Query 026282
Match_columns 241
No_of_seqs 134 out of 850
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 05:57:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026282.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026282hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2659 LisH motif-containing 100.0 4.7E-41 1E-45 281.2 21.5 218 22-239 8-228 (228)
2 PF10607 CLTH: CTLH/CRA C-term 100.0 1.3E-29 2.8E-34 202.0 14.1 140 77-219 2-144 (145)
3 KOG0396 Uncharacterized conser 100.0 1.1E-28 2.3E-33 217.2 17.4 177 39-218 114-292 (389)
4 KOG2817 Predicted E3 ubiquitin 99.9 1.8E-22 4E-27 179.7 17.2 199 34-235 109-329 (394)
5 smart00757 CRA CT11-RanBPM. pr 99.7 1.8E-16 4E-21 118.0 10.9 93 130-222 2-96 (99)
6 KOG0293 WD40 repeat-containing 99.4 5.8E-12 1.2E-16 113.2 11.8 168 40-218 17-188 (519)
7 smart00668 CTLH C-terminal to 99.3 2.5E-12 5.5E-17 86.3 5.7 55 77-131 2-56 (58)
8 KOG0275 Conserved WD40 repeat- 98.8 8.4E-08 1.8E-12 84.6 11.2 164 36-218 3-173 (508)
9 PF08513 LisH: LisH; InterPro 98.4 4.3E-07 9.4E-12 51.6 3.9 27 41-67 1-27 (27)
10 smart00667 LisH Lissencephaly 98.2 3E-06 6.4E-11 50.0 4.7 32 39-70 2-33 (34)
11 KOG1477 SPRY domain-containing 98.2 7.8E-07 1.7E-11 83.5 2.4 178 42-219 251-450 (469)
12 COG5109 Uncharacterized conser 97.3 0.011 2.4E-07 52.4 14.2 189 18-213 79-295 (396)
13 KOG1333 Uncharacterized conser 95.2 0.21 4.5E-06 41.8 9.4 136 41-184 6-154 (241)
14 PF09398 FOP_dimer: FOP N term 91.9 0.3 6.6E-06 35.0 4.1 29 42-70 20-48 (81)
15 PF04053 Coatomer_WDAD: Coatom 73.5 20 0.00043 33.9 8.4 76 43-140 297-372 (443)
16 PF01726 LexA_DNA_bind: LexA D 71.0 11 0.00024 25.6 4.6 35 36-70 4-38 (65)
17 PF04494 TFIID_90kDa: WD40 ass 69.5 13 0.00028 29.3 5.3 48 111-161 38-85 (142)
18 PF14559 TPR_19: Tetratricopep 66.3 33 0.00072 22.2 7.0 55 86-145 1-55 (68)
19 PF06588 Muskelin_N: Muskelin 66.2 8.8 0.00019 32.1 3.8 31 40-70 165-195 (199)
20 KOG1585 Protein required for f 63.0 40 0.00087 29.6 7.4 75 27-101 177-252 (308)
21 KOG0273 Beta-transducin family 61.7 2.5 5.5E-05 39.7 -0.1 34 37-70 2-35 (524)
22 PF07035 Mic1: Colon cancer-as 59.8 76 0.0016 25.9 8.2 82 41-141 29-115 (167)
23 PF10607 CLTH: CTLH/CRA C-term 58.7 26 0.00056 27.1 5.2 57 46-103 7-67 (145)
24 PF13934 ELYS: Nuclear pore co 55.1 88 0.0019 26.6 8.3 45 26-70 29-76 (226)
25 PF04840 Vps16_C: Vps16, C-ter 54.6 1.3E+02 0.0028 27.0 9.6 78 48-140 184-262 (319)
26 cd08044 TAF5_NTD2 TAF5_NTD2 is 54.0 16 0.00035 28.3 3.3 48 111-161 27-74 (133)
27 PF14276 DUF4363: Domain of un 51.8 21 0.00046 27.0 3.6 47 78-124 30-76 (121)
28 PF04840 Vps16_C: Vps16, C-ter 49.9 1.9E+02 0.0042 25.9 10.8 88 33-140 200-287 (319)
29 TIGR03362 VI_chp_7 type VI sec 48.2 2E+02 0.0044 25.6 10.1 31 37-67 129-159 (301)
30 PF12895 Apc3: Anaphase-promot 47.1 29 0.00062 23.9 3.5 52 83-140 32-83 (84)
31 PF13838 Clathrin_H_link: Clat 45.8 33 0.00071 23.6 3.4 40 116-157 7-47 (66)
32 KOG4594 Sequence-specific sing 45.4 26 0.00056 31.1 3.5 29 39-67 16-44 (354)
33 PF10602 RPN7: 26S proteasome 44.3 1.7E+02 0.0037 23.7 10.9 104 42-145 37-143 (177)
34 COG5443 FlbT Flagellar biosynt 42.4 47 0.001 26.0 4.1 57 50-106 65-124 (148)
35 KOG2659 LisH motif-containing 40.8 1.4E+02 0.003 25.6 7.2 66 38-103 60-130 (228)
36 KOG1498 26S proteasome regulat 40.8 1.9E+02 0.0041 27.1 8.3 87 37-126 127-218 (439)
37 PF07079 DUF1347: Protein of u 39.5 83 0.0018 30.0 6.0 53 77-129 129-189 (549)
38 KOG2910 Uncharacterized conser 38.5 88 0.0019 26.2 5.3 62 78-141 41-115 (209)
39 PF13371 TPR_9: Tetratricopept 37.7 1.2E+02 0.0025 19.8 5.7 53 86-143 5-57 (73)
40 PF12550 GCR1_C: Transcription 36.3 85 0.0018 22.0 4.5 61 41-101 9-79 (81)
41 KOG0263 Transcription initiati 34.8 71 0.0015 31.9 5.0 34 37-70 18-51 (707)
42 PTZ00196 60S ribosomal protein 34.7 66 0.0014 23.9 3.7 32 115-146 48-79 (98)
43 PF07721 TPR_4: Tetratricopept 32.4 59 0.0013 17.3 2.5 17 84-100 9-25 (26)
44 PRK10564 maltose regulon perip 32.0 52 0.0011 29.5 3.3 24 80-103 261-284 (303)
45 PF14689 SPOB_a: Sensor_kinase 30.8 1.1E+02 0.0024 20.3 4.1 33 74-106 21-53 (62)
46 KOG0640 mRNA cleavage stimulat 30.7 1.4E+02 0.0031 27.1 5.8 32 39-70 10-41 (430)
47 KOG2437 Muskelin [Signal trans 30.0 1.7E+02 0.0037 28.4 6.5 62 42-108 167-229 (723)
48 PF01158 Ribosomal_L36e: Ribos 30.0 85 0.0018 23.3 3.7 32 115-146 48-79 (98)
49 PRK02289 4-oxalocrotonate taut 28.8 79 0.0017 20.6 3.1 27 177-203 12-38 (60)
50 PF07729 FCD: FCD domain; Int 28.7 1E+02 0.0022 21.9 4.1 26 77-102 97-122 (125)
51 cd02064 FAD_synthetase_N FAD s 28.6 72 0.0016 25.9 3.5 48 55-103 117-171 (180)
52 KOG2437 Muskelin [Signal trans 28.2 2.8E+02 0.006 27.0 7.5 36 111-147 621-656 (723)
53 smart00550 Zalpha Z-DNA-bindin 28.0 1.8E+02 0.0039 19.6 4.9 50 38-92 2-52 (68)
54 PF13424 TPR_12: Tetratricopep 27.9 1.5E+02 0.0034 19.6 4.6 56 87-142 16-73 (78)
55 PF09295 ChAPs: ChAPs (Chs5p-A 27.5 5.1E+02 0.011 24.1 12.8 103 35-146 163-267 (395)
56 PF07208 DUF1414: Protein of u 26.9 92 0.002 19.6 2.8 19 178-196 25-43 (44)
57 smart00299 CLH Clathrin heavy 26.2 2.5E+02 0.0054 21.1 6.0 11 130-140 111-121 (140)
58 KOG0292 Vesicle coat complex C 25.9 23 0.0005 36.3 0.1 50 42-103 621-670 (1202)
59 TIGR01470 cysG_Nterm siroheme 24.6 2.1E+02 0.0045 23.8 5.6 64 78-142 135-204 (205)
60 PF09312 SurA_N: SurA N-termin 24.1 1.9E+02 0.0041 21.6 4.9 48 34-88 63-113 (118)
61 TIGR02531 yecD_yerC TrpR-relat 24.1 2.8E+02 0.0061 20.0 5.7 57 43-100 4-60 (88)
62 PHA02701 ORF020 dsRNA-binding 22.5 61 0.0013 26.9 1.9 45 43-92 5-49 (183)
63 COG3898 Uncharacterized membra 21.9 5.4E+02 0.012 24.4 8.0 81 55-140 98-179 (531)
64 PF13432 TPR_16: Tetratricopep 21.3 2.3E+02 0.005 17.9 6.5 54 84-142 5-58 (65)
65 KOG0097 GTPase Rab14, small G 21.3 1.2E+02 0.0027 24.2 3.3 37 57-93 136-182 (215)
66 PF03477 ATP-cone: ATP cone do 21.2 1E+02 0.0023 21.6 2.8 28 37-64 55-82 (90)
67 PRK11788 tetratricopeptide rep 21.1 5.7E+02 0.012 22.5 10.6 16 86-101 151-166 (389)
68 PF10827 DUF2552: Protein of u 20.9 68 0.0015 22.3 1.6 16 91-106 60-75 (79)
69 PRK05627 bifunctional riboflav 20.8 1.4E+02 0.0031 26.6 4.0 49 55-103 132-186 (305)
70 PF10552 ORF6C: ORF6C domain; 20.0 3.3E+02 0.0072 20.4 5.4 23 84-106 87-109 (116)
No 1
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=100.00 E-value=4.7e-41 Score=281.20 Aligned_cols=218 Identities=58% Similarity=0.886 Sum_probs=210.6
Q ss_pred cCCChHHHHHHhccCCCCHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC--cCcHHhHHHHHHHHHHHhcCCHHHHHHHH
Q 026282 22 KVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE--HIDLATITDRMAVKKAVQCGNVEDAIEKV 99 (241)
Q Consensus 22 ~~~~~~~~~~~l~~~~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~--~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i 99 (241)
+.++.+.|...+.++.+.+.++|+||++||+++||.++|..|++|+|++ ..|.+.+..|.+|+.+|..|+++.|++.+
T Consensus 8 ~~~~~~~w~~~~~~~~~~~~d~n~LVmnylv~eg~~EaA~~Fa~e~~i~~~~~d~~~~~eR~~Ir~~I~~G~Ie~Aie~i 87 (228)
T KOG2659|consen 8 SFSTKEEWEEQLMKVSVMREDLNRLVMNYLVHEGYVEAAEKFAKESGIKPPSIDLDSMDERLQIRRAIEEGQIEEAIEKV 87 (228)
T ss_pred ccCchhhhHHHHhccCcchhhHHHHHHHHHHhccHHHHHHHhccccCCCCccCchhhHhHHHHHHHHHHhccHHHHHHHH
Confidence 5588999999999999999999999999999999999999999999999 48999999999999999999999999999
Q ss_pred HhhChhhhhcCCcchhhhHHHHHHHHHhcCCHHHHHHHHHHhccccccCCHHHHHHHHHHhhhhhccCCCCCccccccCh
Q 026282 100 NDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVSNCPVGDLLDI 179 (241)
Q Consensus 100 ~~~~p~l~~~~~~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~~~sp~~~l~~~ 179 (241)
+++.|.++..+..+.|.|++|++|||||.|...+|++|+|.+++|++..+++.+.+++++|++|+|++++.+|+++++..
