Query 026349
Match_columns 240
No_of_seqs 135 out of 837
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 06:53:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026349.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026349hhsearch_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 8.5E-42 1.8E-46 284.7 21.4 219 20-238 8-228 (228)
2 KOG0396 Uncharacterized conser 100.0 2.1E-30 4.6E-35 227.1 17.2 180 35-217 112-292 (389)
3 PF10607 CLTH: CTLH/CRA C-term 100.0 1.1E-30 2.4E-35 207.6 13.8 140 76-218 2-144 (145)
4 KOG2817 Predicted E3 ubiquitin 99.9 2.2E-23 4.8E-28 184.9 18.7 177 33-212 110-293 (394)
5 smart00757 CRA CT11-RanBPM. pr 99.7 4.1E-17 8.9E-22 121.2 10.7 93 129-221 2-96 (99)
6 smart00668 CTLH C-terminal to 99.4 1.3E-12 2.9E-17 87.5 5.7 55 76-130 2-56 (58)
7 KOG0293 WD40 repeat-containing 99.1 1.4E-09 3E-14 97.8 11.6 172 36-217 15-188 (519)
8 PF08513 LisH: LisH; InterPro 98.4 3E-07 6.5E-12 52.1 3.9 27 39-65 1-27 (27)
9 smart00667 LisH Lissencephaly 98.2 2.9E-06 6.3E-11 49.9 4.7 32 37-68 2-33 (34)
10 KOG1477 SPRY domain-containing 98.1 2.9E-07 6.3E-12 86.1 -1.1 185 34-218 245-450 (469)
11 KOG0275 Conserved WD40 repeat- 98.0 6.2E-05 1.3E-09 66.5 10.2 164 34-216 3-172 (508)
12 COG5109 Uncharacterized conser 97.5 0.0019 4.2E-08 56.8 12.3 176 34-215 96-298 (396)
13 KOG1333 Uncharacterized conser 95.1 0.23 5.1E-06 41.4 9.3 142 39-188 6-159 (241)
14 PF09398 FOP_dimer: FOP N term 89.1 0.91 2E-05 32.4 4.6 31 39-69 19-49 (81)
15 PF04494 TFIID_90kDa: WD40 ass 79.2 3.9 8.5E-05 32.1 4.6 47 110-159 38-84 (142)
16 PF07035 Mic1: Colon cancer-as 72.1 30 0.00064 28.2 8.1 89 33-140 24-115 (167)
17 PF14559 TPR_19: Tetratricopep 71.5 25 0.00054 22.8 6.6 55 85-144 1-55 (68)
18 PF04840 Vps16_C: Vps16, C-ter 67.8 87 0.0019 28.1 10.9 78 46-139 184-262 (319)
19 PF01726 LexA_DNA_bind: LexA D 66.3 8.2 0.00018 26.2 3.1 35 35-69 5-39 (65)
20 KOG0273 Beta-transducin family 66.1 1.9 4E-05 40.4 -0.1 35 34-68 1-35 (524)
21 PF04053 Coatomer_WDAD: Coatom 65.3 38 0.00082 31.9 8.4 77 40-139 296-372 (443)
22 cd08044 TAF5_NTD2 TAF5_NTD2 is 65.0 8.1 0.00017 29.9 3.3 48 110-160 27-74 (133)
23 PF10607 CLTH: CTLH/CRA C-term 64.8 21 0.00046 27.5 5.8 58 44-102 7-67 (145)
24 TIGR03362 VI_chp_7 type VI sec 63.8 75 0.0016 28.3 9.6 102 35-138 129-274 (301)
25 KOG4594 Sequence-specific sing 59.5 11 0.00024 33.3 3.4 29 38-66 17-45 (354)
26 PF06588 Muskelin_N: Muskelin 57.6 18 0.00038 30.3 4.2 33 38-70 165-197 (199)
27 KOG1585 Protein required for f 56.9 67 0.0014 28.2 7.7 76 25-100 177-252 (308)
28 PF10602 RPN7: 26S proteasome 51.0 1.3E+02 0.0029 24.3 11.2 104 41-145 38-144 (177)
29 KOG2659 LisH motif-containing 49.8 99 0.0021 26.5 7.6 68 36-103 60-131 (228)
30 PF07079 DUF1347: Protein of u 49.0 49 0.0011 31.4 6.0 96 34-129 74-190 (549)
31 PF13838 Clathrin_H_link: Clat 47.9 27 0.00059 23.9 3.2 40 115-156 7-47 (66)
32 PF12895 Apc3: Anaphase-promot 46.4 32 0.0007 23.6 3.6 52 82-139 32-83 (84)
33 PF09295 ChAPs: ChAPs (Chs5p-A 45.6 2.4E+02 0.0052 26.2 10.1 101 34-144 164-266 (395)
34 KOG2437 Muskelin [Signal trans 45.3 93 0.002 30.0 7.3 45 102-147 613-657 (723)
35 PF04840 Vps16_C: Vps16, C-ter 44.9 1.6E+02 0.0034 26.4 8.6 86 33-139 202-287 (319)
36 PF14276 DUF4363: Domain of un 43.7 41 0.00089 25.3 4.1 47 77-123 30-76 (121)
37 PF13934 ELYS: Nuclear pore co 42.0 2.1E+02 0.0046 24.1 9.5 104 24-144 29-138 (226)
38 KOG0263 Transcription initiati 41.1 43 0.00094 33.2 4.6 34 35-68 18-51 (707)
39 KOG1538 Uncharacterized conser 37.3 1.5E+02 0.0032 29.7 7.5 61 78-139 775-842 (1081)
40 PRK02289 4-oxalocrotonate taut 36.7 49 0.0011 21.6 3.1 27 176-202 12-38 (60)
41 PRK10564 maltose regulon perip 36.6 39 0.00085 30.1 3.3 24 78-101 260-283 (303)
42 PF07729 FCD: FCD domain; Int 33.7 75 0.0016 22.6 4.1 28 74-101 95-122 (125)
43 PF07721 TPR_4: Tetratricopept 33.6 55 0.0012 17.4 2.5 16 84-99 10-25 (26)
44 PF13371 TPR_9: Tetratricopept 33.2 1.4E+02 0.003 19.4 5.7 53 85-142 5-57 (73)
45 KOG2051 Nonsense-mediated mRNA 31.6 4.4E+02 0.0096 27.8 10.0 179 35-213 437-639 (1128)
46 PF12550 GCR1_C: Transcription 30.8 1.3E+02 0.0029 20.9 4.7 61 41-101 11-80 (81)
47 PF00627 UBA: UBA/TS-N domain; 29.9 89 0.0019 18.2 3.2 11 88-98 27-37 (37)
48 PTZ00196 60S ribosomal protein 29.2 91 0.002 23.1 3.7 33 114-146 48-80 (98)
49 TIGR01470 cysG_Nterm siroheme 29.0 1.4E+02 0.003 24.8 5.3 64 77-141 135-204 (205)
50 PF01158 Ribosomal_L36e: Ribos 28.4 84 0.0018 23.2 3.4 32 114-145 48-79 (98)
51 KOG1498 26S proteasome regulat 28.1 3.5E+02 0.0075 25.3 7.9 89 34-125 126-218 (439)
52 COG5443 FlbT Flagellar biosynt 28.1 99 0.0021 24.2 3.8 58 48-105 65-124 (148)
53 PF10827 DUF2552: Protein of u 28.0 42 0.00091 23.3 1.6 17 89-105 59-75 (79)
54 KOG1156 N-terminal acetyltrans 27.9 6.2E+02 0.014 25.3 18.2 180 24-210 129-332 (700)
55 PF07208 DUF1414: Protein of u 27.7 89 0.0019 19.6 2.9 19 177-195 25-43 (44)
56 PF14689 SPOB_a: Sensor_kinase 27.1 1.4E+02 0.003 19.8 4.1 32 74-105 22-53 (62)
57 KOG2758 Translation initiation 26.8 4E+02 0.0087 24.4 7.9 62 45-106 135-198 (432)
58 PLN03077 Protein ECB2; Provisi 25.8 7E+02 0.015 25.2 12.6 107 25-139 541-650 (857)
59 PF06794 UPF0270: Uncharacteri 25.4 2E+02 0.0043 19.9 4.6 44 35-90 7-50 (70)
60 PRK07111 anaerobic ribonucleos 25.3 2.6E+02 0.0057 28.2 7.3 28 35-62 58-85 (735)
61 KOG0640 mRNA cleavage stimulat 24.3 2.5E+02 0.0055 25.5 6.2 33 36-68 9-41 (430)
62 KOG2437 Muskelin [Signal trans 23.8 3.4E+02 0.0074 26.4 7.2 62 41-107 168-229 (723)
63 TIGR02531 yecD_yerC TrpR-relat 23.3 2.9E+02 0.0063 19.8 5.4 56 41-98 4-59 (88)
64 PF02074 Peptidase_M32: Carbox 23.2 3.3E+02 0.0072 26.1 7.2 97 4-101 311-459 (494)
65 PF14691 Fer4_20: Dihydroprymi 23.0 1.1E+02 0.0024 22.9 3.3 29 112-140 36-64 (111)
66 PRK11788 tetratricopeptide rep 22.9 5.2E+02 0.011 22.7 10.5 16 85-100 151-166 (389)
67 KOG0396 Uncharacterized conser 22.0 2.7E+02 0.0059 25.7 6.0 62 45-107 159-223 (389)
68 PRK11447 cellulose synthase su 22.0 9.6E+02 0.021 25.4 13.1 36 34-69 380-416 (1157)
69 TIGR02552 LcrH_SycD type III s 21.9 3.2E+02 0.007 19.9 9.4 93 41-142 20-113 (135)
70 KOG2910 Uncharacterized conser 21.8 2.5E+02 0.0054 23.5 5.3 61 78-140 42-115 (209)
71 PF04699 P16-Arc: ARP2/3 compl 21.7 96 0.0021 24.8 2.8 28 77-104 38-65 (152)
72 PF12569 NARP1: NMDA receptor- 21.3 7.4E+02 0.016 23.9 12.8 97 39-139 228-330 (517)
73 COG5096 Vesicle coat complex, 20.7 5.3E+02 0.012 26.2 8.3 92 65-162 25-119 (757)
74 cd00491 4Oxalocrotonate_Tautom 20.6 1.6E+02 0.0034 18.5 3.3 25 177-201 12-36 (58)
75 PF12931 Sec16_C: Sec23-bindin 20.4 1E+02 0.0023 26.9 3.1 21 81-101 1-21 (284)
76 PF13424 TPR_12: Tetratricopep 20.4 2.6E+02 0.0057 18.3 4.9 57 85-141 15-73 (78)
77 TIGR00756 PPR pentatricopeptid 20.1 1.5E+02 0.0032 15.7 2.8 20 82-101 7-26 (35)
No 1
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=100.00 E-value=8.5e-42 Score=284.71 Aligned_cols=219 Identities=58% Similarity=0.895 Sum_probs=211.9
Q ss_pred cCCCHHHHHHHHhcCCCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCC-CCCHHhHHHHHHHHHHHhcCCHHHHHHHH
Q 026349 20 KVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEP-DIDLATITDRMAVKKAVQCGNVEDAIEKV 98 (240)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~-~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i 98 (240)
+-++.+.|...+..+.+.+.++|+||++||+++||.++|..|.+|+|+.+ ..|.+.+..|.+|+.+|..|+++.|++.+
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 55888999999999999999999999999999999999999999999987 88999999999999999999999999999
Q ss_pred HhhChhhhhccccchhhhHHHHHHHHHhcCChHHHHHHHHHhcCcccCCchHHHHHHHHHhhhhhccCCCCCccccccCh
Q 026349 99 NDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVSNCPVGDLLDI 178 (240)
Q Consensus 99 ~~~~p~l~~~~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~~~~~~~~~l~~~~~lL~~~~~~~sp~~~l~~~ 178 (240)
+.+.|.++..+..|.|.|++|++|||||.|...+||+|+|++++|++..+++.+.+++++|++|+|++++.||+++++..
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 99999999999999999999999999999999999999999999999999899999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHhhh-ccCCCCccCcCCcccCCC
Q 026349 179 SQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQLDE-KAAYPRINDLATATLEDP 238 (240)
Q Consensus 179 ~~r~~la~~vn~~il~~~g~~~~s~Le~l~k~~~~~q~~l~~-~~~~p~~~~~~~~~~~~~ 238 (240)
++|.++|..+|++|+.+++....|.|..|++...|++..+.. +..+|+++++.+|.++.|
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 999999999999999999988899999999999999998866 678999999999999876
No 2
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.97 E-value=2.1e-30 Score=227.06 Aligned_cols=180 Identities=23% Similarity=0.327 Sum_probs=171.2
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccchh
Q 026349 35 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFF 114 (240)
Q Consensus 35 ~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F 114 (240)
..++..++++|+|||.|+||++||..|.+++.++..+|.|.+...+.|+++|++|++.+|+.||++|...|.+.+|.++|
T Consensus 112 ~w~r~~l~r~vvdhmlr~gy~~~A~~L~K~s~ledlvD~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~~S~lEf 191 (389)
T KOG0396|consen 112 KWPRNKLDRFVVDHMLRNGYFGAAVLLGKKSQLEDLVDSDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKEESSLEF 191 (389)
T ss_pred HhHHHHHHHHHHHHHHHcCchhHHHHHHHhhhhhhhHhHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccchhhh
Confidence 45678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHhcCChHHHHHHHHHhcCcccCCchHHHHHHHHHhhhhhccC-CCCCccccccChhhHHHHHHHHHHHHH
Q 026349 115 HLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFED-VSNCPVGDLLDISQRLKTASEVNAAIL 193 (240)
Q Consensus 115 ~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~~~~~~~~~l~~~~~lL~~~~-~~~sp~~~l~~~~~r~~la~~vn~~il 193 (240)
.++.|+|||||+.+++.+||+|+|++++|++..+ .++++.+||+++|+. ++.++|..+++..||+.++..|-+..+
T Consensus 192 ~lRlQefIELi~~~~~~~Ai~~akk~f~~~~~~~---~~~Lk~a~g~laF~~~t~~sky~~l~~~~rw~~l~~lF~s~a~ 268 (389)
T KOG0396|consen 192 QLRLQEFIELIKVDNYDKAIAFAKKHFAPWAKSH---KSDLKLAMGLLAFPKYTSSSKYLNLLTADRWSVLADLFLSEAL 268 (389)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHhhhhhhh---HHHHHHHHHhhcCccccCcccccCcccHHHHHHHHHHhhHHHH
Confidence 9999999999999999999999999999999754 789999999999985 456779999999999999999999999
Q ss_pred hhCCCCCCCcHHHHHHHHHHHHHH
Q 026349 194 TSQSHEKDPKLPSLLKMLLWAQNQ 217 (240)
Q Consensus 194 ~~~g~~~~s~Le~l~k~~~~~q~~ 217 (240)
+.+|.+..|+|-..++..+.+++.
