Query 030894
Match_columns 169
No_of_seqs 36 out of 38
Neff 2.1
Searched_HMMs 46136
Date Fri Mar 29 06:11:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030894.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030894hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04949 Transcrip_act: Transc 100.0 8.6E-78 1.9E-82 481.8 17.2 157 11-167 3-159 (159)
2 TIGR01837 PHA_granule_1 poly(h 94.8 0.095 2E-06 39.7 5.9 62 49-112 55-116 (118)
3 PF05597 Phasin: Poly(hydroxya 94.3 0.19 4.1E-06 39.4 6.6 62 49-112 68-129 (132)
4 TIGR02169 SMC_prok_A chromosom 92.9 4.6 0.0001 37.7 14.0 71 93-163 952-1022(1164)
5 PF07200 Mod_r: Modifier of ru 86.5 9.7 0.00021 28.6 9.0 62 91-153 54-115 (150)
6 TIGR03185 DNA_S_dndD DNA sulfu 86.4 28 0.0006 32.4 14.1 34 133-166 478-512 (650)
7 PF10805 DUF2730: Protein of u 86.4 2.2 4.8E-05 31.7 5.4 53 60-114 35-87 (106)
8 PF10174 Cast: RIM-binding pro 82.7 43 0.00094 33.2 13.7 95 60-161 360-470 (775)
9 PF08317 Spc7: Spc7 kinetochor 81.6 33 0.00072 29.5 11.7 87 57-146 177-263 (325)
10 PF10186 Atg14: UV radiation r 80.3 28 0.0006 27.7 15.2 51 61-115 57-107 (302)
11 TIGR00606 rad50 rad50. This fa 79.6 60 0.0013 32.9 13.7 53 91-143 894-946 (1311)
12 cd07623 BAR_SNX1_2 The Bin/Amp 78.0 29 0.00064 28.2 9.3 70 60-129 149-219 (224)
13 PF01920 Prefoldin_2: Prefoldi 76.5 22 0.00048 24.5 7.4 70 60-129 15-99 (106)
14 PRK03947 prefoldin subunit alp 76.2 24 0.00052 26.3 7.8 28 60-87 23-50 (140)
15 TIGR00606 rad50 rad50. This fa 76.0 95 0.0021 31.5 14.5 101 44-148 862-965 (1311)
16 PF12325 TMF_TATA_bd: TATA ele 72.6 43 0.00093 26.0 9.3 58 88-145 47-107 (120)
17 cd07627 BAR_Vps5p The Bin/Amph 71.6 52 0.0011 26.5 9.5 39 59-97 142-180 (216)
18 PRK03918 chromosome segregatio 70.8 93 0.002 29.1 13.8 50 82-131 297-346 (880)
19 PF07888 CALCOCO1: Calcium bin 70.5 71 0.0015 30.8 11.1 36 119-154 222-257 (546)
20 PF01706 FliG_C: FliG C-termin 68.9 10 0.00022 27.6 4.2 46 58-108 56-101 (110)
21 PF09325 Vps5: Vps5 C terminal 68.2 52 0.0011 25.6 8.3 26 99-124 163-188 (236)
22 PF10241 KxDL: Uncharacterized 67.2 39 0.00084 24.4 6.9 59 39-108 22-80 (88)
23 PF05278 PEARLI-4: Arabidopsis 65.5 57 0.0012 28.9 8.8 85 62-153 154-247 (269)
24 KOG0996 Structural maintenance 65.3 1.3E+02 0.0029 32.0 12.5 101 52-166 805-917 (1293)
25 KOG0250 DNA repair protein RAD 65.1 1.6E+02 0.0035 30.9 12.9 55 53-107 295-352 (1074)
26 KOG0979 Structural maintenance 64.8 67 0.0014 33.5 10.2 94 58-166 256-349 (1072)
27 PRK03918 chromosome segregatio 64.6 1.2E+02 0.0027 28.3 13.9 78 62-143 174-254 (880)
28 PRK02224 chromosome segregatio 64.2 1.3E+02 0.0028 28.4 12.5 72 58-130 521-609 (880)
29 TIGR00763 lon ATP-dependent pr 64.1 29 0.00063 33.2 7.3 62 43-105 196-260 (775)
30 KOG0239 Kinesin (KAR3 subfamil 63.8 1.5E+02 0.0032 29.0 11.9 88 60-147 199-296 (670)
31 PRK10787 DNA-binding ATP-depen 61.5 20 0.00042 34.9 5.7 62 43-105 198-262 (784)
32 KOG0996 Structural maintenance 60.1 1.5E+02 0.0032 31.7 11.8 93 60-153 910-1009(1293)
33 cd07664 BAR_SNX2 The Bin/Amphi 59.1 1E+02 0.0022 26.0 8.9 68 41-108 132-208 (234)
34 TIGR02168 SMC_prok_B chromosom 58.7 1.6E+02 0.0035 27.6 13.9 75 93-167 966-1043(1179)
35 COG1196 Smc Chromosome segrega 58.2 2.1E+02 0.0046 28.8 13.4 64 96-159 946-1012(1163)
36 COG1340 Uncharacterized archae 56.5 1.5E+02 0.0032 26.7 9.9 60 88-147 30-89 (294)
37 PF11414 Suppressor_APC: Adeno 56.3 17 0.00037 26.8 3.5 55 58-112 29-83 (84)
38 PF10146 zf-C4H2: Zinc finger- 55.7 1.3E+02 0.0028 25.6 9.5 72 40-115 2-76 (230)
39 PRK02224 chromosome segregatio 51.7 2.2E+02 0.0047 27.0 14.2 34 89-122 650-683 (880)
40 smart00766 DnaG_DnaB_bind DNA 51.4 44 0.00096 22.0 4.6 42 116-157 79-123 (125)
41 cd07653 F-BAR_CIP4-like The F- 50.4 1.3E+02 0.0028 24.1 13.7 50 111-160 173-223 (251)
42 smart00787 Spc7 Spc7 kinetocho 50.3 1.8E+02 0.0039 25.6 10.4 87 63-152 178-264 (312)
43 PRK01156 chromosome segregatio 49.4 2.4E+02 0.0053 26.9 13.2 43 65-111 620-662 (895)
44 PF10498 IFT57: Intra-flagella 49.2 1.3E+02 0.0028 27.1 8.5 73 76-148 236-308 (359)
45 PF10168 Nup88: Nuclear pore c 48.6 2.7E+02 0.006 27.3 12.5 113 40-156 544-668 (717)
46 PHA02562 46 endonuclease subun 46.3 2.1E+02 0.0045 25.3 11.6 74 65-142 328-401 (562)
47 cd01279 HTH_HspR-like Helix-Tu 45.5 25 0.00055 25.2 2.9 32 62-93 67-98 (98)
48 cd07665 BAR_SNX1 The Bin/Amphi 45.5 1.9E+02 0.0042 24.6 8.8 38 60-97 159-196 (234)
49 TIGR01834 PHA_synth_III_E poly 45.3 17 0.00037 32.6 2.4 35 82-116 279-313 (320)
50 PF03332 PMM: Eukaryotic phosp 45.0 26 0.00056 30.1 3.3 38 108-148 103-140 (220)
51 PF15035 Rootletin: Ciliary ro 44.9 1.1E+02 0.0025 24.9 6.9 64 65-132 65-135 (182)
52 PF10186 Atg14: UV radiation r 44.2 1.6E+02 0.0035 23.4 11.5 33 52-84 69-101 (302)
53 cd07625 BAR_Vps17p The Bin/Amp 43.3 82 0.0018 26.8 6.0 61 38-98 132-195 (230)
54 PF08614 ATG16: Autophagy prot 42.9 1.7E+02 0.0037 23.2 7.8 73 65-148 114-186 (194)
55 PRK01156 chromosome segregatio 41.1 3.3E+02 0.0071 26.1 14.6 20 93-112 364-383 (895)
56 KOG3650 Predicted coiled-coil 41.0 30 0.00065 27.7 2.9 37 124-168 46-82 (120)
57 PF09712 PHA_synth_III_E: Poly 40.6 19 0.00042 31.1 1.9 31 82-112 262-292 (293)
58 PF09278 MerR-DNA-bind: MerR, 40.0 64 0.0014 20.7 3.9 31 56-86 35-65 (65)
59 cd00584 Prefoldin_alpha Prefol 39.5 1.5E+02 0.0032 21.6 7.6 72 60-132 16-95 (129)
60 COG1579 Zn-ribbon protein, pos 39.3 2.6E+02 0.0056 24.3 13.8 100 40-144 11-113 (239)
61 PF05529 Bap31: B-cell recepto 37.5 1.2E+02 0.0025 23.8 5.7 40 83-122 152-191 (192)
62 PF07956 DUF1690: Protein of U 37.3 2.1E+02 0.0045 22.7 7.7 72 57-131 35-125 (142)
63 KOG4074 Leucine zipper nuclear 36.3 1.3E+02 0.0028 28.2 6.5 49 103-156 158-213 (383)
64 TIGR00207 fliG flagellar motor 35.6 82 0.0018 27.6 5.0 47 57-108 274-320 (338)
65 COG0466 Lon ATP-dependent Lon 35.5 1.4E+02 0.003 30.3 7.1 56 47-103 203-261 (782)
66 PF15346 ARGLU: Arginine and g 35.5 1E+02 0.0023 25.1 5.3 44 38-81 61-104 (149)
67 PF04156 IncA: IncA protein; 35.5 2E+02 0.0044 22.0 10.4 45 92-136 123-167 (191)
68 TIGR00293 prefoldin, archaeal 35.1 1.6E+02 0.0036 21.3 5.8 29 60-88 16-44 (126)
69 PRK11637 AmiB activator; Provi 34.6 3.2E+02 0.007 24.1 11.3 37 90-126 94-130 (428)
70 PRK05686 fliG flagellar motor 34.6 88 0.0019 27.1 5.0 47 57-108 277-323 (339)
71 TIGR00634 recN DNA repair prot 33.5 3.2E+02 0.0069 25.1 8.6 53 59-111 286-341 (563)
72 KOG3915 Transcription regulato 33.3 2.5E+02 0.0054 27.8 8.2 79 33-138 508-590 (641)
73 COG1196 Smc Chromosome segrega 33.2 5.3E+02 0.011 26.1 15.0 14 92-105 828-841 (1163)
74 COG3352 FlaC Putative archaeal 33.0 2.9E+02 0.0064 23.1 8.1 80 56-139 50-134 (157)
75 COG4942 Membrane-bound metallo 32.7 4.3E+02 0.0093 24.9 9.7 32 93-124 67-98 (420)
76 PF14379 Myb_CC_LHEQLE: MYB-CC 32.6 86 0.0019 21.7 3.7 30 53-82 9-45 (51)
77 PF05700 BCAS2: Breast carcino 31.8 2.9E+02 0.0063 22.6 8.2 103 33-154 98-202 (221)
78 TIGR01795 CM_mono_cladeE monof 30.9 32 0.00069 25.2 1.5 20 92-111 3-22 (94)
79 COG1605 PheA Chorismate mutase 30.6 37 0.0008 24.8 1.8 40 88-127 4-46 (101)
80 PRK10203 hypothetical protein; 30.5 1.2E+02 0.0025 24.0 4.7 61 65-126 52-115 (122)
81 COG4026 Uncharacterized protei 30.3 4.2E+02 0.0091 24.0 8.7 29 122-150 137-165 (290)
82 PF00769 ERM: Ezrin/radixin/mo 29.9 3.4E+02 0.0073 22.9 9.7 78 45-122 15-105 (246)
83 PF14662 CCDC155: Coiled-coil 29.7 3.6E+02 0.0078 23.1 9.3 86 60-152 25-113 (193)
84 PF05667 DUF812: Protein of un 29.1 3.6E+02 0.0078 26.0 8.5 86 69-154 403-504 (594)
85 PHA02109 hypothetical protein 29.0 1.1E+02 0.0024 26.7 4.7 54 72-126 169-227 (233)
86 smart00502 BBC B-Box C-termina 28.9 1.9E+02 0.0041 19.7 8.9 35 109-143 64-98 (127)
87 PF04645 DUF603: Protein of un 28.4 84 0.0018 26.8 3.7 21 90-110 110-130 (181)
88 PRK07248 hypothetical protein; 27.9 30 0.00064 24.3 0.9 32 94-125 3-37 (87)
89 COG2096 cob(I)alamin adenosylt 27.9 2.4E+02 0.0051 23.9 6.3 57 91-148 87-161 (184)
90 PF14712 Snapin_Pallidin: Snap 27.2 2.2E+02 0.0047 19.7 7.9 74 37-110 5-82 (92)
91 KOG3800 Predicted E3 ubiquitin 27.1 1.3E+02 0.0027 27.4 4.8 69 84-163 58-128 (300)
92 PF00456 Transketolase_N: Tran 26.8 1.7E+02 0.0037 25.8 5.6 55 90-144 263-327 (332)
93 cd00890 Prefoldin Prefoldin is 26.8 2.4E+02 0.0051 20.0 7.2 101 61-166 17-125 (129)
94 PRK06285 chorismate mutase; Pr 26.3 39 0.00085 24.4 1.3 35 91-125 6-43 (96)
95 PRK09343 prefoldin subunit bet 26.3 1.6E+02 0.0034 22.3 4.6 27 62-88 26-52 (121)
96 PRK07194 fliG flagellar motor 25.9 1.5E+02 0.0033 25.8 5.0 46 57-108 271-317 (334)
97 PF02996 Prefoldin: Prefoldin 24.7 1.1E+02 0.0023 21.8 3.2 53 61-113 7-67 (120)
98 PF10226 DUF2216: Uncharacteri 24.6 3E+02 0.0065 23.7 6.4 19 46-64 17-35 (195)
99 cd07655 F-BAR_PACSIN The F-BAR 24.4 4.2E+02 0.009 22.1 11.9 60 101-160 170-229 (258)
100 TIGR01807 CM_P2 chorismate mut 24.0 37 0.0008 23.3 0.8 31 95-125 2-35 (76)
101 TIGR01808 CM_M_hiGC-arch monof 23.4 39 0.00084 23.6 0.8 33 93-125 1-36 (74)
102 KOG0225 Pyruvate dehydrogenase 23.4 49 0.0011 31.0 1.6 41 85-125 293-338 (394)
103 TIGR01805 CM_mono_grmpos monof 23.3 33 0.00071 23.8 0.4 31 95-125 2-35 (81)
104 KOG0612 Rho-associated, coiled 23.3 8.8E+02 0.019 26.4 10.5 99 68-167 462-578 (1317)
105 PF12718 Tropomyosin_1: Tropom 23.3 3.4E+02 0.0074 21.2 6.1 64 68-131 74-140 (143)
106 TIGR01803 CM-like chorismate m 23.3 46 0.00099 23.2 1.1 31 95-125 2-35 (82)
107 COG2433 Uncharacterized conser 23.2 7.8E+02 0.017 24.8 11.4 70 82-155 440-512 (652)
108 TIGR01799 CM_T chorismate muta 23.1 34 0.00073 24.0 0.4 45 95-139 2-50 (83)
109 TIGR02135 phoU_full phosphate 22.9 3.2E+02 0.0069 20.2 10.8 95 41-138 40-145 (212)
110 cd07617 BAR_Endophilin_B2 The 22.7 4.9E+02 0.011 22.3 8.8 85 71-159 100-196 (220)
111 PF05377 FlaC_arch: Flagella a 22.3 94 0.002 21.8 2.5 21 88-108 17-37 (55)
112 PRK10622 pheA bifunctional cho 22.2 54 0.0012 29.4 1.6 20 90-109 3-22 (386)
113 cd00179 SynN Syntaxin N-termin 22.1 3.2E+02 0.0069 19.9 9.0 54 78-131 41-106 (151)
114 KOG0964 Structural maintenance 22.1 1E+03 0.022 25.7 11.3 109 60-168 254-409 (1200)
115 PF06216 RTBV_P46: Rice tungro 22.1 1.8E+02 0.0039 26.9 4.9 48 45-92 67-117 (389)
116 smart00498 FH2 Formin Homology 20.9 6E+02 0.013 22.6 8.1 55 81-135 296-353 (432)
117 PF05384 DegS: Sensor protein 20.7 1.7E+02 0.0036 23.8 4.0 42 81-122 16-57 (159)
118 PRK12595 bifunctional 3-deoxy- 20.6 61 0.0013 28.8 1.6 22 90-111 2-23 (360)
119 PRK09239 chorismate mutase; Pr 20.6 63 0.0014 24.1 1.5 33 93-125 11-46 (104)
120 cd00176 SPEC Spectrin repeats, 20.6 3.3E+02 0.0071 19.4 6.4 37 92-128 72-108 (213)
121 PF03961 DUF342: Protein of un 20.5 6.2E+02 0.013 22.6 8.5 31 116-146 371-401 (451)
122 PF05769 DUF837: Protein of un 20.5 4.8E+02 0.01 21.3 8.0 70 70-154 9-83 (181)
123 PRK01433 hscA chaperone protei 20.0 6.1E+02 0.013 23.9 8.0 23 48-70 500-522 (595)
124 PHA01750 hypothetical protein 20.0 62 0.0013 24.2 1.3 26 88-113 45-70 (75)
No 1
>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []. This entry represents proteins annotated as RAB6-interacting golgins.