T Consensus 88 n~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA~~a~e~~~~~~elE~~l~lLvf~~~~~sp~~~l~~~ 167 (228)
T KOG2659|consen 88 NQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLAPFAEENPKKMEELERTLALLVFELSQESPSAELLSQ 167 (228)
T ss_pred HHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcCCcccCcHHHHHHH
Confidence 99999999999999999999999999999999999999999999999998899999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHhhh-hcCCCCccCCCCcccCCC
Q 026282 180 SQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQLDE-KAAYPRINDLATATLEDP 239 (241)
Q Consensus 180 ~~r~~la~~~n~~il~~~g~~~~s~Le~llk~~~~~q~~L~~-k~~~p~~~~~~~~~~~~~ 239 (241)
++|.++|+.+|++|+.+++....+.|..|++...|++..+.. +..+|.+.++++|.++.|
T Consensus 168 s~R~kvA~~vN~aiL~~~~~~~~~~l~~llk~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 228 (228)
T KOG2659|consen 168 SLRQKVASEVNSAILASQEHESEPKLPFLLKLISWAQEELDREKFSEPHFKDLTKIKSEEP 228 (228)
T ss_pred HHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHhHhhccccccCCccccccCCC
Confidence 999999999999999999988899999999999999999855 578999999999999876
No 2
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=99.97 E-value=1.3e-29 Score=202.04 Aligned_cols=140 Identities=38% Similarity=0.586 Sum_probs=132.4
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHHHHHHhcCCHHHHHHHHHHhccccccCCHHHHHHH
Q 026282 77 ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEEL 156 (241)
Q Consensus 77 ~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l 156 (241)
|.+|+.|+++|.+||+++|++||++++|.+++.++.++|.|++|+|||+|+.|++.+|++|+|++++|+.. ...+++
T Consensus 2 ~~~r~~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l~~~~~---~~~~~l 78 (145)
T PF10607_consen 2 FKERKKIRQAILNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARKHLSPFND---EFLEEL 78 (145)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhHH---HHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999999999976654 458899
Q ss_pred HHHhhhhhccCCCC---CccccccChhhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHh
Q 026282 157 ERTVALLAFEDVSN---CPVGDLLDISQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQL 219 (241)
Q Consensus 157 ~~~~~LL~y~~~~~---sp~~~l~~~~~r~~la~~~n~~il~~~g~~~~s~Le~llk~~~~~q~~L 219 (241)
+++|++|+|+++.+ +||++++++++|+.|++.||++++..+|.++.|+|+.+++++.++...|
T Consensus 79 ~~~~~lL~~~~~~~~~~s~~~~l~~~~~~~~la~~~~~~~l~~~~~~~~s~L~~~~~~g~~~l~~l 144 (145)
T PF10607_consen 79 KKLMSLLAYPDPEEPLPSPYKELLSPERREELAEEFNSAILKSYGLPKESPLEVILKAGLSALKTL 144 (145)
T ss_pred HHHHHHHHcCCcccccchHHHHHhChHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHHhhhc
Confidence 99999999999987 7999999999999999999999999999999999999999999887653
No 3
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.96 E-value=1.1e-28 Score=217.16 Aligned_cols=177 Identities=23% Similarity=0.335 Sum_probs=167.6
Q ss_pred CHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC-cCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCcchhhh
Q 026282 39 RKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE-HIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHL 117 (241)
Q Consensus 39 ~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~-~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L 117 (241)
+++.++++|++|+.|+||++||..|.++++++ .+|.+.+...+.|+++|++|++.+|+.||++|+..|.+.+|.++|.+
T Consensus 114 ~r~~l~r~vvdhmlr~gy~~~A~~L~K~s~ledlvD~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~~S~lEf~l 193 (389)
T KOG0396|consen 114 PRNKLDRFVVDHMLRNGYFGAAVLLGKKSQLEDLVDSDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKEESSLEFQL 193 (389)
T ss_pred HHHHHHHHHHHHHHHcCchhHHHHHHHhhhhhhhHhHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccchhhhHH
Confidence 57889999999999999999999999999999 99999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHhccccccCCHHHHHHHHHHhhhhhccC-CCCCccccccChhhHHHHHHHHHHHHHhh
Q 026282 118 QQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFED-VSNCPVGDLLDISQRLKTASEVNAAILTS 196 (241)
Q Consensus 118 ~~q~fIEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~-~~~sp~~~l~~~~~r~~la~~~n~~il~~ 196 (241)
+.|+|||||+.+++.+||+|+|++|+|+++.+ .++++.+||+++|+. ++.++|..+++..||+.+++.|-+...+.
T Consensus 194 RlQefIELi~~~~~~~Ai~~akk~f~~~~~~~---~~~Lk~a~g~laF~~~t~~sky~~l~~~~rw~~l~~lF~s~a~~l 270 (389)
T KOG0396|consen 194 RLQEFIELIKVDNYDKAIAFAKKHFAPWAKSH---KSDLKLAMGLLAFPKYTSSSKYLNLLTADRWSVLADLFLSEALKL 270 (389)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHHhhhhhhh---HHHHHHHHHhhcCccccCcccccCcccHHHHHHHHHHhhHHHHHH
Confidence 99999999999999999999999999998755 789999999999995 55677999999999999999999999999
Q ss_pred CCCCCCCcHHHHHHHHHHHHHH
Q 026282 197 QSHEKDPKLPSLLKMLLWAQNQ 218 (241)
Q Consensus 197 ~g~~~~s~Le~llk~~~~~q~~ 218 (241)
+|.+..|+|-..++..+.++..
T Consensus 271 ~~i~~~~~L~~~l~~GLsalKT 292 (389)
T KOG0396|consen 271 FGIPINPALTIYLQAGLSALKT 292 (389)
T ss_pred hCCCCCcHHHHHHHhhhhhccc
Confidence 9999999999999988766655
No 4
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.90 E-value=1.8e-22 Score=179.68 Aligned_cols=199 Identities=19% Similarity=0.290 Sum_probs=171.2
Q ss_pred ccCCCCHHH-HHHHHHHHHHHhCHHHHHHHHHHHhCCC-c--CcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhc
Q 026282 34 NDVKIRKED-MNKLVMNFLVTEGYVDAAEKFRMESGTE-H--IDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDT 109 (241)
Q Consensus 34 ~~~~~~~~~-l~~LI~~yL~~~Gy~~ta~~l~~es~~~-~--~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~ 109 (241)
.++..+... ++.+|..|++++|..++|..|++|+|.. . .....|.+.++|.++|..||+.+|++|+..++..|...
T Consensus 109 ~~v~~~~~~~ln~ai~~h~~rqGm~dv~~~l~~Ea~~~~~~~~~~~~F~el~~Iv~~lke~Dl~~aLeWa~~~~~~L~~~ 188 (394)
T KOG2817|consen 109 NSVDFDTSQVLNEAIVYHFYRQGMDDVGECLIKEAGLSEDESKSRTEFVELNQIVEALKERDLEPALEWAESNRQKLKEK 188 (394)
T ss_pred cCcChhHHHHHHHHHHHHHHHcCchHHHHHHHHHhcCCCcchhhhhhHHHHHHHHHHHHhccchhHHHHHHHhhhhhccc
Confidence 345555544 5999999999999999999999999988 3 45677899999999999999999999999999999999
Q ss_pred CCcchhhhHHHHHHHHHhcCCHH--HHHHHHHHhccccccCCHHHHHHHHHHhhhhhccC--CCCCccccccChhhHHHH
Q 026282 110 NPQLFFHLQQQRLIELIRNGKVE--EALEFAQEELAPRGEENQSFLEELERTVALLAFED--VSNCPVGDLLDISQRLKT 185 (241)
Q Consensus 110 ~~~l~F~L~~q~fIEli~~~~~~--~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~--~~~sp~~~l~~~~~r~~l 185 (241)
++.|+|.|+.++|+++++.|... +||.|+|++++||+.++ .++++.+|+++.|-. .+++||.+++++..|..+
T Consensus 189 ~s~LE~~Lh~l~fl~l~~~g~~~~~eAl~Yar~~~~~F~~~~---~~eIQklm~sl~~l~~gl~~spy~~~ls~~~w~~~ 265 (394)
T KOG2817|consen 189 SSSLEFKLHSLHFLSLIRGGKSDQREALRYARTHFAPFVADH---LREIQKLMGSLLYLRNGLEKSPYSEILSPKLWKEL 265 (394)
T ss_pred cccHHHHHHHHHHHHHHhcCCcCcHHHHHHHHHhcCccccch---HHHHHHHHHHHHHHHcCCCCCChHHHhCHHHHHHH
Confidence 99999999999999999988655 99999999999998776 789999999998873 468999999999999999
Q ss_pred HHHHHHHHHhhCCCCCCCcHHHHHHHHHHHH-H-------------HhhhhcCCCCccCCCCcc
Q 026282 186 ASEVNAAILTSQSHEKDPKLPSLLKMLLWAQ-N-------------QLDEKAAYPRINDLATAT 235 (241)
Q Consensus 186 a~~~n~~il~~~g~~~~s~Le~llk~~~~~q-~-------------~L~~k~~~p~~~~~~~~~ 235 (241)
...|-+..+..+|.+.+|+|..++.....+- . ++..++..|--++|+.+.
T Consensus 266 ~~~f~r~ycallg~s~eSPL~v~v~aG~~Alp~Llk~~~v~~~~~~~W~~~deLPveIeL~~~~ 329 (394)
T KOG2817|consen 266 TEEFTREYCALLGISVESPLSVLVNAGCIALPQLLKYKSVMELKHGEWNTKDELPVEIELGKEY 329 (394)
T ss_pred HHHHHHHHHHHcCCCccCcHHHHHHhhHHHHHHHHHHHHHHHHhccCccccccCccceeccccc
Confidence 9999999999999999998877776553221 1 134456788777877765
No 5
>smart00757 CRA CT11-RanBPM. protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)
Probab=99.70 E-value=1.8e-16 Score=118.01 Aligned_cols=93 Identities=46% Similarity=0.568 Sum_probs=87.2
Q ss_pred CHHHHHHHHHHhccccccCCHHHHHHHHHHhhhhhccCC-CCCccccccChhhHHHHHHHHHHHHHhhC-CCCCCCcHHH
Q 026282 130 KVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDV-SNCPVGDLLDISQRLKTASEVNAAILTSQ-SHEKDPKLPS 207 (241)
Q Consensus 130 ~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~-~~sp~~~l~~~~~r~~la~~~n~~il~~~-g~~~~s~Le~ 207 (241)
++.+||+|||++++|+...++...++++++|++|+|+++ +.+||++++++++|..+++.||++++..+ |.+.+|.|+.
T Consensus 2 ~~~eAi~yar~~l~~~~~~~~~~~~el~~~m~llaf~~~~~~sp~~~ll~~~~~~~la~~~n~~~l~~~~~~~~~s~L~~ 81 (99)
T smart00757 2 KIEEALAYARELLAPFAKEHEKFLKELEKTMALLAYPDPTEPSPYKELLSPSQREKLAEELNSAILELLHGKSSESPLEI 81 (99)
T ss_pred cHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHhcCCCCCCccHHHHCCHHHHHHHHHHHHHHHHHHccCCCCCChHHH
Confidence 578999999999999998887778899999999999998 88999999999999999999999999998 9999999999
Q ss_pred HHHHHHHHHHHhhhh
Q 026282 208 LLKMLLWAQNQLDEK 222 (241)
Q Consensus 208 llk~~~~~q~~L~~k 222 (241)
++++..|++..+..+
T Consensus 82 ~~~~~~~~~~~l~~~ 96 (99)
T smart00757 82 LLSAGLAALKTLLEK 96 (99)
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999988654
No 6
>KOG0293 consensus WD40 repeat-containing protein [Function unknown]
Probab=99.37 E-value=5.8e-12 Score=113.17 Aligned_cols=168 Identities=15% Similarity=0.166 Sum_probs=133.8
Q ss_pred HHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC--cCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCcchhhh
Q 026282 40 KEDMNKLVMNFLVTEGYVDAAEKFRMESGTE--HIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHL 117 (241)
Q Consensus 40 ~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~--~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L 117 (241)
+.++.+++.+.|+..||.+++..++.|+|+- ..+. +.+.+++++|+|+.++.-+....-...+......|.+
T Consensus 17 k~efi~il~q~l~slgy~~S~~~lE~es~ll~~tat~------klf~q~vlqg~w~q~v~~~~~i~~~de~~~~ea~fLv 90 (519)
T KOG0293|consen 17 KGEFIRILWQILYSLGYDHSSPLLEWESGLLIPTATT------KLFDQQVLQGQWDQQVMSLVRISFEDERNRKEAMFLV 90 (519)
T ss_pred cchhhHhHHHHHHhcCccccchhhHHhhCcccccchH------HHHHHHHHcccHHHHHHHHhhccCcchhhhHHHHHHH
Confidence 6778999999999999999999999999998 3333 6689999999999999888766333355567899999
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHhccccccCCHHHHHHHHHHhhhhhccCCCCC-cccc-ccChhhHHHHHHHHHHHHHh
Q 026282 118 QQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVSNC-PVGD-LLDISQRLKTASEVNAAILT 195 (241)
Q Consensus 118 ~~q~fIEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~~~s-p~~~-l~~~~~r~~la~~~n~~il~ 195 (241)
.+|.|+|+++.|++..|+...|..+.++... .+++.++.+.|.+++...+ .... -.....|.+|.+++.+.|.+
T Consensus 91 ~kQ~fLEf~k~~~is~al~~l~~~~~~lr~~----~kk~~el~~sll~sn~~~~ne~~~~~~~~n~R~~ll~elskyi~p 166 (519)
T KOG0293|consen 91 NKQIFLEFLKTGSISHALPVLRNPVLYLRKN----KKKFHELASSLLVSNDQFSNEENTTAQLNNERDKLLDELSKYIPP 166 (519)
T ss_pred HHHHHHHHHhhccHhhhhHhhhcchhhhhhh----HHHHHHHHHHHhccccccccccchhhhhchhHHHHHHHHHhhCCH
Confidence 9999999999999999999999888887654 4667777778887743211 1111 11235689999999998877
Q ss_pred hCCCCCCCcHHHHHHHHHHHHHH
Q 026282 196 SQSHEKDPKLPSLLKMLLWAQNQ 218 (241)
Q Consensus 196 ~~g~~~~s~Le~llk~~~~~q~~ 218 (241)
.-- .|+-+||.|++|++..|..