T Consensus 269 ~l~~i~~~~~L~~~l~~GLsalKT 292 (389)
T KOG0396|consen 269 KLFGIPINPALTIYLQAGLSALKT 292 (389)
T ss_pred HHhCCCCCcHHHHHHHhhhhhccc
Confidence 999999999999999999888876
No 3
>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=1.1e-30 Score=207.61 Aligned_cols=140 Identities=38% Similarity=0.586 Sum_probs=133.0
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccchhhhHHHHHHHHHhcCChHHHHHHHHHhcCcccCCchHHHHHH
Q 026349 76 ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEEL 155 (240)
Q Consensus 76 ~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~~~~~~~~~l 155 (240)
|.+|+.|+++|++||+++|++|+++++|.+++.++.++|.|++|+|||||+.|+..+||+|+|+++.|+.. ...+++
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 67899999999999999999999999999999999999999999999999999999999999999977654 458899
Q ss_pred HHHhhhhhccCCCC---CccccccChhhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHh
Q 026349 156 ERTVALLAFEDVSN---CPVGDLLDISQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQL 218 (240)
Q Consensus 156 ~~~~~lL~~~~~~~---sp~~~l~~~~~r~~la~~vn~~il~~~g~~~~s~Le~l~k~~~~~q~~l 218 (240)
+++|++|+|+++.. +||++++++.+|+.|++.||++++..+|.+..|+|+.+++++.++.+++
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 7999999999999999999999999999999999999999999998764
No 4
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.91 E-value=2.2e-23 Score=184.93 Aligned_cols=177 Identities=19% Similarity=0.297 Sum_probs=160.9
Q ss_pred cCCCCHHH-HHHHHHHHHHHhCHHHHHHHHHHhhCCCCC--CCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhcc
Q 026349 33 DVKIRKED-MNKLVMNFLVTEGYVDAAEKFRMESGTEPD--IDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTN 109 (240)
Q Consensus 33 ~~~~~~~~-l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~--~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~ 109 (240)
++..+... +|.+|+.|++|+|..|+|..|++|+|.... .....|.+.++|.++|..||+.+|++|+..++..|.+.+
T Consensus 110 ~v~~~~~~~ln~ai~~h~~rqGm~dv~~~l~~Ea~~~~~~~~~~~~F~el~~Iv~~lke~Dl~~aLeWa~~~~~~L~~~~ 189 (394)
T KOG2817|consen 110 SVDFDTSQVLNEAIVYHFYRQGMDDVGECLIKEAGLSEDESKSRTEFVELNQIVEALKERDLEPALEWAESNRQKLKEKS 189 (394)
T ss_pred CcChhHHHHHHHHHHHHHHHcCchHHHHHHHHHhcCCCcchhhhhhHHHHHHHHHHHHhccchhHHHHHHHhhhhhcccc
Confidence 56666555 499999999999999999999999999754 445788999999999999999999999999999999999
Q ss_pred ccchhhhHHHHHHHHHhcCChH--HHHHHHHHhcCcccCCchHHHHHHHHHhhhhhccCC--CCCccccccChhhHHHHH
Q 026349 110 PQLFFHLQQQRLIELIRNGKVE--EALEFAQEELAPRGEENQSFLEELERTVALLAFEDV--SNCPVGDLLDISQRLKTA 185 (240)
Q Consensus 110 s~l~F~L~~q~fIEli~~~~~~--~Ai~y~r~~l~p~~~~~~~~~~~l~~~~~lL~~~~~--~~sp~~~l~~~~~r~~la 185 (240)
+.|+|.|+.++|+++++.|... +||.|+|++++||+.++ .++++++|+++.|-.. +++||.+++++..|..+.
T Consensus 190 s~LE~~Lh~l~fl~l~~~g~~~~~eAl~Yar~~~~~F~~~~---~~eIQklm~sl~~l~~gl~~spy~~~ls~~~w~~~~ 266 (394)
T KOG2817|consen 190 SSLEFKLHSLHFLSLIRGGKSDQREALRYARTHFAPFVADH---LREIQKLMGSLLYLRNGLEKSPYSEILSPKLWKELT 266 (394)
T ss_pred ccHHHHHHHHHHHHHHhcCCcCcHHHHHHHHHhcCccccch---HHHHHHHHHHHHHHHcCCCCCChHHHhCHHHHHHHH
Confidence 9999999999999999998766 99999999999998775 7899999999998743 789999999999999999
Q ss_pred HHHHHHHHhhCCCCCCCcHHHHHHHHH
Q 026349 186 SEVNAAILTSQSHEKDPKLPSLLKMLL 212 (240)
Q Consensus 186 ~~vn~~il~~~g~~~~s~Le~l~k~~~ 212 (240)
..|-+..+...|.+.+|+|..++....
T Consensus 267 ~~f~r~ycallg~s~eSPL~v~v~aG~ 293 (394)
T KOG2817|consen 267 EEFTREYCALLGISVESPLSVLVNAGC 293 (394)
T ss_pred HHHHHHHHHHcCCCccCcHHHHHHhhH
Confidence 999999999999999999888777654
No 5
>smart00757 CRA CT11-RanBPM. protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)
Probab=99.73 E-value=4.1e-17 Score=121.22 Aligned_cols=93 Identities=46% Similarity=0.568 Sum_probs=87.6
Q ss_pred ChHHHHHHHHHhcCcccCCchHHHHHHHHHhhhhhccCC-CCCccccccChhhHHHHHHHHHHHHHhhC-CCCCCCcHHH
Q 026349 129 KVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDV-SNCPVGDLLDISQRLKTASEVNAAILTSQ-SHEKDPKLPS 206 (240)
Q Consensus 129 ~~~~Ai~y~r~~l~p~~~~~~~~~~~l~~~~~lL~~~~~-~~sp~~~l~~~~~r~~la~~vn~~il~~~-g~~~~s~Le~ 206 (240)
++.+||+|||++++|+...++.+.++++++||+|+|+++ +.+||++++++++|+.|++.||++++..+ |.+.+|+|+.
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 578999999999999998887778899999999999999 89999999999999999999999999999 9999999999
Q ss_pred HHHHHHHHHHHhhhc
Q 026349 207 LLKMLLWAQNQLDEK 221 (240)
Q Consensus 207 l~k~~~~~q~~l~~~ 221 (240)
++++..|+++.+...
T Consensus 82 ~~~~~~~~~~~l~~~ 96 (99)
T smart00757 82 LLSAGLAALKTLLEK 96 (99)
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999988653
No 6
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=99.36 E-value=1.3e-12 Score=87.48 Aligned_cols=55 Identities=31% Similarity=0.669 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccchhhhHHHHHHHHHhcCCh
Q 026349 76 ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKV 130 (240)
Q Consensus 76 ~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q~fIEli~~~~~ 130 (240)
+..+..|+++|+.|+|++|++|+++++|.+.+.++.+.|.|++|+|+|+++.|+.
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 5678999999999999999999999999999999999999999999999998864
No 7
>KOG0293 consensus WD40 repeat-containing protein [Function unknown]
Probab=99.07 E-value=1.4e-09 Score=97.76 Aligned_cols=172 Identities=15% Similarity=0.172 Sum_probs=133.1
Q ss_pred CCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccchhh
Q 026349 36 IRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFH 115 (240)
Q Consensus 36 ~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~ 115 (240)
+.+.+..+++.+.|+..||.+++..++.|+|+..... .-+.+.++++.|+|+.++.-+....-...+......|.
T Consensus 15 ikk~efi~il~q~l~slgy~~S~~~lE~es~ll~~ta-----t~klf~q~vlqg~w~q~v~~~~~i~~~de~~~~ea~fL 89 (519)
T KOG0293|consen 15 IKKGEFIRILWQILYSLGYDHSSPLLEWESGLLIPTA-----TTKLFDQQVLQGQWDQQVMSLVRISFEDERNRKEAMFL 89 (519)
T ss_pred eccchhhHhHHHHHHhcCccccchhhHHhhCcccccc-----hHHHHHHHHHcccHHHHHHHHhhccCcchhhhHHHHHH
Confidence 4567789999999999999999999999999975432 34568899999999999998877633334445778999
Q ss_pred hHHHHHHHHHhcCChHHHHHHHHHhcCcccCCchHHHHHHHHHhhhhhccCCCCC-cccc-ccChhhHHHHHHHHHHHHH
Q 026349 116 LQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVSNC-PVGD-LLDISQRLKTASEVNAAIL 193 (240)
Q Consensus 116 L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~~~~~~~~~l~~~~~lL~~~~~~~s-p~~~-l~~~~~r~~la~~vn~~il 193 (240)
+.+|.|+|+++.|++..|+...|+.+.+.... .+++.++.+.|.+++...+ .... -.....|.+|.+++.+-|.
T Consensus 90 v~kQ~fLEf~k~~~is~al~~l~~~~~~lr~~----~kk~~el~~sll~sn~~~~ne~~~~~~~~n~R~~ll~elskyi~ 165 (519)
T KOG0293|consen 90 VNKQIFLEFLKTGSISHALPVLRNPVLYLRKN----KKKFHELASSLLVSNDQFSNEENTTAQLNNERDKLLDELSKYIP 165 (519)
T ss_pred HHHHHHHHHHhhccHhhhhHhhhcchhhhhhh----HHHHHHHHHHHhccccccccccchhhhhchhHHHHHHHHHhhCC
Confidence 99999999999999999999999877776542 5677777778887753221 1110 1113458899999998887
Q ss_pred hhCCCCCCCcHHHHHHHHHHHHHH
Q 026349 194 TSQSHEKDPKLPSLLKMLLWAQNQ 217 (240)
Q Consensus 194 ~~~g~~~~s~Le~l~k~~~~~q~~ 217 (240)
...- .|+-+||.|+++++..|..
T Consensus 166 p~il-lP~rRLehLl~qAv~~Q~d 188 (519)
T KOG0293|consen 166 PNIL-LPKRRLEHLLEQAVKYQRD 188 (519)
T ss_pred Hhhc-CChHHHHHHHHHHHHHHHh
Confidence 6665 4578999999999987754
No 8
>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=98.45 E-value=3e-07 Score=52.06 Aligned_cols=27 Identities=37% Similarity=0.811 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHhh
Q 026349 39 EDMNKLVMNFLVTEGYVDAAEKFRMES 65 (240)
Q Consensus 39 ~~l~~LI~~yL~~~Gy~~ta~~f~~e~ 65 (240)
++||.+|.+||.++||.+||.+|.+|+
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 9
>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=98.22 E-value=2.9e-06 Score=49.91 Aligned_cols=32 Identities=31% Similarity=0.754 Sum_probs=29.5
Q ss_pred CHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCC
Q 026349 37 RKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 68 (240)
Q Consensus 37 ~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~ 68 (240)
.+.+++++|++||.++||.+||.+|++|+|+.
T Consensus 2 ~~~~l~~lI~~yL~~~g~~~ta~~l~~e~~~~ 33 (34)
T smart00667 2 SRSELNRLILEYLLRNGYEETAETLQKESGLS 33 (34)
T ss_pred cHHHHHHHHHHHHHHcCHHHHHHHHHHHhCCC
Confidence 46789999999999999999999999999874
No 10
>KOG1477 consensus SPRY domain-containing proteins [General function prediction only]
Probab=98.15 E-value=2.9e-07 Score=86.07 Aligned_cols=185 Identities=24% Similarity=0.211 Sum_probs=136.0
Q ss_pred CCCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCC---------CC---------HHhHHHHHHHHHHHhcCCHHHHH
Q 026349 34 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPD---------ID---------LATITDRMAVKKAVQCGNVEDAI 95 (240)
Q Consensus 34 ~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~---------~~---------~~~~~~r~~I~~~I~~G~i~~Ai 95 (240)
...+.......+..|+++.|+.+++..|+..+..... .+ ...+..++.......+|....++
T Consensus 245 ~~~s~~l~t~~~~~~~l~~~~~~s~~~~s~~~~~~~~~~~~~e~~s~~~~~~~~~~~~~~~~~~~g~~~~~~~g~~~~~~ 324 (469)
T KOG1477|consen 245 EVISFNLSTVPYPYFLLPGGYEESIAYFSTGARRFNDPFTGKEENSIDAVGSQTDKIGLDYHQRKGRGQFTRNGAYNAAL 324 (469)
T ss_pred ceecccccCCCccceecCcchhhhhhhhcchhhccCCcccchhhhhhhccccccchhhhhhhhhcCcceeechhhhcccc
Confidence 3333344456899999999999999999987654210 01 11122233333333444444443
Q ss_pred HHHHhhChhhhh-ccccchhhhHHHHHHHHHhcCChHHHHHHHHHhcCcccC--CchHHHHHHHHHhhhhhccCCCCCcc
Q 026349 96 EKVNDLNPEILD-TNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGE--ENQSFLEELERTVALLAFEDVSNCPV 172 (240)
Q Consensus 96 ~~i~~~~p~l~~-~~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~--~~~~~~~~l~~~~~lL~~~~~~~sp~ 172 (240)
.-.........+ ..+...+.+.|+.++.+.+.|.+...+++.+.++++... .+......+..+++|++|.+|..||.