Probab=100.00 E-value=8.6e-78 Score=481.83 Aligned_cols=157 Identities=75% Similarity=1.054 Sum_probs=153.6
Q ss_pred HHhhhcCCCccccCCCCCCchhhhhhhHHHHHhhHhhHHHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHhhccchh
Q 030894 11 QVQKVKNPGLVSCNGSPTKDEKEEDMSRSALALFRAKEEEIERKKVEVRDKVFAQLGRVEEATKRLSEIREELETLADPL 90 (169)
Q Consensus 11 ~v~~~~~sg~~~~~~~~~~~~k~ee~srsAls~F~aKEEEIErkKmeVrekV~aqLGRvEeetkrLa~IreELE~laDP~ 90 (169)
++++++|||+++++|++..++++++|||||+|+|+|||++||||||+||+|||+|||||||+|||||+||+|||+|+|||
T Consensus 3 ~~~~~~~~~~~~~~g~~~~~~~~e~~s~sals~f~AkEeeIErkKmeVrekVq~~LgrveEetkrLa~ireeLE~l~dP~ 82 (159)
T PF04949_consen 3 QVLRVKNSGSISFNGSSMMDDEDEEMSRSALSAFRAKEEEIERKKMEVREKVQAQLGRVEEETKRLAEIREELEVLADPM 82 (159)
T ss_pred hhhhcccCCCCCCCCCcccchhHHHhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhccch
Confidence 45679999999999998888899999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhhhhh
Q 030894 91 RKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVSESEKMRMKKLEELSKNVEL 167 (169)
Q Consensus 91 RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ESErlRmkKLEELsK~ies 167 (169)
||||++||||||+|||+|||||++|||||+|||+||+||||||+||++||++||+||+||||+|||||||||++|++
T Consensus 83 RkEv~~vRkkID~vNreLkpl~~~cqKKEkEykealea~nEknkeK~~Lv~~L~eLv~eSE~~rmKKLEELsk~ies 159 (159)
T PF04949_consen 83 RKEVEMVRKKIDSVNRELKPLGQSCQKKEKEYKEALEAFNEKNKEKAQLVTRLMELVSESERLRMKKLEELSKEIES 159 (159)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999986
No 2
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=94.85 E-value=0.095 Score=39.68 Aligned_cols=62 Identities=24% Similarity=0.422 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchh
Q 030894 49 EEIERKKVEVRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLG 112 (169)
Q Consensus 49 EEIErkKmeVrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg 112 (169)
+++...--+|+++.+.+.+.+|.-..+ .+..=|..|+-|+|.||..++.|||.+...|..|.
T Consensus 55 e~~~~~~~~~~~~~~~~~~~le~~~~~--~v~~~L~~lg~~tk~ev~~L~~RI~~Le~~l~~l~ 116 (118)
T TIGR01837 55 EEVKTALEQTRDQVQRNWDKLEKAFDE--RVEQALNRLNIPSREEIEALSAKIEQLAVQVEELR 116 (118)
T ss_pred HHHhhhHHHHHHHHHhhHHHHHHHHHH--HHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 555555566777777777777776553 56778999999999999999999999999887764
No 3
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=94.30 E-value=0.19 Score=39.44 Aligned_cols=62 Identities=24% Similarity=0.477 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchh
Q 030894 49 EEIERKKVEVRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLG 112 (169)
Q Consensus 49 EEIErkKmeVrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg 112 (169)
+.+...--.|++++..+++++|.--.. .+..-|..|+=|+|+||..++.|||.++++|.-|.
T Consensus 68 ~~~~~~~~~~~~~~~~~~dklE~~fd~--rV~~aL~rLgvPs~~dv~~L~~rId~L~~~v~~l~ 129 (132)
T PF05597_consen 68 DQVKSRVDDVKERATGQWDKLEQAFDE--RVARALNRLGVPSRKDVEALSARIDQLTAQVERLA 129 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 444455567778888888877764321 23445889999999999999999999999886553
No 4
>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.
Probab=92.89 E-value=4.6 Score=37.71 Aligned_cols=71 Identities=18% Similarity=0.314 Sum_probs=58.3
Q ss_pred HHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHh
Q 030894 93 DVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVSESEKMRMKKLEELSK 163 (169)
Q Consensus 93 EV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ESErlRmkKLEELsK 163 (169)
..+.++++|+.++++|+-+|....+-..+|.++.+-|+.-.+...+|....-.|-.-=++++-++.+.+..
T Consensus 952 ~~~~l~~~l~~l~~~i~~l~~vN~~Ai~~~~~~~~~~~~l~~q~~dl~~~~~~l~~~i~~l~~~~~~~f~~ 1022 (1164)
T TIGR02169 952 SLEDVQAELQRVEEEIRALEPVNMLAIQEYEEVLKRLDELKEKRAKLEEERKAILERIEEYEKKKREVFME 1022 (1164)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999999999999988888999999999999999999999887777766666666665444333
No 5
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=86.53 E-value=9.7 Score=28.58 Aligned_cols=62 Identities=26% Similarity=0.325 Sum_probs=45.4
Q ss_pred hHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhHHHHH
Q 030894 91 RKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVSESEKM 153 (169)
Q Consensus 91 RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ESErl 153 (169)
..++...|-.|-..-.+++.|...|+.|++.|..+...||.-. -++.|-.-.-+.=.+||.+
T Consensus 54 ~~~l~~~r~~l~~~~~~~~~L~~~~~~k~~~~~~l~~~~s~~~-l~~~L~~~~~e~eeeSe~l 115 (150)
T PF07200_consen 54 EPELEELRSQLQELYEELKELESEYQEKEQQQDELSSNYSPDA-LLARLQAAASEAEEESEEL 115 (150)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHH-HHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHH-HHHHHHHHHHHHHHHHHHH
Confidence 4677788888888888999999999999999999999999864 3333333333444444443
No 6
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=86.42 E-value=28 Score=32.36 Aligned_cols=34 Identities=21% Similarity=0.341 Sum_probs=18.1
Q ss_pred hHHHHHHHHHHHHHhhH-HHHHHHHHHHHHHhhhh
Q 030894 133 NKEKAQLVSKLMELVSE-SEKMRMKKLEELSKNVE 166 (169)
Q Consensus 133 nkEKa~LV~~LmELv~E-SErlRmkKLEELsK~ie 166 (169)
.........++.+++.+ -+.++-.+...|++.+.
T Consensus 478 ~~~~~~~~~~~~~~l~~~~~~l~~~~~~~le~~~~ 512 (650)
T TIGR03185 478 LERAITIADKAKKTLKEFREKLLERKLQQLEEEIT 512 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444555554443 35566666666766654
No 7
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=86.39 E-value=2.2 Score=31.68 Aligned_cols=53 Identities=30% Similarity=0.465 Sum_probs=39.0
Q ss_pred HHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhh
Q 030894 60 DKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLT 114 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~t 114 (169)
+.+..--.++..-.+||+.+-.+++.| |++.+|..++..|..++.+++-++.+
T Consensus 35 ~~~~~l~~~~~~~~~Rl~~lE~~l~~L--Pt~~dv~~L~l~l~el~G~~~~l~~~ 87 (106)
T PF10805_consen 35 EDIEKLEERLDEHDRRLQALETKLEHL--PTRDDVHDLQLELAELRGELKELSAR 87 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 333333345556678999999999988 88999988888888888777655543
No 8
>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []. Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].
Probab=82.68 E-value=43 Score=33.22 Aligned_cols=95 Identities=33% Similarity=0.515 Sum_probs=61.9
Q ss_pred HHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHH----------------
Q 030894 60 DKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYK---------------- 123 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYK---------------- 123 (169)
+|-++++..+++|--|+.-=-.+|-.+-|-.-.+|..+++|||.+...|+ .|++...
T Consensus 360 ~kk~~~~~~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~-------ekd~ql~~~k~Rl~~~~d~~~~~ 432 (775)
T PF10174_consen 360 EKKQAQIEKLQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLR-------EKDRQLDEEKERLSSQADSSNED 432 (775)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhccccccchH
Confidence 44555666666665555443333444445555689999999998887765 3444433
Q ss_pred HHHHHhhhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 030894 124 EALEAFNDKNKEKAQLVSKLMELVSESEKMRMKKLEEL 161 (169)
Q Consensus 124 eaLEAfNEKnkEKa~LV~~LmELv~ESErlRmkKLEEL 161 (169)
.+++.+.+-+.+|-.++..|-++-..+++-+.--|+-+
T Consensus 433 ~~~~~lEea~~eker~~e~l~e~r~~~e~e~~Eele~~ 470 (775)
T PF10174_consen 433 EALETLEEALREKERLQERLEEQRERAEKERQEELETY 470 (775)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555668889999999998888777776665544433
No 9
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=81.63 E-value=33 Score=29.45 Aligned_cols=87 Identities=17% Similarity=0.292 Sum_probs=62.0
Q ss_pred HHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHH
Q 030894 57 EVRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEK 136 (169)
Q Consensus 57 eVrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEK 136 (169)
++..++.+....++.+..+|...-.| +++-.+.++..+|..|..++-+|.-..+.-...+.+...--+..++.+.+|
T Consensus 177 ~~~~~l~~~~~~L~~e~~~Lk~~~~e---~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k 253 (325)
T PF08317_consen 177 ELLPKLRERKAELEEELENLKQLVEE---IESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQK 253 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh---hhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555566666666666666665555 555566888888888888888888777777777777777777777777777
Q ss_pred HHHHHHHHHH
Q 030894 137 AQLVSKLMEL 146 (169)
Q Consensus 137 a~LV~~LmEL 146 (169)
..+...+-++
T Consensus 254 ~~l~~eI~e~ 263 (325)
T PF08317_consen 254 QELLAEIAEA 263 (325)
T ss_pred HHHHHHHHHH
Confidence 7776666554
No 10
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=80.27 E-value=28 Score=27.68 Aligned_cols=51 Identities=25% Similarity=0.418 Sum_probs=33.2
Q ss_pred HHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhH
Q 030894 61 KVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTC 115 (169)
Q Consensus 61 kV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tc 115 (169)
.++..-..+++...|++.|+..++. .++++..-|++|+.....|......-
T Consensus 57 ~~~~~~~~~~~~~~r~~~l~~~i~~----~~~~i~~~r~~l~~~~~~l~~~~~~l 107 (302)
T PF10186_consen 57 EIQQLKREIEELRERLERLRERIER----LRKRIEQKRERLEELRESLEQRRSRL 107 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445566777778877777765 46677777777777766666555443
No 11
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=79.58 E-value=60 Score=32.88 Aligned_cols=53 Identities=17% Similarity=0.293 Sum_probs=36.4
Q ss_pred hHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHH
Q 030894 91 RKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKL 143 (169)
Q Consensus 91 RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~L 143 (169)
..++...+..|..+..+|-||-..-.+...+|.+.....+.+..+...-++.+
T Consensus 894 ~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 946 (1311)
T TIGR00606 894 STEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETSNKKAQDKVNDI 946 (1311)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777777777778888888877777777777776666666655544444443
No 12
>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh
Probab=77.97 E-value=29 Score=28.23 Aligned_cols=70 Identities=13% Similarity=0.252 Sum_probs=39.6
Q ss_pred HHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHH-HHHHhhhhhcccchhhhHHhhHHHHHHHHHHh
Q 030894 60 DKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVV-RKKIDTLNKELKPLGLTCQRKEREYKEALEAF 129 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~v-RKkID~vNreLKpLg~tcqKKEkEYKeaLEAf 129 (169)
|||..----|.+...+....+.+.+.+++-+++|+... +.|+...+.-|.-+..+=-.-.++.-++.++|
T Consensus 149 ~K~~~~~~ev~~~e~~~~~a~~~fe~is~~~k~El~rF~~erv~dfk~~l~~~le~~i~~q~~~~~~We~~ 219 (224)
T cd07623 149 DKLDQAQQEIKEWEAKVDRGQKEFEEISKTIKKEIERFEKNRVKDFKDIIIKYLESLLNTQQQLIKYWEAF 219 (224)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34443344444556666777778888888888887766 45555555555544444433444444444443
No 13
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=76.48 E-value=22 Score=24.48 Aligned_cols=70 Identities=26% Similarity=0.375 Sum_probs=47.2
Q ss_pred HHHHHHhchhHHHHhhHHHHHHHHhhccchh--------------hH-HHHHHHHHHhhhhhcccchhhhHHhhHHHHHH
Q 030894 60 DKVFAQLGRVEEATKRLSEIREELETLADPL--------------RK-DVSVVRKKIDTLNKELKPLGLTCQRKEREYKE 124 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~IreELE~laDP~--------------RK-EV~~vRKkID~vNreLKpLg~tcqKKEkEYKe 124 (169)
..|.++++.++.+-+++.....||+.+.|+. +. =...+.++++.+..+++-|-......++++++
T Consensus 15 ~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~~~~y~~vG~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~ 94 (106)
T PF01920_consen 15 QQLEQQIQQLERQLRELELTLEELEKLDDDRKVYKSVGKMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKE 94 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTSSTT-EEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577889999999999999999999997761 11 23455666666666666665555555555555
Q ss_pred HHHHh
Q 030894 125 ALEAF 129 (169)
Q Consensus 125 aLEAf 129 (169)
.=..+
T Consensus 95 ~~~~l 99 (106)
T PF01920_consen 95 LKKKL 99 (106)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 43333
No 14
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=76.23 E-value=24 Score=26.32 Aligned_cols=28 Identities=25% Similarity=0.402 Sum_probs=19.9
Q ss_pred HHHHHHhchhHHHHhhHHHHHHHHhhcc
Q 030894 60 DKVFAQLGRVEEATKRLSEIREELETLA 87 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~IreELE~la 87 (169)
+.++++++.++.....+....+.|+.|.
T Consensus 23 ~~l~~~~~~l~~~~~e~~~~~e~l~~l~ 50 (140)
T PRK03947 23 EALQQQLEELQASINELDTAKETLEELK 50 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4567777777777777777777777665
No 15
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=75.97 E-value=95 Score=31.54 Aligned_cols=101 Identities=13% Similarity=0.256 Sum_probs=65.5
Q ss_pred hHhhHHHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHhhccc---hhhHHHHHHHHHHhhhhhcccchhhhHHhhHH
Q 030894 44 FRAKEEEIERKKVEVRDKVFAQLGRVEEATKRLSEIREELETLAD---PLRKDVSVVRKKIDTLNKELKPLGLTCQRKER 120 (169)
Q Consensus 44 F~aKEEEIErkKmeVrekV~aqLGRvEeetkrLa~IreELE~laD---P~RKEV~~vRKkID~vNreLKpLg~tcqKKEk 120 (169)
.+++..++...+..+...+. +...-..+|..+.++++.+.. -...++.-+...++.+..++.-+-.....++.
T Consensus 862 Lq~ki~el~~~klkl~~~l~----~r~~le~~L~el~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 937 (1311)
T TIGR00606 862 LKSKTNELKSEKLQIGTNLQ----RRQQFEEQLVELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETSNK 937 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444333 333334445555555555433 25677888888888888888888888888888
Q ss_pred HHHHHHHHhhhhhHHHHHHHHHHHHHhh
Q 030894 121 EYKEALEAFNDKNKEKAQLVSKLMELVS 148 (169)
Q Consensus 121 EYKeaLEAfNEKnkEKa~LV~~LmELv~ 148 (169)
+....+..|+..-..-..|...+-+.+.
T Consensus 938 ~~~~~~~~~~~~~~~~~~~~~~i~~y~~ 965 (1311)
T TIGR00606 938 KAQDKVNDIKEKVKNIHGYMKDIENKIQ 965 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888888888877766666666665444
No 16
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=72.56 E-value=43 Score=25.98 Aligned_cols=58 Identities=22% Similarity=0.416 Sum_probs=35.4
Q ss_pred chhhHHHHHHHHHHhhhh---hcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHH
Q 030894 88 DPLRKDVSVVRKKIDTLN---KELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLME 145 (169)
Q Consensus 88 DP~RKEV~~vRKkID~vN---reLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmE 145 (169)
|-++.|+-..-+..|.++ .++.-|-.-+.-.+..|.-+|+.|-||+-+=-.|=..+.+
T Consensus 47 ~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~D 107 (120)
T PF12325_consen 47 DELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQD 107 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence 344455555555554442 3344455666777889999999999987665444444433
No 17
>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=71.64 E-value=52 Score=26.53 Aligned_cols=39 Identities=26% Similarity=0.524 Sum_probs=24.5
Q ss_pred HHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHH
Q 030894 59 RDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVV 97 (169)
Q Consensus 59 rekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~v 97 (169)
.+||...-..+.+...+......+.+.+++-+++||...
