols=44 Identities=18% Similarity=0.116 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHhhhcCCCCcCHHHHHHHhcCCchH---HHHHHHHhCCeec
Q 021722 221 EVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESD---VELFCNAYGLQTC 268 (308)
Q Consensus 221 ~vR~~aL~~i~~a~yk~~~ipl~~L~~~L~f~~~e---~~~f~~~~Gl~~~ 268 (308)
..|...|+.+.. ..+.++..|++.|+.+... -..-++..|+.-.
T Consensus 10 p~R~~Il~~L~~----~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 10 PTRLRILRLLAS----NGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HHHHHHHHHHHH----CSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHhc----CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 478888988832 2379999999999998643 4677888999643
Done!