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~g~v~~e~~~~k~~l~~~~g~~~~~~~~~~~~~s~~Llays~p~~s~~ 404 (469)
T KOG1477|consen 325 IPTYRKVGQVFEVDYPQRGAKDPCGLHVNLGRAGFVFIEANAKKWELAKDYGIKKNSAAVGMLSDSSSLLAYSDPEESPV 404 (469)
T ss_pred cccccccceeecccccchhhccchhhhhhHHHHHHHHHHHHHHHHhhhhhhCcCccccccccccchHHHHHhcCcccCcc
Confidence 333322221111 347789999999999999999999999999999888755 33345778999999999999999999
Q ss_pred ccccChhhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHh
Q 026349 173 GDLLDISQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQL 218 (240)
Q Consensus 173 ~~l~~~~~r~~la~~vn~~il~~~g~~~~s~Le~l~k~~~~~q~~l 218 (240)
.+.+++..|+-+++.+|.+++...+.++++.|+.++.+.-.+-..+
T Consensus 405 g~~~~~~~~e~v~~~~n~~il~t~~~~~~~~l~~~l~~~~~~~~~~ 450 (469)
T KOG1477|consen 405 GYLLDPIQREPVAEALNSAILETDNNSKDPDLERVLSQTPAELSLY 450 (469)
T ss_pred ccccCcccchhHHhhhcccccccCCCCccchhhhhhccchhhHhhh
Confidence 9999999999999999999999999999999999999977665554
No 11
>KOG0275 consensus Conserved WD40 repeat-containing protein [General function prediction only]
Probab=97.98 E-value=6.2e-05 Score=66.53 Aligned_cols=164 Identities=19% Similarity=0.243 Sum_probs=113.9
Q ss_pred CCCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCC-CCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccc
Q 026349 34 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEP-DIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQL 112 (240)
Q Consensus 34 ~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~-~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l 112 (240)
+.+...++.++|.+||-.+.+..|...|.+|+++.. .+| -...+.+.|-+|+||..+.-++... ....-
T Consensus 3 ieiessdVIrli~QflKE~~L~rtl~tLQeEt~VSLNTVD-----Svd~Fv~dI~sG~WD~VL~~vqsLK-----LP~kk 72 (508)
T KOG0275|consen 3 IEIESSDVIRLIEQFLKENSLHRTLQTLQEETNVSLNTVD-----SVDGFVNDINSGHWDTVLKTVQSLK-----LPDKK 72 (508)
T ss_pred eeeecchHHHHHHHHHhhhhHHHHHHHHHHhhccceeech-----hHHHHHHhcccCchHHHHHHHHhcc-----CchhH
Confidence 455566899999999999999999999999998753 222 2344788999999999999987653 22334
Q ss_pred hhhhHHHHHHHHHhcCChHHHHHHHHHhcCccc---CCchHHHHHHHHHhhhhh--ccCCCCCccccccChhhHHHHHHH
Q 026349 113 FFHLQQQRLIELIRNGKVEEALEFAQEELAPRG---EENQSFLEELERTVALLA--FEDVSNCPVGDLLDISQRLKTASE 187 (240)
Q Consensus 113 ~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~---~~~~~~~~~l~~~~~lL~--~~~~~~sp~~~l~~~~~r~~la~~ 187 (240)
.-.|+.|-.+|||.-..+..|-..+|+. .|.. ...|+..-.++ .+|. |-||... |.+--.+.||..+|..
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 5689999999999988888888888853 3332 22333333444 3443 5566433 5553345667777766
Q ss_pred HHHHHHhhCCCCCCCcHHHHHHHHHHHHH
Q 026349 188 VNAAILTSQSHEKDPKLPSLLKMLLWAQN 216 (240)
Q Consensus 188 vn~~il~~~g~~~~s~Le~l~k~~~~~q~ 216 (240)
+... ....+.|+|..|+-|++-.|.
T Consensus 148 ls~E----V~VVppSRLlaLlGQaLKWQq 172 (508)
T KOG0275|consen 148 LSGE----VHVVPPSRLLALLGQALKWQQ 172 (508)
T ss_pred hcCc----eEEcChHHHHHHHHHHhhhHh
Confidence 5443 344567888888888775553
No 12
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.54 E-value=0.0019 Score=56.81 Aligned_cols=176 Identities=13% Similarity=0.064 Sum_probs=123.3
Q ss_pred CCCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCC-CHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccc
Q 026349 34 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDI-DLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQL 112 (240)
Q Consensus 34 ~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~-~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l 112 (240)
.+.+...++.+-..++.+.|-..-+..|+.+.|..+.. ..+.|...+.|.+.|.+.+...-++|. +....+.+.++..
T Consensus 96 f~~~~v~~~~~~~l~~~n~~dv~~~hi~~~~~g~~e~~~~~~~f~~lK~v~~gI~~k~~~l~iE~~-Qi~gyl~kgdtes 174 (396)
T COG5109 96 FSTQTVTYLVVYYLLENNCADVVERHISETKDGKDEIIKIRDGFVKLKKVISGISEKSTFLLIEFL-QIEGYLSKGDTES 174 (396)
T ss_pred CccceeeehHHHHHHHhhHHHHHHHHHHHhhcCccchhhHHHHHHHHHHHHHhhccchhHhHHHHH-HhcCccccCCchh
Confidence 34444555566666666777777788899999987643 458899999999999999999999999 4445566666666
Q ss_pred hhhhHHHH--HHHHHhcCChHHHHHHHHHhcCcccCCchHHHHHHHHHhhhhhccCC------C----------------
Q 026349 113 FFHLQQQR--LIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDV------S---------------- 168 (240)
Q Consensus 113 ~F~L~~q~--fIEli~~~~~~~Ai~y~r~~l~p~~~~~~~~~~~l~~~~~lL~~~~~------~---------------- 168 (240)
++.++... ++-++.+ ++++|+.++++.++.|...| ...++..+-.+.+... +
T Consensus 175 el~l~~~~~esl~l~hk-~~~~a~r~c~t~~a~f~~kh---~~dv~~~~~~l~nap~dcfrhrekelmqnI~~~l~ksli 250 (396)
T COG5109 175 ELELYLVSHESLLLIHK-RYDEALRLCFTKLASFVPKH---IQDVKPLLRFLVNAPTDCFRHREKELMQNIQEALKKSLI 250 (396)
T ss_pred hhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHh---ccchHHHHHHHHcCchHHhhhcchhHHHHHHHHHHHhhc
Confidence 66665554 4444444 79999999999988776443 3445554444444210 0
Q ss_pred CCccccccC--hhhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHH
Q 026349 169 NCPVGDLLD--ISQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQ 215 (240)
Q Consensus 169 ~sp~~~l~~--~~~r~~la~~vn~~il~~~g~~~~s~Le~l~k~~~~~q 215 (240)
+-|- +..| ...|..+...|.+.+++..|++.+|+|.-++....-+-
T Consensus 251 gqPi-EdIDkvnk~~k~l~~lF~~eycaa~gm~~~spL~~~v~tG~iaf 298 (396)
T COG5109 251 GQPI-EDIDKVNKSRKKLIELFKSEYCAANGMPNRSPLRELVETGTIAF 298 (396)
T ss_pred CCcH-HHHHHhhhhHHHHHHHHHHHHHHhcCCCccChHHHHHHhhhHHH
Confidence 0010 1111 25689999999999999999999999999888766543
No 13
>KOG1333 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.09 E-value=0.23 Score=41.37 Aligned_cols=142 Identities=13% Similarity=0.152 Sum_probs=88.9
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhc--------cc
Q 026349 39 EDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDT--------NP 110 (240)
Q Consensus 39 ~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~--------~s 110 (240)
+.++.+|-+||+-.|+.-|.++|-.|.........-.=...-++.++|...|++.--+.=.....+++.. -.
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 4578899999999999999999988876653322222223455677788888877655444333333322 13
Q ss_pred cchhhhHHHHHHHHHhcCChHHHHHHHHHhcCcccCCchHHHHHHHHHhhhhhcc---CC-CCCccccccChhhHHHHHH
Q 026349 111 QLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFE---DV-SNCPVGDLLDISQRLKTAS 186 (240)
Q Consensus 111 ~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~~~~~~~~~l~~~~~lL~~~---~~-~~sp~~~l~~~~~r~~la~ 186 (240)
.++--+.+...+--+.++.+++|-+|.++.-+...+. .+-++ ..+|+ .- +..|++.+++...-+...-
T Consensus 86 kle~Sl~r~yLV~~~q~nr~~K~~EFF~K~a~~lqnq-----~eWkD---WF~fPf~~~a~~tppf~~~F~ktw~e~~~~ 157 (241)
T KOG1333|consen 86 KLETSLFRFYLVYTIQTNRNDKAQEFFAKQATELQNQ-----AEWKD---WFVLPFLPSAKDTPPFRKYFDKTWIEIYYV 157 (241)
T ss_pred HHHHHHHHHHHhhhhhcCChHHHHHHHHHHHHHHhcc-----hhhhh---heecccCCCCCCCccHHHHHHhhhhHhhhh
Confidence 3555666677777888999999999999765544432 23343 33333 22 3456777777654444333
Q ss_pred HH
Q 026349 187 EV 188 (240)
Q Consensus 187 ~v 188 (240)
.+
T Consensus 158 sl 159 (241)
T KOG1333|consen 158 SL 159 (241)
T ss_pred hH
Confidence 33
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=89.12 E-value=0.91 Score=32.42 Aligned_cols=31 Identities=23% Similarity=0.283 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHhhCCCC
Q 026349 39 EDMNKLVMNFLVTEGYVDAAEKFRMESGTEP 69 (240)
Q Consensus 39 ~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~ 69 (240)
..++.||.+||..+||.=|+..|..|+|...
T Consensus 19 ~Li~eLIrEyLef~~l~~TlsVf~~Es~~~~ 49 (81)
T PF09398_consen 19 RLINELIREYLEFNNLDYTLSVFQPESGQPE 49 (81)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHT-TT
T ss_pred HHHHHHHHHHHHHcCCccHHHHHhhccCCCC
Confidence 3578999999999999999999999999864
No 15
>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=79.21 E-value=3.9 Score=32.10 Aligned_cols=47 Identities=19% Similarity=0.362 Sum_probs=36.5
Q ss_pred ccchhhhHHHHHHHHHhcCChHHHHHHHHHhcCcccCCchHHHHHHHHHh
Q 026349 110 PQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTV 159 (240)
Q Consensus 110 s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~~~~~~~~~l~~~~ 159 (240)
..+.|=+.++-|++||.+|...+|..|..++-..+...+ ..+++++.
T Consensus 38 ~~lLyPvFvh~YL~Lv~~~~~~~A~~F~~kf~~~~~~~~---~~~i~~L~ 84 (142)
T PF04494_consen 38 SRLLYPVFVHSYLDLVSKGHPEEAKSFLEKFSPDFEDSH---QEDIEKLS 84 (142)
T ss_dssp GGGHHHHHHHHHHHHHHTT-HHHHHHHHHHHGGGGHGHG---HHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHhHHH---HHHHHHHH
Confidence 568999999999999999999999999998776665443 34555543
No 16
>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=72.11 E-value=30 Score=28.15 Aligned_cols=89 Identities=19% Similarity=0.347 Sum_probs=52.8
Q ss_pred cCCCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccc
Q 026349 33 DVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQL 112 (240)
Q Consensus 33 ~~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l 112 (240)
+++++. .+..++.+=|++.|-......|..-.=+++.... . ...+.-|. .+|...+..-++
T Consensus 24 ~i~~~~-~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~l-----A---~~LLs~~~----------~~~~~~Ql~lDM 84 (167)
T PF07035_consen 24 NIPVQH-ELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPL-----A---CQLLSLGN----------QYPPAYQLGLDM 84 (167)
T ss_pred CCCCCH-HHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHH-----H---HHHHHhHc----------cChHHHHHHHHH
Confidence 344433 3777888888888888888877665544433221 0 11122222 234444444445
Q ss_pred hhhhH-HH-HHHH-HHhcCChHHHHHHHHHh
Q 026349 113 FFHLQ-QQ-RLIE-LIRNGKVEEALEFAQEE 140 (240)
Q Consensus 113 ~F~L~-~q-~fIE-li~~~~~~~Ai~y~r~~ 140 (240)
...|. .. ..+| ++..|++.+|+.|+|+.
T Consensus 85 LkRL~~~~~~iievLL~~g~vl~ALr~ar~~ 115 (167)
T PF07035_consen 85 LKRLGTAYEEIIEVLLSKGQVLEALRYARQY 115 (167)
T ss_pred HHHhhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence 55554 33 4456 78899999999999974
No 17
>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=71.50 E-value=25 Score=22.80 Aligned_cols=55 Identities=20% Similarity=0.262 Sum_probs=34.0
Q ss_pred HHhcCCHHHHHHHHHhhChhhhhccccchhhhHHHHHHHHHhcCChHHHHHHHHHhcCcc
Q 026349 85 AVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPR 144 (240)
Q Consensus 85 ~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~ 144 (240)
++..|++++|++.+++.... ...+..+.+ .--.=+++.|+.++|..+..+-+...