T Consensus 142 ~~K~~~~~~ei~~~e~~~~~a~~~~e~is~~~k~El~rF 180 (216)
T cd07627 142 QEKLNSLLSELEEAERRASELKKEFEEVSELIKSELERF 180 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355555566666666666666666666666666666654
No 18
>PRK03918 chromosome segregation protein; Provisional
Probab=70.82 E-value=93 Score=29.12 Aligned_cols=50 Identities=12% Similarity=0.205 Sum_probs=28.7
Q ss_pred HHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhh
Q 030894 82 ELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFND 131 (169)
Q Consensus 82 ELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNE 131 (169)
.+..+-+|..+.+..+++.++.+..++.-|-..-..-+..++++-+.++.
T Consensus 297 ~l~~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~l~~~e~~~~~~~e~~~~ 346 (880)
T PRK03918 297 KLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKK 346 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444557777777777777777776665554444444444444444333
No 19
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=70.46 E-value=71 Score=30.84 Aligned_cols=36 Identities=33% Similarity=0.502 Sum_probs=25.8
Q ss_pred HHHHHHHHHHhhhhhHHHHHHHHHHHHHhhHHHHHH
Q 030894 119 EREYKEALEAFNDKNKEKAQLVSKLMELVSESEKMR 154 (169)
Q Consensus 119 EkEYKeaLEAfNEKnkEKa~LV~~LmELv~ESErlR 154 (169)
-+++.+-+..++.+.+|+-.+..+|.++..+-|.+.
T Consensus 222 i~~LEedi~~l~qk~~E~e~~~~~lk~~~~elEq~~ 257 (546)
T PF07888_consen 222 IRELEEDIKTLTQKEKEQEKELDKLKELKAELEQLE 257 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777777777888888888888887766666555
No 20
>PF01706 FliG_C: FliG C-terminal domain; InterPro: IPR023087 The flagellar motor switch in Escherichia coli and Salmonella typhimurium regulates the direction of flagellar rotation and hence controls swimming behaviour []. The switch is a complex apparatus that responds to signals transduced by the chemotaxis sensory signalling system during chemotactic behaviour []. CheY, the chemotaxis response regulator, is believed to act directly on the switch to induce tumbles in the swimming pattern, but no physical interactions of CheY and switch proteins have yet been demonstrated. The switch complex comprises at least three proteins - FliG, FliM and FliN. It has been shown that FliG interacts with FliM, FliM interacts with itself, and FliM interacts with FliN []. Several residues within the middle third of FliG appear to be strongly involved in the FliG-FliM interaction, with residues near the N- or C-termini being less important []. Such clustering suggests that FliG-FliM interaction plays a central role in switching. Analysis of the FliG, FliM and FliN sequences shows that none are especially hydrophobic or appear to be integral membrane proteins []. This result is consistent with other evidence suggesting that the proteins may be peripheral to the membrane, possibly mounted on the basal body M ring [, ]. FliG is present in about 25 copies per flagellum. This entry represents the C-terminal domain of FliG, the structure of which is known. This domain functions specifically in motor rotation [].; PDB: 3USY_B 3USW_A 3HJL_A 3AJC_A 1LKV_X 1QC7_B.
Probab=68.92 E-value=10 Score=27.58 Aligned_cols=46 Identities=22% Similarity=0.465 Sum_probs=33.8
Q ss_pred HHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcc
Q 030894 58 VRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKEL 108 (169)
Q Consensus 58 VrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreL 108 (169)
+++++..-++. ++=..|++|++.++.+...+|...|+.|=..=|.|
T Consensus 56 ~~~~il~nms~-----r~a~~l~~e~~~~g~v~~~di~~Aq~~iv~~~r~l 101 (110)
T PF01706_consen 56 LREKILSNMSK-----RAAEMLREEMEALGPVRLSDIEEAQREIVEIVRRL 101 (110)
T ss_dssp HHHHHHTTS-H-----HHHHHHHHHHHHH-S--HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCH-----HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 88999888852 44457999999999999999999999986554444
No 21
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=68.19 E-value=52 Score=25.59 Aligned_cols=26 Identities=15% Similarity=0.385 Sum_probs=12.2
Q ss_pred HHHhhhhhcccchhhhHHhhHHHHHH
Q 030894 99 KKIDTLNKELKPLGLTCQRKEREYKE 124 (169)
Q Consensus 99 KkID~vNreLKpLg~tcqKKEkEYKe 124 (169)
.|++.++.++.-+...+...+++|..
T Consensus 163 ~k~~~~~~ei~~~~~~~~~~~~~~~~ 188 (236)
T PF09325_consen 163 DKVEQAENEIEEAERRVEQAKDEFEE 188 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444444443
No 22
>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins. There is a characteristic KxDL motif towards the C terminus. The function is unknown.
Probab=67.23 E-value=39 Score=24.38 Aligned_cols=59 Identities=22% Similarity=0.307 Sum_probs=34.7
Q ss_pred HHHHhhHhhHHHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcc
Q 030894 39 SALALFRAKEEEIERKKVEVRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKEL 108 (169)
Q Consensus 39 sAls~F~aKEEEIErkKmeVrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreL 108 (169)
-.+..|.++-+++..---....++..--.+.+.-|+-| --|++++..|.|||..++..|
T Consensus 22 ~~l~~ln~tn~~L~~~n~~s~~rl~~~~~~f~~~~~~l-----------~~mK~DLd~i~krir~lk~kl 80 (88)
T PF10241_consen 22 QTLGRLNKTNEELLNLNDLSQQRLAEARERFARHTKLL-----------KEMKKDLDYIFKRIRSLKAKL 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHH
Confidence 34556777766665443333333333333333333332 337889999999999998765
No 23
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=65.51 E-value=57 Score=28.92 Aligned_cols=85 Identities=27% Similarity=0.393 Sum_probs=56.2
Q ss_pred HHHHhchhHHHHhhHHHHHHHHhhccch--------hhH-HHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhh
Q 030894 62 VFAQLGRVEEATKRLSEIREELETLADP--------LRK-DVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDK 132 (169)
Q Consensus 62 V~aqLGRvEeetkrLa~IreELE~laDP--------~RK-EV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEK 132 (169)
+-+.|+.+|..-=.+.-+|.=|+.+.+- ++. |.+..+++|.....+|.-+-..+-++|++++++-+.+-
T Consensus 154 ~~~~l~DLesa~vkV~WLR~~L~Ei~Ea~e~~~~~~~~e~eke~~~r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~i~-- 231 (269)
T PF05278_consen 154 MIATLKDLESAKVKVDWLRSKLEEILEAKEIYDQHETREEEKEEKDRKLELKKEELEELEEELKQKEKEVKEIKERIT-- 231 (269)
T ss_pred HHHHHHHHHHcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
Confidence 4455555555544444444444444332 232 66677889999999999999999999999999988772
Q ss_pred hHHHHHHHHHHHHHhhHHHHH
Q 030894 133 NKEKAQLVSKLMELVSESEKM 153 (169)
Q Consensus 133 nkEKa~LV~~LmELv~ESErl 153 (169)
..-.+|-+|=-+|-|+
T Consensus 232 -----e~~~rl~~l~~~~~~l 247 (269)
T PF05278_consen 232 -----EMKGRLGELEMESTRL 247 (269)
T ss_pred -----HHHHHHHHHHHHHHHH
Confidence 3344566655555443
No 24
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=65.26 E-value=1.3e+02 Score=32.04 Aligned_cols=101 Identities=25% Similarity=0.345 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHH---HhchhHHHHhhHHHHHH-------HHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHH
Q 030894 52 ERKKVEVRDKVFA---QLGRVEEATKRLSEIRE-------ELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKERE 121 (169)
Q Consensus 52 ErkKmeVrekV~a---qLGRvEeetkrLa~Ire-------ELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkE 121 (169)
+-.--+.|+++.. +|-+++-+++|++..-+ ++|...++..-++ +.|+-+-.....-++|
T Consensus 805 ee~~~~lr~~~~~l~~~l~~~~~~~k~~~~~~~~l~~~i~~~E~~~~k~~~d~-----------~~l~~~~~~ie~l~kE 873 (1293)
T KOG0996|consen 805 EERVRKLRERIPELENRLEKLTASVKRLAELIEYLESQIAELEAAVLKKVVDK-----------KRLKELEEQIEELKKE 873 (1293)
T ss_pred HHHHHHHHHhhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcH-----------HHHHHHHHHHHHHHHH
Confidence 3334445555543 45566677777777443 3444433333222 2233333333334445
Q ss_pred HHHHHHHhhhhhH--HHHHHHHHHHHHhhHHHHHHHHHHHHHHhhhh
Q 030894 122 YKEALEAFNDKNK--EKAQLVSKLMELVSESEKMRMKKLEELSKNVE 166 (169)
Q Consensus 122 YKeaLEAfNEKnk--EKa~LV~~LmELv~ESErlRmkKLEELsK~ie 166 (169)
|.++- ++..| ...+|-++++++-++.=+.---|++.++.-|+
T Consensus 874 ~e~~q---e~~~Kk~~i~~lq~~i~~i~~e~~q~qk~kv~~~~~~~~ 917 (1293)
T KOG0996|consen 874 VEELQ---EKAAKKARIKELQNKIDEIGGEKVQAQKDKVEKINEQLD 917 (1293)
T ss_pred HHHHH---HhhhHHHHHHHHHHHHHHhhchhhHHhHHHHHHHHHHHH
Confidence 54443 22223 23456667777777665555555666555544
No 25
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=65.14 E-value=1.6e+02 Score=30.90 Aligned_cols=55 Identities=29% Similarity=0.540 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHHhchhHHHHhhHHHHHHHHhhc---cchhhHHHHHHHHHHhhhhhc
Q 030894 53 RKKVEVRDKVFAQLGRVEEATKRLSEIREELETL---ADPLRKDVSVVRKKIDTLNKE 107 (169)
Q Consensus 53 rkKmeVrekV~aqLGRvEeetkrLa~IreELE~l---aDP~RKEV~~vRKkID~vNre 107 (169)
-+.-++-+++...+|.+++...+|..|-..+..+ +|-+--|+...|+..|.+=|+
T Consensus 295 ek~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re 352 (1074)
T KOG0250|consen 295 EKVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRRE 352 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Confidence 3445677888889999999999998888766554 455667777788777777664
No 26
>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=64.77 E-value=67 Score=33.53 Aligned_cols=94 Identities=26% Similarity=0.335 Sum_probs=55.1
Q ss_pred HHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHH
Q 030894 58 VRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKA 137 (169)
Q Consensus 58 VrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa 137 (169)
.++++..++--++++.+-++--++|| +.+++..+.+|+.+-++|.--+..|+.+= |-+++.-++=.
T Consensus 256 ~~~r~k~~~r~l~k~~~pi~~~~eeL-------e~~~~et~~~~s~~~~~~~e~~~k~~~~~-------ek~~~~~~~v~ 321 (1072)
T KOG0979|consen 256 AKDRAKKELRKLEKEIKPIEDKKEEL-------ESEKKETRSKISQKQRELNEALAKVQEKF-------EKLKEIEDEVE 321 (1072)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhH-------HhHHHhHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence 34445555555555555544444444 45888889999999999888888877653 33444444444
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHhhhh
Q 030894 138 QLVSKLMELVSESEKMRMKKLEELSKNVE 166 (169)
Q Consensus 138 ~LV~~LmELv~ESErlRmkKLEELsK~ie 166 (169)
.+.+.|-.|-...+ .|++-++..-|.|.
T Consensus 322 ~~~~~le~lk~~~~-~rq~~i~~~~k~i~ 349 (1072)
T KOG0979|consen 322 EKKNKLESLKKAAE-KRQKRIEKAKKMIL 349 (1072)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence 44555544444333 45665555555544
No 27
>PRK03918 chromosome segregation protein; Provisional
Probab=64.60 E-value=1.2e+02 Score=28.29 Aligned_cols=78 Identities=24% Similarity=0.335 Sum_probs=43.0
Q ss_pred HHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHH---HHHHHHHHhhhhhHHHHH
Q 030894 62 VFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKER---EYKEALEAFNDKNKEKAQ 138 (169)
Q Consensus 62 V~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEk---EYKeaLEAfNEKnkEKa~ 138 (169)
+..++..++.....+..|.+.|. ..+++++.+.+.|..+..++..+....+..+. .+.++.+.|+..+.+...
T Consensus 174 ~~~~~~~l~~~l~~l~~i~~~l~----~l~~~~~~l~~ei~~l~~e~~~l~~~~~~~~~~l~~l~~~~~~~~~l~~~~~~ 249 (880)
T PRK03918 174 IKRRIERLEKFIKRTENIEELIK----EKEKELEEVLREINEISSELPELREELEKLEKEVKELEELKEEIEELEKELES 249 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444455544443 24566667777777777777777666655443 455555556655555544
Q ss_pred HHHHH
Q 030894 139 LVSKL 143 (169)
Q Consensus 139 LV~~L 143 (169)
+-..+
T Consensus 250 l~~~~ 254 (880)
T PRK03918 250 LEGSK 254 (880)
T ss_pred HHHHH
Confidence 44443
No 28
>PRK02224 chromosome segregation protein; Provisional
Probab=64.19 E-value=1.3e+02 Score=28.38 Aligned_cols=72 Identities=18% Similarity=0.305 Sum_probs=43.4
Q ss_pred HHHHHHHHhchhHHHHhhHHHHHHHHhhccch-----------------hhHHHHHHHHHHhhhhhcccchhhhHHhhHH
Q 030894 58 VRDKVFAQLGRVEEATKRLSEIREELETLADP-----------------LRKDVSVVRKKIDTLNKELKPLGLTCQRKER 120 (169)
Q Consensus 58 VrekV~aqLGRvEeetkrLa~IreELE~laDP-----------------~RKEV~~vRKkID~vNreLKpLg~tcqKKEk 120 (169)
+.+.+...+.++++...++..++++++.+-+- ...++..+.+++..++.++.-|+ .-.--+.
T Consensus 521 l~~~~~~~~e~le~~~~~~~~l~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~le-~~~~~~~ 599 (880)
T PRK02224 521 LEELIAERRETIEEKRERAEELRERAAELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAELKERIESLE-RIRTLLA 599 (880)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence 34444455566777777777777777666222 23456677777777777777776 3344444
Q ss_pred HHHHHHHHhh
Q 030894 121 EYKEALEAFN 130 (169)
Q Consensus 121 EYKeaLEAfN 130 (169)
++.+...++|
T Consensus 600 ~i~~~~~~~~ 609 (880)
T PRK02224 600 AIADAEDEIE 609 (880)
T ss_pred HHHHHHHHHH
Confidence 4554444555
No 29
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=64.06 E-value=29 Score=33.16 Aligned_cols=62 Identities=18% Similarity=0.308 Sum_probs=46.3
Q ss_pred hhHhhHHHHHHHHHHHHHHHHHHhchhHHHH---hhHHHHHHHHhhccchhhHHHHHHHHHHhhhh
Q 030894 43 LFRAKEEEIERKKVEVRDKVFAQLGRVEEAT---KRLSEIREELETLADPLRKDVSVVRKKIDTLN 105 (169)
Q Consensus 43 ~F~aKEEEIErkKmeVrekV~aqLGRvEeet---krLa~IreELE~laDP~RKEV~~vRKkID~vN 105 (169)
.+=.+|-++-+-+.+++.+|+.++.+-..|- ..|..|++||-.. |.--.|++.+|+||+..+
T Consensus 196 ~lL~~ele~l~l~~~I~~~v~~~~~~~qr~~~Lreqlk~i~~eLg~~-~~~~~~~~~~~~k~~~~~ 260 (775)
T TIGR00763 196 ELLKKELELLKLQNKITKKVEEKMEKTQREYYLREQLKAIKKELGIE-KDDKDELEKLKEKLEELK 260 (775)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC-CCchhHHHHHHHHHHhcC
Confidence 3445566777788899999999998766553 3677889998544 344578999999998765
No 30
>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]
Probab=63.82 E-value=1.5e+02 Score=29.01 Aligned_cols=88 Identities=24% Similarity=0.331 Sum_probs=62.7
Q ss_pred HHHHHHhchhHHHHhhHHHH----------HHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHh
Q 030894 60 DKVFAQLGRVEEATKRLSEI----------REELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAF 129 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~I----------reELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAf 129 (169)
+....+|....+++..|+.. -.+|+.+.+-.++++..++..+-.+++.++-|-..|.+.-++|.+++..+
T Consensus 199 ~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~ 278 (670)
T KOG0239|consen 199 SELESVLKSAQEERRVLADSLGNYADLRRNIKPLEGLESTIKKKIQALQQELEELKAELKELNDQVSLLTREVQEALKES 278 (670)
T ss_pred HHHHHHhhhhHHHHHHHHHHhhhhhhHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555554 24667777777788888888888899999999999999999999999999
Q ss_pred hhhhHHHHHHHHHHHHHh
Q 030894 130 NDKNKEKAQLVSKLMELV 147 (169)
Q Consensus 130 NEKnkEKa~LV~~LmELv 147 (169)
+..-.+-+.+-..|.+-.