T Consensus 167 ~il-lP~rRLehLl~qAv~~Q~d 188 (519)
T KOG0293|consen 167 NIL-LPKRRLEHLLEQAVKYQRD 188 (519)
T ss_pred hhc-CChHHHHHHHHHHHHHHHh
Confidence 665 4688999999999988855
No 7
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=99.33 E-value=2.5e-12 Score=86.33 Aligned_cols=55 Identities=31% Similarity=0.669 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHHHHHHhcCCH
Q 026282 77 ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKV 131 (241)
Q Consensus 77 ~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~fIEli~~~~~ 131 (241)
+..+..|+++|+.|+|++|++||+.++|.+.+.++.+.|.|++|+|+|+++.++.
T Consensus 2 ~~~~~~i~~~i~~g~~~~a~~~~~~~~~~l~~~~~~l~f~L~~q~~lell~~~~~ 56 (58)
T smart00668 2 FDERKRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGKL 56 (58)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHcCHHHhccCCCchhHHHHHHHHHHHHcCCc
Confidence 5678999999999999999999999999999999999999999999999998764
No 8
>KOG0275 consensus Conserved WD40 repeat-containing protein [General function prediction only]
Probab=98.76 E-value=8.4e-08 Score=84.60 Aligned_cols=164 Identities=19% Similarity=0.245 Sum_probs=121.1
Q ss_pred CCCCHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC--cCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCcc
Q 026282 36 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE--HIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQL 113 (241)
Q Consensus 36 ~~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~--~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l 113 (241)
+.+...++.|||.+||..+....|...|.+|+++. .+|. ...+.+.|.+|.||.++.-++..+. ...-
T Consensus 3 ieiessdVIrli~QflKE~~L~rtl~tLQeEt~VSLNTVDS-----vd~Fv~dI~sG~WD~VL~~vqsLKL-----P~kk 72 (508)
T KOG0275|consen 3 IEIESSDVIRLIEQFLKENSLHRTLQTLQEETNVSLNTVDS-----VDGFVNDINSGHWDTVLKTVQSLKL-----PDKK 72 (508)
T ss_pred eeeecchHHHHHHHHHhhhhHHHHHHHHHHhhccceeechh-----HHHHHHhcccCchHHHHHHHHhccC-----chhH
Confidence 45556789999999999999999999999999887 4443 4568899999999999999987652 2334
Q ss_pred hhhhHHHHHHHHHhcCCHHHHHHHHHHhccccc---cCCHHHHHHHHHHhhhh--hccCCCCCccccccChhhHHHHHHH
Q 026282 114 FFHLQQQRLIELIRNGKVEEALEFAQEELAPRG---EENQSFLEELERTVALL--AFEDVSNCPVGDLLDISQRLKTASE 188 (241)
Q Consensus 114 ~F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~---~~~~~~~~~l~~~~~LL--~y~~~~~sp~~~l~~~~~r~~la~~ 188 (241)
...|+.|-.+|||.-..+..|-..+|+. .|.. ...|+..-.++ .|| .|.||.+. |++--...+|..+|..
T Consensus 73 L~dLYEqivlEliELREL~tAR~~lRQT-dpM~~lKQ~~peRy~~lE---~ll~R~YFDp~Ea-Y~dssKEkrRa~IAQ~ 147 (508)
T KOG0275|consen 73 LIDLYEQIVLELIELRELGTARSLLRQT-DPMIMLKQIQPERYIRLE---NLLNRSYFDPREA-YGDSSKEKRRAVIAQA 147 (508)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHhcc-CceehhhccChHHHHHHH---HHhcccccChhhh-cCcchHHHHHHHHHHH
Confidence 5789999999999988888888888854 3432 22344344455 455 36677543 7774455677777766
Q ss_pred HHHHHHhhCCCCCCCcHHHHHHHHHHHHHH
Q 026282 189 VNAAILTSQSHEKDPKLPSLLKMLLWAQNQ 218 (241)
Q Consensus 189 ~n~~il~~~g~~~~s~Le~llk~~~~~q~~ 218 (241)
+... ....++|+|..|+.|++.+|+.
T Consensus 148 ls~E----V~VVppSRLlaLlGQaLKWQqH 173 (508)
T KOG0275|consen 148 LSGE----VHVVPPSRLLALLGQALKWQQH 173 (508)
T ss_pred hcCc----eEEcChHHHHHHHHHHhhhHhh
Confidence 6543 3445789999999999755543
No 9
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=98.41 E-value=4.3e-07 Score=51.60 Aligned_cols=27 Identities=37% Similarity=0.811 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHHh
Q 026282 41 EDMNKLVMNFLVTEGYVDAAEKFRMES 67 (241)
Q Consensus 41 ~~l~~LI~~yL~~~Gy~~ta~~l~~es 67 (241)
++||++|.+||.++||.+||.+|.+|+
T Consensus 1 ~~Ln~lI~~YL~~~Gy~~tA~~f~~Ea 27 (27)
T PF08513_consen 1 EELNQLIYDYLVENGYKETAKAFAKEA 27 (27)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHCCcHHHHHHHHhcC
Confidence 469999999999999999999999985
No 10
>smart00667 LisH Lissencephaly type-1-like homology motif. Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.
Probab=98.21 E-value=3e-06 Score=50.03 Aligned_cols=32 Identities=31% Similarity=0.754 Sum_probs=29.3
Q ss_pred CHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 026282 39 RKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (241)
Q Consensus 39 ~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~ 70 (241)
.+.+++++|++||.++||.+||.+|++|+|+.
T Consensus 2 ~~~~l~~lI~~yL~~~g~~~ta~~l~~e~~~~ 33 (34)
T smart00667 2 SRSELNRLILEYLLRNGYEETAETLQKESGLS 33 (34)
T ss_pred cHHHHHHHHHHHHHHcCHHHHHHHHHHHhCCC
Confidence 36789999999999999999999999999864
No 11
>KOG1477 consensus SPRY domain-containing proteins [General function prediction only]
Probab=98.18 E-value=7.8e-07 Score=83.45 Aligned_cols=178 Identities=24% Similarity=0.191 Sum_probs=138.2
Q ss_pred HHHHHHHHHHHHhCHHHHHHHHHHHhCCC--c---CcHHhH--------HHHHHHHHHHhcCCHHHHHHHHHhhChhhhh
Q 026282 42 DMNKLVMNFLVTEGYVDAAEKFRMESGTE--H---IDLATI--------TDRMAVKKAVQCGNVEDAIEKVNDLNPEILD 108 (241)
Q Consensus 42 ~l~~LI~~yL~~~Gy~~ta~~l~~es~~~--~---~d~~~~--------~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~ 108 (241)
.....+-.|+++.|+.+++..++..+.-. + .....+ ..+.....-+-.|.+..+.+.+.+..+....
T Consensus 251 l~t~~~~~~~l~~~~~~s~~~~s~~~~~~~~~~~~~e~~s~~~~~~~~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~ 330 (469)
T KOG1477|consen 251 LSTVPYPYFLLPGGYEESIAYFSTGARRFNDPFTGKEENSIDAVGSQTDKIGLDYHQRKGRGQFTRNGAYNAALIPTYRK 330 (469)
T ss_pred ccCCCccceecCcchhhhhhhhcchhhccCCcccchhhhhhhccccccchhhhhhhhhcCcceeechhhhcccccccccc
Confidence 34468889999999999999998876543 0 001111 1234444444445566666666555555444
Q ss_pred -------cCCcchhhhHHHHHHHHHhcCCHHHHHHHHHHhcccccc--CCHHHHHHHHHHhhhhhccCCCCCccccccCh
Q 026282 109 -------TNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGE--ENQSFLEELERTVALLAFEDVSNCPVGDLLDI 179 (241)
Q Consensus 109 -------~~~~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~~--~~~~~~~~l~~~~~LL~y~~~~~sp~~~l~~~ 179 (241)
..+..-+.+.|+.++.+.+.+.+...+++.+.++++... .+......++.+++|++|.+|..+|.....++
T Consensus 331 ~~~~~~~~~~~~~~~~~~~~~v~~~~~g~v~~e~~~~k~~l~~~~g~~~~~~~~~~~~~s~~Llays~p~~s~~g~~~~~ 410 (469)
T KOG1477|consen 331 VGQVFEVDYPQRGAKDPCGLHVNLGRAGFVFIEANAKKWELAKDYGIKKNSAAVGMLSDSSSLLAYSDPEESPVGYLLDP 410 (469)
T ss_pred cceeecccccchhhccchhhhhhHHHHHHHHHHHHHHHHhhhhhhCcCccccccccccchHHHHHhcCcccCccccccCc
Confidence 346788999999999999999999999999999888755 33345778999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHh
Q 026282 180 SQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQL 219 (241)
Q Consensus 180 ~~r~~la~~~n~~il~~~g~~~~s~Le~llk~~~~~q~~L 219 (241)
.+|+-+++.+|.+++...+.++.+.|+.++.+.-.+...+
T Consensus 411 ~~~e~v~~~~n~~il~t~~~~~~~~l~~~l~~~~~~~~~~ 450 (469)
T KOG1477|consen 411 IQREPVAEALNSAILETDNNSKDPDLERVLSQTPAELSLY 450 (469)
T ss_pred ccchhHHhhhcccccccCCCCccchhhhhhccchhhHhhh
Confidence 9999999999999999999999999999999987666554
No 12
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.31 E-value=0.011 Score=52.36 Aligned_cols=189 Identities=11% Similarity=0.024 Sum_probs=131.6
Q ss_pred hhcccCCChHHHHHHhccCCCCHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC--cCcHHhHHHHHHHHHHHhcCCHHHH
Q 026282 18 AMSKKVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE--HIDLATITDRMAVKKAVQCGNVEDA 95 (241)
Q Consensus 18 ~~~~~~~~~~~~~~~l~~~~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~--~~d~~~~~~r~~I~~~I~~G~~~~A 95 (241)
..++.+++...- +.+...+.+...++.+...+..+.|-..-+..|+.+.|.. ....+.|...+.|.+.|.+.+...-
T Consensus 79 ~~~~~nFd~~~~-n~~~~f~~~~v~~~~~~~l~~~n~~dv~~~hi~~~~~g~~e~~~~~~~f~~lK~v~~gI~~k~~~l~ 157 (396)
T COG5109 79 DCRPANFDVQVG-NQIYPFSTQTVTYLVVYYLLENNCADVVERHISETKDGKDEIIKIRDGFVKLKKVISGISEKSTFLL 157 (396)
T ss_pred hhccccCCHHHH-hhcCCCccceeeehHHHHHHHhhHHHHHHHHHHHhhcCccchhhHHHHHHHHHHHHHhhccchhHhH
Confidence 344555665443 3344555566667777777788888888899999999988 4456889999999999999999999
Q ss_pred HHHHHhhChhhhhcCCcchhhhHHH--HHHHHHhcCCHHHHHHHHHHhccccccCCHHHHHHHHHHhhhhhccCC-----
Q 026282 96 IEKVNDLNPEILDTNPQLFFHLQQQ--RLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDV----- 168 (241)
Q Consensus 96 i~~i~~~~p~l~~~~~~l~F~L~~q--~fIEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~----- 168 (241)
++|. +....+.+.++..++.+... .++-++-+ ++++|+.++++.++.+...| ...++.++-.+.+...
T Consensus 158 iE~~-Qi~gyl~kgdtesel~l~~~~~esl~l~hk-~~~~a~r~c~t~~a~f~~kh---~~dv~~~~~~l~nap~dcfrh 232 (396)
T COG5109 158 IEFL-QIEGYLSKGDTESELELYLVSHESLLLIHK-RYDEALRLCFTKLASFVPKH---IQDVKPLLRFLVNAPTDCFRH 232 (396)
T ss_pred HHHH-HhcCccccCCchhhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHh---ccchHHHHHHHHcCchHHhhh
Confidence 9999 44455556565555555554 44444444 89999999999887775433 3445554444443110
Q ss_pred -C----------------CCc--cccccChhhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHH
Q 026282 169 -S----------------NCP--VGDLLDISQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLL 213 (241)
Q Consensus 169 -~----------------~sp--~~~l~~~~~r~~la~~~n~~il~~~g~~~~s~Le~llk~~~ 213 (241)
+ +-| +-+-+ ...|..+...|.+.+++..|++-.|+|.-++....