T Consensus 1 ll~~~~~~~A~~~~~~~l~~-~p~~~~~~~----~la~~~~~~g~~~~A~~~l~~~~~~~ 55 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQR-NPDNPEARL----LLAQCYLKQGQYDEAEELLERLLKQD 55 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHHH-TTTSHHHHH----HHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred ChhccCHHHHHHHHHHHHHH-CCCCHHHHH----HHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 46789999999998765211 111222333 22233567899999999998655444
No 18
>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=67.79 E-value=87 Score=28.08 Aligned_cols=78 Identities=14% Similarity=0.199 Sum_probs=50.6
Q ss_pred HHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccchhhhHHHHHHHH-
Q 026349 46 MNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIEL- 124 (240)
Q Consensus 46 ~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q~fIEl- 124 (240)
+..|+..|..+.|..+.++..++. ..=-..+|+-++..|+|++-.++... ..|++-|+ -|++.
T Consensus 184 i~~li~~~~~k~A~kl~k~Fkv~d-----krfw~lki~aLa~~~~w~eL~~fa~s-------kKsPIGye----pFv~~~ 247 (319)
T PF04840_consen 184 IRKLIEMGQEKQAEKLKKEFKVPD-----KRFWWLKIKALAENKDWDELEKFAKS-------KKSPIGYE----PFVEAC 247 (319)
T ss_pred HHHHHHCCCHHHHHHHHHHcCCcH-----HHHHHHHHHHHHhcCCHHHHHHHHhC-------CCCCCChH----HHHHHH
Confidence 455677788888888888887742 11135567777888888887777643 23444443 35553
Q ss_pred HhcCChHHHHHHHHH
Q 026349 125 IRNGKVEEALEFAQE 139 (240)
Q Consensus 125 i~~~~~~~Ai~y~r~ 139 (240)
++.|...+|..|..+
T Consensus 248 ~~~~~~~eA~~yI~k 262 (319)
T PF04840_consen 248 LKYGNKKEASKYIPK 262 (319)
T ss_pred HHCCCHHHHHHHHHh
Confidence 456677778887776
No 19
>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=66.32 E-value=8.2 Score=26.18 Aligned_cols=35 Identities=11% Similarity=0.342 Sum_probs=26.9
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCC
Q 026349 35 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEP 69 (240)
Q Consensus 35 ~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~ 69 (240)
+-.+.++-..|.+|...+||.-|...+++..|+..
T Consensus 5 T~rQ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S 39 (65)
T PF01726_consen 5 TERQKEVLEFIREYIEENGYPPTVREIAEALGLKS 39 (65)
T ss_dssp -HHHHHHHHHHHHHHHHHSS---HHHHHHHHTSSS
T ss_pred CHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCC
Confidence 33456788899999999999999999999999874
No 20
>KOG0273 consensus Beta-transducin family (WD-40 repeat) protein [Chromatin structure and dynamics]
Probab=66.08 E-value=1.9 Score=40.42 Aligned_cols=35 Identities=29% Similarity=0.554 Sum_probs=32.6
Q ss_pred CCCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCC
Q 026349 34 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 68 (240)
Q Consensus 34 ~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~ 68 (240)
++++++++|.||-.||...||.-||=+|..|+++.
T Consensus 1 msitsdEvN~LV~RYLqE~G~~hsaftf~~Et~is 35 (524)
T KOG0273|consen 1 MSITSDEVNFLVWRYLQESGFSHSAFTFGIETGIS 35 (524)
T ss_pred CcccHHHHHHHHHHHHHHcCcceeeEEeeeccccc
Confidence 36789999999999999999999999999999985
No 21
>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=65.25 E-value=38 Score=31.89 Aligned_cols=77 Identities=29% Similarity=0.349 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccchhhhHHH
Q 026349 40 DMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQ 119 (240)
Q Consensus 40 ~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q 119 (240)
....-|+.||...||.+.|-.|+++. +.++.=+|..|+++.|.+.+.+... -..++|
T Consensus 296 ~~~~~i~~fL~~~G~~e~AL~~~~D~-------------~~rFeLAl~lg~L~~A~~~a~~~~~----------~~~W~~ 352 (443)
T PF04053_consen 296 DQGQSIARFLEKKGYPELALQFVTDP-------------DHRFELALQLGNLDIALEIAKELDD----------PEKWKQ 352 (443)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHSS-H-------------HHHHHHHHHCT-HHHHHHHCCCCST----------HHHHHH
T ss_pred hHHHHHHHHHHHCCCHHHHHhhcCCh-------------HHHhHHHHhcCCHHHHHHHHHhcCc----------HHHHHH
Confidence 34667889999999999999986443 4667889999999999999876531 124555
Q ss_pred HHHHHHhcCChHHHHHHHHH
Q 026349 120 RLIELIRNGKVEEALEFAQE 139 (240)
Q Consensus 120 ~fIEli~~~~~~~Ai~y~r~ 139 (240)
=--+.++.|++.-|-++.++
T Consensus 353 Lg~~AL~~g~~~lAe~c~~k 372 (443)
T PF04053_consen 353 LGDEALRQGNIELAEECYQK 372 (443)
T ss_dssp HHHHHHHTTBHHHHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHh
Confidence 55567888999888887774
No 22
>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=65.02 E-value=8.1 Score=29.93 Aligned_cols=48 Identities=21% Similarity=0.373 Sum_probs=36.2
Q ss_pred ccchhhhHHHHHHHHHhcCChHHHHHHHHHhcCcccCCchHHHHHHHHHhh
Q 026349 110 PQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVA 160 (240)
Q Consensus 110 s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~~~~~~~~~l~~~~~ 160 (240)
..+.|=+.+.-|++||.+|...+|..|..+.-.-+.. ....+++.+.+
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 4588999999999999999999999999976554432 23455655433
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=64.79 E-value=21 Score=27.47 Aligned_cols=58 Identities=16% Similarity=0.118 Sum_probs=42.1
Q ss_pred HHHHHHHHhCHHHHHHHHHHhhC--C-CCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 026349 44 LVMNFLVTEGYVDAAEKFRMESG--T-EPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLN 102 (240)
Q Consensus 44 LI~~yL~~~Gy~~ta~~f~~e~~--i-~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~ 102 (240)
-|.+.+ ..|-.+.|-..+++.. + +...+....-.+.++.+.|.+|++.+|+++++++.
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 7787777777766543 1 12345555667888999999999999999999865
No 24
>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=63.83 E-value=75 Score=28.33 Aligned_cols=102 Identities=22% Similarity=0.212 Sum_probs=62.9
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhC--------CC--------CCCC--------------------------
Q 026349 35 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESG--------TE--------PDID-------------------------- 72 (240)
Q Consensus 35 ~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~--------i~--------~~~~-------------------------- 72 (240)
..--=++++++.+.|.+.||.+.+.++..+.. +. +..|
T Consensus 129 ~pfWLDgq~~~~qal~~lG~~~~a~aI~~el~~fL~RlP~L~~L~F~DGtPFad~~T~~WL~~~~~~~~~~~~~~~~~~~ 208 (301)
T TIGR03362 129 APFWLDGQRLSAQALERLGYAAVAQAIRDELAAFLERLPGLLELKFSDGTPFADDETRAWLAQHATRSNAASVAPVAEVG 208 (301)
T ss_pred CchhhHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCcChhhcccCCCCCCCCHHHHHHHHhcccccccccccccccCc
Confidence 44456678999999999999999999888753 11 1111
Q ss_pred --HHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccchhhhHHHHHHHHHhcCChHHHHHHHH
Q 026349 73 --LATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQ 138 (240)
Q Consensus 73 --~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r 138 (240)
.+.-..+...+.++.+|.+++|+.|+++..+........+...|..-+..+ ..|...-|....+
T Consensus 209 ~~~~~~~~~~eA~~l~~~~gl~~Al~~L~~~~~~~~s~R~rf~~rL~~A~l~~--~~g~~~lA~~ll~ 274 (301)
T TIGR03362 209 EESDWEELREEARALAAEGGLEAALQRLQQRLAQAREPRERFHWRLLLARLLE--QAGKAELAQQLYA 274 (301)
T ss_pred ccccHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCCChHHHHHHHHHHHHHHH--HcCCHHHHHHHHH
Confidence 012233455677788888888888888765554443334444444444433 3455555555544
No 25
>KOG4594 consensus Sequence-specific single-stranded-DNA-binding protein [Replication, recombination and repair; Transcription; General function prediction only]
Probab=59.50 E-value=11 Score=33.25 Aligned_cols=29 Identities=24% Similarity=0.379 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHhCHHHHHHHHHHhhC
Q 026349 38 KEDMNKLVMNFLVTEGYVDAAEKFRMESG 66 (240)
Q Consensus 38 ~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~ 66 (240)
|+.|.-.|.+||+|-|-.++|++|..|..
T Consensus 17 rekLa~YvYEYLlhvgaqksaqtflseir 45 (354)
T KOG4594|consen 17 REKLALYVYEYLLHVGAQKSAQTFLSEIR 45 (354)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhhhHHHHH
Confidence 67788999999999999999999988754
No 26
>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=57.59 E-value=18 Score=30.25 Aligned_cols=33 Identities=21% Similarity=0.515 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCC
Q 026349 38 KEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPD 70 (240)
Q Consensus 38 ~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~ 70 (240)
..+..|+++-||-.+||.++.++|.+.+++..+
T Consensus 165 e~eaiRlcLKHlRq~~y~~aFesLqk~t~v~LE 197 (199)
T PF06588_consen 165 EKEAIRLCLKHLRQRGYLEAFESLQKQTGVQLE 197 (199)
T ss_pred HHHHHHHHHHHhhhcCchhHHHHHHHHcCCCCC
Confidence 345679999999999999999999999998653
No 27
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.91 E-value=67 Score=28.19 Aligned_cols=76 Identities=13% Similarity=0.129 Sum_probs=60.3
Q ss_pred HHHHHHHhcCCCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHh
Q 026349 25 EEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVND 100 (240)
Q Consensus 25 ~~~~~~~~~~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~ 100 (240)
..|.+..++.+.-=......|+-||.++.|..+-+.+..-+.++...+.+......++...--+||++++-+.++.
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 3455565555555566778899999999999999999998888876667777777778888889999999888753
No 28
>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=51.05 E-value=1.3e+02 Score=24.32 Aligned_cols=104 Identities=11% Similarity=0.022 Sum_probs=70.2
Q ss_pred HHHHHHHHHHHhCHHHHH-HHHHHhhCCCCCCCHHhH-HHHHHHHHHHhcCCHHHHHHHHHhhChhhhhc-cccchhhhH
Q 026349 41 MNKLVMNFLVTEGYVDAA-EKFRMESGTEPDIDLATI-TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDT-NPQLFFHLQ 117 (240)
Q Consensus 41 l~~LI~~yL~~~Gy~~ta-~~f~~e~~i~~~~~~~~~-~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~-~s~l~F~L~ 117 (240)
-..-+++|+.+.|-.+.| +++.+-.. ........+ -..+.|+=+|.-|||..+...+++...-+.+. +......|.
T Consensus 38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~-~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk 116 (177)
T PF10602_consen 38 ALEDLADHYCKIGDLEEALKAYSRARD-YCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK 116 (177)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHhh-hcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 345788999999976555 55544222 111112222 23566788999999999999998876555442 245677889
Q ss_pred HHHHHHHHhcCChHHHHHHHHHhcCccc
Q 026349 118 QQRLIELIRNGKVEEALEFAQEELAPRG 145 (240)
Q Consensus 118 ~q~fIEli~~~~~~~Ai~y~r~~l~p~~ 145 (240)
+..-+-.+..++..+|-+..-.-.+.+.
T Consensus 117 ~~~gL~~l~~r~f~~AA~~fl~~~~t~~ 144 (177)
T PF10602_consen 117 VYEGLANLAQRDFKEAAELFLDSLSTFT 144 (177)
T ss_pred HHHHHHHHHhchHHHHHHHHHccCcCCC
Confidence 9999999999999988766655544443
No 29
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=49.80 E-value=99 Score=26.48 Aligned_cols=68 Identities=18% Similarity=0.241 Sum_probs=52.5
Q ss_pred CCHHHHH-HHHHHHHHHhCHHHHHHHHHHhhCCC---CCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhCh
Q 026349 36 IRKEDMN-KLVMNFLVTEGYVDAAEKFRMESGTE---PDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNP 103 (240)
Q Consensus 36 ~~~~~l~-~LI~~yL~~~Gy~~ta~~f~~e~~i~---~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p 103 (240)
.+...++ |+....++..|-.+.|-.+.....=+ ...++...-...++...|++|..++|++..+..-.
T Consensus 60 ~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA 131 (228)
T KOG2659|consen 60 IDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLA 131 (228)
T ss_pred CchhhHhHHHHHHHHHHhccHHHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHcc
Confidence 4555666 78889999999999999888776522 22234566788899999999999999999986543
No 30
>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=48.99 E-value=49 Score=31.44 Aligned_cols=96 Identities=10% Similarity=0.096 Sum_probs=58.2
Q ss_pred CCCCHHHHHHHHHHHHHHhCH-HHHHHHHHHhhCC----CC-CCC-------HHhHHHHHHHHHHHhcCCHHHHHHHHHh
Q 026349 34 VKIRKEDMNKLVMNFLVTEGY-VDAAEKFRMESGT----EP-DID-------LATITDRMAVKKAVQCGNVEDAIEKVND 100 (240)
Q Consensus 34 ~~~~~~~l~~LI~~yL~~~Gy-~~ta~~f~~e~~i----~~-~~~-------~~~~~~r~~I~~~I~~G~i~~Ai~~i~~ 100 (240)
...+..-+.-.-+=+.++.|. ..+.++|..-.+- .+ -.+ .+.+-.-..+-.+|..|.++++-..++.