T Consensus 279 ~~~~~~L~~~~~~l~~~~ 296 (670)
T KOG0239|consen 279 NTLQSDLESLEENLVEKK 296 (670)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 887544444444444444
No 31
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=61.49 E-value=20 Score=34.95 Aligned_cols=62 Identities=18% Similarity=0.318 Sum_probs=47.8
Q ss_pred hhHhhHHHHHHHHHHHHHHHHHHhchhHHHH---hhHHHHHHHHhhccchhhHHHHHHHHHHhhhh
Q 030894 43 LFRAKEEEIERKKVEVRDKVFAQLGRVEEAT---KRLSEIREELETLADPLRKDVSVVRKKIDTLN 105 (169)
Q Consensus 43 ~F~aKEEEIErkKmeVrekV~aqLGRvEeet---krLa~IreELE~laDP~RKEV~~vRKkID~vN 105 (169)
.+=.+|-++-+-+.++..+|+.++.+-..|- ..|..|++|| |..|+--.|+..+|+||+..+
T Consensus 198 ~lL~~Eleil~l~~~I~~~v~~~~~k~q~e~~lreq~~~i~~el-g~~~~~~~~~~~~~~~~~~~~ 262 (784)
T PRK10787 198 AMMESEIDLLQVEKRIRNRVKKQMEKSQREYYLNEQMKAIQKEL-GEMDDAPDENEALKRKIDAAK 262 (784)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcchhhhhhhcccc-cCCCcchhHHHHHHHHHHhcC
Confidence 3446677777788899999999998766553 4677888899 455666679999999998765
No 32
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=60.06 E-value=1.5e+02 Score=31.70 Aligned_cols=93 Identities=30% Similarity=0.417 Sum_probs=65.9
Q ss_pred HHHHHHhchhHHHHhhHHHHHH-------HHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhh
Q 030894 60 DKVFAQLGRVEEATKRLSEIRE-------ELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDK 132 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~Ire-------ELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEK 132 (169)
++|..||+.++.+.+++..+-+ -+.+--.-..+++...++.+|.++-+++.+-.--..-+.+|++|.++--|-
T Consensus 910 ~~~~~~~~~l~~~i~k~~~~i~~s~~~i~k~q~~l~~le~~~~~~e~e~~~L~e~~~~~~~k~~E~~~~~~e~~~~~~E~ 989 (1293)
T KOG0996|consen 910 EKINEQLDKLEADIAKLTVAIKTSDRNIAKAQKKLSELEREIEDTEKELDDLTEELKGLEEKAAELEKEYKEAEESLKEI 989 (1293)
T ss_pred HHHHHHHHHHHHHHHHhHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677777766666554322 112222345688888999999999999999988888999999999999998
Q ss_pred hHHHHHHHHHHHHHhhHHHHH
Q 030894 133 NKEKAQLVSKLMELVSESEKM 153 (169)
Q Consensus 133 nkEKa~LV~~LmELv~ESErl 153 (169)
+++=.+++..+ +-+..++=-
T Consensus 990 k~~~~~~k~~~-e~i~k~~~~ 1009 (1293)
T KOG0996|consen 990 KKELRDLKSEL-ENIKKSENE 1009 (1293)
T ss_pred HHHHHHHHHHH-HHHHHHHHH
Confidence 88877777654 444444433
No 33
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=59.06 E-value=1e+02 Score=25.98 Aligned_cols=68 Identities=12% Similarity=0.311 Sum_probs=39.8
Q ss_pred HHhhHhhHHHHHHHHHHH--------HHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHH-HHHHhhhhhcc
Q 030894 41 LALFRAKEEEIERKKVEV--------RDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVV-RKKIDTLNKEL 108 (169)
Q Consensus 41 ls~F~aKEEEIErkKmeV--------rekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~v-RKkID~vNreL 108 (169)
+..++.-+.++.+++-.+ -||++.----|.+.-.+..+.+.+.+.+++-+|+||... +.|++....-|
T Consensus 132 ~~~~~~a~~~L~kkr~~~~Kl~~~~k~dK~~~~~~ev~~~e~~~~~a~~~fe~Is~~~k~El~rFe~er~~dfk~~l 208 (234)
T cd07664 132 WQKWQDAQVTLQKKREAEAKLQYANKPDKLQQAKDEIKEWEAKVQQGERDFEQISKTIRKEVGRFEKERVKDFKTVI 208 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555666666665331 123332222344455667778888889999999998877 44554443333
No 34
>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.
Probab=58.67 E-value=1.6e+02 Score=27.57 Aligned_cols=75 Identities=20% Similarity=0.289 Sum_probs=40.7
Q ss_pred HHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhHHHHHH---HHHHHHHHhhhhh
Q 030894 93 DVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVSESEKMR---MKKLEELSKNVEL 167 (169)
Q Consensus 93 EV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ESErlR---mkKLEELsK~ies 167 (169)
++..++.+|+.+...+.-++..=.+-...|.....-|++-...+.+|-..+-++-.+..++- +.-+..++.++..
T Consensus 966 ~~~~l~~~i~~lg~aiee~~~~~~~a~er~~~l~~q~~dL~~~~~~L~~~i~~i~~~~~~~f~~~~~~F~~v~~~f~~ 1043 (1179)
T TIGR02168 966 DEEEARRRLKRLENKIKELGPVNLAAIEEYEELKERYDFLTAQKEDLTEAKETLEEAIEEIDREARERFKDTFDQVNE 1043 (1179)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555544333222222111222345555556666666666666666666666666666 7777777776653
No 35
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=58.16 E-value=2.1e+02 Score=28.81 Aligned_cols=64 Identities=23% Similarity=0.479 Sum_probs=47.9
Q ss_pred HHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHH---HHHHhhHHHHHHHHHHH
Q 030894 96 VVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSK---LMELVSESEKMRMKKLE 159 (169)
Q Consensus 96 ~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~---LmELv~ESErlRmkKLE 159 (169)
.++++|+.+.+++.-||..=-.---+|.++.+-|++-+.+...|... |.+.+.+=.+.+-..+.
T Consensus 946 ~~~~~i~~le~~i~~lg~VN~~Aiee~e~~~~r~~~l~~~~~dl~~a~~~l~~~i~~~d~~~~~~f~ 1012 (1163)
T COG1196 946 ELEREIERLEEEIEALGPVNLRAIEEYEEVEERYEELKSQREDLEEAKEKLLEVIEELDKEKRERFK 1012 (1163)
T ss_pred HHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68889999999977777777788889999999999999998888654 44455554444444333
No 36
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=56.54 E-value=1.5e+02 Score=26.66 Aligned_cols=60 Identities=30% Similarity=0.391 Sum_probs=32.3
Q ss_pred chhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHh
Q 030894 88 DPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELV 147 (169)
Q Consensus 88 DP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv 147 (169)
|-.+++++.+|=+.|..|...+-+-.-.+-.-.++++.++-+++--.+.-.+..+|-+|.
T Consensus 30 ~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL~ 89 (294)
T COG1340 30 DELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELR 89 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555666666666666666666555555544444555555555544444444444444433
No 37
>PF11414 Suppressor_APC: Adenomatous polyposis coli tumour suppressor protein; PDB: 1M5I_A.
Probab=56.31 E-value=17 Score=26.83 Aligned_cols=55 Identities=24% Similarity=0.236 Sum_probs=39.3
Q ss_pred HHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchh
Q 030894 58 VRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLG 112 (169)
Q Consensus 58 VrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg 112 (169)
.|+--+.||..|-+-.+.|-....--+-.+|..+.-..-.+-+|-.||++|.-|.
T Consensus 29 ~r~Wy~~qL~~vq~rq~~Lg~~~~~~~~~~d~~~~~L~~~~~~Iqevn~~l~~l~ 83 (84)
T PF11414_consen 29 ERDWYQQQLQSVQERQRHLGRNGTQFDFQMDLHREQLEFLLAQIQEVNRCLFGLI 83 (84)
T ss_dssp HHHHHHHHHHHHHHHHTT---------HHHHHHHHHHHHHHHHHHHHHHHHH--S
T ss_pred HHHHHHHHHHHHHHHHHHhCccccccCcccccccchhhHHHHHHHHHHHHHHHhc
Confidence 5777889999999999999888887777899999999999999999999987653
No 38
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=55.73 E-value=1.3e+02 Score=25.59 Aligned_cols=72 Identities=28% Similarity=0.344 Sum_probs=53.4
Q ss_pred HHHhhHhhHHHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHH---HHHhhhhhcccchhhhH
Q 030894 40 ALALFRAKEEEIERKKVEVRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVR---KKIDTLNKELKPLGLTC 115 (169)
Q Consensus 40 Als~F~aKEEEIErkKmeVrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vR---KkID~vNreLKpLg~tc 115 (169)
+|.-.+.|-.+.++.|-+|. ..++.++.|.+.|.+.+.|.+.|-+--+.=|+.+| -=|+.++..+|-+-..|
T Consensus 2 ~i~~ir~K~~~lek~k~~i~----~e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er 76 (230)
T PF10146_consen 2 KIKEIRNKTLELEKLKNEIL----QEVESLENEEKCLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESER 76 (230)
T ss_pred cHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677888889998877665 45678999999999999999999887776666664 44556666555544443
No 39
>PRK02224 chromosome segregation protein; Provisional
Probab=51.73 E-value=2.2e+02 Score=26.98 Aligned_cols=34 Identities=15% Similarity=0.198 Sum_probs=18.5
Q ss_pred hhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHH
Q 030894 89 PLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREY 122 (169)
Q Consensus 89 P~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEY 122 (169)
+.+.+...+++.++.++..|..+...+....+.|
T Consensus 650 ~l~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~i 683 (880)
T PRK02224 650 EAREDKERAEEYLEQVEEKLDELREERDDLQAEI 683 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555555556555555555555544444
No 40
>smart00766 DnaG_DnaB_bind DNA primase DnaG DnaB-binding. DnaG_DnaB_bind defines a domain of primase required for functional interaction with DnaB that attracts primase to the replication fork. DnaG_DnaB_bind is responsible for the interaction between DnaG and DnaB.
Probab=51.41 E-value=44 Score=22.03 Aligned_cols=42 Identities=19% Similarity=0.339 Sum_probs=29.9
Q ss_pred HhhHHHHHHHHHHhhh--hhHHHHHHHHHHHH-HhhHHHHHHHHH
Q 030894 116 QRKEREYKEALEAFND--KNKEKAQLVSKLME-LVSESEKMRMKK 157 (169)
Q Consensus 116 qKKEkEYKeaLEAfNE--KnkEKa~LV~~LmE-Lv~ESErlRmkK 157 (169)
..-+.+|.+++..++. -.++...|..++.+ ..+..|+.+++.
T Consensus 79 ~~~~~~~~~~l~~l~~~~~~~~~~~L~~~~~~~~~~~~e~~~l~~ 123 (125)
T smart00766 79 ENLEEEFLDTLARLRKQLLERRIEELIAKLRRSGLTVEEKKELQA 123 (125)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHH
Confidence 3445688888888866 45677778887776 777888766543
No 41
>cd07653 F-BAR_CIP4-like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Cdc42-Interacting Protein 4 and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Cdc42-Interacting Protein 4 (CIP4), Formin Binding Protein 17 (FBP17), FormiN Binding Protein 1-Like (FNBP1L), and similar proteins. CIP4 and FNBP1L are Cdc42 effectors that bind Wiskott-Aldrich syndrome protein (WASP) and function in endocytosis. CIP4 and FBP17 bind to the Fas ligand and may be implicated in the inflammatory response. CIP4 may also play a role in phagocytosis. Members of this subfamily typically contain an N-terminal F-BAR domain and a C-terminal SH3 domain. In addition, some members such as FNBP1L contain a central Cdc42-binding HR1 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged l
Probab=50.41 E-value=1.3e+02 Score=24.07 Aligned_cols=50 Identities=16% Similarity=0.379 Sum_probs=33.3
Q ss_pred hhhhHHhhHHHHHHHHHHhhhhhHHH-HHHHHHHHHHhhHHHHHHHHHHHH
Q 030894 111 LGLTCQRKEREYKEALEAFNDKNKEK-AQLVSKLMELVSESEKMRMKKLEE 160 (169)
Q Consensus 111 Lg~tcqKKEkEYKeaLEAfNEKnkEK-a~LV~~LmELv~ESErlRmkKLEE 160 (169)
-.+.|.+-..+|..++.+||.-...- -..+..+++-+-.-|..|...|-+
T Consensus 173 ~~~~~~~a~~~Y~~~l~~~N~~~~~~y~~~~p~~~~~~q~le~~ri~~~k~ 223 (251)
T cd07653 173 KTQAAEEAKNEYAAQLQKFNKEQRQHYSTDLPQIFDKLQELDEKRINRTVE 223 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhHHHHHHHHH
Confidence 35678888999999999998874433 234555555555555566655543
No 42
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=50.32 E-value=1.8e+02 Score=25.62 Aligned_cols=87 Identities=21% Similarity=0.289 Sum_probs=61.5
Q ss_pred HHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHH
Q 030894 63 FAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSK 142 (169)
Q Consensus 63 ~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~ 142 (169)
......+..|...|..+-.|++.. | .-|...+|.+|..++.++.+.-+.-.-++.+..+--..-++.+..|..+.+.
T Consensus 178 ~~~~~~L~~e~~~L~~~~~e~~~~-d--~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~ 254 (312)
T smart00787 178 RDRKDALEEELRQLKQLEDELEDC-D--PTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTE 254 (312)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHhC-C--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444544444444444433 2 3488889999999999999988888888888888888888888888888888
Q ss_pred HHHHhhHHHH
Q 030894 143 LMELVSESEK 152 (169)
Q Consensus 143 LmELv~ESEr 152 (169)
+.++=...+.
T Consensus 255 I~~ae~~~~~ 264 (312)
T smart00787 255 IAEAEKKLEQ 264 (312)
T ss_pred HHHHHHHHHh
Confidence 8876554443
No 43
>PRK01156 chromosome segregation protein; Provisional
Probab=49.41 E-value=2.4e+02 Score=26.91 Aligned_cols=43 Identities=19% Similarity=0.357 Sum_probs=22.7
Q ss_pred HhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccch
Q 030894 65 QLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPL 111 (169)
Q Consensus 65 qLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpL 111 (169)
.++.++.+-.+|...+.+++.. +.++..++..|+.++.++.-+
T Consensus 620 ~~~~le~~~~~le~~~~~l~~~----~~~i~~~~~~i~~l~~~i~~l 662 (895)
T PRK01156 620 SIREIENEANNLNNKYNEIQEN----KILIEKLRGKIDNYKKQIAEI 662 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555555555555544 455555555555555554444
No 44
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=49.18 E-value=1.3e+02 Score=27.07 Aligned_cols=73 Identities=19% Similarity=0.358 Sum_probs=56.7
Q ss_pred HHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhh
Q 030894 76 LSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVS 148 (169)
Q Consensus 76 La~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ 148 (169)
+...+..|+.|++-.-+-+..|.+|=..+|.+|.||.+--...-.++.++-+.||+-+.--..+-..|-++-.
T Consensus 236 ~~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~Ise 308 (359)
T PF10498_consen 236 LPETKSQLDKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISE 308 (359)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 3445567777777777888888889899999999999988888888888888888887766665555555433
No 45
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=48.59 E-value=2.7e+02 Score=27.28 Aligned_cols=113 Identities=23% Similarity=0.333 Sum_probs=0.0
Q ss_pred HHHhhHhh--------HHHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHH----HHHHHHHhhhhhc
Q 030894 40 ALALFRAK--------EEEIERKKVEVRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDV----SVVRKKIDTLNKE 107 (169)
Q Consensus 40 Als~F~aK--------EEEIErkKmeVrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV----~~vRKkID~vNre 107 (169)
|...|+.. -++|+++---.......||.++.+-..+...|++--+.|+| --.++ +.+.+|+|.|=+.
T Consensus 544 a~~vlreeYi~~~~~ar~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~Lae-R~e~a~d~Qe~L~~R~~~vl~~ 622 (717)
T PF10168_consen 544 ATKVLREEYIEKQDLAREEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAE-RYEEAKDKQEKLMKRVDRVLQL 622 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Q ss_pred ccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhHHHHHHHH
Q 030894 108 LKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVSESEKMRMK 156 (169)
Q Consensus 108 LKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ESErlRmk 156 (169)
+.--...=-.-|++|++=|+.++++-+. |-++|-.+-.-.++++.+
T Consensus 623 l~~~~P~LS~AEr~~~~EL~~~~~~l~~---l~~si~~lk~k~~~Q~~~ 668 (717)
T PF10168_consen 623 LNSQLPVLSEAEREFKKELERMKDQLQD---LKASIEQLKKKLDYQQRQ 668 (717)
T ss_pred HhccCCCCCHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
No 46
>PHA02562 46 endonuclease subunit; Provisional
Probab=46.29 E-value=2.1e+02 Score=25.26 Aligned_cols=74 Identities=16% Similarity=0.282 Sum_probs=38.2
Q ss_pred HhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHH
Q 030894 65 QLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSK 142 (169)
Q Consensus 65 qLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~ 142 (169)
...+..+-..++..++..+...- ..+..+.+++..+..++.-|...-...+.++++..+-+++-+.+++.+...