T Consensus 233 rekelmqnI~~~l~ksligqPiEdIDkv-nk~~k~l~~lF~~eycaa~gm~~~spL~~~v~tG~ 295 (396)
T COG5109 233 REKELMQNIQEALKKSLIGQPIEDIDKV-NKSRKKLIELFKSEYCAANGMPNRSPLRELVETGT 295 (396)
T ss_pred cchhHHHHHHHHHHHhhcCCcHHHHHHh-hhhHHHHHHHHHHHHHHhcCCCccChHHHHHHhhh
Confidence 0 011 11111 24589999999999999999999999988887664
No 13
>KOG1333 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.23 E-value=0.21 Score=41.84 Aligned_cols=136 Identities=14% Similarity=0.162 Sum_probs=87.3
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHHhCCC-cCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhc----C----C
Q 026282 41 EDMNKLVMNFLVTEGYVDAAEKFRMESGTE-HIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDT----N----P 111 (241)
Q Consensus 41 ~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~-~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~----~----~ 111 (241)
+.++.+|-+||.-.|+.-|.++|-.|.... ....-.=....++.++|...|++.--+.=.....+++.. . .
T Consensus 6 ~~tDelvReYL~frgf~~tLkalD~E~~~~Ke~~frvdrivdq~~~a~q~~Dl~aLr~~W~~l~~r~Fs~Le~~y~~~~~ 85 (241)
T KOG1333|consen 6 ERTDELVREYLLFRGFTHTLKALDAEIKADKEKGFRVDRIVDQLQQAMQVYDLAALRDYWSYLERRLFSRLEDIYRPTIH 85 (241)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHhHHHhhhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 567899999999999999999998887655 111111123566778888888887655444333333322 1 2
Q ss_pred cchhhhHHHHHHHHHhcCCHHHHHHHHHHhccccccCCHHHHHHHHHHhhhhhcc---CCC-CCccccccChhhHHH
Q 026282 112 QLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFE---DVS-NCPVGDLLDISQRLK 184 (241)
Q Consensus 112 ~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~---~~~-~sp~~~l~~~~~r~~ 184 (241)
.++-.+.+...+..+.++..++|=+|.++.-+...+ . .+-++ .++|| ..+ ..|+..+|+...-+-
T Consensus 86 kle~Sl~r~yLV~~~q~nr~~K~~EFF~K~a~~lqn-q----~eWkD---WF~fPf~~~a~~tppf~~~F~ktw~e~ 154 (241)
T KOG1333|consen 86 KLETSLFRFYLVYTIQTNRNDKAQEFFAKQATELQN-Q----AEWKD---WFVLPFLPSAKDTPPFRKYFDKTWIEI 154 (241)
T ss_pred HHHHHHHHHHHhhhhhcCChHHHHHHHHHHHHHHhc-c----hhhhh---heecccCCCCCCCccHHHHHHhhhhHh
Confidence 356667777788888899999999999876444432 2 33444 33444 223 346777777553333
No 14
>PF09398 FOP_dimer: FOP N terminal dimerisation domain; InterPro: IPR018993 Fibroblast growth factor receptor 1 (FGFR1) oncogene partner (FOP) is a centrosomal protein that is involved in anchoring microtubules to centrosomes. This domain includes a Lis-homology motif. It forms an alpha-helical bundle and is involved in dimerisation []. ; GO: 0034453 microtubule anchoring, 0005813 centrosome; PDB: 2D68_A.
Probab=91.86 E-value=0.3 Score=35.01 Aligned_cols=29 Identities=24% Similarity=0.304 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 026282 42 DMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (241)
Q Consensus 42 ~l~~LI~~yL~~~Gy~~ta~~l~~es~~~ 70 (241)
.++.||.+||..+||.-|+..|..|+|.+
T Consensus 20 Li~eLIrEyLef~~l~~TlsVf~~Es~~~ 48 (81)
T PF09398_consen 20 LINELIREYLEFNNLDYTLSVFQPESGQP 48 (81)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHT-T
T ss_pred HHHHHHHHHHHHcCCccHHHHHhhccCCC
Confidence 57899999999999999999999999988
No 15
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=73.47 E-value=20 Score=33.85 Aligned_cols=76 Identities=28% Similarity=0.333 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHHhCCCcCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHH
Q 026282 43 MNKLVMNFLVTEGYVDAAEKFRMESGTEHIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRL 122 (241)
Q Consensus 43 l~~LI~~yL~~~Gy~~ta~~l~~es~~~~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~f 122 (241)
.-.-|+.||...||.+.|-.|+++. +.++.=+|..|+++.|.+.+.+... -..+++--
T Consensus 297 ~~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~L~~A~~~a~~~~~----------~~~W~~Lg 354 (443)
T PF04053_consen 297 QGQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGNLDIALEIAKELDD----------PEKWKQLG 354 (443)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-HHHHHHHCCCCST----------HHHHHHHH
T ss_pred HHHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCCHHHHHHHHHhcCc----------HHHHHHHH
Confidence 4667899999999999999996543 5778899999999999999876541 22566666
Q ss_pred HHHHhcCCHHHHHHHHHH
Q 026282 123 IELIRNGKVEEALEFAQE 140 (241)
Q Consensus 123 IEli~~~~~~~Al~~~r~ 140 (241)
=+.++.|++.-|-++.++
T Consensus 355 ~~AL~~g~~~lAe~c~~k 372 (443)
T PF04053_consen 355 DEALRQGNIELAEECYQK 372 (443)
T ss_dssp HHHHHTTBHHHHHHHHHH
T ss_pred HHHHHcCCHHHHHHHHHh
Confidence 667888999888888774
No 16
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=71.01 E-value=11 Score=25.60 Aligned_cols=35 Identities=11% Similarity=0.356 Sum_probs=27.0
Q ss_pred CCCCHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 026282 36 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (241)
Q Consensus 36 ~~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~ 70 (241)
++-.+.++-..|.+|...+||.-|...+++..|+.
T Consensus 4 LT~rQ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~ 38 (65)
T PF01726_consen 4 LTERQKEVLEFIREYIEENGYPPTVREIAEALGLK 38 (65)
T ss_dssp --HHHHHHHHHHHHHHHHHSS---HHHHHHHHTSS
T ss_pred CCHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhCCC
Confidence 34456778899999999999999999999999987
No 17
>PF04494 TFIID_90kDa: WD40 associated region in TFIID subunit; InterPro: IPR007582 This region, possibly a domain is found in subunits of transcription factor TFIID. The function of this region is unknown.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2J4B_D 2J49_A 2NXP_F.
Probab=69.48 E-value=13 Score=29.27 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=36.8
Q ss_pred CcchhhhHHHHHHHHHhcCCHHHHHHHHHHhccccccCCHHHHHHHHHHhh
Q 026282 111 PQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVA 161 (241)
Q Consensus 111 ~~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~ 161 (241)
..+.|=+..+-|++|+..|..++|..|..++-.-+...+ ..+++++.+
T Consensus 38 ~~lLyPvFvh~YL~Lv~~~~~~~A~~F~~kf~~~~~~~~---~~~i~~L~~ 85 (142)
T PF04494_consen 38 SRLLYPVFVHSYLDLVSKGHPEEAKSFLEKFSPDFEDSH---QEDIEKLSS 85 (142)
T ss_dssp GGGHHHHHHHHHHHHHHTT-HHHHHHHHHHHGGGGHGHG---HHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHhHHH---HHHHHHHHh
Confidence 458999999999999999999999999998766665444 445665543
No 18
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=66.32 E-value=33 Score=22.24 Aligned_cols=55 Identities=20% Similarity=0.250 Sum_probs=33.3
Q ss_pred HHhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHHHHHHhcCCHHHHHHHHHHhcccc
Q 026282 86 AVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPR 145 (241)
Q Consensus 86 ~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~ 145 (241)
++.+|++++|++.+++.. ..++. .-.++..--.=+++.|+.++|..+..+-+...
T Consensus 1 ll~~~~~~~A~~~~~~~l----~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~ 55 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKAL----QRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQD 55 (68)
T ss_dssp HHHTTHHHHHHHHHHHHH----HHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred ChhccCHHHHHHHHHHHH----HHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 467899999999988643 22221 11222222223567899999999998655443
No 19
>PF06588 Muskelin_N: Muskelin N-terminus; InterPro: IPR010565 This entry represents the N-terminal region of muskelin and is found in conjunction with several IPR006652 from INTERPRO repeats. Muskelin is an intracellular, kelch repeat protein that is needed in cell-spreading responses to the matrix adhesion molecule, thrombospondin-1 [].
Probab=66.17 E-value=8.8 Score=32.13 Aligned_cols=31 Identities=23% Similarity=0.544 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 026282 40 KEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (241)
Q Consensus 40 ~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~ 70 (241)
..+..|+++-||..+||.++..+|.+.+|+.
T Consensus 165 e~eaiRlcLKHlRq~~y~~aFesLqk~t~v~ 195 (199)
T PF06588_consen 165 EKEAIRLCLKHLRQRGYLEAFESLQKQTGVQ 195 (199)
T ss_pred HHHHHHHHHHHhhhcCchhHHHHHHHHcCCC
Confidence 3467799999999999999999999999986
No 20
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.02 E-value=40 Score=29.63 Aligned_cols=75 Identities=13% Similarity=0.149 Sum_probs=62.2
Q ss_pred HHHHHHhccCCCCHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC-cCcHHhHHHHHHHHHHHhcCCHHHHHHHHHh
Q 026282 27 EEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE-HIDLATITDRMAVKKAVQCGNVEDAIEKVND 101 (241)
Q Consensus 27 ~~~~~~l~~~~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~-~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~ 101 (241)
-.|.++.++.+.--....-.|+=||..+.|..+-+.+..-+.++ ..+.+......++...--+||++++-..++.
T Consensus 177 ~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~gD~E~~~kvl~s 252 (308)
T KOG1585|consen 177 GVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDEGDIEEIKKVLSS 252 (308)
T ss_pred hhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhccCCHHHHHHHHcC
Confidence 34777787777777788899999999999999999999989888 5555555667778888889999999888764
No 21
>KOG0273 consensus Beta-transducin family (WD-40 repeat) protein [Chromatin structure and dynamics]
Probab=61.66 E-value=2.5 Score=39.69 Aligned_cols=34 Identities=29% Similarity=0.555 Sum_probs=32.0
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 026282 37 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (241)
Q Consensus 37 ~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~ 70 (241)
.++++++|.||--||...||.-||-+|..|+++.
T Consensus 2 sitsdEvN~LV~RYLqE~G~~hsaftf~~Et~is 35 (524)
T KOG0273|consen 2 SITSDEVNFLVWRYLQESGFSHSAFTFGIETGIS 35 (524)
T ss_pred cccHHHHHHHHHHHHHHcCcceeeEEeeeccccc
Confidence 4678999999999999999999999999999987
No 22
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=59.76 E-value=76 Score=25.86 Aligned_cols=82 Identities=20% Similarity=0.311 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHHhCCCcCcHHhHHHHHHHHHHHhcCCHHHHHHHHH--hhChhhhhcCCcchhhhH
Q 026282 41 EDMNKLVMNFLVTEGYVDAAEKFRMESGTEHIDLATITDRMAVKKAVQCGNVEDAIEKVN--DLNPEILDTNPQLFFHLQ 118 (241)
Q Consensus 41 ~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~--~~~p~l~~~~~~l~F~L~ 118 (241)
..+..++.+-|++.|-......|..-.=++ |. ..-|...+. ..+|...+..-++.-.|.
T Consensus 29 ~~L~~lli~lLi~~~~~~~L~qllq~~Vi~--DS-----------------k~lA~~LLs~~~~~~~~~Ql~lDMLkRL~ 89 (167)
T PF07035_consen 29 HELYELLIDLLIRNGQFSQLHQLLQYHVIP--DS-----------------KPLACQLLSLGNQYPPAYQLGLDMLKRLG 89 (167)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHhhcccC--Cc-----------------HHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence 347788888888888777777665433222 21 122222222 123444444444445555
Q ss_pred -HHH-HHH-HHhcCCHHHHHHHHHHh
Q 026282 119 -QQR-LIE-LIRNGKVEEALEFAQEE 141 (241)
Q Consensus 119 -~q~-fIE-li~~~~~~~Al~~~r~~ 141 (241)
... .+| |+..|++.+|+.|+|+.