T Consensus 74 ~~~~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~ 153 (549)
T PF07079_consen 74 QFGKSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNR 153 (549)
T ss_pred hcCCchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHH
Confidence 333444444444455666664 4455666553322 11 011 1334455567779999999999999999
Q ss_pred hChhhhhcc--------ccchhhhHHHHHHHHHhcCC
Q 026349 101 LNPEILDTN--------PQLFFHLQQQRLIELIRNGK 129 (240)
Q Consensus 101 ~~p~l~~~~--------s~l~F~L~~q~fIEli~~~~ 129 (240)
..+.++++. ..+...|-+-.|+|+.....
T Consensus 154 i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s 190 (549)
T PF07079_consen 154 IIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMS 190 (549)
T ss_pred HHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcc
Confidence 999998853 22344566667888876543
No 31
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=47.87 E-value=27 Score=23.88 Aligned_cols=40 Identities=30% Similarity=0.473 Sum_probs=28.7
Q ss_pred hhHHHHHHHHHhcCChHHHHHHHHHhcCccc-CCchHHHHHHH
Q 026349 115 HLQQQRLIELIRNGKVEEALEFAQEELAPRG-EENQSFLEELE 156 (240)
Q Consensus 115 ~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~-~~~~~~~~~l~ 156 (240)
.+..++|-+++..|++.+|-..+-+ +|-+ -.+++...+|+
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 4432 23455566666
No 32
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=46.44 E-value=32 Score=23.60 Aligned_cols=52 Identities=29% Similarity=0.440 Sum_probs=27.9
Q ss_pred HHHHHhcCCHHHHHHHHHhhChhhhhccccchhhhHHHHHHHHHhcCChHHHHHHHHH
Q 026349 82 VKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQE 139 (240)
Q Consensus 82 I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~ 139 (240)
-.-....|+.+.|+.+++. ......+....+.+ -+- +++.|+.++|++...+
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 3346678888888888876 22322222233322 222 3345778888776553
No 33
>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=45.64 E-value=2.4e+02 Score=26.16 Aligned_cols=101 Identities=18% Similarity=0.143 Sum_probs=67.9
Q ss_pred CCCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccch
Q 026349 34 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLF 113 (240)
Q Consensus 34 ~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~ 113 (240)
.+.-.+.|..-++.|+...|-.+.|..+.++.....+. ... .-.+-.+..++-.+|++.+++.- .+.. -.
T Consensus 164 ~t~~~NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pe-v~~----~LA~v~l~~~~E~~AI~ll~~aL---~~~p--~d 233 (395)
T PF09295_consen 164 PTIVNNYLVDTLLKYLSLTQRYDEAIELLEKLRERDPE-VAV----LLARVYLLMNEEVEAIRLLNEAL---KENP--QD 233 (395)
T ss_pred CCCcchHHHHHHHHHHhhcccHHHHHHHHHHHHhcCCc-HHH----HHHHHHHhcCcHHHHHHHHHHHH---HhCC--CC
Confidence 45567788888889999888888887777776543321 111 12444566788889999987642 2221 22
Q ss_pred hhhHHHHHHHHHhcCChHHHHHHHHHh--cCcc
Q 026349 114 FHLQQQRLIELIRNGKVEEALEFAQEE--LAPR 144 (240)
Q Consensus 114 F~L~~q~fIEli~~~~~~~Ai~y~r~~--l~p~ 144 (240)
..|...+-=-++.+++.+.|++.+++- ++|.
T Consensus 234 ~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~ 266 (395)
T PF09295_consen 234 SELLNLQAEFLLSKKKYELALEIAKKAVELSPS 266 (395)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCch
Confidence 666666666677888999999999984 4554
No 34
>KOG2437 consensus Muskelin [Signal transduction mechanisms]
Probab=45.34 E-value=93 Score=30.03 Aligned_cols=45 Identities=16% Similarity=0.130 Sum_probs=34.3
Q ss_pred ChhhhhccccchhhhHHHHHHHHHhcCChHHHHHHHHHhcCcccCC
Q 026349 102 NPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEE 147 (240)
Q Consensus 102 ~p~l~~~~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~~ 147 (240)
+|...-.-+...+.++.++|.|+... ++..|++|.++.+.|-.+.
T Consensus 613 rp~~~~~l~~~~~~~~~HrF~E~~~~-~~l~a~~ylq~~~~~~~D~ 657 (723)
T KOG2437|consen 613 RPSKDYLLRHCKYLIRKHRFEEKAQV-DPLSALKYLQNDLYITVDH 657 (723)
T ss_pred ccchhhhhhcchhhhHHHHHHHHhhh-hhHHHhHhhhhcceecccc
Confidence 34443333567789999999999875 5889999999998886543
No 35
>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=44.85 E-value=1.6e+02 Score=26.43 Aligned_cols=86 Identities=19% Similarity=0.248 Sum_probs=59.3
Q ss_pred cCCCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccc
Q 026349 33 DVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQL 112 (240)
Q Consensus 33 ~~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l 112 (240)
...|+....-++.+.-|...|.++-...|.++ ..++...+.| |..++..|+..+|..++....+ ...+
T Consensus 202 ~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s--kKsPIGyepF-----v~~~~~~~~~~eA~~yI~k~~~-----~~rv 269 (319)
T PF04840_consen 202 EFKVPDKRFWWLKIKALAENKDWDELEKFAKS--KKSPIGYEPF-----VEACLKYGNKKEASKYIPKIPD-----EERV 269 (319)
T ss_pred HcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC--CCCCCChHHH-----HHHHHHCCCHHHHHHHHHhCCh-----HHHH
Confidence 45788888888888888888888888888765 2345566666 7778888888888888876322 1111
Q ss_pred hhhhHHHHHHHHHhcCChHHHHHHHHH
Q 026349 113 FFHLQQQRLIELIRNGKVEEALEFAQE 139 (240)
Q Consensus 113 ~F~L~~q~fIEli~~~~~~~Ai~y~r~ 139 (240)
. -+++.|+..+|++.|.+
T Consensus 270 ~---------~y~~~~~~~~A~~~A~~ 287 (319)
T PF04840_consen 270 E---------MYLKCGDYKEAAQEAFK 287 (319)
T ss_pred H---------HHHHCCCHHHHHHHHHH
Confidence 1 13556777777777664
No 36
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=43.66 E-value=41 Score=25.30 Aligned_cols=47 Identities=13% Similarity=0.194 Sum_probs=36.8
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccchhhhHHHHHHH
Q 026349 77 TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIE 123 (240)
Q Consensus 77 ~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q~fIE 123 (240)
.....+.+.|.++||+.|.+.+.+....-.+....+.|.+..+++=+
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 45677999999999999999998876666666667777777777643
No 37
>PF13934 ELYS: Nuclear pore complex assembly
Probab=41.99 E-value=2.1e+02 Score=24.13 Aligned_cols=104 Identities=17% Similarity=0.291 Sum_probs=50.9
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHhCH---HHHHHHHHHhhCCCCCCCHHhHHHHHHHHH--HHhcCCHHHHHHHH
Q 026349 24 REEWEKKLNDVKIRKEDMNKLVMNFLVTEGY---VDAAEKFRMESGTEPDIDLATITDRMAVKK--AVQCGNVEDAIEKV 98 (240)
Q Consensus 24 ~~~~~~~~~~~~~~~~~l~~LI~~yL~~~Gy---~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~--~I~~G~i~~Ai~~i 98 (240)
+....+.+...+++...=+.+|.=+|...+- .+.+..|....++++.. +..|+- ++-.|+++.|++.+
T Consensus 29 L~~Ll~~i~~~~~~~~~K~~l~~YlLlD~~~~~~~~~~~~Fa~~f~ip~~~-------~~~~~g~W~LD~~~~~~A~~~L 101 (226)
T PF13934_consen 29 LRALLDLILSSNVSLLKKHSLFYYLLLDLDDTRPSELAESFARAFGIPPKY-------IKFIQGFWLLDHGDFEEALELL 101 (226)
T ss_pred HHHHHHHHhcCCcCHHHhHHHHHHHHHhcCccccccHHHHHHHHhCCCHHH-------HHHHHHHHHhChHhHHHHHHHh
Confidence 4555565555555543333344433443332 45788899988886421 111222 33346677777666
Q ss_pred HhhChhhhhccccchhhhHHHHHHH-HHhcCChHHHHHHHHHhcCcc
Q 026349 99 NDLNPEILDTNPQLFFHLQQQRLIE-LIRNGKVEEALEFAQEELAPR 144 (240)
Q Consensus 99 ~~~~p~l~~~~s~l~F~L~~q~fIE-li~~~~~~~Ai~y~r~~l~p~ 144 (240)
.. |.+.. .. -.+++. +++.|+...|+.|.|.--.|.
T Consensus 102 ~~--ps~~~---~~-----~~~Il~~L~~~~~~~lAL~y~~~~~p~l 138 (226)
T PF13934_consen 102 SH--PSLIP---WF-----PDKILQALLRRGDPKLALRYLRAVGPPL 138 (226)
T ss_pred CC--CCCCc---cc-----HHHHHHHHHHCCChhHHHHHHHhcCCCC
Confidence 32 22211 11 112233 333566666677666543333
No 38
>KOG0263 consensus Transcription initiation factor TFIID, subunit TAF5 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=41.12 E-value=43 Score=33.24 Aligned_cols=34 Identities=24% Similarity=0.469 Sum_probs=30.2
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCC
Q 026349 35 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 68 (240)
Q Consensus 35 ~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~ 68 (240)
.+..+.+|+.+.+||...||..|-..+..|.++.
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 4557889999999999999999999999998753
No 39
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=37.31 E-value=1.5e+02 Score=29.72 Aligned_cols=61 Identities=20% Similarity=0.323 Sum_probs=43.2
Q ss_pred HHHHHHH-HHhcCCHHHHHHHHHhhChhhhhcc--ccchhhhHHHHHHH----HHhcCChHHHHHHHHH
Q 026349 78 DRMAVKK-AVQCGNVEDAIEKVNDLNPEILDTN--PQLFFHLQQQRLIE----LIRNGKVEEALEFAQE 139 (240)
Q Consensus 78 ~r~~I~~-~I~~G~i~~Ai~~i~~~~p~l~~~~--s~l~F~L~~q~fIE----li~~~~~~~Ai~y~r~ 139 (240)
..+.|.+ +|..|+|++|.+..+.+ |++...- +.-.|.--.-+|+| .++.|...+|.....+
T Consensus 775 D~ksiVqlHve~~~W~eAFalAe~h-Pe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQ 842 (1081)
T KOG1538|consen 775 DLKSLVQLHVETQRWDEAFALAEKH-PEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQ 842 (1081)
T ss_pred cHHHHhhheeecccchHhHhhhhhC-ccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHH
Confidence 3445555 78899999999998876 6665531 33456666667887 4567888888887764
No 40
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=36.70 E-value=49 Score=21.57 Aligned_cols=27 Identities=19% Similarity=0.137 Sum_probs=23.7
Q ss_pred cChhhHHHHHHHHHHHHHhhCCCCCCC
Q 026349 176 LDISQRLKTASEVNAAILTSQSHEKDP 202 (240)
Q Consensus 176 ~~~~~r~~la~~vn~~il~~~g~~~~s 202 (240)
.+.+++..|++.+..++.+.+|.|+++
T Consensus 12 rs~EqK~~L~~~it~a~~~~~~~p~~~ 38 (60)
T PRK02289 12 RSQEQKNALAREVTEVVSRIAKAPKEA 38 (60)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcCcce
Confidence 378999999999999999999987654
No 41
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=36.57 E-value=39 Score=30.13 Aligned_cols=24 Identities=29% Similarity=0.483 Sum_probs=21.5
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHhh
Q 026349 78 DRMAVKKAVQCGNVEDAIEKVNDL 101 (240)
Q Consensus 78 ~r~~I~~~I~~G~i~~Ai~~i~~~ 101 (240)
-...|++++..||++.|+.+++|-
T Consensus 260 y~~aI~~AVk~gDi~KAL~LldEA 283 (303)
T PRK10564 260 FNQAIKQAVKKGDVDKALKLLDEA 283 (303)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHH
Confidence 457899999999999999999875
No 42
>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=33.72 E-value=75 Score=22.63 Aligned_cols=28 Identities=18% Similarity=0.344 Sum_probs=20.9
Q ss_pred HhHHHHHHHHHHHhcCCHHHHHHHHHhh
Q 026349 74 ATITDRMAVKKAVQCGNVEDAIEKVNDL 101 (240)
Q Consensus 74 ~~~~~r~~I~~~I~~G~i~~Ai~~i~~~ 101 (240)
.....-..|.++|.+||.+.|.+.+..|
T Consensus 95 ~~~~~h~~i~~ai~~~d~~~a~~~~~~h 122 (125)
T PF07729_consen 95 RSLEEHREIIDAIRAGDPEAAREALRQH 122 (125)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 4456677888888888888888888765
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=33.56 E-value=55 Score=17.38 Aligned_cols=16 Identities=13% Similarity=0.212 Sum_probs=11.9
Q ss_pred HHHhcCCHHHHHHHHH
Q 026349 84 KAVQCGNVEDAIEKVN 99 (240)
Q Consensus 84 ~~I~~G~i~~Ai~~i~ 99 (240)
-+...|++++|..++.