T Consensus 328 ~~~~~~~~~~~i~el~~~i~~~~----~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~l~~~l~~~~~~~~~~~ke 401 (562)
T PHA02562 328 IMDEFNEQSKKLLELKNKISTNK----QSLITLVDKAKKVKAAIEELQAEFVDNAEELAKLQDELDKIVKTKSELVKE 401 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444555555555544432 223344444444444444444444555666666666666666666655444
No 47
>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=45.54 E-value=25 Score=25.23 Aligned_cols=32 Identities=28% Similarity=0.226 Sum_probs=25.7
Q ss_pred HHHHhchhHHHHhhHHHHHHHHhhccchhhHH
Q 030894 62 VFAQLGRVEEATKRLSEIREELETLADPLRKD 93 (169)
Q Consensus 62 V~aqLGRvEeetkrLa~IreELE~laDP~RKE 93 (169)
+.+.+..++.--.++..+.+|+-+++.|-|||
T Consensus 67 ~l~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 98 (98)
T cd01279 67 IIELYPQVLLLQCRSCEHATELIGCAKPCRKE 98 (98)
T ss_pred HHHhhhHHHHHHHHHHHHHHHHHhcccccccC
Confidence 34556667777788899999999999999986
No 48
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=45.45 E-value=1.9e+02 Score=24.58 Aligned_cols=38 Identities=21% Similarity=0.369 Sum_probs=24.2
Q ss_pred HHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHH
Q 030894 60 DKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVV 97 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~v 97 (169)
||++.-..-|.+..+|..+.+.+.+.+++-||+||...
T Consensus 159 dK~~~a~~Ev~e~e~k~~~a~~~fe~is~~ik~El~rF 196 (234)
T cd07665 159 DKLQQAKDEIAEWESRVTQYERDFERISATVRKEVIRF 196 (234)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444555556666777777777777777777654
No 49
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=45.28 E-value=17 Score=32.64 Aligned_cols=35 Identities=26% Similarity=0.378 Sum_probs=30.4
Q ss_pred HHhhccchhhHHHHHHHHHHhhhhhcccchhhhHH
Q 030894 82 ELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQ 116 (169)
Q Consensus 82 ELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcq 116 (169)
=|..|+=|+|.||..|-|+|..+-|+++-|...-.
T Consensus 279 ~L~~LnlPTRsElDe~~krL~ELrR~vr~L~k~l~ 313 (320)
T TIGR01834 279 LLKMLNLPTRSELDEAHQRIQQLRREVKSLKKRLG 313 (320)
T ss_pred HHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47899999999999999999999999998865543
No 50
>PF03332 PMM: Eukaryotic phosphomannomutase; InterPro: IPR005002 This enzyme (5.4.2.8 from EC) is involved in the synthesis of the GDP-mannose and dolichol-phosphate-mannose required for a number of critical mannosyl transfer reactions.; GO: 0004615 phosphomannomutase activity, 0019307 mannose biosynthetic process, 0005737 cytoplasm; PDB: 2I55_B 2I54_C 3F9R_A 2FUE_A 2FUC_A 2AMY_A 2Q4R_A.
Probab=44.97 E-value=26 Score=30.09 Aligned_cols=38 Identities=24% Similarity=0.545 Sum_probs=28.1
Q ss_pred ccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhh
Q 030894 108 LKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVS 148 (169)
Q Consensus 108 LKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ 148 (169)
+-|+|++|-..||. +.+.|+.+.+.+..||..|.+-..
T Consensus 103 ~SpiGr~a~~eer~---~f~~~D~~~~iR~~~v~~L~~~f~ 140 (220)
T PF03332_consen 103 FSPIGRNASQEERD---EFDEYDKKHKIREKLVEALKKEFP 140 (220)
T ss_dssp E-SS-TTS-HHHHH---HHHHHHHHHTHHHHHHHHHHHHTC
T ss_pred ECcccCcCCHHHHH---hhhhcChhhhHHHHHHHHHHHHCC
Confidence 56999999987764 566789999999999998876443
No 51
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=44.93 E-value=1.1e+02 Score=24.94 Aligned_cols=64 Identities=33% Similarity=0.490 Sum_probs=38.2
Q ss_pred HhchhHHHHhhHHH-------HHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhh
Q 030894 65 QLGRVEEATKRLSE-------IREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDK 132 (169)
Q Consensus 65 qLGRvEeetkrLa~-------IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEK 132 (169)
-|+|+|||..|-+. +|+.||.+ ++.-..++-=|..+..++.-+-..-..||.+|+.--++||.-
T Consensus 65 ~l~rLeEEqqR~~~L~qvN~lLReQLEq~----~~~N~~L~~dl~klt~~~~~l~~eL~~ke~~~~~ee~~~~~y 135 (182)
T PF15035_consen 65 ALIRLEEEQQRSEELAQVNALLREQLEQA----RKANEALQEDLQKLTQDWERLRDELEQKEAEWREEEENFNQY 135 (182)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 78999999999887 66666543 222222333333333333333334456788888888888754
No 52
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=44.21 E-value=1.6e+02 Score=23.36 Aligned_cols=33 Identities=30% Similarity=0.512 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHh
Q 030894 52 ERKKVEVRDKVFAQLGRVEEATKRLSEIREELE 84 (169)
Q Consensus 52 ErkKmeVrekV~aqLGRvEeetkrLa~IreELE 84 (169)
+.+-..+++.+..+-.+++..-.+++.+++.|+
T Consensus 69 ~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~ 101 (302)
T PF10186_consen 69 RERLERLRERIERLRKRIEQKRERLEELRESLE 101 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444444444444444443
No 53
>cd07625 BAR_Vps17p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps17p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=43.27 E-value=82 Score=26.77 Aligned_cols=61 Identities=21% Similarity=0.200 Sum_probs=49.2
Q ss_pred HHHHHhhHhhHHHHHHHHHH--H-HHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHH
Q 030894 38 RSALALFRAKEEEIERKKVE--V-RDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVR 98 (169)
Q Consensus 38 rsAls~F~aKEEEIErkKme--V-rekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vR 98 (169)
..|-+.-+.|.+..+|-|+- + .+||..-+.-+++.+++-......++.+++-|+.|+...=
T Consensus 132 ~qAq~~~~~K~~~~~rlk~s~~i~~~KvdeA~~~l~eA~~~e~~l~~k~~rIs~nm~~E~~rf~ 195 (230)
T cd07625 132 IQAQQNTKSKQEAARRLKAKRDINPLKVDEAIRQLEEATKHEHDLSLKLKRITGNMLIERKEWT 195 (230)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556777888888888863 3 5699999999999999999999999999999999886553
No 54
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=42.90 E-value=1.7e+02 Score=23.25 Aligned_cols=73 Identities=22% Similarity=0.350 Sum_probs=43.7
Q ss_pred HhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHH
Q 030894 65 QLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLM 144 (169)
Q Consensus 65 qLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~Lm 144 (169)
.-+++..-+..++..+.++..+. -++..-.|-|+.+|-|+-.|-- +|.-+-+.+..-..|=..||.|+|
T Consensus 114 ~~~~l~~l~~~~~~L~~~~~~l~----~~l~ek~k~~e~l~DE~~~L~l-------~~~~~e~k~~~l~~En~~Lv~Rwm 182 (194)
T PF08614_consen 114 KERRLAELEAELAQLEEKIKDLE----EELKEKNKANEILQDELQALQL-------QLNMLEEKLRKLEEENRELVERWM 182 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444333 3556667777777777766654 444555555556677789999999
Q ss_pred HHhh
Q 030894 145 ELVS 148 (169)
Q Consensus 145 ELv~ 148 (169)
..++
T Consensus 183 ~~k~ 186 (194)
T PF08614_consen 183 QRKA 186 (194)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 8664
No 55
>PRK01156 chromosome segregation protein; Provisional
Probab=41.13 E-value=3.3e+02 Score=26.06 Aligned_cols=20 Identities=25% Similarity=0.414 Sum_probs=8.6
Q ss_pred HHHHHHHHHhhhhhcccchh
Q 030894 93 DVSVVRKKIDTLNKELKPLG 112 (169)
Q Consensus 93 EV~~vRKkID~vNreLKpLg 112 (169)
+...+.++|...+..+.-++
T Consensus 364 ~~~~l~~~l~~~~~~~~~~~ 383 (895)
T PRK01156 364 DYNSYLKSIESLKKKIEEYS 383 (895)
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 33444444444444444443
No 56
>KOG3650 consensus Predicted coiled-coil protein [General function prediction only]
Probab=41.04 E-value=30 Score=27.69 Aligned_cols=37 Identities=41% Similarity=0.662 Sum_probs=29.2
Q ss_pred HHHHHhhhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhhhhhc
Q 030894 124 EALEAFNDKNKEKAQLVSKLMELVSESEKMRMKKLEELSKNVELL 168 (169)
Q Consensus 124 eaLEAfNEKnkEKa~LV~~LmELv~ESErlRmkKLEELsK~iesl 168 (169)
+|.|+-|.-.-|||.|||...||- .-|+.||.-+|+.
T Consensus 46 ~a~e~~~d~~EEKaRlItQVLELQ--------nTLdDLSqRVdsV 82 (120)
T KOG3650|consen 46 DAVEAENDVEEEKARLITQVLELQ--------NTLDDLSQRVDSV 82 (120)
T ss_pred cccccccChHHHHHHHHHHHHHHH--------HHHHHHHHHHHHH
Confidence 577888888899999999999974 4577777766653
No 57
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=40.62 E-value=19 Score=31.07 Aligned_cols=31 Identities=29% Similarity=0.495 Sum_probs=27.6
Q ss_pred HHhhccchhhHHHHHHHHHHhhhhhcccchh
Q 030894 82 ELETLADPLRKDVSVVRKKIDTLNKELKPLG 112 (169)
Q Consensus 82 ELE~laDP~RKEV~~vRKkID~vNreLKpLg 112 (169)
=|+.|.=|+|.||..|-|+|..+=|+++-|.
T Consensus 262 ~L~~l~lPTr~evd~l~k~l~eLrre~r~Lk 292 (293)
T PF09712_consen 262 YLRSLNLPTRSEVDELYKRLHELRREVRALK 292 (293)
T ss_pred HHHHCCCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence 4788999999999999999999999987663
No 58
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=40.05 E-value=64 Score=20.67 Aligned_cols=31 Identities=29% Similarity=0.434 Sum_probs=24.0
Q ss_pred HHHHHHHHHHhchhHHHHhhHHHHHHHHhhc
Q 030894 56 VEVRDKVFAQLGRVEEATKRLSEIREELETL 86 (169)
Q Consensus 56 meVrekV~aqLGRvEeetkrLa~IreELE~l 86 (169)
-.+.+-+..++..+++....|..++..|+.|
T Consensus 35 ~~~~~~l~~~~~~i~~~i~~L~~~~~~L~~l 65 (65)
T PF09278_consen 35 ADRRALLEEKLEEIEEQIAELQALRAQLEHL 65 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3455677888888888888888888888754
No 59
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=39.48 E-value=1.5e+02 Score=21.63 Aligned_cols=72 Identities=29% Similarity=0.435 Sum_probs=42.7
Q ss_pred HHHHHHhchhHHHHhhHHHHHHHHhhccch-hhHHH-------HHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhh
Q 030894 60 DKVFAQLGRVEEATKRLSEIREELETLADP-LRKDV-------SVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFND 131 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~IreELE~laDP-~RKEV-------~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNE 131 (169)
+.+++++..+.....++....+.|+.+... .-.++ ..++-+|...|+-+=|+|-.+- =|+...+|.+.|+.
T Consensus 16 ~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lvplg~~~~~~~~i~~~~~v~v~iG~g~~-vE~~~~eA~~~l~~ 94 (129)
T cd00584 16 EELQQELARLNEAIAEYEQAKETLETLKKADEGKETLVPLGAGVFVKAKVKDTDKVLVDLGTGYY-VEKDLEEAIEFLDK 94 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCeEEeEEeCCCCEEEEEcCCCEE-EEecHHHHHHHHHH
Confidence 356778888888888888888888888541 11111 1123444555666666665443 25556666666654
Q ss_pred h
Q 030894 132 K 132 (169)
Q Consensus 132 K 132 (169)
+
T Consensus 95 r 95 (129)
T cd00584 95 K 95 (129)
T ss_pred H
Confidence 3
No 60
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=39.33 E-value=2.6e+02 Score=24.29 Aligned_cols=100 Identities=19% Similarity=0.317 Sum_probs=58.0
Q ss_pred HHHhhHhhHHHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhh---HHHHHHHHHHhhhhhcccchhhhHH
Q 030894 40 ALALFRAKEEEIERKKVEVRDKVFAQLGRVEEATKRLSEIREELETLADPLR---KDVSVVRKKIDTLNKELKPLGLTCQ 116 (169)
Q Consensus 40 Als~F~aKEEEIErkKmeVrekV~aqLGRvEeetkrLa~IreELE~laDP~R---KEV~~vRKkID~vNreLKpLg~tcq 116 (169)
+|+.....-..++.+.-+.++-+.+...-.+.--+++..+..+++.|-+--+ .|+..+|.||+..-..| +-.
T Consensus 11 ~iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl-----~~v 85 (239)
T COG1579 11 AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKL-----SAV 85 (239)
T ss_pred HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----hcc
Confidence 4555555556666666677777777766667777778888888777655433 35556666666554433 445
Q ss_pred hhHHHHHHHHHHhhhhhHHHHHHHHHHH
Q 030894 117 RKEREYKEALEAFNDKNKEKAQLVSKLM 144 (169)
Q Consensus 117 KKEkEYKeaLEAfNEKnkEKa~LV~~Lm 144 (169)
+.+++|..-.-.+-.-++..+.|=..|.
T Consensus 86 ~~~~e~~aL~~E~~~ak~r~~~le~el~ 113 (239)
T COG1579 86 KDERELRALNIEIQIAKERINSLEDELA 113 (239)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6667765433333333333333433333
No 61
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=37.46 E-value=1.2e+02 Score=23.83 Aligned_cols=40 Identities=20% Similarity=0.425 Sum_probs=31.4
Q ss_pred HhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHH
Q 030894 83 LETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREY 122 (169)
Q Consensus 83 LE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEY 122 (169)
...-.++.-.|++...+.|+..+.++.-|-.-+..-.+||
T Consensus 152 ~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~ey 191 (192)
T PF05529_consen 152 LKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQKEY 191 (192)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3445567778888888888888888888888887777777
No 62
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=37.32 E-value=2.1e+02 Score=22.66 Aligned_cols=72 Identities=22% Similarity=0.425 Sum_probs=40.9
Q ss_pred HHHHHHHHHhchhHHHHhhHHHHHHHHhh--cc----c--------hhhHHHHHHHHHHhhhhhcccch-----hhhHHh
Q 030894 57 EVRDKVFAQLGRVEEATKRLSEIREELET--LA----D--------PLRKDVSVVRKKIDTLNKELKPL-----GLTCQR 117 (169)
Q Consensus 57 eVrekV~aqLGRvEeetkrLa~IreELE~--la----D--------P~RKEV~~vRKkID~vNreLKpL-----g~tcqK 117 (169)
-|.+||.+.|-++++++. ..+.+-|+. .+ | ..-++|+.+|+|++.. +.|+++ ...|..
T Consensus 35 ~iq~Rva~eL~~L~~~~~--~~~~~~l~~~~~~ed~~~~~~~lSs~~v~~~i~~L~~kLe~~-~kl~~~~~~~~~~~v~~ 111 (142)
T PF07956_consen 35 HIQERVAEELKRLEEEEL--KKFEEALEKSLLSEDEKDQDPGLSSKSVNEEIEKLREKLEER-KKLRELKEEKNSEEVEK 111 (142)
T ss_pred HHHHHHHHHHHHHHHHHH--HHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHHHH-HHHHhccccccchhhHH
Confidence 577899999999998873 233333322 22 1 2346777777777743 222222 224666
Q ss_pred hHHHHHHHHHHhhh
Q 030894 118 KEREYKEALEAFND 131 (169)
Q Consensus 118 KEkEYKeaLEAfNE 131 (169)
-..+.-.||-..+.