T Consensus 90 ~~~~~iievLL~~g~vl~ALr~ar~~ 115 (167)
T PF07035_consen 90 TAYEEIIEVLLSKGQVLEALRYARQY 115 (167)
T ss_pred hhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence 333 445 77899999999999974
No 23
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=58.69 E-value=26 Score=27.06 Aligned_cols=57 Identities=18% Similarity=0.142 Sum_probs=43.1
Q ss_pred HHHHHHHHhCHHHHHHHHHHHhCCC----cCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 026282 46 LVMNFLVTEGYVDAAEKFRMESGTE----HIDLATITDRMAVKKAVQCGNVEDAIEKVNDLN 103 (241)
Q Consensus 46 LI~~yL~~~Gy~~ta~~l~~es~~~----~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~ 103 (241)
-|.+.+ ..|-.+.|-..+.+..-. ..+....-.+.++.+.|.+|++.+|+++++++.
T Consensus 7 ~I~~~I-~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l 67 (145)
T PF10607_consen 7 KIRQAI-LNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARKHL 67 (145)
T ss_pred HHHHHH-HcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 355555 788888887777665311 355666677888999999999999999999854
No 24
>PF13934 ELYS: Nuclear pore complex assembly
Probab=55.08 E-value=88 Score=26.58 Aligned_cols=45 Identities=13% Similarity=0.079 Sum_probs=26.5
Q ss_pred hHHHHHHhccCCCCHHHHHHHHHHHHHHhCH---HHHHHHHHHHhCCC
Q 026282 26 REEWEKKLNDVKIRKEDMNKLVMNFLVTEGY---VDAAEKFRMESGTE 70 (241)
Q Consensus 26 ~~~~~~~l~~~~~~~~~l~~LI~~yL~~~Gy---~~ta~~l~~es~~~ 70 (241)
...-.+.+..-+++...=+-++.=+|...+- .+.+..|+...+++
T Consensus 29 L~~Ll~~i~~~~~~~~~K~~l~~YlLlD~~~~~~~~~~~~Fa~~f~ip 76 (226)
T PF13934_consen 29 LRALLDLILSSNVSLLKKHSLFYYLLLDLDDTRPSELAESFARAFGIP 76 (226)
T ss_pred HHHHHHHHhcCCcCHHHhHHHHHHHHHhcCccccccHHHHHHHHhCCC
Confidence 4445555555555544333444444444443 45889999999987
No 25
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=54.63 E-value=1.3e+02 Score=27.05 Aligned_cols=78 Identities=14% Similarity=0.197 Sum_probs=55.0
Q ss_pred HHHHHHhCHHHHHHHHHHHhCCCcCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHHHHH-H
Q 026282 48 MNFLVTEGYVDAAEKFRMESGTEHIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIEL-I 126 (241)
Q Consensus 48 ~~yL~~~Gy~~ta~~l~~es~~~~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~fIEl-i 126 (241)
+..|+..|....|..+.++.+++ +.---.-.|+..+..|+|++-..+.... +|++=| .-|++. +
T Consensus 184 i~~li~~~~~k~A~kl~k~Fkv~----dkrfw~lki~aLa~~~~w~eL~~fa~sk-------KsPIGy----epFv~~~~ 248 (319)
T PF04840_consen 184 IRKLIEMGQEKQAEKLKKEFKVP----DKRFWWLKIKALAENKDWDELEKFAKSK-------KSPIGY----EPFVEACL 248 (319)
T ss_pred HHHHHHCCCHHHHHHHHHHcCCc----HHHHHHHHHHHHHhcCCHHHHHHHHhCC-------CCCCCh----HHHHHHHH
Confidence 45567788889999999999887 3333456788888999999888876542 244333 346663 4
Q ss_pred hcCCHHHHHHHHHH
Q 026282 127 RNGKVEEALEFAQE 140 (241)
Q Consensus 127 ~~~~~~~Al~~~r~ 140 (241)
+.|+..+|..|..+
T Consensus 249 ~~~~~~eA~~yI~k 262 (319)
T PF04840_consen 249 KYGNKKEASKYIPK 262 (319)
T ss_pred HCCCHHHHHHHHHh
Confidence 56778888888875
No 26
>cd08044 TAF5_NTD2 TAF5_NTD2 is the second conserved N-terminal region of TATA Binding Protein (TBP) Associated Factor 5 (TAF5), involved in forming Transcription Factor IID (TFIID). The TATA Binding Protein (TBP) Associated Factor 5 (TAF5) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TAF5 contains three domains, two conserved sequence motifs at the N-terminal and one at the C-terminal region. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the preinitiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. In yeast and human cells, TAFs have been found as components of other complexes besides TFIID. TAF5 may play a major role in forming TFIID and its related complexes. TAFs from various
Probab=54.02 E-value=16 Score=28.33 Aligned_cols=48 Identities=21% Similarity=0.373 Sum_probs=35.7
Q ss_pred CcchhhhHHHHHHHHHhcCCHHHHHHHHHHhccccccCCHHHHHHHHHHhh
Q 026282 111 PQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVA 161 (241)
Q Consensus 111 ~~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~ 161 (241)
..+.|=+..+-|++||.+|...+|..|..++-.-+.. .....++.+.+
T Consensus 27 ~~lLyPiFvh~yL~lv~~~~~~~A~~F~~~f~~~~~~---~~~~~i~~L~~ 74 (133)
T cd08044 27 SQLLYPIFVHSYLDLVASGHLEEAKSFFERFSGDFED---SHSEDIKKLSS 74 (133)
T ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhHhhHH---HHHHHHHHHHc
Confidence 3488999999999999999999999999976444432 23455665443
No 27
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=51.78 E-value=21 Score=26.97 Aligned_cols=47 Identities=13% Similarity=0.194 Sum_probs=38.1
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHHHH
Q 026282 78 TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIE 124 (241)
Q Consensus 78 ~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~fIE 124 (241)
.....+.+.|.++||+.|.+.+.+....-.+....+.|.+..+.+=+
T Consensus 30 ~~l~~i~~~i~~~dW~~A~~~~~~l~~~W~k~~~~~~~~~~h~eid~ 76 (121)
T PF14276_consen 30 EQLEQIEEAIENEDWEKAYKETEELEKEWDKNKKRWSILIEHQEIDN 76 (121)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhchheeeeecHHHHHH
Confidence 44577999999999999999998887766677777888888877644
No 28
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=49.89 E-value=1.9e+02 Score=25.92 Aligned_cols=88 Identities=18% Similarity=0.245 Sum_probs=66.7
Q ss_pred hccCCCCHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCcCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCc
Q 026282 33 LNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEHIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQ 112 (241)
Q Consensus 33 l~~~~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~ 112 (241)
-..++|+..+.-++.+.-|...|.++-...|.++-.. ++..+.| +.-++..|+..+|..++....+ ...
T Consensus 200 ~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~skKs-PIGyepF-----v~~~~~~~~~~eA~~yI~k~~~-----~~r 268 (319)
T PF04840_consen 200 KKEFKVPDKRFWWLKIKALAENKDWDELEKFAKSKKS-PIGYEPF-----VEACLKYGNKKEASKYIPKIPD-----EER 268 (319)
T ss_pred HHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhCCCC-CCChHHH-----HHHHHHCCCHHHHHHHHHhCCh-----HHH
Confidence 3456888899999999999999999999999876322 6777776 8888999999999999987432 111
Q ss_pred chhhhHHHHHHHHHhcCCHHHHHHHHHH
Q 026282 113 LFFHLQQQRLIELIRNGKVEEALEFAQE 140 (241)
Q Consensus 113 l~F~L~~q~fIEli~~~~~~~Al~~~r~ 140 (241)
+.+ +++.|+..+|++.|.+
T Consensus 269 v~~---------y~~~~~~~~A~~~A~~ 287 (319)
T PF04840_consen 269 VEM---------YLKCGDYKEAAQEAFK 287 (319)
T ss_pred HHH---------HHHCCCHHHHHHHHHH
Confidence 222 3566778888877765
No 29
>TIGR03362 VI_chp_7 type VI secretion-associated protein, VC_A0119 family. This protein family is one of two related families in type VI secretion systems that contain an ImpA-related N-terminal domain (pfam06812).
Probab=48.19 E-value=2e+02 Score=25.65 Aligned_cols=31 Identities=26% Similarity=0.154 Sum_probs=26.3
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHHHHh
Q 026282 37 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMES 67 (241)
Q Consensus 37 ~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es 67 (241)
+..--++++++.+.|.+.||.+.+.++..+.
T Consensus 129 ~pfWLDgq~~~~qal~~lG~~~~a~aI~~el 159 (301)
T TIGR03362 129 APFWLDGQRLSAQALERLGYAAVAQAIRDEL 159 (301)
T ss_pred CchhhHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 3445568899999999999999999988886
No 30
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=47.11 E-value=29 Score=23.94 Aligned_cols=52 Identities=29% Similarity=0.440 Sum_probs=27.8
Q ss_pred HHHHHhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHHHHHHhcCCHHHHHHHHHH
Q 026282 83 VKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQE 140 (241)
Q Consensus 83 I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~fIEli~~~~~~~Al~~~r~ 140 (241)
-.-....|+++.|+.+++. ......+....+.+ -+- +++.|+.++|++...+
T Consensus 32 a~~~~~~~~y~~A~~~~~~--~~~~~~~~~~~~l~-a~~---~~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 32 AQCYFQQGKYEEAIELLQK--LKLDPSNPDIHYLL-ARC---LLKLGKYEEAIKALEK 83 (84)
T ss_dssp HHHHHHTTHHHHHHHHHHC--HTHHHCHHHHHHHH-HHH---HHHTT-HHHHHHHHHH
T ss_pred HHHHHHCCCHHHHHHHHHH--hCCCCCCHHHHHHH-HHH---HHHhCCHHHHHHHHhc
Confidence 3445677888888888876 22222222222222 222 3345778888876653
No 31
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=45.80 E-value=33 Score=23.57 Aligned_cols=40 Identities=30% Similarity=0.473 Sum_probs=28.0
Q ss_pred hhHHHHHHHHHhcCCHHHHHHHHHHhccccc-cCCHHHHHHHH
Q 026282 116 HLQQQRLIELIRNGKVEEALEFAQEELAPRG-EENQSFLEELE 157 (241)
Q Consensus 116 ~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~-~~~~~~~~~l~ 157 (241)
.+..++|-+++..|++.+|-.+|-. +|-+ -..++...+++
T Consensus 7 ~l~~~~F~~l~~~g~y~eAA~~AA~--sP~giLRt~~Ti~rFk 47 (66)
T PF13838_consen 7 DLYVQQFNELFSQGQYEEAAKVAAN--SPRGILRTPETINRFK 47 (66)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHH--SGGGTT-SHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHh--CccchhcCHHHHHHHH
Confidence 5789999999999999999988875 3322 12455556665
No 32
>KOG4594 consensus Sequence-specific single-stranded-DNA-binding protein [Replication, recombination and repair; Transcription; General function prediction only]
Probab=45.42 E-value=26 Score=31.12 Aligned_cols=29 Identities=24% Similarity=0.384 Sum_probs=25.9
Q ss_pred CHHHHHHHHHHHHHHhCHHHHHHHHHHHh
Q 026282 39 RKEDMNKLVMNFLVTEGYVDAAEKFRMES 67 (241)
Q Consensus 39 ~~~~l~~LI~~yL~~~Gy~~ta~~l~~es 67 (241)
-|+.|.--|.+||+|-|-.++|++|..|.
T Consensus 16 ArekLa~YvYEYLlhvgaqksaqtflsei 44 (354)
T KOG4594|consen 16 AREKLALYVYEYLLHVGAQKSAQTFLSEI 44 (354)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhhhhHHHH
Confidence 36778899999999999999999998775
No 33
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=44.35 E-value=1.7e+02 Score=23.71 Aligned_cols=104 Identities=11% Similarity=-0.000 Sum_probs=69.3
Q ss_pred HHHHHHHHHHHHhCHHHHHH-HHHHHhCCCcCcHHhH-HHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcC-CcchhhhH
Q 026282 42 DMNKLVMNFLVTEGYVDAAE-KFRMESGTEHIDLATI-TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTN-PQLFFHLQ 118 (241)
Q Consensus 42 ~l~~LI~~yL~~~Gy~~ta~-~l~~es~~~~~d~~~~-~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~-~~l~F~L~ 118 (241)
.-..-+.+|+.+.|-.+.|. ++.+-..-.......+ -....|+=+|..|||..+...+++...-+.+.. ....-.|.