T Consensus 10 ~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 10 ALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHcCCHHHHHHHHh
Confidence 4567888888888764
No 44
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=33.15 E-value=1.4e+02 Score=19.37 Aligned_cols=53 Identities=32% Similarity=0.333 Sum_probs=35.6
Q ss_pred HHhcCCHHHHHHHHHhhChhhhhccccchhhhHHHHHHHHHhcCChHHHHHHHHHhcC
Q 026349 85 AVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELA 142 (240)
Q Consensus 85 ~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~ 142 (240)
.+..++++.|++.++.. +..++. ...++...=.=+...|+..+|++...+.+.
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 57889999999998753 233333 333344444445567899999999887653
No 45
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=31.65 E-value=4.4e+02 Score=27.80 Aligned_cols=179 Identities=13% Similarity=0.114 Sum_probs=95.4
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhh----hc-c
Q 026349 35 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEIL----DT-N 109 (240)
Q Consensus 35 ~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~----~~-~ 109 (240)
.|+|+.++++-.+|.....-.-+=+.+.+..=..+....+..--.-+...-+.....+-|-+.++..+-... +. .
T Consensus 437 ~vsrdliD~~a~ef~~nlNtKa~RkrLvKal~~vprt~ldllPyYsRlVAtl~~~M~dvat~lv~~L~~eFr~~~hkK~q 516 (1128)
T KOG2051|consen 437 CVSRDLIDQAAIEFCSNLNTKANRKRLVKALFVVPRTRLDLLPYYSRLVATLSKCMPDVATELVTMLRKEFRSHLHKKAQ 516 (1128)
T ss_pred hHHHHHHHHHHHHHHHHhccHHHHHHHHHhhhcccchhhhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhhhhh
Confidence 466777777777777653333333444443322333333332222333333344444444444444333321 11 2
Q ss_pred ccchhhhHHHHHHH-HHhcC--ChHHHHHHHHHhcCcccCCchHHHHHHHHHhhhhhccCCCCC-ccccccChhhHHHHH
Q 026349 110 PQLFFHLQQQRLIE-LIRNG--KVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVSNC-PVGDLLDISQRLKTA 185 (240)
Q Consensus 110 s~l~F~L~~q~fIE-li~~~--~~~~Ai~y~r~~l~p~~~~~~~~~~~l~~~~~lL~~~~~~~s-p~~~l~~~~~r~~la 185 (240)
.+++-.+.+-.||. |++=+ ...+++.+.+..+..|...+-+...-+-+.+|...|..|+.. ....+++.-.|...+
T Consensus 517 ~~ietk~~~VrfIsEL~KF~lv~~~~if~cLk~ll~dF~~hnIEm~c~lLE~~GrfLlr~pEt~lrM~~~Le~i~rkK~a 596 (1128)
T KOG2051|consen 517 INIETKLKIVRFISELCKFQLVPKFEIFSCLKMLLNDFTHHNIEMACVLLESCGRFLLRSPETKLRMRVFLEQIKRKKRA 596 (1128)
T ss_pred hhhhhhhhhhhhHHhhhhhCccChHHHHHHHHHHHHhcccccHHHHHHHHHhcchhhhcChhHHHHHHHHHHHHHHHHHH
Confidence 44666677777775 55533 456778888888766654444445566677788888887643 344566666666666
Q ss_pred HHHHH---HHH-hh--CCCCC---------CCcHHHHHHHHHH
Q 026349 186 SEVNA---AIL-TS--QSHEK---------DPKLPSLLKMLLW 213 (240)
Q Consensus 186 ~~vn~---~il-~~--~g~~~---------~s~Le~l~k~~~~ 213 (240)
..+++ ++. .. +..|| .|++...++.++.
T Consensus 597 ~~lDsr~~~~iENay~~~~PPe~~~~~~k~r~p~~efiR~Li~ 639 (1128)
T KOG2051|consen 597 SALDSRQATLIENAYYLCNPPERSKRLSKKRPPMQEFIRYLIR 639 (1128)
T ss_pred hhhchHHHHHHHHhHHhccChhhcccccccCCcHHHHHHHHHH
Confidence 55544 111 11 12232 2677788887663
No 46
>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=30.78 E-value=1.3e+02 Score=20.94 Aligned_cols=61 Identities=15% Similarity=0.205 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHhhCCCC---CCCHHhHHHHHHHHHHHhc-----C-CHHHHHHHHHhh
Q 026349 41 MNKLVMNFLVTEGYVDAAEKFRMESGTEP---DIDLATITDRMAVKKAVQC-----G-NVEDAIEKVNDL 101 (240)
Q Consensus 41 l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~---~~~~~~~~~r~~I~~~I~~-----G-~i~~Ai~~i~~~ 101 (240)
+..+..+|..=.+-..+...|.+..|... ..+...|..|+.|.+.|.. | ..++|++.|+..
T Consensus 11 V~dlw~Ew~~g~~g~psI~~le~~yG~~WR~~~~~~~~y~rRK~Ii~~I~~l~~~~g~~~~~ai~~le~~ 80 (81)
T PF12550_consen 11 VYDLWREWFTGLNGQPSIRSLEKKYGSKWRRDSKERRTYSRRKVIIDFIERLANERGISEEEAIEILEEI 80 (81)
T ss_pred HHHHHHHHhcCCCCCCCHHHHHHHhChhhccCcccchhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence 44555555544334456777888877542 3345688999999998877 4 778888877653
No 47
>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=29.92 E-value=89 Score=18.16 Aligned_cols=11 Identities=45% Similarity=0.661 Sum_probs=8.9
Q ss_pred cCCHHHHHHHH
Q 026349 88 CGNVEDAIEKV 98 (240)
Q Consensus 88 ~G~i~~Ai~~i 98 (240)
+||++.|+.|+
T Consensus 27 ~~nve~A~~~L 37 (37)
T PF00627_consen 27 NGNVERAVDWL 37 (37)
T ss_dssp TTSHHHHHHHH
T ss_pred CCCHHHHHHhC
Confidence 56899999885
No 48
>PTZ00196 60S ribosomal protein L36; Provisional
Probab=29.21 E-value=91 Score=23.05 Aligned_cols=33 Identities=33% Similarity=0.602 Sum_probs=27.1
Q ss_pred hhhHHHHHHHHHhcCChHHHHHHHHHhcCcccC
Q 026349 114 FHLQQQRLIELIRNGKVEEALEFAQEELAPRGE 146 (240)
Q Consensus 114 F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~ 146 (240)
|-=+....+||++.|.-..|+.|+++.|..+..
T Consensus 48 faPYErr~mELLkv~kdKrAlKfaKkRlGth~R 80 (98)
T PTZ00196 48 FSPYERRMIELLKVGKDKRALKYAKKRLGTHKR 80 (98)
T ss_pred ccHHHHHHHHHHHhcchHHHHHHHHHHhhhHHH
Confidence 445667889999999889999999999877653
No 49
>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=28.97 E-value=1.4e+02 Score=24.78 Aligned_cols=64 Identities=13% Similarity=0.142 Sum_probs=41.9
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccc------cchhhhHHHHHHHHHhcCChHHHHHHHHHhc
Q 026349 77 TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNP------QLFFHLQQQRLIELIRNGKVEEALEFAQEEL 141 (240)
Q Consensus 77 ~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s------~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l 141 (240)
..|.+|.+.+-. +++.-++++.+.+..+.+..+ .+...+..-.|.++++.|+..+|.+++.+.+
T Consensus 135 ~lr~~ie~~l~~-~~~~~~~~~~~~R~~~k~~~~~~~~r~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 204 (205)
T TIGR01470 135 LLRERIETLLPP-SLGDLATLAATWRDAVKKRLPNGAARRRFWEKFFDGAFAERVLAGREEQAERVLATRL 204 (205)
T ss_pred HHHHHHHHhcch-hHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHhccHHHHHHHcCCHHHHHHHHHHhh
Confidence 445556655533 567777888777777655322 2333444456888899999999988887654
No 50
>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=28.43 E-value=84 Score=23.24 Aligned_cols=32 Identities=31% Similarity=0.474 Sum_probs=27.2
Q ss_pred hhhHHHHHHHHHhcCChHHHHHHHHHhcCccc
Q 026349 114 FHLQQQRLIELIRNGKVEEALEFAQEELAPRG 145 (240)
Q Consensus 114 F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~ 145 (240)
|-=+..+.+||++.+.-..|+.|+++.+..+.
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 45567788999999999999999999987664
No 51
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=28.11 E-value=3.5e+02 Score=25.34 Aligned_cols=89 Identities=11% Similarity=0.112 Sum_probs=65.2
Q ss_pred CCCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHH----HHHHHHHHHhcCCHHHHHHHHHhhChhhhhcc
Q 026349 34 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATIT----DRMAVKKAVQCGNVEDAIEKVNDLNPEILDTN 109 (240)
Q Consensus 34 ~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~----~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~ 109 (240)
+++.|.++..++++-...+|-.+.|.....|..++.....+.-. ..-+.|=++..+|+-.|--.-.+..+..++.+
T Consensus 126 vEvERarlTk~L~~ike~~Gdi~~Aa~il~el~VETygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~ 205 (439)
T KOG1498|consen 126 VEVERARLTKMLAKIKEEQGDIAEAADILCELQVETYGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKP 205 (439)
T ss_pred EeehHHHHHHHHHHHHHHcCCHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCc
Confidence 57889999999999999999998888888787766433222211 23456678899999999888888888888765
Q ss_pred ccchhhhHHHHHHHHH
Q 026349 110 PQLFFHLQQQRLIELI 125 (240)
Q Consensus 110 s~l~F~L~~q~fIEli 125 (240)
. ..-.+.+|-+++
T Consensus 206 ~---~~~lKlkyY~lm 218 (439)
T KOG1498|consen 206 D---VQELKLKYYELM 218 (439)
T ss_pred c---HHHHHHHHHHHH
Confidence 3 344455666643
No 52
>COG5443 FlbT Flagellar biosynthesis regulator FlbT [Cell motility and secretion]
Probab=28.10 E-value=99 Score=24.16 Aligned_cols=58 Identities=19% Similarity=0.192 Sum_probs=44.6
Q ss_pred HHHHhCHHHHHHHHHHhhCCC--CCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhh
Q 026349 48 FLVTEGYVDAAEKFRMESGTE--PDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEI 105 (240)
Q Consensus 48 yL~~~Gy~~ta~~f~~e~~i~--~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l 105 (240)
|+--.|-.++...|.+..+.- ...+.+.+...+.|-.++.+|..-+|+..+...+|.-
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 334456677778888776432 2345678899999999999999999999999998853
No 53
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=27.99 E-value=42 Score=23.28 Aligned_cols=17 Identities=24% Similarity=0.323 Sum_probs=14.3
Q ss_pred CCHHHHHHHHHhhChhh
Q 026349 89 GNVEDAIEKVNDLNPEI 105 (240)
Q Consensus 89 G~i~~Ai~~i~~~~p~l 105 (240)
--+|.|++|+.+|.|.+
T Consensus 59 ~tld~Ai~Wi~e~M~~i 75 (79)
T PF10827_consen 59 PTLDLAIAWIGEHMPHI 75 (79)
T ss_pred ccHHHHHHHHHhcccch
Confidence 35799999999998865
No 54
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=27.87 E-value=6.2e+02 Score=25.27 Aligned_cols=180 Identities=19% Similarity=0.227 Sum_probs=100.6
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHhCHHHHHHH---HHHhhCCCCC-CCH-HhHHHHHHHHHHHhcCCHHHHHHHH
Q 026349 24 REEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEK---FRMESGTEPD-IDL-ATITDRMAVKKAVQCGNVEDAIEKV 98 (240)
Q Consensus 24 ~~~~~~~~~~~~~~~~~l~~LI~~yL~~~Gy~~ta~~---f~~e~~i~~~-~~~-~~~~~r~~I~~~I~~G~i~~Ai~~i 98 (240)
.+.|...+.-.+-.|..-....+.+.+...|..+... |.+...-.++ .+. .......++...+.+|..+.|++.+
T Consensus 129 ~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L 208 (700)
T KOG1156|consen 129 LETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHL 208 (700)
T ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence 4667777765555554444444444444445444433 4333321111 111 1223445566678899999999999
Q ss_pred HhhChhhhhccccchhhhHHHHHHHHHhcCChHHHHHHHHHhcCcccCCchHHHHHHHHHhh--------h-hhcc----
Q 026349 99 NDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVA--------L-LAFE---- 165 (240)
Q Consensus 99 ~~~~p~l~~~~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l~p~~~~~~~~~~~l~~~~~--------l-L~~~---- 165 (240)
..+.+.+... +.|....-.+.. +-+..++|+...+..+.+..++. .+-..+..++| + .+|.
T Consensus 209 ~~~e~~i~Dk---la~~e~ka~l~~--kl~~lEeA~~~y~~Ll~rnPdn~-~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~ 282 (700)
T KOG1156|consen 209 LDNEKQIVDK---LAFEETKADLLM--KLGQLEEAVKVYRRLLERNPDNL-DYYEGLEKALGKIKDMLEALKALYAILSE 282 (700)
T ss_pred HhhhhHHHHH---HHHhhhHHHHHH--HHhhHHhHHHHHHHHHhhCchhH-HHHHHHHHHHHHHhhhHHHHHHHHHHHhh
Confidence 9998887653 455555554433 44678999999998887765432 23344454443 1 1222
Q ss_pred CC--CCC----ccccccChhhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHH
Q 026349 166 DV--SNC----PVGDLLDISQRLKTASEVNAAILTSQSHEKDPKLPSLLKM 210 (240)
Q Consensus 166 ~~--~~s----p~~~l~~~~~r~~la~~vn~~il~~~g~~~~s~Le~l~k~ 210 (240)
.+ ..+ |..-+-+.+-+..+..-++..+.+... +.-+.|+.|.+.