T Consensus 112 aR~~vv~CL~~N~~ 125 (142)
T PF07956_consen 112 ARSAVVRCLRENDG 125 (142)
T ss_pred HHHHHHHHHHHCCC
Confidence 66666666654433
No 63
>KOG4074 consensus Leucine zipper nuclear factor [Function unknown]
Probab=36.31 E-value=1.3e+02 Score=28.18 Aligned_cols=49 Identities=24% Similarity=0.328 Sum_probs=33.6
Q ss_pred hhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHH-------HhhHHHHHHHH
Q 030894 103 TLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLME-------LVSESEKMRMK 156 (169)
Q Consensus 103 ~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmE-------Lv~ESErlRmk 156 (169)
.||+|||.|----.--+-.| -||--..+|.||+-++-+ +-.++||||.+
T Consensus 158 ~vNsELK~LlVASvgddLQ~-----~ve~LtedK~qLa~~~~~~~~nl~~~~Eq~erl~iq 213 (383)
T KOG4074|consen 158 KVNSELKRLLVASVGDDLQG-----QVEALTEDKVQLAHRVDEYMGNLMVEDEQSERLRIQ 213 (383)
T ss_pred HHHHHHHHHHHHHhhHHHHH-----HHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhH
Confidence 58999998754444333333 366678899999877655 44578888864
No 64
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=35.64 E-value=82 Score=27.55 Aligned_cols=47 Identities=26% Similarity=0.415 Sum_probs=37.1
Q ss_pred HHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcc
Q 030894 57 EVRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKEL 108 (169)
Q Consensus 57 eVrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreL 108 (169)
++|++++.-+. .|.-..|++|++.||-.-.++|+..|+.|=.+=|.|
T Consensus 274 e~~~~il~nmS-----~R~a~~l~ee~~~~GpV~~sdvE~Aq~~Iv~~~r~L 320 (338)
T TIGR00207 274 PLREKFLNNMS-----QRAAEILKEDMEFLGPVRLKDVEEAQKKIVSIVRKL 320 (338)
T ss_pred HHHHHHHHHhh-----HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHH
Confidence 47777777663 233346899999999999999999999998777766
No 65
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=35.53 E-value=1.4e+02 Score=30.34 Aligned_cols=56 Identities=27% Similarity=0.386 Sum_probs=42.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhchhHHHH---hhHHHHHHHHhhccchhhHHHHHHHHHHhh
Q 030894 47 KEEEIERKKVEVRDKVFAQLGRVEEAT---KRLSEIREELETLADPLRKDVSVVRKKIDT 103 (169)
Q Consensus 47 KEEEIErkKmeVrekV~aqLGRvEeet---krLa~IreELE~laDP~RKEV~~vRKkID~ 103 (169)
+|-++-+-...++.||..|+.+-..|- ..|..|++||-...|.- .||..+|+||+.
T Consensus 203 ~ei~~~~~ek~I~~kVk~~meK~QREyyL~EQlKaIqkELG~~~d~~-~e~~~~~~kie~ 261 (782)
T COG0466 203 KEIDLLQLEKRIRKKVKEQMEKSQREYYLREQLKAIQKELGEDDDDK-DEVEELREKIEK 261 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccch-hHHHHHHHHHhh
Confidence 344444566778999999998766653 45788899997776655 999999999984
No 66
>PF15346 ARGLU: Arginine and glutamate-rich 1
Probab=35.52 E-value=1e+02 Score=25.11 Aligned_cols=44 Identities=36% Similarity=0.403 Sum_probs=36.9
Q ss_pred HHHHHhhHhhHHHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHH
Q 030894 38 RSALALFRAKEEEIERKKVEVRDKVFAQLGRVEEATKRLSEIRE 81 (169)
Q Consensus 38 rsAls~F~aKEEEIErkKmeVrekV~aqLGRvEeetkrLa~Ire 81 (169)
..+++-++.++++.-+++.+.-.-+...--.||++-+++|.=|.
T Consensus 61 ~~~l~e~r~keEeer~~~eELe~ileen~rkvEEAQrk~aeEr~ 104 (149)
T PF15346_consen 61 EEALEEARRKEEEERKKREELEKILEENRRKVEEAQRKLAEERL 104 (149)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46888999999999999999888888888888888888876543
No 67
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=35.49 E-value=2e+02 Score=22.04 Aligned_cols=45 Identities=16% Similarity=0.325 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHH
Q 030894 92 KDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEK 136 (169)
Q Consensus 92 KEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEK 136 (169)
.+...+..+++.++...+++-..+..=.++-++..+...+.....
T Consensus 123 ~~~~~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~~~~~~~~~~ 167 (191)
T PF04156_consen 123 ELLKSVEERLDSLDESIKELEKEIRELQKELQDSREEVQELRSQL 167 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555555555555555555444433333334444333333
No 68
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=35.07 E-value=1.6e+02 Score=21.33 Aligned_cols=29 Identities=24% Similarity=0.299 Sum_probs=18.8
Q ss_pred HHHHHHhchhHHHHhhHHHHHHHHhhccc
Q 030894 60 DKVFAQLGRVEEATKRLSEIREELETLAD 88 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~IreELE~laD 88 (169)
+.++++++.+......+....+.|+.+.+
T Consensus 16 ~~l~~~i~~l~~~i~e~~~~~~~L~~l~~ 44 (126)
T TIGR00293 16 ESLQAQIAALRALIAELETAIETLEDLKG 44 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 35666777777766666666666666643
No 69
>PRK11637 AmiB activator; Provisional
Probab=34.64 E-value=3.2e+02 Score=24.06 Aligned_cols=37 Identities=24% Similarity=0.324 Sum_probs=19.4
Q ss_pred hhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHH
Q 030894 90 LRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEAL 126 (169)
Q Consensus 90 ~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaL 126 (169)
...++..+..+|+.++.+|.-+-..-......|+.-+
T Consensus 94 ~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~rl 130 (428)
T PRK11637 94 TQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQL 130 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555556566555555555444444444433
No 70
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=34.60 E-value=88 Score=27.07 Aligned_cols=47 Identities=30% Similarity=0.477 Sum_probs=37.6
Q ss_pred HHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcc
Q 030894 57 EVRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKEL 108 (169)
Q Consensus 57 eVrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreL 108 (169)
++|++++..+. .+.=..||+||+.||-.-..+|+..|+.|=.+=|+|
T Consensus 277 ~~~~~il~nmS-----~R~a~~l~eel~~~g~v~~~dve~Aq~~I~~~~r~l 323 (339)
T PRK05686 277 ELREKFLSNMS-----KRAAEMLREDLEALGPVRLSDVEEAQKKIVQIARRL 323 (339)
T ss_pred HHHHHHHHhcC-----HHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHH
Confidence 47888887774 234456899999999999999999999997766665
No 71
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=33.50 E-value=3.2e+02 Score=25.15 Aligned_cols=53 Identities=28% Similarity=0.362 Sum_probs=22.4
Q ss_pred HHHHHHHhchhHHHHhhHHHHHHHHhhccchhhH---HHHHHHHHHhhhhhcccch
Q 030894 59 RDKVFAQLGRVEEATKRLSEIREELETLADPLRK---DVSVVRKKIDTLNKELKPL 111 (169)
Q Consensus 59 rekV~aqLGRvEeetkrLa~IreELE~laDP~RK---EV~~vRKkID~vNreLKpL 111 (169)
..-+...+..++-.-.+|..|.+.|..+-+=.|| .++.+-..++.+-.+|.-|
T Consensus 286 ~~~l~~~~~~l~~dp~~L~ele~RL~~l~~LkrKyg~s~e~l~~~~~~l~~eL~~l 341 (563)
T TIGR00634 286 TRELQNYLDELEFDPERLNEIEERLAQIKRLKRKYGASVEEVLEYAEKIKEELDQL 341 (563)
T ss_pred HHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444455555544443332222 3344444444444444433
No 72
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=33.27 E-value=2.5e+02 Score=27.81 Aligned_cols=79 Identities=34% Similarity=0.507 Sum_probs=51.9
Q ss_pred hhhhhHHHHHhhHhhHHHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchh
Q 030894 33 EEDMSRSALALFRAKEEEIERKKVEVRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLG 112 (169)
Q Consensus 33 ~ee~srsAls~F~aKEEEIErkKmeVrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg 112 (169)
...+-..|++.-++.|.+|.--|.|++--+ -|-.+||+-|| |-+++=|| |+-+-
T Consensus 508 iq~llkva~dnar~qekQiq~Ek~ELkmd~-----------lrerelresle-------kql~~Erk--------lR~~~ 561 (641)
T KOG3915|consen 508 IQGLLKVAIDNARAQEKQIQLEKTELKMDF-----------LRERELRESLE-------KQLAMERK--------LRAIV 561 (641)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHH-------HHHHHHHH--------HHHHH
Confidence 357778899999999999988887776432 24456677666 33333333 33344
Q ss_pred hhHHhhHHH----HHHHHHHhhhhhHHHHH
Q 030894 113 LTCQRKERE----YKEALEAFNDKNKEKAQ 138 (169)
Q Consensus 113 ~tcqKKEkE----YKeaLEAfNEKnkEKa~ 138 (169)
|.-.||||. |++||+ ||-|-+|++.
T Consensus 562 qkr~kkEkk~k~k~qe~L~-~~sk~reqae 590 (641)
T KOG3915|consen 562 QKRLKKEKKAKRKLQEALE-FESKRREQAE 590 (641)
T ss_pred HHHHHHHHHHHHHHHHHhh-hccccchhhh
Confidence 444566765 457776 6778888874
No 73
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=33.17 E-value=5.3e+02 Score=26.11 Aligned_cols=14 Identities=14% Similarity=0.518 Sum_probs=5.4
Q ss_pred HHHHHHHHHHhhhh
Q 030894 92 KDVSVVRKKIDTLN 105 (169)
Q Consensus 92 KEV~~vRKkID~vN 105 (169)
.+++.++.+++.+.
T Consensus 828 ~ei~~l~~~~~~~~ 841 (1163)
T COG1196 828 QEIEELEEEIEELE 841 (1163)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 74
>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]
Probab=33.00 E-value=2.9e+02 Score=23.11 Aligned_cols=80 Identities=24% Similarity=0.326 Sum_probs=55.1
Q ss_pred HHHHHHHHHHhchh----HHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhh-hHHhhHHHHHHHHHHhh
Q 030894 56 VEVRDKVFAQLGRV----EEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGL-TCQRKEREYKEALEAFN 130 (169)
Q Consensus 56 meVrekV~aqLGRv----EeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~-tcqKKEkEYKeaLEAfN 130 (169)
|+.-+.|..+||++ +--.|-++.|++|||.|- +.+.+|-+-...|-+++-|++. +-|--+-+..+.-|--|
T Consensus 50 mer~~~ieNdlg~~~~~~~g~kk~~~~~~eelerLe----~~iKdl~~lye~Vs~d~Npf~s~~~qes~~~veel~eqV~ 125 (157)
T COG3352 50 MERMTDIENDLGKVKIEIEGQKKQLQDIKEELERLE----ENIKDLVSLYELVSRDFNPFMSKTPQESRGIVEELEEQVN 125 (157)
T ss_pred HHHHHHHHhhcccccccccchhhhHHHHHHHHHHHH----HHHHHHHHHHHHHHHhhhhHHhhhHHHHHHHHHHHHHHHH
Confidence 56677888999965 556799999999999874 6788888888999999999874 33333333444444444
Q ss_pred hhhHHHHHH
Q 030894 131 DKNKEKAQL 139 (169)
Q Consensus 131 EKnkEKa~L 139 (169)
+--.++++.
T Consensus 126 el~~i~emv 134 (157)
T COG3352 126 ELKMIVEMV 134 (157)
T ss_pred HHHHHHHHH
Confidence 443333333
No 75
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=32.70 E-value=4.3e+02 Score=24.93 Aligned_cols=32 Identities=9% Similarity=0.213 Sum_probs=14.4
Q ss_pred HHHHHHHHHhhhhhcccchhhhHHhhHHHHHH
Q 030894 93 DVSVVRKKIDTLNKELKPLGLTCQRKEREYKE 124 (169)
Q Consensus 93 EV~~vRKkID~vNreLKpLg~tcqKKEkEYKe 124 (169)
++..+.+.|+.+-.+|+-...+-.+.++...+
T Consensus 67 ~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~ 98 (420)
T COG4942 67 QLKSLETEIASLEAQLIETADDLKKLRKQIAD 98 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHH
Confidence 44444444444444444444444444444433
No 76
>PF14379 Myb_CC_LHEQLE: MYB-CC type transfactor, LHEQLE motif
Probab=32.55 E-value=86 Score=21.74 Aligned_cols=30 Identities=37% Similarity=0.527 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHhc-------hhHHHHhhHHHHHHH
Q 030894 53 RKKVEVRDKVFAQLG-------RVEEATKRLSEIREE 82 (169)
Q Consensus 53 rkKmeVrekV~aqLG-------RvEeetkrLa~IreE 82 (169)
+..|||-.+++.||. |+|+..|.|..|.+.
T Consensus 9 r~QmEvQrrLhEQLEvQr~Lqlrieaqgkyl~~ilek 45 (51)
T PF14379_consen 9 RMQMEVQRRLHEQLEVQRHLQLRIEAQGKYLQSILEK 45 (51)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 467899989988888 888888888888664
No 77
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=31.80 E-value=2.9e+02 Score=22.65 Aligned_cols=103 Identities=23% Similarity=0.283 Sum_probs=58.1
Q ss_pred hhhhhHHHHHhhHhhHHHHHHH--HHHHHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccc
Q 030894 33 EEDMSRSALALFRAKEEEIERK--KVEVRDKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKP 110 (169)
Q Consensus 33 ~ee~srsAls~F~aKEEEIErk--KmeVrekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKp 110 (169)
+.+-|+.||..-.+--+-..-+ ..++=. +-|- .. ...=-.-|+.+-.-+.+++..+|+.||.||+.=|-
T Consensus 98 d~~~w~~al~na~a~lehq~~R~~NLeLl~----~~g~--na---W~~~n~~Le~~~~~le~~l~~~k~~ie~vN~~RK~ 168 (221)
T PF05700_consen 98 DVEAWKEALDNAYAQLEHQRLRLENLELLS----KYGE--NA---WLIHNEQLEAMLKRLEKELAKLKKEIEEVNRERKR 168 (221)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHhH--HH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677888888777665542222 122211 1111 11 11112578888889999999999999999996553
Q ss_pred hhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhHHHHHH
Q 030894 111 LGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVSESEKMR 154 (169)
Q Consensus 111 Lg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ESErlR 154 (169)
-=..+..+=+. =...=..+|++-.++-..-..|+
T Consensus 169 ~Q~~~~~~L~~----------Le~~W~~~v~kn~eie~a~~~Le 202 (221)
T PF05700_consen 169 RQEEAGEELRY----------LEQRWKELVSKNLEIEVACEELE 202 (221)
T ss_pred HHHHhHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333222222 22333456666666655555555
No 78
>TIGR01795 CM_mono_cladeE monofunctional chorismate mutase, alpha proteobacterial type. The alpha proteobacterial members are trusted because the pathways of CM are evident and there is only one plausible CM in the genome. In S. coelicolor, however, there is another aparrent monofunctional CM.
Probab=30.87 E-value=32 Score=25.22 Aligned_cols=20 Identities=15% Similarity=0.461 Sum_probs=16.2
Q ss_pred HHHHHHHHHHhhhhhcccch
Q 030894 92 KDVSVVRKKIDTLNKELKPL 111 (169)
Q Consensus 92 KEV~~vRKkID~vNreLKpL 111 (169)
.++..+|+.||.++++|=-|
T Consensus 3 ~~L~~lR~~ID~ID~qLv~L 22 (94)
T TIGR01795 3 AELKALRQSIDNIDAAVIHM 22 (94)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 46778999999999998654
No 79
>COG1605 PheA Chorismate mutase [Amino acid transport and metabolism]
Probab=30.57 E-value=37 Score=24.80 Aligned_cols=40 Identities=25% Similarity=0.330 Sum_probs=27.5
Q ss_pred chhhHHHHHHHHHHhhhhhcccchh---hhHHhhHHHHHHHHH
Q 030894 88 DPLRKDVSVVRKKIDTLNKELKPLG---LTCQRKEREYKEALE 127 (169)
Q Consensus 88 DP~RKEV~~vRKkID~vNreLKpLg---~tcqKKEkEYKeaLE 127 (169)
.++.-++..+|..||.++++|=.|= ..|.+.=-+||...-
T Consensus 4 ~~~~~~L~~lR~~Id~iD~~ll~Ll~eR~~l~~~Va~~K~~~g 46 (101)
T COG1605 4 TIMMEELEELREEIDEIDRELLDLLAERLELAKEVGEAKAASG 46 (101)
T ss_pred hhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4567788999999999999986653 234555555555443
No 80
>PRK10203 hypothetical protein; Provisional
Probab=30.49 E-value=1.2e+02 Score=23.96 Aligned_cols=61 Identities=15% Similarity=0.283 Sum_probs=35.9
Q ss_pred HhchhHHH---HhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHH
Q 030894 65 QLGRVEEA---TKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEAL 126 (169)
Q Consensus 65 qLGRvEee---tkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaL 126 (169)
.-|-+=++ -|-+..+++.|.+++|+. -+...++|++-..|--+..++-.+.-.-.+|.+-+
T Consensus 52 nag~lP~el~LrKE~~~l~~~l~~~~d~~-~~~~~~~k~L~~l~lr~~~~~~~~~~~~~~Y~~ki 115 (122)
T PRK10203 52 NAGCLPPELEQRREAIQLLDLLKGIREDD-PQYQEVSRRLSLLELKLRQAGLSTDFLRGDYADKL 115 (122)
T ss_pred hCCCCCHHHHHHHHHHHHHHHHHHhcccc-HHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHH
Confidence 33444433 356677888888888773 22235666666666666655555554446666543
No 81
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=30.34 E-value=4.2e+02 Score=24.05 Aligned_cols=29 Identities=38% Similarity=0.530 Sum_probs=14.9
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHhhHH
Q 030894 122 YKEALEAFNDKNKEKAQLVSKLMELVSES 150 (169)
Q Consensus 122 YKeaLEAfNEKnkEKa~LV~~LmELv~ES 150 (169)
|-++-+-|.|--+||..|+..|-+|-++-
T Consensus 137 ~ee~kekl~E~~~EkeeL~~eleele~e~ 165 (290)
T COG4026 137 YEELKEKLEELQKEKEELLKELEELEAEY 165 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444555555555555555555554443
No 82
>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []. Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.