T Consensus 37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk 116 (177)
T PF10602_consen 37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK 116 (177)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 34456889999999777664 4444222111111111 245778999999999999999988776555422 45667788
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHhcccc
Q 026282 119 QQRLIELIRNGKVEEALEFAQEELAPR 145 (241)
Q Consensus 119 ~q~fIEli~~~~~~~Al~~~r~~l~p~ 145 (241)
+..-+..+..++..+|-+..-...+.+
T Consensus 117 ~~~gL~~l~~r~f~~AA~~fl~~~~t~ 143 (177)
T PF10602_consen 117 VYEGLANLAQRDFKEAAELFLDSLSTF 143 (177)
T ss_pred HHHHHHHHHhchHHHHHHHHHccCcCC
Confidence 888888888899888866555444444
No 34
>COG5443 FlbT Flagellar biosynthesis regulator FlbT [Cell motility and secretion]
Probab=42.36 E-value=47 Score=26.03 Aligned_cols=57 Identities=19% Similarity=0.239 Sum_probs=45.7
Q ss_pred HHHHhCHHHHHHHHHHHhCCC---cCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhh
Q 026282 50 FLVTEGYVDAAEKFRMESGTE---HIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEI 106 (241)
Q Consensus 50 yL~~~Gy~~ta~~l~~es~~~---~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l 106 (241)
|+.-.|-.++...|.+..+.- ..+.+.....+.|-..+.+|..-+|+..+...+|.-
T Consensus 65 linp~gaeq~~~~F~~~l~~l~~~f~~~eil~~lk~Id~lV~~~~~feALkaiR~lyp~E 124 (148)
T COG5443 65 LINPAGAEQATEMFRKSLNMLLACFKDAEILAALKRIDGLVMAGRAFEALKAIRGLYPIE 124 (148)
T ss_pred hcCHhhHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccHHHHHHHHHhhhchhH
Confidence 444557777778887776543 457788899999999999999999999999998863
No 35
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=40.80 E-value=1.4e+02 Score=25.64 Aligned_cols=66 Identities=18% Similarity=0.244 Sum_probs=51.9
Q ss_pred CCHHHHH-HHHHHHHHHhCHHHHHHHHHHHhCCC--cCc--HHhHHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 026282 38 IRKEDMN-KLVMNFLVTEGYVDAAEKFRMESGTE--HID--LATITDRMAVKKAVQCGNVEDAIEKVNDLN 103 (241)
Q Consensus 38 ~~~~~l~-~LI~~yL~~~Gy~~ta~~l~~es~~~--~~d--~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~ 103 (241)
++.+.++ |+....++..|-.+.|-.+.....=+ ..+ ....-...++...|++|...+|++..+..-
T Consensus 60 ~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~L 130 (228)
T KOG2659|consen 60 IDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKL 130 (228)
T ss_pred CchhhHhHHHHHHHHHHhccHHHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHc
Confidence 3455555 78888999999999999998877644 233 455677788899999999999999998643
No 36
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=40.76 E-value=1.9e+02 Score=27.12 Aligned_cols=87 Identities=10% Similarity=0.124 Sum_probs=65.8
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC---cCc-HHh-HHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCC
Q 026282 37 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE---HID-LAT-ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNP 111 (241)
Q Consensus 37 ~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~---~~d-~~~-~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~ 111 (241)
++-|.++.+++++-...+|-.+.|.....|..++ .++ .+. --...+.|-++.++||-.|--.-.+..+..++.+.
T Consensus 127 EvERarlTk~L~~ike~~Gdi~~Aa~il~el~VETygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~~ 206 (439)
T KOG1498|consen 127 EVERARLTKMLAKIKEEQGDIAEAADILCELQVETYGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKPD 206 (439)
T ss_pred eehHHHHHHHHHHHHHHcCCHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCcc
Confidence 6789999999999999999999998888888777 222 111 12456788899999999998888888888777654
Q ss_pred cchhhhHHHHHHHHH
Q 026282 112 QLFFHLQQQRLIELI 126 (241)
Q Consensus 112 ~l~F~L~~q~fIEli 126 (241)
..-.+.+|-+++
T Consensus 207 ---~~~lKlkyY~lm 218 (439)
T KOG1498|consen 207 ---VQELKLKYYELM 218 (439)
T ss_pred ---HHHHHHHHHHHH
Confidence 344556666643
No 37
>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length. Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=39.51 E-value=83 Score=30.04 Aligned_cols=53 Identities=13% Similarity=0.271 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcC--------CcchhhhHHHHHHHHHhcC
Q 026282 77 ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTN--------PQLFFHLQQQRLIELIRNG 129 (241)
Q Consensus 77 ~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~--------~~l~F~L~~q~fIEli~~~ 129 (241)
+-.-..+-..|..|.++++-..++...+.++++. ..+...+-+-.|+|+....
T Consensus 129 ~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~ 189 (549)
T PF07079_consen 129 FLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESM 189 (549)
T ss_pred HHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhc
Confidence 3445567788999999999999999999998853 2345567777888887654
No 38
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=38.49 E-value=88 Score=26.17 Aligned_cols=62 Identities=19% Similarity=0.307 Sum_probs=40.7
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHhhCh-------------hhhhcCCcchhhhHHHHHHHHHhcCCHHHHHHHHHHh
Q 026282 78 TDRMAVKKAVQCGNVEDAIEKVNDLNP-------------EILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEE 141 (241)
Q Consensus 78 ~~r~~I~~~I~~G~~~~Ai~~i~~~~p-------------~l~~~~~~l~F~L~~q~fIEli~~~~~~~Al~~~r~~ 141 (241)
.+|..-+++|+.|+=+.|+-.+...+- ++..+-+.++|.....++++=++.|+ +||.-.++.
T Consensus 41 ~Er~~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvsdiEft~vqk~V~~gLk~GN--~~lkkl~~~ 115 (209)
T KOG2910|consen 41 AERQLARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVSDIEFTQVQKKVMEGLKQGN--EALKKLQQE 115 (209)
T ss_pred HHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHh
Confidence 345667777788877777665553321 22233378999999999999998873 444444443
No 39
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=37.70 E-value=1.2e+02 Score=19.82 Aligned_cols=53 Identities=32% Similarity=0.333 Sum_probs=35.3
Q ss_pred HHhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHHHHHHhcCCHHHHHHHHHHhcc
Q 026282 86 AVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELA 143 (241)
Q Consensus 86 ~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l~ 143 (241)
.+.+++++.|++.++.. ...++. ...++...=.=+...|+..+|++...+-+.
T Consensus 5 ~~~~~~~~~A~~~~~~~----l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~ 57 (73)
T PF13371_consen 5 YLQQEDYEEALEVLERA----LELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE 57 (73)
T ss_pred HHhCCCHHHHHHHHHHH----HHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 46889999999998753 233333 333444444445567889999998887653
No 40
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=36.32 E-value=85 Score=22.03 Aligned_cols=61 Identities=15% Similarity=0.219 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHHhCCC----cCcHHhHHHHHHHHHHHhc-----C-CHHHHHHHHHh
Q 026282 41 EDMNKLVMNFLVTEGYVDAAEKFRMESGTE----HIDLATITDRMAVKKAVQC-----G-NVEDAIEKVND 101 (241)
Q Consensus 41 ~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~----~~d~~~~~~r~~I~~~I~~-----G-~~~~Ai~~i~~ 101 (241)
..+..+..+|..-.+-..+...|.+..|.. ..+...|..|+.|.+.|.. | ..++|++.|+.
T Consensus 9 ~TV~dlw~Ew~~g~~g~psI~~le~~yG~~WR~~~~~~~~y~rRK~Ii~~I~~l~~~~g~~~~~ai~~le~ 79 (81)
T PF12550_consen 9 KTVYDLWREWFTGLNGQPSIRSLEKKYGSKWRRDSKERRTYSRRKVIIDFIERLANERGISEEEAIEILEE 79 (81)
T ss_pred CcHHHHHHHHhcCCCCCCCHHHHHHHhChhhccCcccchhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 446777788877655666888888888865 4455688999999998876 3 66777777664
No 41
>KOG0263 consensus Transcription initiation factor TFIID, subunit TAF5 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=34.77 E-value=71 Score=31.89 Aligned_cols=34 Identities=24% Similarity=0.469 Sum_probs=30.6
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 026282 37 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (241)
Q Consensus 37 ~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~ 70 (241)
.+..+.+++.+.+||...||.+|-..+..|.++.
T Consensus 18 ~~~~~~~n~~v~~yl~~~~y~~te~~l~~e~~l~ 51 (707)
T KOG0263|consen 18 GSHTRDLNRIVLEYLRKKKYSRTEEMLRQEANLP 51 (707)
T ss_pred CcchHHHHHHHHHHHhhhcccccchhhhhhhccc
Confidence 4567889999999999999999999999998865
No 42
>PTZ00196 60S ribosomal protein L36; Provisional
Probab=34.66 E-value=66 Score=23.87 Aligned_cols=32 Identities=34% Similarity=0.617 Sum_probs=27.4
Q ss_pred hhhHHHHHHHHHhcCCHHHHHHHHHHhccccc
Q 026282 115 FHLQQQRLIELIRNGKVEEALEFAQEELAPRG 146 (241)
Q Consensus 115 F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~ 146 (241)
|.=+..+.+||++.+.--.|+.|+++.+..+.
T Consensus 48 faPYErr~mELLkv~kdKrAlKfaKkRlGth~ 79 (98)
T PTZ00196 48 FSPYERRMIELLKVGKDKRALKYAKKRLGTHK 79 (98)
T ss_pred ccHHHHHHHHHHHhcchHHHHHHHHHHhhhHH
Confidence 55677889999999988999999999987664
No 43
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=32.38 E-value=59 Score=17.33 Aligned_cols=17 Identities=12% Similarity=0.253 Sum_probs=12.1
Q ss_pred HHHHhcCCHHHHHHHHH
Q 026282 84 KKAVQCGNVEDAIEKVN 100 (241)
Q Consensus 84 ~~~I~~G~~~~Ai~~i~ 100 (241)
+-....|++++|..++.
T Consensus 9 ~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 9 RALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHcCCHHHHHHHHh
Confidence 34567788888887764
No 44
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=31.98 E-value=52 Score=29.49 Aligned_cols=24 Identities=29% Similarity=0.558 Sum_probs=21.4
Q ss_pred HHHHHHHHhcCCHHHHHHHHHhhC
Q 026282 80 RMAVKKAVQCGNVEDAIEKVNDLN 103 (241)
Q Consensus 80 r~~I~~~I~~G~~~~Ai~~i~~~~ 103 (241)
...|++++..||++.|+.++++-.
T Consensus 261 ~~aI~~AVk~gDi~KAL~LldEAe 284 (303)
T PRK10564 261 NQAIKQAVKKGDVDKALKLLDEAE 284 (303)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHH
Confidence 578999999999999999998753
No 45
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=30.84 E-value=1.1e+02 Score=20.31 Aligned_cols=33 Identities=18% Similarity=0.291 Sum_probs=25.3
Q ss_pred HHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhh
Q 026282 74 LATITDRMAVKKAVQCGNVEDAIEKVNDLNPEI 106 (241)
Q Consensus 74 ~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l 106 (241)
.+.....+-|...+.-|++++|.+++++....+
T Consensus 21 HD~~NhLqvI~gllqlg~~~~a~eYi~~~~~~~ 53 (62)
T PF14689_consen 21 HDFLNHLQVIYGLLQLGKYEEAKEYIKELSKDL 53 (62)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 456677788889999999999999998765443
No 46
>KOG0640 consensus mRNA cleavage stimulating factor complex; subunit 1 [RNA processing and modification]
Probab=30.73 E-value=1.4e+02 Score=27.08 Aligned_cols=32 Identities=19% Similarity=0.253 Sum_probs=29.0
Q ss_pred CHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 026282 39 RKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (241)
Q Consensus 39 ~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~ 70 (241)
+++.+-|||...|.+.||...|..|+.....+
T Consensus 10 dre~lyrLiisqL~ydg~~qiA~~lan~~~~~ 41 (430)
T KOG0640|consen 10 DREILYRLIISQLRYDGLSQIASALANATMTP 41 (430)
T ss_pred hHHHHHHHHHHHHhhccHHHHHHHHHHhhcCc
Confidence 58889999999999999999999999877666
No 47
>KOG2437 consensus Muskelin [Signal transduction mechanisms]
Probab=30.02 E-value=1.7e+02 Score=28.42 Aligned_cols=62 Identities=10% Similarity=0.151 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHhCHHHHHHHHHHHhCCC-cCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhh
Q 026282 42 DMNKLVMNFLVTEGYVDAAEKFRMESGTE-HIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILD 108 (241)
Q Consensus 42 ~l~~LI~~yL~~~Gy~~ta~~l~~es~~~-~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~ 108 (241)
.--+..+.||..+||.|....+.+.+.+. +... ..+|++++....-+..........|.++.