T Consensus 283 ~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p-~vf~dl~SLyk~ 332 (700)
T KOG1156|consen 283 KYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVP-SVFKDLRSLYKD 332 (700)
T ss_pred cCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCC-chhhhhHHHHhc
Confidence 11 122 333344556677777777777765433 234566666555
No 55
>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=27.69 E-value=89 Score=19.60 Aligned_cols=19 Identities=26% Similarity=0.226 Sum_probs=16.0
Q ss_pred ChhhHHHHHHHHHHHHHhh
Q 026349 177 DISQRLKTASEVNAAILTS 195 (240)
Q Consensus 177 ~~~~r~~la~~vn~~il~~ 195 (240)
.+++|..+|+.|.+++..+
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 4789999999999998764
No 56
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=27.11 E-value=1.4e+02 Score=19.76 Aligned_cols=32 Identities=19% Similarity=0.320 Sum_probs=23.1
Q ss_pred HhHHHHHHHHHHHhcCCHHHHHHHHHhhChhh
Q 026349 74 ATITDRMAVKKAVQCGNVEDAIEKVNDLNPEI 105 (240)
Q Consensus 74 ~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l 105 (240)
|.....+-|...+..|++++|.+++++....+
T Consensus 22 D~~NhLqvI~gllqlg~~~~a~eYi~~~~~~~ 53 (62)
T PF14689_consen 22 DFLNHLQVIYGLLQLGKYEEAKEYIKELSKDL 53 (62)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 44556667888889999999999988765443
No 57
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=26.82 E-value=4e+02 Score=24.43 Aligned_cols=62 Identities=18% Similarity=0.124 Sum_probs=33.4
Q ss_pred HHHHHHHhC-HHHHHHHHHHhhCCCCCCCH-HhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhh
Q 026349 45 VMNFLVTEG-YVDAAEKFRMESGTEPDIDL-ATITDRMAVKKAVQCGNVEDAIEKVNDLNPEIL 106 (240)
Q Consensus 45 I~~yL~~~G-y~~ta~~f~~e~~i~~~~~~-~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~ 106 (240)
-+.|.+.+| |..++..|--=..+.+..|. ..-..--++-.-|+-.||+.|++-+.+.+.-+.
T Consensus 135 yakfqyeCGNY~gAs~yLY~~r~l~~~~d~n~lsalwGKlASEIL~qnWd~A~edL~rLre~ID 198 (432)
T KOG2758|consen 135 YAKFQYECGNYSGASDYLYFYRALVSDPDRNYLSALWGKLASEILTQNWDGALEDLTRLREYID 198 (432)
T ss_pred HHHHHHhccCcccHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHc
Confidence 455566665 33444443332233333333 122334466777888888888888776655443
No 58
>PLN03077 Protein ECB2; Provisional
Probab=25.82 E-value=7e+02 Score=25.19 Aligned_cols=107 Identities=22% Similarity=0.287 Sum_probs=60.8
Q ss_pred HHHHHHHhcCCCCHHHHHHHHHHHHHHhCHHHHHHHHHH--hhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 026349 25 EEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRM--ESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLN 102 (240)
Q Consensus 25 ~~~~~~~~~~~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~--e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~ 102 (240)
+...+.++....+-...+.+|.-|..+--..++...|.+ +.|+.|... .+ ..-|..+-..|++++|.++.++-.
T Consensus 541 ~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~--T~--~~ll~a~~~~g~v~ea~~~f~~M~ 616 (857)
T PLN03077 541 NYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEV--TF--ISLLCACSRSGMVTQGLEYFHSME 616 (857)
T ss_pred HHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcc--cH--HHHHHHHhhcChHHHHHHHHHHHH
Confidence 333444555555666677777766544444555555653 456665322 11 222455778899999999987543
Q ss_pred hhhhhccccchhhhHHHHHHH-HHhcCChHHHHHHHHH
Q 026349 103 PEILDTNPQLFFHLQQQRLIE-LIRNGKVEEALEFAQE 139 (240)
Q Consensus 103 p~l~~~~s~l~F~L~~q~fIE-li~~~~~~~Ai~y~r~ 139 (240)
.. ....+++ . +....+. +.+.|+.++|.++.++
T Consensus 617 ~~-~gi~P~~--~-~y~~lv~~l~r~G~~~eA~~~~~~ 650 (857)
T PLN03077 617 EK-YSITPNL--K-HYACVVDLLGRAGKLTEAYNFINK 650 (857)
T ss_pred HH-hCCCCch--H-HHHHHHHHHHhCCCHHHHHHHHHH
Confidence 11 0112222 1 1222333 4578999999999986
No 59
>PF06794 UPF0270: Uncharacterised protein family (UPF0270); InterPro: IPR010648 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 1Y0N_A.
Probab=25.37 E-value=2e+02 Score=19.89 Aligned_cols=44 Identities=23% Similarity=0.397 Sum_probs=23.1
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCC
Q 026349 35 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGN 90 (240)
Q Consensus 35 ~~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~ 90 (240)
.++.+-|+.||-+|..|.|..--... ...-....++++++.+|+
T Consensus 7 ~L~~eTL~nLIeefv~ReGTdyG~~E------------~sL~~kv~qv~~qL~~G~ 50 (70)
T PF06794_consen 7 QLPPETLNNLIEEFVLREGTDYGEQE------------LSLEEKVEQVKQQLKSGE 50 (70)
T ss_dssp GS-HHHHHHHHHHHHH------------------------HHHHHHHHHHHHHTTS
T ss_pred HCCHHHHHHHHHHHHHccCcccCccc------------ccHHHHHHHHHHHHHcCC
Confidence 45678899999999999985311111 111234566777888775
No 60
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=25.29 E-value=2.6e+02 Score=28.23 Aligned_cols=28 Identities=25% Similarity=0.504 Sum_probs=26.0
Q ss_pred CCCHHHHHHHHHHHHHHhCHHHHHHHHH
Q 026349 35 KIRKEDMNKLVMNFLVTEGYVDAAEKFR 62 (240)
Q Consensus 35 ~~~~~~l~~LI~~yL~~~Gy~~ta~~f~ 62 (240)
.++-.++..+|..-|...||.++|+++.
T Consensus 58 ~isve~IqDiVe~~L~~~g~~~vAkaYI 85 (735)
T PRK07111 58 EVTVEDIQDLVEKVLIENGHAETAKAYI 85 (735)
T ss_pred CCCHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence 5888899999999999999999999985
No 61
>KOG0640 consensus mRNA cleavage stimulating factor complex; subunit 1 [RNA processing and modification]
Probab=24.26 E-value=2.5e+02 Score=25.48 Aligned_cols=33 Identities=18% Similarity=0.224 Sum_probs=28.8
Q ss_pred CCHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCC
Q 026349 36 IRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 68 (240)
Q Consensus 36 ~~~~~l~~LI~~yL~~~Gy~~ta~~f~~e~~i~ 68 (240)
-||+.+-+||...|.+.||...|..+......+
T Consensus 9 kdre~lyrLiisqL~ydg~~qiA~~lan~~~~~ 41 (430)
T KOG0640|consen 9 KDREILYRLIISQLRYDGLSQIASALANATMTP 41 (430)
T ss_pred chHHHHHHHHHHHHhhccHHHHHHHHHHhhcCc
Confidence 468889999999999999999999999866554
No 62
>KOG2437 consensus Muskelin [Signal transduction mechanisms]
Probab=23.76 E-value=3.4e+02 Score=26.38 Aligned_cols=62 Identities=10% Similarity=0.104 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhh
Q 026349 41 MNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILD 107 (240)
Q Consensus 41 l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~ 107 (240)
--+..+.||-.+||.|..+.+.+.+.+..+.. -..+|++++....-+..........|.++.
T Consensus 168 a~r~cL~~fr~~G~~DI~e~l~k~~~~~Ieh~-----~l~~i~d~l~~~gd~~~e~i~~~~~~~lf~ 229 (723)
T KOG2437|consen 168 AIRLCLKHFRQHGYTDIFESLQKKTKIAIEHP-----MLTDIHDKLVLKGDACEELIEKAVNDGLFN 229 (723)
T ss_pred HHHHHHHHHHHcCchHHHHHHHHhhcccCCCh-----HHHHHHHHHHHcccHHHHHHHhhhccHHHh
Confidence 45788999999999999999999998765433 256688877655555555555566666554
No 63
>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=23.29 E-value=2.9e+02 Score=19.83 Aligned_cols=56 Identities=16% Similarity=0.228 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHH
Q 026349 41 MNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKV 98 (240)
Q Consensus 41 l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i 98 (240)
..+.+.+.|+..+-.+.+..|..+.=.+ ...+.+..|..|...+.+|....+|+-.
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~l~t~--~e~~~Ls~R~~I~~ll~~G~S~~eIA~~ 59 (88)
T TIGR02531 4 LLDELFDAILTLKNREECYRFFDDIATI--NEIQSLAQRLQVAKMLKQGKTYSDIEAE 59 (88)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHhCCH--HHHHhhhHHHHHHHHHHCCCCHHHHHHH
Confidence 4566778888888888888888765322 2345678889999999999877666554
No 64
>PF02074 Peptidase_M32: Carboxypeptidase Taq (M32) metallopeptidase; InterPro: IPR001333 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M32 (carboxypeptidase Taq family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. Carboxypeptidase Taq is a zinc-containing thermostable metallopeptidase. It was originally discovered and purified from Thermus aquaticus; optimal enzymatic activity occurs at 80 celcius. Although very little is known about this enzyme, it is thought either to be associated with a membrane or to be particle bound.; GO: 0004181 metallocarboxypeptidase activity, 0006508 proteolysis; PDB: 1K9X_A 1KA4_A 1KA2_A 3DWC_A 1WGZ_A 3HQ2_A 3HOA_B.
Probab=23.23 E-value=3.3e+02 Score=26.13 Aligned_cols=97 Identities=16% Similarity=0.309 Sum_probs=51.5
Q ss_pred HHHHH-HHHHHHHhhhccCCCHHHHHHHHhcCCCCH-----HHH---HHHHHHHHHHhCHH----------HHHHH-HHH
Q 026349 4 FWIVI-RQLAEIEAMSKKVITREEWEKKLNDVKIRK-----EDM---NKLVMNFLVTEGYV----------DAAEK-FRM 63 (240)
Q Consensus 4 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~l---~~LI~~yL~~~Gy~----------~ta~~-f~~ 63 (240)
||-++ -.+.+.+ ...+.++.+++.+.++.+.++- +++ -.+|+-|=+...+. ++=.. ..+
T Consensus 311 Fw~~~~p~l~~~f-~~~~~v~~e~~y~~~N~V~ps~IR~eADElTY~lHIilRyEiEk~li~g~l~v~dLP~~Wn~km~e 389 (494)
T PF02074_consen 311 FWEFLYPKLQEHF-PQLKDVSLENFYRAINRVKPSLIRVEADELTYPLHIILRYEIEKALINGELSVDDLPEAWNEKMEE 389 (494)
T ss_dssp HHHHHHHHHHHHC-GGGTT-SHHHHHHHHT-----S-GGG--TTTHHHHHHHHHHHHHHHHTTSS-GGGHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHh-CcccCCCHHHHHHHHccCCCcccchhhHHHHHHHHHHHHHHHHHHHHcCCCChhhhHHHHHHHHHH
Confidence 67554 5788888 7778899999999999886652 222 24666666555443 12122 223
Q ss_pred hhCCCCCCCH-------------------------------HhH-HHHHHHHHHHhcCCHHHHHHHHHhh
Q 026349 64 ESGTEPDIDL-------------------------------ATI-TDRMAVKKAVQCGNVEDAIEKVNDL 101 (240)
Q Consensus 64 e~~i~~~~~~-------------------------------~~~-~~r~~I~~~I~~G~i~~Ai~~i~~~ 101 (240)
-.|+.+..|. ..+ +..-.+...|.+||+.+...|+++|
T Consensus 390 yLGi~p~~d~eG~LQDvHWs~G~fGYFPtY~LG~~~AaQl~~~~~~~~pd~~~~i~~G~f~~i~~WL~e~ 459 (494)
T PF02074_consen 390 YLGITPPNDAEGVLQDVHWSSGSFGYFPTYALGNIYAAQLFAAMKKDIPDLDEQIAKGDFSPIRDWLREN 459 (494)
T ss_dssp HHS---SSCTTTTTS-STTTTT-TS-THHHHHHHHHHHHHHHHHHHHHTTHHHHHHTT--HHHHHHHHHH
T ss_pred HcCCCCCCCCccccccccccCCccccchhhHHHHHHHHHHHHHHHHHccCHHHHHHcCChHHHHHHHHHH
Confidence 3577653220 111 1222566777888888888888775
No 65
>PF14691 Fer4_20: Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; PDB: 2VDC_G 1H7X_C 1H7W_A 1GT8_A 1GTE_B 1GTH_B.
Probab=23.03 E-value=1.1e+02 Score=22.93 Aligned_cols=29 Identities=34% Similarity=0.526 Sum_probs=21.6
Q ss_pred chhhhHHHHHHHHHhcCChHHHHHHHHHh
Q 026349 112 LFFHLQQQRLIELIRNGKVEEALEFAQEE 140 (240)
Q Consensus 112 l~F~L~~q~fIEli~~~~~~~Ai~y~r~~ 140 (240)
-...+....||.+++.|+..+|++.+++.