Probab=29.90 E-value=3.4e+02 Score=22.85 Aligned_cols=78 Identities=24% Similarity=0.373 Sum_probs=50.1
Q ss_pred HhhHHHHHHHHHHHHH------HHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHH-------HHHhhhhhcccch
Q 030894 45 RAKEEEIERKKVEVRD------KVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVR-------KKIDTLNKELKPL 111 (169)
Q Consensus 45 ~aKEEEIErkKmeVre------kV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vR-------KkID~vNreLKpL 111 (169)
..-+++..+-..++++ .+..++.+++++..+|..-+.+++.+-.-++.+..+-- .+|+.+..++.-|
T Consensus 15 ~q~eee~~~a~~~L~e~e~~a~~Leek~k~aeeea~~Le~k~~eaee~~~rL~~~~~~~~eEk~~Le~e~~e~~~~i~~l 94 (246)
T PF00769_consen 15 RQMEEEMRRAQEALEESEETAEELEEKLKQAEEEAEELEQKRQEAEEEKQRLEEEAEMQEEEKEQLEQELREAEAEIARL 94 (246)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345555555555544 34678889999999999999988887776666554433 3677777777666
Q ss_pred hhhHHhhHHHH
Q 030894 112 GLTCQRKEREY 122 (169)
Q Consensus 112 g~tcqKKEkEY 122 (169)
-..-++|+.|-
T Consensus 95 ~ee~~~ke~Ea 105 (246)
T PF00769_consen 95 EEESERKEEEA 105 (246)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 66666666653
No 83
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=29.66 E-value=3.6e+02 Score=23.08 Aligned_cols=86 Identities=27% Similarity=0.372 Sum_probs=63.0
Q ss_pred HHHHHHhchhHHHHhhHHHHHHHHhhccchhhHHHHHHHH---HHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHH
Q 030894 60 DKVFAQLGRVEEATKRLSEIREELETLADPLRKDVSVVRK---KIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEK 136 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~IreELE~laDP~RKEV~~vRK---kID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEK 136 (169)
-++++.+--+|+.+.+|+. |++.|- +..-+..+ +-++|+.||.-|-.+|-.=|-+|.-.+..--.-++|.
T Consensus 25 ~kL~~~ve~~ee~na~L~~---e~~~L~----~q~~s~Qqal~~aK~l~eEledLk~~~~~lEE~~~~L~aq~rqlEkE~ 97 (193)
T PF14662_consen 25 AKLQRSVETAEEGNAQLAE---EITDLR----KQLKSLQQALQKAKALEEELEDLKTLAKSLEEENRSLLAQARQLEKEQ 97 (193)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3677888888898888874 444433 33333333 3467799999999999999999999888777788999
Q ss_pred HHHHHHHHHHhhHHHH
Q 030894 137 AQLVSKLMELVSESEK 152 (169)
Q Consensus 137 a~LV~~LmELv~ESEr 152 (169)
-+|+..+-.|=-|..+
T Consensus 98 q~L~~~i~~Lqeen~k 113 (193)
T PF14662_consen 98 QSLVAEIETLQEENGK 113 (193)
T ss_pred HHHHHHHHHHHHHHhH
Confidence 9999887665444443
No 84
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=29.15 E-value=3.6e+02 Score=26.03 Aligned_cols=86 Identities=23% Similarity=0.441 Sum_probs=64.1
Q ss_pred hHHHHhhHHHHHHHHhhccchhhHHHHHHHHHHh--------------hhhhcccchhhhHHhhHHHHHHHHHHhhh--h
Q 030894 69 VEEATKRLSEIREELETLADPLRKDVSVVRKKID--------------TLNKELKPLGLTCQRKEREYKEALEAFND--K 132 (169)
Q Consensus 69 vEeetkrLa~IreELE~laDP~RKEV~~vRKkID--------------~vNreLKpLg~tcqKKEkEYKeaLEAfNE--K 132 (169)
++.-..||..+-.+.|..-.|+=.|+...|...+ .+-.+++-+-.-|+.||..|+.-...|-. |
T Consensus 403 v~~s~~rl~~L~~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~~k 482 (594)
T PF05667_consen 403 VEASEQRLVELAQQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELEKLPK 482 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 4556678888888888888899999998885443 55566777888899999888875544422 2
Q ss_pred hHHHHHHHHHHHHHhhHHHHHH
Q 030894 133 NKEKAQLVSKLMELVSESEKMR 154 (169)
Q Consensus 133 nkEKa~LV~~LmELv~ESErlR 154 (169)
..-....+.+++|+|+-..+++
T Consensus 483 ~~~Rs~Yt~RIlEIv~NI~KQk 504 (594)
T PF05667_consen 483 DVNRSAYTRRILEIVKNIRKQK 504 (594)
T ss_pred CCCHHHHHHHHHHHHHhHHHHH
Confidence 2345678899999999888776
No 85
>PHA02109 hypothetical protein
Probab=28.96 E-value=1.1e+02 Score=26.71 Aligned_cols=54 Identities=30% Similarity=0.412 Sum_probs=40.4
Q ss_pred HHhhHHHHH-----HHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHH
Q 030894 72 ATKRLSEIR-----EELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEAL 126 (169)
Q Consensus 72 etkrLa~Ir-----eELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaL 126 (169)
-|.|+++.+ +-||||+|.+ +++..+--|||.+.+|+-.+.+--|.+-.+.+.-|
T Consensus 169 sTE~ID~~~~~~t~~~L~~~~~~L-~~I~~L~~ki~~LS~E~~Q~~~Ki~N~R~~Vk~~L 227 (233)
T PHA02109 169 STERIDQVERSHTGENLEGLTDKL-KQISELTIKLEALSDEACQVKHKILNLRAEVKRRL 227 (233)
T ss_pred cHHHHHHHHhccchhhhhhhhHHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666665 4799999986 78999999999999998666666666655555544
No 86
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=28.93 E-value=1.9e+02 Score=19.67 Aligned_cols=35 Identities=14% Similarity=0.200 Sum_probs=16.0
Q ss_pred cchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHH
Q 030894 109 KPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKL 143 (169)
Q Consensus 109 KpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~L 143 (169)
..|..-|..+.....+-+..++..-..=..++...
T Consensus 64 ~~l~~~~~~~~~~l~~q~~~l~~~l~~l~~~~~~~ 98 (127)
T smart00502 64 EDLEEQKENKLKVLEQQLESLTQKQEKLSHAINFT 98 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555554444433333333333
No 87
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=28.40 E-value=84 Score=26.81 Aligned_cols=21 Identities=33% Similarity=0.729 Sum_probs=12.6
Q ss_pred hhHHHHHHHHHHhhhhhcccc
Q 030894 90 LRKDVSVVRKKIDTLNKELKP 110 (169)
Q Consensus 90 ~RKEV~~vRKkID~vNreLKp 110 (169)
+.+|+..+|-+|+++|.++-.
T Consensus 110 ~~~ei~~L~~kI~~L~~~in~ 130 (181)
T PF04645_consen 110 IKKEIEILRLKISSLQKEINK 130 (181)
T ss_pred HHHHHHHHHHHHHHHHHHhhh
Confidence 456666666666666655543
No 88
>PRK07248 hypothetical protein; Provisional
Probab=27.94 E-value=30 Score=24.30 Aligned_cols=32 Identities=25% Similarity=0.377 Sum_probs=22.4
Q ss_pred HHHHHHHHhhhhhcccchhh---hHHhhHHHHHHH
Q 030894 94 VSVVRKKIDTLNKELKPLGL---TCQRKEREYKEA 125 (169)
Q Consensus 94 V~~vRKkID~vNreLKpLg~---tcqKKEkEYKea 125 (169)
+..+|+.||.++++|-.|=. .|..+=-.||.+
T Consensus 3 L~~lR~~ID~iD~~i~~Ll~~R~~l~~~I~~~K~~ 37 (87)
T PRK07248 3 LEEIRQEIDQIDDQLVALLEKRMALVEQVVAYKKA 37 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56789999999999876632 344555566654
No 89
>COG2096 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]
Probab=27.91 E-value=2.4e+02 Score=23.86 Aligned_cols=57 Identities=26% Similarity=0.348 Sum_probs=46.7
Q ss_pred hHHHHHHHHHHhhhhhcccchhh------------------hHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhh
Q 030894 91 RKDVSVVRKKIDTLNKELKPLGL------------------TCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVS 148 (169)
Q Consensus 91 RKEV~~vRKkID~vNreLKpLg~------------------tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ 148 (169)
...|..+.+.||..|.++.||-. -|-+-||..=.+.+.++...-- ...+|+|-.|+=
T Consensus 87 ~e~v~~LE~~id~y~~~l~~l~~FiLPGgs~~aA~lh~ARtv~RRAER~~V~l~~~~~~~~~~-l~YlNRLSdlLF 161 (184)
T COG2096 87 EEDVKRLEKRIDAYNAELPPLKSFVLPGGSPAAAALHVARTVARRAERRLVALSREEEANLVV-LKYLNRLSDLLF 161 (184)
T ss_pred HHHHHHHHHHHHHHHhcCCCcceeeccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHH-HHHHHHHHHHHH
Confidence 57899999999999999998742 3678899988888888877665 788899887653
No 90
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=27.16 E-value=2.2e+02 Score=19.71 Aligned_cols=74 Identities=19% Similarity=0.398 Sum_probs=44.8
Q ss_pred hHHHHHhhHhhHHHHHHHHHHHHHHHHHHhchhHHHHhhHHHHHHHHh---hc-cchhhHHHHHHHHHHhhhhhcccc
Q 030894 37 SRSALALFRAKEEEIERKKVEVRDKVFAQLGRVEEATKRLSEIREELE---TL-ADPLRKDVSVVRKKIDTLNKELKP 110 (169)
Q Consensus 37 srsAls~F~aKEEEIErkKmeVrekV~aqLGRvEeetkrLa~IreELE---~l-aDP~RKEV~~vRKkID~vNreLKp 110 (169)
+..=+++|...=+.+...=-+++..=..-+..++.+...|..+.+-.. .| -+|-..=+..+||++..+|.-+.-
T Consensus 5 a~Gl~~~l~P~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~~~~~~~~~~~~~y~~KL~~ikkrm~~l~~~l~~ 82 (92)
T PF14712_consen 5 AEGLLSLLEPDLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNEVEQINEPFDLDPYVKKLVNIKKRMSNLHERLQK 82 (92)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444555544444444444554444446788888888888877222 22 345666677888888888765543
No 91
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=27.13 E-value=1.3e+02 Score=27.44 Aligned_cols=69 Identities=32% Similarity=0.496 Sum_probs=50.8
Q ss_pred hhccchh-hHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhHHH-HHHHHHHHHH
Q 030894 84 ETLADPL-RKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVSESE-KMRMKKLEEL 161 (169)
Q Consensus 84 E~laDP~-RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ESE-rlRmkKLEEL 161 (169)
+.+-||+ +|||. |||||-. .--||+-++--+|-+||.+--+=..+|..|...+..++ .-+++..++.
T Consensus 58 q~fED~~vekEv~-iRrri~~----------~~nk~~eeF~~~LaeyndylEe~Ediv~nl~~~~dv~~t~~k~~~ye~~ 126 (300)
T KOG3800|consen 58 QTFEDPTVEKEVD-IRRRILR----------IFNKKEEEFTGSLAEYNDYLEEVEDIVFNLGNNIDVTETKEKVKTYEEP 126 (300)
T ss_pred hhcchhHHHHHHH-HHHHHHH----------HhccchhhhhhhHHHHhcccHHHHHHHHHhhcccchhHHHHHHHHhhcc
Confidence 3577887 67876 5666632 34578999999999999999999999999988776654 3455555555
Q ss_pred Hh
Q 030894 162 SK 163 (169)
Q Consensus 162 sK 163 (169)
++
T Consensus 127 nk 128 (300)
T KOG3800|consen 127 NK 128 (300)
T ss_pred Cc
Confidence 44
No 92
>PF00456 Transketolase_N: Transketolase, thiamine diphosphate binding domain; InterPro: IPR005474 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; PDB: 3M49_B 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 3HYL_A 3RIM_A ....
Probab=26.77 E-value=1.7e+02 Score=25.77 Aligned_cols=55 Identities=20% Similarity=0.325 Sum_probs=41.7
Q ss_pred hhHHHHHHHHHHh----------hhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHH
Q 030894 90 LRKDVSVVRKKID----------TLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLM 144 (169)
Q Consensus 90 ~RKEV~~vRKkID----------~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~Lm 144 (169)
...|+...++.+. .|-...++......+++.++++-+.+|..++-++++...++|
T Consensus 263 ~~ee~~~~k~~lg~~~~~F~V~~eV~~~f~~~~~~g~~~~~~W~~~~~~y~~~~P~~a~el~~~l 327 (332)
T PF00456_consen 263 TEEEVEQAKKELGWDQEPFEVPEEVYDHFRERIAEGAKAEAEWKELFAAYKKKYPEEAQELERRL 327 (332)
T ss_dssp HHHHHHHHHHHTTSSTSTTCGCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHH
T ss_pred cHHHHHHHHHHcCCCCCCcccCHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
Confidence 3445777777654 333345556666889999999999999999999999988776
No 93
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=26.76 E-value=2.4e+02 Score=20.02 Aligned_cols=101 Identities=21% Similarity=0.292 Sum_probs=49.3
Q ss_pred HHHHHhchhHHHHhhHHHHHHHHhhccchhhH--------HHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhh
Q 030894 61 KVFAQLGRVEEATKRLSEIREELETLADPLRK--------DVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDK 132 (169)
Q Consensus 61 kV~aqLGRvEeetkrLa~IreELE~laDP~RK--------EV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEK 132 (169)
.+++++..+......+....++|+.+.|-.-. .=..+.-+|..-++=+.++|-.|-= |+-+.+|.+-++++
T Consensus 17 ~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~l~~~g~~~~~~~~i~~~~~v~v~iG~~~~v-e~~~~eA~~~l~~r 95 (129)
T cd00890 17 ALQQQLQKLEAQLTEYEKAKETLETLKKAEEEKELLVPLGAGLFVKAEVKDDDKVLVDLGTGVYV-EKSLEEAIEFLKKR 95 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCeEEEecCCceEEEEEECCCCEEEEEecCCEEE-EecHHHHHHHHHHH
Confidence 45666677777777777777777777632111 0111222333456667777744432 24555555555432
Q ss_pred hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhhhh
Q 030894 133 NKEKAQLVSKLMELVSESEKMRMKKLEELSKNVE 166 (169)
Q Consensus 133 nkEKa~LV~~LmELv~ESErlRmkKLEELsK~ie 166 (169)
...+..-++-+..+-.---+.+.++..++.
T Consensus 96 ----~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~ 125 (129)
T cd00890 96 ----LETLEKQIEKLEKQLEKLQDQITELQEELQ 125 (129)
T ss_pred ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 223333333333333333344444444443
No 94
>PRK06285 chorismate mutase; Provisional
Probab=26.32 E-value=39 Score=24.38 Aligned_cols=35 Identities=23% Similarity=0.402 Sum_probs=22.1
Q ss_pred hHHHHHHHHHHhhhhhcccchhh---hHHhhHHHHHHH
Q 030894 91 RKDVSVVRKKIDTLNKELKPLGL---TCQRKEREYKEA 125 (169)
Q Consensus 91 RKEV~~vRKkID~vNreLKpLg~---tcqKKEkEYKea 125 (169)
.+.+..+|+.||.++++|-.|=. .+.++=-+||..