T Consensus 167 ~a~r~cL~~fr~~G~~DI~e~l~k~~~~~Ieh~~-----l~~i~d~l~~~gd~~~e~i~~~~~~~lf~ 229 (723)
T KOG2437|consen 167 EAIRLCLKHFRQHGYTDIFESLQKKTKIAIEHPM-----LTDIHDKLVLKGDACEELIEKAVNDGLFN 229 (723)
T ss_pred HHHHHHHHHHHHcCchHHHHHHHHhhcccCCChH-----HHHHHHHHHHcccHHHHHHHhhhccHHHh
Confidence 35578899999999999999999999876 2222 45677777555444445555555565543
No 48
>PF01158 Ribosomal_L36e: Ribosomal protein L36e; InterPro: IPR000509 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 [, ]. A number of eukaryotic ribosomal proteins can be grouped on the basis of sequence similarities. The L36E ribosomal family consists of mammalian, Caenorhabditis elegans and Drosophila L36, Candida albicans L39, and yeast YL39 ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1B_Q 4A1D_Q 4A19_Q 4A18_Q 3IZS_k 3IZR_k.
Probab=29.98 E-value=85 Score=23.30 Aligned_cols=32 Identities=31% Similarity=0.474 Sum_probs=27.7
Q ss_pred hhhHHHHHHHHHhcCCHHHHHHHHHHhccccc
Q 026282 115 FHLQQQRLIELIRNGKVEEALEFAQEELAPRG 146 (241)
Q Consensus 115 F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~ 146 (241)
|.=+..+.+||++.+.--.|+.|+++.+..+.
T Consensus 48 faPYEkr~mELlkv~kdKrAlKf~KKRlGth~ 79 (98)
T PF01158_consen 48 FAPYEKRAMELLKVSKDKRALKFAKKRLGTHI 79 (98)
T ss_dssp HCHHHHHHHHHHHHCCHHHHHHHHHHHHCHHH
T ss_pred CChHHHHHHHHHhcchhHHHHHHHHHHhhhhH
Confidence 55678899999999999999999999987664
No 49
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=28.78 E-value=79 Score=20.63 Aligned_cols=27 Identities=19% Similarity=0.137 Sum_probs=23.2
Q ss_pred cChhhHHHHHHHHHHHHHhhCCCCCCC
Q 026282 177 LDISQRLKTASEVNAAILTSQSHEKDP 203 (241)
Q Consensus 177 ~~~~~r~~la~~~n~~il~~~g~~~~s 203 (241)
.+.+++..|++.+..++...+|.|.++
T Consensus 12 rs~EqK~~L~~~it~a~~~~~~~p~~~ 38 (60)
T PRK02289 12 RSQEQKNALAREVTEVVSRIAKAPKEA 38 (60)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcCcce
Confidence 478999999999999999999976543
No 50
>PF07729 FCD: FCD domain; InterPro: IPR011711 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family (IPR000524 from INTERPRO), and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR (IPR008920 from INTERPRO), HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA []. This entry represents the C-terminal ligand binding domain of many members of the GntR family. This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in P45427 from SWISSPROT and P31460 from SWISSPROT that are regulators of sugar biosynthesis operons.; PDB: 3SXK_A 3SXY_A 3SXM_B 3SXZ_A 3FMS_A 2DI3_B 2HS5_A 3IHU_B 3C7J_A.
Probab=28.75 E-value=1e+02 Score=21.93 Aligned_cols=26 Identities=19% Similarity=0.359 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHhh
Q 026282 77 ITDRMAVKKAVQCGNVEDAIEKVNDL 102 (241)
Q Consensus 77 ~~~r~~I~~~I~~G~~~~Ai~~i~~~ 102 (241)
...-..|.++|.+||.+.|.+.+..+
T Consensus 97 ~~~h~~i~~ai~~~d~~~a~~~~~~h 122 (125)
T PF07729_consen 97 LEEHREIIDAIRAGDPEAAREALRQH 122 (125)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 34556666666666666666666544
No 51
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=28.60 E-value=72 Score=25.87 Aligned_cols=48 Identities=19% Similarity=0.193 Sum_probs=32.0
Q ss_pred CHHHHHHHHHHHhCCC--cCc-----HHhHHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 026282 55 GYVDAAEKFRMESGTE--HID-----LATITDRMAVKKAVQCGNVEDAIEKVNDLN 103 (241)
Q Consensus 55 Gy~~ta~~l~~es~~~--~~d-----~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~ 103 (241)
|..+..+.++++.|++ ..+ ... ---..||+.|.+|+++.|-+++-..+
T Consensus 117 g~~~~L~~~~~~~g~~v~~v~~~~~~~~~-iSST~IR~~i~~G~i~~an~lLg~~y 171 (180)
T cd02064 117 GDAELLKELGKKYGFEVTVVPPVTLDGER-VSSTRIREALAEGDVELANELLGRPY 171 (180)
T ss_pred CCHHHHHHhhhhcCcEEEEeCcEecCCcE-EcHHHHHHHHHhCCHHHHHHHcCCCc
Confidence 4556777788888766 111 111 12256999999999999998875443
No 52
>KOG2437 consensus Muskelin [Signal transduction mechanisms]
Probab=28.18 E-value=2.8e+02 Score=27.04 Aligned_cols=36 Identities=17% Similarity=0.206 Sum_probs=29.8
Q ss_pred CcchhhhHHHHHHHHHhcCCHHHHHHHHHHhcccccc
Q 026282 111 PQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGE 147 (241)
Q Consensus 111 ~~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l~p~~~ 147 (241)
+...+.++.++|.|+... ++..|++|.++.+.|...
T Consensus 621 ~~~~~~~~~HrF~E~~~~-~~l~a~~ylq~~~~~~~D 656 (723)
T KOG2437|consen 621 RHCKYLIRKHRFEEKAQV-DPLSALKYLQNDLYITVD 656 (723)
T ss_pred hcchhhhHHHHHHHHhhh-hhHHHhHhhhhcceeccc
Confidence 446688999999999875 588999999998887643
No 53
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=28.00 E-value=1.8e+02 Score=19.55 Aligned_cols=50 Identities=14% Similarity=0.246 Sum_probs=35.8
Q ss_pred CCHHHHHHHHHHHHHHhCH-HHHHHHHHHHhCCCcCcHHhHHHHHHHHHHHhcCCH
Q 026282 38 IRKEDMNKLVMNFLVTEGY-VDAAEKFRMESGTEHIDLATITDRMAVKKAVQCGNV 92 (241)
Q Consensus 38 ~~~~~l~~LI~~yL~~~Gy-~~ta~~l~~es~~~~~d~~~~~~r~~I~~~I~~G~~ 92 (241)
++++...+-|+++|...|- .-++..++++.|++.. .-++.+..+..+|-+
T Consensus 2 ~~~~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~-----~v~r~L~~L~~~G~V 52 (68)
T smart00550 2 LTQDSLEEKILEFLENSGDETSTALQLAKNLGLPKK-----EVNRVLYSLEKKGKV 52 (68)
T ss_pred CCchHHHHHHHHHHHHCCCCCcCHHHHHHHHCCCHH-----HHHHHHHHHHHCCCE
Confidence 3567788999999999987 3789999999999711 224445555555543
No 54
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=27.93 E-value=1.5e+02 Score=19.57 Aligned_cols=56 Identities=20% Similarity=0.147 Sum_probs=28.1
Q ss_pred HhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHHHH--HHhcCCHHHHHHHHHHhc
Q 026282 87 VQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIE--LIRNGKVEEALEFAQEEL 142 (241)
Q Consensus 87 I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~fIE--li~~~~~~~Al~~~r~~l 142 (241)
...|++++|+++.++--.-....+..-........=+- ....|+.++|+++.++-+
T Consensus 16 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al 73 (78)
T PF13424_consen 16 RELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL 73 (78)
T ss_dssp HHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 36788888888877654331112211111122221111 224578888888887643
No 55
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=27.52 E-value=5.1e+02 Score=24.11 Aligned_cols=103 Identities=17% Similarity=0.145 Sum_probs=71.8
Q ss_pred cCCCCHHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCcCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCcch
Q 026282 35 DVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEHIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLF 114 (241)
Q Consensus 35 ~~~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~es~~~~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~ 114 (241)
..+.-.+.|..-++.|+...|-.+.|..+.++..-...+... .-.+-.+..++-.+|++.+++.- .+. .-.
T Consensus 163 ~~t~~~NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~----~LA~v~l~~~~E~~AI~ll~~aL---~~~--p~d 233 (395)
T PF09295_consen 163 VPTIVNNYLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAV----LLARVYLLMNEEVEAIRLLNEAL---KEN--PQD 233 (395)
T ss_pred CCCCcchHHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHH----HHHHHHHhcCcHHHHHHHHHHHH---HhC--CCC
Confidence 356667889998999999999888888888777654222211 23444567788889999987642 222 222
Q ss_pred hhhHHHHHHHHHhcCCHHHHHHHHHHh--ccccc
Q 026282 115 FHLQQQRLIELIRNGKVEEALEFAQEE--LAPRG 146 (241)
Q Consensus 115 F~L~~q~fIEli~~~~~~~Al~~~r~~--l~p~~ 146 (241)
..|...+---++..++.+.|+..+++- ++|..
T Consensus 234 ~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~ 267 (395)
T PF09295_consen 234 SELLNLQAEFLLSKKKYELALEIAKKAVELSPSE 267 (395)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchh
Confidence 667766666678889999999999984 55643
No 56
>PF07208 DUF1414: Protein of unknown function (DUF1414); InterPro: IPR009857 This family consists of several hypothetical bacterial proteins of around 70 residues in length. Members of this family are often referred to as YejL. The function of this family is unknown.; PDB: 2JPQ_A 2JUZ_B 2JUW_B 2QTI_A 2OTA_A 2JR2_A 2JRX_A.
Probab=26.89 E-value=92 Score=19.61 Aligned_cols=19 Identities=26% Similarity=0.226 Sum_probs=15.9
Q ss_pred ChhhHHHHHHHHHHHHHhh
Q 026282 178 DISQRLKTASEVNAAILTS 196 (241)
Q Consensus 178 ~~~~r~~la~~~n~~il~~ 196 (241)
.+++|..+++.|..++..+
T Consensus 25 ~~~qR~~iAe~Fa~AL~~S 43 (44)
T PF07208_consen 25 PPAQRQAIAEKFAQALKSS 43 (44)
T ss_dssp -HHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHhc
Confidence 4789999999999998754
No 57
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=26.20 E-value=2.5e+02 Score=21.12 Aligned_cols=11 Identities=27% Similarity=0.480 Sum_probs=4.8
Q ss_pred CHHHHHHHHHH
Q 026282 130 KVEEALEFAQE 140 (241)
Q Consensus 130 ~~~~Al~~~r~ 140 (241)
+.+.|++|+++
T Consensus 111 d~~~a~~~~~~ 121 (140)
T smart00299 111 NYEKAIEYFVK 121 (140)
T ss_pred CHHHHHHHHHh
Confidence 34444444444
No 58
>KOG0292 consensus Vesicle coat complex COPI, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.91 E-value=23 Score=36.26 Aligned_cols=50 Identities=26% Similarity=0.514 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHhCHHHHHHHHHHHhCCCcCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 026282 42 DMNKLVMNFLVTEGYVDAAEKFRMESGTEHIDLATITDRMAVKKAVQCGNVEDAIEKVNDLN 103 (241)
Q Consensus 42 ~l~~LI~~yL~~~Gy~~ta~~l~~es~~~~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~ 103 (241)
.+-+-|..||...||.+.|--|.++.. .++.-++..|+++.|++.+.+..
T Consensus 621 LvGqaiIaYLqKkgypeiAL~FVkD~~------------tRF~LaLe~gnle~ale~akkld 670 (1202)
T KOG0292|consen 621 LVGQAIIAYLQKKGYPEIALHFVKDER------------TRFELALECGNLEVALEAAKKLD 670 (1202)
T ss_pred cccHHHHHHHHhcCCcceeeeeecCcc------------hheeeehhcCCHHHHHHHHHhcC
Confidence 344678899999999999999987764 44667788888888888887654
No 59
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=24.55 E-value=2.1e+02 Score=23.81 Aligned_cols=64 Identities=13% Similarity=0.150 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCC------cchhhhHHHHHHHHHhcCCHHHHHHHHHHhc
Q 026282 78 TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNP------QLFFHLQQQRLIELIRNGKVEEALEFAQEEL 142 (241)
Q Consensus 78 ~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~------~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l 142 (241)
..|.+|.+.+- -.++.-++++...+..+.+..+ .+...+..-.|.++++.|+..+|.+.+.+.+
T Consensus 135 ~lr~~ie~~l~-~~~~~~~~~~~~~R~~~k~~~~~~~~r~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 204 (205)
T TIGR01470 135 LLRERIETLLP-PSLGDLATLAATWRDAVKKRLPNGAARRRFWEKFFDGAFAERVLAGREEQAERVLATRL 204 (205)
T ss_pred HHHHHHHHhcc-hhHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHhccHHHHHHHcCCHHHHHHHHHHhh
Confidence 34555555553 3567777888777777655432 2223344446788899999999988887654
No 60
>PF09312 SurA_N: SurA N-terminal domain; InterPro: IPR015391 The correct folding of outer membrane proteins in Gram negative bacteria is facilitated by the survival protein SurA []. This entry represents the domain found at the N terminus of the chaperone SurA. It is a helical domain of unknown function. The C terminus of the SurA protein folds back and forms part of this domain also but is not included in the current alignment. ; PDB: 3RGC_B 2PV3_B 1M5Y_A.