T Consensus 36 CP~~~dip~~i~~i~~g~~~~A~~~i~~~ 64 (111)
T PF14691_consen 36 CPAHIDIPEYIRLIREGNFKEAYELIRED 64 (111)
T ss_dssp STT---HHHHHHHHHCT-HHHHHHHHHHH
T ss_pred CCCCCcHHHHHHHHHCCCHHHHHHHHHHh
Confidence 34567789999999999999999999864
No 66
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=22.91 E-value=5.2e+02 Score=22.69 Aligned_cols=16 Identities=19% Similarity=0.102 Sum_probs=10.0
Q ss_pred HHhcCCHHHHHHHHHh
Q 026349 85 AVQCGNVEDAIEKVND 100 (240)
Q Consensus 85 ~I~~G~i~~Ai~~i~~ 100 (240)
....|++++|++....
T Consensus 151 ~~~~g~~~~A~~~~~~ 166 (389)
T PRK11788 151 YQQEKDWQKAIDVAER 166 (389)
T ss_pred HHHhchHHHHHHHHHH
Confidence 4556777777666554
No 67
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.03 E-value=2.7e+02 Score=25.65 Aligned_cols=62 Identities=13% Similarity=0.096 Sum_probs=41.9
Q ss_pred HHHHHHHhCHHHHHHHHHHhhCCC---CCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhh
Q 026349 45 VMNFLVTEGYVDAAEKFRMESGTE---PDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILD 107 (240)
Q Consensus 45 I~~yL~~~Gy~~ta~~f~~e~~i~---~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~ 107 (240)
|.+-|.+.. ...|-++++|-... ..+..+.-...+++.++|..++++.|++.+++++...-+
T Consensus 159 I~~sll~~~-l~~~Lswc~ehk~~LkK~~S~lEf~lRlQefIELi~~~~~~~Ai~~akk~f~~~~~ 223 (389)
T KOG0396|consen 159 IRDSLLAGE-LEPALSWCKEHKVELKKEESSLEFQLRLQEFIELIKVDNYDKAIAFAKKHFAPWAK 223 (389)
T ss_pred HHHHHHhcc-hHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhhhhh
Confidence 444444444 55666677765432 233445555677889999999999999999998766544
No 68
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=22.00 E-value=9.6e+02 Score=25.40 Aligned_cols=36 Identities=11% Similarity=0.015 Sum_probs=17.3
Q ss_pred CCCCHHHHHHHHHHHHHHhCHHHHH-HHHHHhhCCCC
Q 026349 34 VKIRKEDMNKLVMNFLVTEGYVDAA-EKFRMESGTEP 69 (240)
Q Consensus 34 ~~~~~~~l~~LI~~yL~~~Gy~~ta-~~f~~e~~i~~ 69 (240)
..++.......+.+-+...|-.+.| ..|.+-..+.+
T Consensus 380 ~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p 416 (1157)
T PRK11447 380 VDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDP 416 (1157)
T ss_pred hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence 3334333333445556666655555 44444444443
No 69
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=21.94 E-value=3.2e+02 Score=19.87 Aligned_cols=93 Identities=18% Similarity=0.250 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHhhCCCCCCCHHhHHHHHHHH-HHHhcCCHHHHHHHHHhhChhhhhccccchhhhHHH
Q 026349 41 MNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVK-KAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQ 119 (240)
Q Consensus 41 l~~LI~~yL~~~Gy~~ta~~f~~e~~i~~~~~~~~~~~r~~I~-~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q 119 (240)
+..+..-|+...-|.++...|.+-..+.+. +.+. ...+- -....|+++.|+.+++..- .+...+....+.+-.
T Consensus 20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~---~~~la~~~~~~~~~~~A~~~~~~~~-~~~p~~~~~~~~la~- 93 (135)
T TIGR02552 20 IYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRY---WLGLAACCQMLKEYEEAIDAYALAA-ALDPDDPRPYFHAAE- 93 (135)
T ss_pred HHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHH---HHHHHHHHHHHHHHHHHHHHHHHHH-hcCCCChHHHHHHHH-
Confidence 334444444444455555566554444332 2221 12222 2445688999988776431 111222223333222
Q ss_pred HHHHHHhcCChHHHHHHHHHhcC
Q 026349 120 RLIELIRNGKVEEALEFAQEELA 142 (240)
Q Consensus 120 ~fIEli~~~~~~~Ai~y~r~~l~ 142 (240)
+.+.. |+..+|+.+.++-+.
T Consensus 94 --~~~~~-g~~~~A~~~~~~al~ 113 (135)
T TIGR02552 94 --CLLAL-GEPESALKALDLAIE 113 (135)
T ss_pred --HHHHc-CCHHHHHHHHHHHHH
Confidence 22222 678888888887543
No 70
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=21.83 E-value=2.5e+02 Score=23.47 Aligned_cols=61 Identities=23% Similarity=0.361 Sum_probs=39.1
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHhhCh--hhh-----------hccccchhhhHHHHHHHHHhcCChHHHHHHHHHh
Q 026349 78 DRMAVKKAVQCGNVEDAIEKVNDLNP--EIL-----------DTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEE 140 (240)
Q Consensus 78 ~r~~I~~~I~~G~i~~Ai~~i~~~~p--~l~-----------~~~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~ 140 (240)
+|..-|++|+.|.=+-|+-.+.+.+- .|+ ..-++++|.....++++=++.|+ +||.-.++.
T Consensus 42 Er~~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvsdiEft~vqk~V~~gLk~GN--~~lkkl~~~ 115 (209)
T KOG2910|consen 42 ERQLARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVSDIEFTQVQKKVMEGLKQGN--EALKKLQQE 115 (209)
T ss_pred HHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHh
Confidence 44556677777776776655543221 122 22378999999999999998873 455555544
No 71
>PF04699 P16-Arc: ARP2/3 complex 16 kDa subunit (p16-Arc); InterPro: IPR006789 The Arp2/3 protein complex has been implicated in the control of actin polymerisation. The human complex consists of seven subunits which include the actin related proteins Arp2 and Arp3, and five others referred to as p41-Arc, p34-Arc, p21-Arc, p20-Arc, and p16-Arc. The precise function of p16-Arc is currently unknown. Its structure consists of a single domain containing a bundle of seven alpha helices [, ].; GO: 0030833 regulation of actin filament polymerization, 0005856 cytoskeleton; PDB: 3DWL_G 1TYQ_G 1U2V_G 2P9U_G 2P9L_G 1K8K_G 3DXM_G 2P9N_G 3DXK_G 2P9I_G ....
Probab=21.72 E-value=96 Score=24.81 Aligned_cols=28 Identities=18% Similarity=0.335 Sum_probs=21.4
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHhhChh
Q 026349 77 TDRMAVKKAVQCGNVEDAIEKVNDLNPE 104 (240)
Q Consensus 77 ~~r~~I~~~I~~G~i~~Ai~~i~~~~p~ 104 (240)
..-.++++++..||..+|++.+=++-|-
T Consensus 38 ~~~~qvr~ll~~g~~~~ALk~aL~npP~ 65 (152)
T PF04699_consen 38 PKEQQVRQLLSSGDNEEALKAALENPPY 65 (152)
T ss_dssp GTHHHHHHHHHCT-HHHHHHHHTSS--T
T ss_pred hhHHHHHHHHhCCCHHHHHHHhccCCCc
Confidence 3456799999999999999999888664
No 72
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=21.34 E-value=7.4e+02 Score=23.85 Aligned_cols=97 Identities=14% Similarity=0.093 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHh-hCCCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhccccchhhhH
Q 026349 39 EDMNKLVMNFLVTEGYVDAAEKFRME-SGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQ 117 (240)
Q Consensus 39 ~~l~~LI~~yL~~~Gy~~ta~~f~~e-~~i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~ 117 (240)
-++--+=+.-|-|.|-.+.|.....+ ..+.. .|-+-+-+-++-.+++|++++|.+.+.-..-.- .....=.+++.
T Consensus 228 ~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~---~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~-~~~~~~L~~mQ 303 (517)
T PF12569_consen 228 VELYMTKARILKHAGDLKEAAEAMDEARELDL---ADRYINSKCAKYLLRAGRIEEAEKTASLFTRED-VDPLSNLNDMQ 303 (517)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh---hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCC-CCcccCHHHHH
Confidence 33334444455566644333333322 22222 234556667788899999999998876432111 01112234444
Q ss_pred HHHHHH-----HHhcCChHHHHHHHHH
Q 026349 118 QQRLIE-----LIRNGKVEEALEFAQE 139 (240)
Q Consensus 118 ~q~fIE-----li~~~~~~~Ai~y~r~ 139 (240)
|.=|.- ..|.|+...|+.....
T Consensus 304 c~Wf~~e~a~a~~r~~~~~~ALk~~~~ 330 (517)
T PF12569_consen 304 CMWFETECAEAYLRQGDYGLALKRFHA 330 (517)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 444332 4567888888886654
No 73
>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion]
Probab=20.68 E-value=5.3e+02 Score=26.21 Aligned_cols=92 Identities=20% Similarity=0.157 Sum_probs=63.0
Q ss_pred hC-CCCCCCHHhHHHHHHHHHHHhcCCHHHHHHHHHhhChhhhhc--cccchhhhHHHHHHHHHhcCChHHHHHHHHHhc
Q 026349 65 SG-TEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDT--NPQLFFHLQQQRLIELIRNGKVEEALEFAQEEL 141 (240)
Q Consensus 65 ~~-i~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~i~~~~p~l~~~--~s~l~F~L~~q~fIEli~~~~~~~Ai~y~r~~l 141 (240)
+| ++...+...++..++|...+..|+- +...+|.+.+. -.+.+++=.+.-|++.+-+++..+|+--....+
T Consensus 25 sg~l~s~n~~~kidAmK~iIa~M~~G~d------mssLf~dViK~~~trd~ElKrL~ylYl~~yak~~P~~~lLavNti~ 98 (757)
T COG5096 25 SGRLESSNDYKKIDAMKKIIAQMSLGED------MSSLFPDVIKNVATRDVELKRLLYLYLERYAKLKPELALLAVNTIQ 98 (757)
T ss_pred cccccccChHHHHHHHHHHHHHHhcCCC------hHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence 45 5555677788899999999999975 44445554442 245677777888888888999999888887777
Q ss_pred CcccCCchHHHHHHHHHhhhh
Q 026349 142 APRGEENQSFLEELERTVALL 162 (240)
Q Consensus 142 ~p~~~~~~~~~~~l~~~~~lL 162 (240)
..+...++..+.--=+.++++
T Consensus 99 kDl~d~N~~iR~~AlR~ls~l 119 (757)
T COG5096 99 KDLQDPNEEIRGFALRTLSLL 119 (757)
T ss_pred hhccCCCHHHHHHHHHHHHhc
Confidence 777776665443333333433
No 74
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=20.56 E-value=1.6e+02 Score=18.50 Aligned_cols=25 Identities=12% Similarity=0.044 Sum_probs=22.1
Q ss_pred ChhhHHHHHHHHHHHHHhhCCCCCC
Q 026349 177 DISQRLKTASEVNAAILTSQSHEKD 201 (240)
Q Consensus 177 ~~~~r~~la~~vn~~il~~~g~~~~ 201 (240)
+++++.++++.+.+++.+..|.+++
T Consensus 12 t~eqk~~l~~~i~~~l~~~~g~~~~ 36 (58)
T cd00491 12 TDEQKRELIERVTEAVSEILGAPEA 36 (58)
T ss_pred CHHHHHHHHHHHHHHHHHHhCcCcc
Confidence 5788999999999999999997755
No 75
>PF12931 Sec16_C: Sec23-binding domain of Sec16; PDB: 3MZK_C.
Probab=20.44 E-value=1e+02 Score=26.93 Aligned_cols=21 Identities=29% Similarity=0.401 Sum_probs=14.2
Q ss_pred HHHHHHhcCCHHHHHHHHHhh
Q 026349 81 AVKKAVQCGNVEDAIEKVNDL 101 (240)
Q Consensus 81 ~I~~~I~~G~i~~Ai~~i~~~ 101 (240)
+|++++..||.++|+++|-++
T Consensus 1 ~I~~~Ll~G~~~~Av~~al~~ 21 (284)
T PF12931_consen 1 KIQQLLLVGNREEAVELALDN 21 (284)
T ss_dssp HHHHHHHTT-HHHHHHHHHHT
T ss_pred CHHHHHhCCCHHHHHHHHHHC
Confidence 467777777777777777554
No 76
>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=20.38 E-value=2.6e+02 Score=18.30 Aligned_cols=57 Identities=19% Similarity=0.131 Sum_probs=28.4
Q ss_pred HHhcCCHHHHHHHHHhhChhhhhccccchhhhHHHHHHH--HHhcCChHHHHHHHHHhc
Q 026349 85 AVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIE--LIRNGKVEEALEFAQEEL 141 (240)
Q Consensus 85 ~I~~G~i~~Ai~~i~~~~p~l~~~~s~l~F~L~~q~fIE--li~~~~~~~Ai~y~r~~l 141 (240)
....|+++.|+++.++--.-....+..-........=+- ....|+..+|++|.++-+
T Consensus 15 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al 73 (78)
T PF13424_consen 15 YRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL 73 (78)
T ss_dssp HHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 346788888888887654331111111111111111111 234678888888887643
No 77
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=20.13 E-value=1.5e+02 Score=15.66 Aligned_cols=20 Identities=25% Similarity=0.551 Sum_probs=15.2
Q ss_pred HHHHHhcCCHHHHHHHHHhh
Q 026349 82 VKKAVQCGNVEDAIEKVNDL 101 (240)
Q Consensus 82 I~~~I~~G~i~~Ai~~i~~~ 101 (240)
|......|++++|.+..++-
T Consensus 7 i~~~~~~~~~~~a~~~~~~M 26 (35)
T TIGR00756 7 IDGLCKAGRVEEALELFKEM 26 (35)
T ss_pred HHHHHHCCCHHHHHHHHHHH
Confidence 55577888888888887654
Done!