Probab=24.10 E-value=1.9e+02 Score=21.64 Aligned_cols=48 Identities=17% Similarity=0.366 Sum_probs=23.0
Q ss_pred ccCCCCHHHHHHHHHHHHHHhCHHHHHHHHHHH---hCCCcCcHHhHHHHHHHHHHHh
Q 026282 34 NDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRME---SGTEHIDLATITDRMAVKKAVQ 88 (241)
Q Consensus 34 ~~~~~~~~~l~~LI~~yL~~~Gy~~ta~~l~~e---s~~~~~d~~~~~~r~~I~~~I~ 88 (241)
.++.++..++++.|.+..-.+|. |...|.+. .|+. .+ .-|..|++.|.
T Consensus 63 ~gI~vsd~evd~~i~~ia~~n~l--s~~ql~~~L~~~G~s---~~--~~r~~ir~~i~ 113 (118)
T PF09312_consen 63 LGIKVSDEEVDEAIANIAKQNNL--SVEQLRQQLEQQGIS---YE--EYREQIRKQIL 113 (118)
T ss_dssp CT----HHHHHHHHHHHHHHTT----HHHHHHHCHHCT-----HH--HHHHHHHHHHH
T ss_pred cCCCCCHHHHHHHHHHHHHHcCC--CHHHHHHHHHHcCCC---HH--HHHHHHHHHHH
Confidence 45667777777777777777776 34444443 3442 22 22556665554
No 61
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=24.08 E-value=2.8e+02 Score=19.96 Aligned_cols=57 Identities=16% Similarity=0.230 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHHhCCCcCcHHhHHHHHHHHHHHhcCCHHHHHHHHH
Q 026282 43 MNKLVMNFLVTEGYVDAAEKFRMESGTEHIDLATITDRMAVKKAVQCGNVEDAIEKVN 100 (241)
Q Consensus 43 l~~LI~~yL~~~Gy~~ta~~l~~es~~~~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~ 100 (241)
..+.+.+.|...+-.+.+..|.++.=- +.+.+.+..|..|...+.+|.....++-.-
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~l~t-~~e~~~Ls~R~~I~~ll~~G~S~~eIA~~L 60 (88)
T TIGR02531 4 LLDELFDAILTLKNREECYRFFDDIAT-INEIQSLAQRLQVAKMLKQGKTYSDIEAET 60 (88)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHhCC-HHHHHhhhHHHHHHHHHHCCCCHHHHHHHH
Confidence 456778888889999999999877633 334456788899999999998777765543
No 62
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=22.48 E-value=61 Score=26.87 Aligned_cols=45 Identities=16% Similarity=0.242 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHHhCCCcCcHHhHHHHHHHHHHHhcCCH
Q 026282 43 MNKLVMNFLVTEGYVDAAEKFRMESGTEHIDLATITDRMAVKKAVQCGNV 92 (241)
Q Consensus 43 l~~LI~~yL~~~Gy~~ta~~l~~es~~~~~d~~~~~~r~~I~~~I~~G~~ 92 (241)
-.++|++||.++|-.-||..++++.|+.-. ..-+++..+..+|.+
T Consensus 5 ~~~~i~~~l~~~~~~~~a~~i~k~l~i~k~-----~vNr~LY~L~~~~~v 49 (183)
T PHA02701 5 CASLILTLLSSSGDKLPAKRIAKELGISKH-----EANRCLYRLLESDAV 49 (183)
T ss_pred HHHHHHHHHHhcCCCCcHHHHHHHhCccHH-----HHHHHHHHHhhcCcE
Confidence 457899999999987999999999999711 112345555555554
No 63
>COG3898 Uncharacterized membrane-bound protein [Function unknown]
Probab=21.89 E-value=5.4e+02 Score=24.40 Aligned_cols=81 Identities=21% Similarity=0.239 Sum_probs=57.0
Q ss_pred CHHHHHHHHHHHhCCC-cCcHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHHHHHHhcCCHHH
Q 026282 55 GYVDAAEKFRMESGTE-HIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEE 133 (241)
Q Consensus 55 Gy~~ta~~l~~es~~~-~~d~~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~fIEli~~~~~~~ 133 (241)
|.-..|..+.++++-. ..|.+.+...-.-+.++.+|+.+.|-+..+..- .++.....=.+.-|||.-+.|+.+.
T Consensus 98 Gda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl-----~dPEtRllGLRgLyleAqr~Garea 172 (531)
T COG3898 98 GDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAML-----DDPETRLLGLRGLYLEAQRLGAREA 172 (531)
T ss_pred CchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHh-----cChHHHHHhHHHHHHHHHhcccHHH
Confidence 4455566666666533 667777777777788899999999988776432 2344444445556888888999999
Q ss_pred HHHHHHH
Q 026282 134 ALEFAQE 140 (241)
Q Consensus 134 Al~~~r~ 140 (241)
|.+|+-.
T Consensus 173 Ar~yAe~ 179 (531)
T COG3898 173 ARHYAER 179 (531)
T ss_pred HHHHHHH
Confidence 9998865
No 64
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=21.28 E-value=2.3e+02 Score=17.93 Aligned_cols=54 Identities=22% Similarity=0.281 Sum_probs=31.0
Q ss_pred HHHHhcCCHHHHHHHHHhhChhhhhcCCcchhhhHHHHHHHHHhcCCHHHHHHHHHHhc
Q 026282 84 KKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEEL 142 (241)
Q Consensus 84 ~~~I~~G~~~~Ai~~i~~~~p~l~~~~~~l~F~L~~q~fIEli~~~~~~~Al~~~r~~l 142 (241)
...+..|+++.|++.++.. .+.++. .-..+...-.=+...|+..+|+.+.++-+
T Consensus 5 ~~~~~~g~~~~A~~~~~~~----l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~ 58 (65)
T PF13432_consen 5 RALYQQGDYDEAIAAFEQA----LKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERAL 58 (65)
T ss_dssp HHHHHCTHHHHHHHHHHHH----HCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHcCCHHHHHHHHHHH----HHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 4567889999998887643 333332 11222222222336788999998887653
No 65
>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.27 E-value=1.2e+02 Score=24.18 Aligned_cols=37 Identities=19% Similarity=0.352 Sum_probs=28.8
Q ss_pred HHHHHHHHHHhCCC----------cCcHHhHHHHHHHHHHHhcCCHH
Q 026282 57 VDAAEKFRMESGTE----------HIDLATITDRMAVKKAVQCGNVE 93 (241)
Q Consensus 57 ~~ta~~l~~es~~~----------~~d~~~~~~r~~I~~~I~~G~~~ 93 (241)
.+-|+.|++|.|+. .+....+...++|.+-|..|.+|
T Consensus 136 yeeak~faeengl~fle~saktg~nvedafle~akkiyqniqdgsld 182 (215)
T KOG0097|consen 136 YEEAKEFAEENGLMFLEASAKTGQNVEDAFLETAKKIYQNIQDGSLD 182 (215)
T ss_pred HHHHHHHHhhcCeEEEEecccccCcHHHHHHHHHHHHHHhhhcCccc
Confidence 46789999999977 22345568889999999999665
No 66
>PF03477 ATP-cone: ATP cone domain; InterPro: IPR005144 The ATP-cone is an evolutionarily mobile, ATP-binding regulatory domain which is found in a variety of proteins including ribonucleotide reductases, phosphoglycerate kinases and transcriptional regulators []. In ribonucleotide reductase protein R1 (P28903 from SWISSPROT) from Escherichia coli this domain is located at the N terminus, and is composed mostly of helices []. It forms part of the allosteric effector region and contains the general allosteric activity site in a cleft located at the tip of the N-terminal region []. This site binds either ATP (activating) or dATP (inhibitory), with the base bound in a hydrophobic pocket and the phosphates bound to basic residues. Substrate binding to this site is thought to affect enzyme activity by altering the relative positions of the two subunits of ribonucleotide reductase.; PDB: 2XO4_A 1RLR_A 7R1R_B 5R1R_A 2XO5_B 2XAW_A 2R1R_C 2XAY_B 2X0X_C 2XAZ_A ....
Probab=21.24 E-value=1e+02 Score=21.56 Aligned_cols=28 Identities=32% Similarity=0.601 Sum_probs=24.2
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHH
Q 026282 37 KIRKEDMNKLVMNFLVTEGYVDAAEKFR 64 (241)
Q Consensus 37 ~~~~~~l~~LI~~yL~~~Gy~~ta~~l~ 64 (241)
.++..++..+|.+.|..+|+.+.|+...
T Consensus 55 ~is~~eI~~~v~~~L~~~~~~~~a~~yi 82 (90)
T PF03477_consen 55 EISTEEIQDIVENALMEEGFYDVARAYI 82 (90)
T ss_dssp TEEHHHHHHHHHHHHHTSTTHHHHHHHH
T ss_pred CeeHHHHHHHHHHHHHcCChHHHHHHHH
Confidence 4678899999999999999999887763
No 67
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=21.14 E-value=5.7e+02 Score=22.48 Aligned_cols=16 Identities=19% Similarity=0.102 Sum_probs=9.9
Q ss_pred HHhcCCHHHHHHHHHh
Q 026282 86 AVQCGNVEDAIEKVND 101 (241)
Q Consensus 86 ~I~~G~~~~Ai~~i~~ 101 (241)
....|++++|++....
T Consensus 151 ~~~~g~~~~A~~~~~~ 166 (389)
T PRK11788 151 YQQEKDWQKAIDVAER 166 (389)
T ss_pred HHHhchHHHHHHHHHH
Confidence 4456777777666554
No 68
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=20.87 E-value=68 Score=22.33 Aligned_cols=16 Identities=25% Similarity=0.376 Sum_probs=13.5
Q ss_pred CHHHHHHHHHhhChhh
Q 026282 91 NVEDAIEKVNDLNPEI 106 (241)
Q Consensus 91 ~~~~Ai~~i~~~~p~l 106 (241)
.+|.|++|+.++.|.+
T Consensus 60 tld~Ai~Wi~e~M~~i 75 (79)
T PF10827_consen 60 TLDLAIAWIGEHMPHI 75 (79)
T ss_pred cHHHHHHHHHhcccch
Confidence 5789999999998765
No 69
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=20.78 E-value=1.4e+02 Score=26.64 Aligned_cols=49 Identities=18% Similarity=0.163 Sum_probs=33.2
Q ss_pred CHHHHHHHHHHHhCCC--cCcH----HhHHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 026282 55 GYVDAAEKFRMESGTE--HIDL----ATITDRMAVKKAVQCGNVEDAIEKVNDLN 103 (241)
Q Consensus 55 Gy~~ta~~l~~es~~~--~~d~----~~~~~r~~I~~~I~~G~~~~Ai~~i~~~~ 103 (241)
|..+..+.++++.|.+ ..+. ...---..||++|.+|+++.|-.++-..+
T Consensus 132 G~~~~L~~~~~~~g~~v~~v~~~~~~~~~ISST~IR~~I~~G~i~~A~~lLg~~y 186 (305)
T PRK05627 132 GDFELLKEAGKEFGFEVTIVPEVKEDGERVSSTAIRQALAEGDLELANKLLGRPY 186 (305)
T ss_pred CCHHHHHHHHHHcCcEEEEeccEecCCCcCchHHHHHHHHcCCHHHHHhhhcCCC
Confidence 4567778888887765 1100 00011256999999999999999987665
No 70
>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 [].
Probab=20.03 E-value=3.3e+02 Score=20.36 Aligned_cols=23 Identities=22% Similarity=0.437 Sum_probs=19.5
Q ss_pred HHHHhcCCHHHHHHHHHhhChhh
Q 026282 84 KKAVQCGNVEDAIEKVNDLNPEI 106 (241)
Q Consensus 84 ~~~I~~G~~~~Ai~~i~~~~p~l 106 (241)
..+|...+++.|+++++...|..
T Consensus 87 Y~~I~~kdfd~A~~~I~~W~p~~ 109 (116)
T PF10552_consen 87 YKDIPRKDFDEALEFINNWEPST 109 (116)
T ss_pred HHhhhHHHHHHHHHHHHHcCCCH
Confidence 46678899999999999998863
Done!