T Consensus 6 ~~~L~elR~~ID~ID~~iv~Ll~~R~~l~~~I~~~K~~ 43 (96)
T PRK06285 6 EKRLNEIRKRIDEIDEQIIDLIAERTSLAKEIAELKKS 43 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677789999999998866532 233344455553
No 95
>PRK09343 prefoldin subunit beta; Provisional
Probab=26.27 E-value=1.6e+02 Score=22.28 Aligned_cols=27 Identities=26% Similarity=0.454 Sum_probs=14.7
Q ss_pred HHHHhchhHHHHhhHHHHHHHHhhccc
Q 030894 62 VFAQLGRVEEATKRLSEIREELETLAD 88 (169)
Q Consensus 62 V~aqLGRvEeetkrLa~IreELE~laD 88 (169)
+..+.-.++.+-+.+.-..+||+.|.|
T Consensus 26 ~~~q~~~le~q~~e~~~~~~EL~~L~~ 52 (121)
T PRK09343 26 LLQQKSQIDLELREINKALEELEKLPD 52 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 333444445555555556667777654
No 96
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=25.94 E-value=1.5e+02 Score=25.85 Aligned_cols=46 Identities=26% Similarity=0.372 Sum_probs=34.8
Q ss_pred HHHHHHHHHhchhHHHHhhH-HHHHHHHhhccchhhHHHHHHHHHHhhhhhcc
Q 030894 57 EVRDKVFAQLGRVEEATKRL-SEIREELETLADPLRKDVSVVRKKIDTLNKEL 108 (169)
Q Consensus 57 eVrekV~aqLGRvEeetkrL-a~IreELE~laDP~RKEV~~vRKkID~vNreL 108 (169)
++|++|..-+. +|. ..||+|++.||-.-..+|+..|+.|=.+=|.|
T Consensus 271 e~r~~il~nmS------~Raa~~l~eele~~gpV~~sdvE~Aq~~Iv~~~r~L 317 (334)
T PRK07194 271 ALRQAILRVMP------KRQAQALEAQIERLGPVPLSRVEQARKEIMALVREL 317 (334)
T ss_pred HHHHHHHHHcc------HHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHH
Confidence 45666655553 344 46899999999999999999999997766655
No 97
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=24.66 E-value=1.1e+02 Score=21.79 Aligned_cols=53 Identities=28% Similarity=0.391 Sum_probs=26.5
Q ss_pred HHHHHhchhHHHHhhHHHHHHHHhhccc-hhhHHH-------HHHHHHHhhhhhcccchhh
Q 030894 61 KVFAQLGRVEEATKRLSEIREELETLAD-PLRKDV-------SVVRKKIDTLNKELKPLGL 113 (169)
Q Consensus 61 kV~aqLGRvEeetkrLa~IreELE~laD-P~RKEV-------~~vRKkID~vNreLKpLg~ 113 (169)
.+++++..++..-..+...++-|+.|.+ +.-.++ ..|+=+|...|+=+=+||-
T Consensus 7 ~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lvplg~~~~v~g~i~~~~~vlV~lG~ 67 (120)
T PF02996_consen 7 NLQQQIEQLEEQIEEYEEAKETLEELKKEKKEHEILVPLGSGVFVPGKIPDTDKVLVSLGA 67 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTT--TT-EEEEEECTTEEEEEE-SSTTEEEEEEET
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCceeeecCCCCeEEEEEeCCCCEEEEEeeC
Confidence 3455555566666666666666666655 222221 2344445555555555553
No 98
>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain. Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.
Probab=24.62 E-value=3e+02 Score=23.74 Aligned_cols=19 Identities=26% Similarity=0.291 Sum_probs=9.9
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 030894 46 AKEEEIERKKVEVRDKVFA 64 (169)
Q Consensus 46 aKEEEIErkKmeVrekV~a 64 (169)
.||+=|.|-++.=-+|+.+
T Consensus 17 skeel~~rLR~~E~ek~~~ 35 (195)
T PF10226_consen 17 SKEELVRRLRRAEAEKMSL 35 (195)
T ss_pred CHHHHHHHHHHHHHHHHHH
Confidence 4555555555554444444
No 99
>cd07655 F-BAR_PACSIN The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins, also called Synaptic dynamin-associated proteins (Syndapins), act as regulators of cytoskeletal and membrane dynamics. They bind both dynamin and Wiskott-Aldrich syndrome protein (WASP), and may provide direct links between the actin cytoskeletal machinery through WASP and dynamin-dependent endocytosis. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSINs contain an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce
Probab=24.44 E-value=4.2e+02 Score=22.07 Aligned_cols=60 Identities=18% Similarity=0.330 Sum_probs=37.8
Q ss_pred HhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 030894 101 IDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVSESEKMRMKKLEE 160 (169)
Q Consensus 101 ID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~ESErlRmkKLEE 160 (169)
++.+...+.-..+++.+-+.+|..+|..+|.-+..=-+-+....+.+-+=|.-|+.-|-+
T Consensus 170 leK~~~k~~k~~~~~~~~~~~Y~~~l~~~n~~~~~y~~~m~~~~~~~Q~lEe~Ri~~lk~ 229 (258)
T cd07655 170 VKKLQDKVEKCKQEVSKTKDKYEKALEDLNKYNPRYMEDMEQVFDKCQEFEEKRLDFFKE 229 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444556788889999999999999988533334444444555555555554443
No 100
>TIGR01807 CM_P2 chorismate mutase domain of proteobacterial P-protein, clade 2. This model represents one of two separate clades of the chorismate mutase domain of the gamma and beta and epsilon proteobacterial "P-protein" which contains an N-terminal chorismate mutase domain and a C-terminal prephenate dehydratase domain. It is also found in Aquifex aolicus.
Probab=24.01 E-value=37 Score=23.31 Aligned_cols=31 Identities=26% Similarity=0.309 Sum_probs=20.7
Q ss_pred HHHHHHHhhhhhcccchhh---hHHhhHHHHHHH
Q 030894 95 SVVRKKIDTLNKELKPLGL---TCQRKEREYKEA 125 (169)
Q Consensus 95 ~~vRKkID~vNreLKpLg~---tcqKKEkEYKea 125 (169)
..+|..||.++++|=.|=. ...++--+||.+
T Consensus 2 ~~lR~~ID~iD~~iv~Ll~~R~~~~~~i~~~K~~ 35 (76)
T TIGR01807 2 EELRNKIDAIDDRILDLLSERATYAQAVGELKGS 35 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4689999999999876532 233444566655
No 101
>TIGR01808 CM_M_hiGC-arch monofunctional chorismate mutase, high GC gram positive type. This model represents the monofunctional chorismate mutase from high GC gram-positive bacteria and archaea. Trusted annotations from Corynebacterium and Pyrococcus are aparrently the sole chorismate mutase enzymes in their respective genomes. This is coupled with the presence in those genomes of the enzymes of the chorismate pathways both up- and downstream of chorismate mutase.
Probab=23.43 E-value=39 Score=23.64 Aligned_cols=33 Identities=21% Similarity=0.338 Sum_probs=21.3
Q ss_pred HHHHHHHHHhhhhhcccch-hh--hHHhhHHHHHHH
Q 030894 93 DVSVVRKKIDTLNKELKPL-GL--TCQRKEREYKEA 125 (169)
Q Consensus 93 EV~~vRKkID~vNreLKpL-g~--tcqKKEkEYKea 125 (169)
|+..+|..||.++++|--| ++ .|..+=-+||.+
T Consensus 1 ~l~~lR~~ID~ID~~ii~LL~~R~~~~~~i~~~K~~ 36 (74)
T TIGR01808 1 EIDTLREEIDRLDAEILALVKRRAEISQAIGKARMA 36 (74)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4677899999999998655 32 233444455543
No 102
>KOG0225 consensus Pyruvate dehydrogenase E1, alpha subunit [Energy production and conversion]
Probab=23.37 E-value=49 Score=31.01 Aligned_cols=41 Identities=29% Similarity=0.350 Sum_probs=29.2
Q ss_pred hccch-----hhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHH
Q 030894 85 TLADP-----LRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEA 125 (169)
Q Consensus 85 ~laDP-----~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKea 125 (169)
.|+|| +|-||..||.+=|-+-.-=+-|-..|.-.|.|.|..
T Consensus 293 SmSDPg~sYRtReEiq~vR~kRDPI~~lk~~li~~~late~ELKai 338 (394)
T KOG0225|consen 293 SMSDPGTSYRTREEIQEVRQKRDPIEGLKKRLIELGLATEEELKAI 338 (394)
T ss_pred ccCCCCcccchHHHHHHHHhccChHHHHHHHHHHhcccCHHHHHHH
Confidence 68999 799999999776655444444555666777777653
No 103
>TIGR01805 CM_mono_grmpos monofunctional chorismate mutase, gram positive-type, clade 2. This model represents a clade of chorismate mutase proteins/domains from gram positive species. The sequence from Enterococcus is fused to the C-terminus of an aparrent acetyltransferase, and the seuence from Clostridium acetobutylicum (but not perfringens) is fused to the N-terminus of shikimate-5-dehydrogenase, another enzyme of the chorismate pathway. All the other members of this clade are mono-functional. Members of this clade from Streptococcus and Lactococcus have been found which represent the sole chorismate mutase domain in their respective genomes which also exhibit evidence of the enzymes of both the upstream and downstream branches of the chorismate pathways.
Probab=23.34 E-value=33 Score=23.84 Aligned_cols=31 Identities=29% Similarity=0.418 Sum_probs=21.8
Q ss_pred HHHHHHHhhhhhcccchhh---hHHhhHHHHHHH
Q 030894 95 SVVRKKIDTLNKELKPLGL---TCQRKEREYKEA 125 (169)
Q Consensus 95 ~~vRKkID~vNreLKpLg~---tcqKKEkEYKea 125 (169)
+.+|+.||.++++|-.|=. .|..+=-.||.+
T Consensus 2 ~~lR~~Id~iD~~i~~Ll~~R~~~~~~i~~~K~~ 35 (81)
T TIGR01805 2 ELIRKKIDEIDDKLVVLFEERMEVVKEIAAYKKK 35 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4589999999999876632 355555666665
No 104
>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]
Probab=23.28 E-value=8.8e+02 Score=26.41 Aligned_cols=99 Identities=27% Similarity=0.343 Sum_probs=52.2
Q ss_pred hhHHHHhhHHHHHHHHhhccchhh--------HHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhh-------
Q 030894 68 RVEEATKRLSEIREELETLADPLR--------KDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDK------- 132 (169)
Q Consensus 68 RvEeetkrLa~IreELE~laDP~R--------KEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEK------- 132 (169)
..|+..|-|.++.+.|..-.+-.. .+...+--+....+.+++-|.--...++++.+.| ..+|..
T Consensus 462 ~~~~~~keL~e~i~~lk~~~~el~~~q~~l~q~~~ke~~ek~~~~~~~~~~l~~~~~~~~eele~~-q~~~~~~~~~~~k 540 (1317)
T KOG0612|consen 462 ELEEMDKELEETIEKLKSEESELQREQKALLQHEQKEVEEKLSEEEAKKRKLEALVRQLEEELEDA-QKKNDNAADSLEK 540 (1317)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhh
Confidence 444555555555554443333333 2222233334444444555555556666676666 555544
Q ss_pred -hHHHHHHHHHHHHHhhHHHH--HHHHHHHHHHhhhhh
Q 030894 133 -NKEKAQLVSKLMELVSESEK--MRMKKLEELSKNVEL 167 (169)
Q Consensus 133 -nkEKa~LV~~LmELv~ESEr--lRmkKLEELsK~ies 167 (169)
+...++|....-++++|++. -+-+...++++.|.+
T Consensus 541 v~~~rk~le~~~~d~~~e~~~~~kl~~~~~e~~~~iq~ 578 (1317)
T KOG0612|consen 541 VNSLRKQLEEAELDMRAESEDAGKLRKHSKELSKQIQQ 578 (1317)
T ss_pred HHHHHHHHHHhhhhhhhhHHHHhhHhhhhhhhhHHHHH
Confidence 35566777777778877762 223345566666654
No 105
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=23.28 E-value=3.4e+02 Score=21.16 Aligned_cols=64 Identities=23% Similarity=0.424 Sum_probs=37.7
Q ss_pred hhHHHHhhHHHHHHHHhhccchhhHHHHHHH---HHHhhhhhcccchhhhHHhhHHHHHHHHHHhhh
Q 030894 68 RVEEATKRLSEIREELETLADPLRKDVSVVR---KKIDTLNKELKPLGLTCQRKEREYKEALEAFND 131 (169)
Q Consensus 68 RvEeetkrLa~IreELE~laDP~RKEV~~vR---KkID~vNreLKpLg~tcqKKEkEYKeaLEAfNE 131 (169)
.+|.-++|+..+-+||+..-.-++-=...+| ++.|..-|..+-|.+....-|+.|-+.-.-|++
T Consensus 74 ~~E~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~~~ 140 (143)
T PF12718_consen 74 NAEQLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKYKE 140 (143)
T ss_pred hHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 3445566666666666655444433333333 666666666666666666666666666666654
No 106
>TIGR01803 CM-like chorismate mutase related enzymes. This subfamily includes two enzymes which are variants on the mechanism of chorismate mutase and are likely to have evolved from an ancestral chorismate mutase enzyme. 4-amino-4-deoxy-chorismate mutase produces amino-deoxy-prephenate which is subsequently converted to para-dimethylamino-phenylalanine, a component of the natural product pristinamycin. Isochorismate-pyruvate lyase presumably catalyzes the same type of 2+2+2 cyclo-rearrangement as chorismate mutase, but acting on isochorismate, this results in two broken bonds instead of one broken and one made. The product of this reaction is salicylate (2-hydroxy-benzoate) which is also incorporated into various natural products.
Probab=23.26 E-value=46 Score=23.24 Aligned_cols=31 Identities=23% Similarity=0.430 Sum_probs=19.7
Q ss_pred HHHHHHHhhhhhcccch-hhh--HHhhHHHHHHH
Q 030894 95 SVVRKKIDTLNKELKPL-GLT--CQRKEREYKEA 125 (169)
Q Consensus 95 ~~vRKkID~vNreLKpL-g~t--cqKKEkEYKea 125 (169)
+.+|++||.++++|=-| ++- |.++=-.||..
T Consensus 2 ~~lR~~ID~ID~~lv~Ll~~R~~~~~~ia~~K~~ 35 (82)
T TIGR01803 2 ADIREAIDRIDLALVQALGRRMDYVKRASEFKRS 35 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 46899999999998654 332 33334455543
No 107
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=23.20 E-value=7.8e+02 Score=24.80 Aligned_cols=70 Identities=24% Similarity=0.446 Sum_probs=38.2
Q ss_pred HHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHH---HHHHhhhhhHHHHHHHHHHHHHhhHHHHHHH
Q 030894 82 ELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKE---ALEAFNDKNKEKAQLVSKLMELVSESEKMRM 155 (169)
Q Consensus 82 ELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKe---aLEAfNEKnkEKa~LV~~LmELv~ESErlRm 155 (169)
+|+..-+-|++|+.+++.+.+..-+++. .-..+.+||.. -.+..+-+-.||..-|..|-.=+.+-.++|+
T Consensus 440 ~L~~~~ee~k~eie~L~~~l~~~~r~~~----~~~~~~rei~~~~~~I~~L~~~L~e~~~~ve~L~~~l~~l~k~~~ 512 (652)
T COG2433 440 ELKRELEELKREIEKLESELERFRREVR----DKVRKDREIRARDRRIERLEKELEEKKKRVEELERKLAELRKMRK 512 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444444556888888888888888877 33455666542 2223333334444444444443334444444
No 108
>TIGR01799 CM_T chorismate mutase domain of T-protein. This model represents the chorismate mutase domain of the gamma proteobacterial "T-protein" which consists of an N-terminal chorismate mutase domain and a C-terminal prephenate dehydrogenase domain.
Probab=23.11 E-value=34 Score=23.97 Aligned_cols=45 Identities=24% Similarity=0.217 Sum_probs=29.1
Q ss_pred HHHHHHHhhhhhcccchh-h--hHHhhHHHHHHHHH-HhhhhhHHHHHH
Q 030894 95 SVVRKKIDTLNKELKPLG-L--TCQRKEREYKEALE-AFNDKNKEKAQL 139 (169)
Q Consensus 95 ~~vRKkID~vNreLKpLg-~--tcqKKEkEYKeaLE-AfNEKnkEKa~L 139 (169)
..+|+.||.++++|-.|= + .|..+--+||.+.- +.....+|+..+
T Consensus 2 ~~lR~~ID~ID~~il~Ll~~R~~~~~~ia~~K~~~~~~v~d~~RE~~vl 50 (83)
T TIGR01799 2 EDLRGEIDGVDQELLHLLAKRLELVAQVGKVKHAAGLPIYAPEREAAML 50 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHH
Confidence 468999999999987663 2 35566677776532 344455555443
No 109
>TIGR02135 phoU_full phosphate transport system regulatory protein PhoU. This model describes PhoU, a regulatory protein of unknown mechanism for high-affinity phosphate ABC transporter systems. The protein consists of two copies of the domain described by Pfam model pfam01895. Deletion of PhoU activates constitutive expression of the phosphate ABC transporter and allows phosphate transport, but causes a growth defect and so likely has some second function.
Probab=22.95 E-value=3.2e+02 Score=20.18 Aligned_cols=95 Identities=20% Similarity=0.269 Sum_probs=60.5
Q ss_pred HHhhHhhHHHHHHHHHHHHHHHHHHhch---hHHHHhhH---HHHHHHHhhccchhhHHHHHHHHHH-----hhhhhccc
Q 030894 41 LALFRAKEEEIERKKVEVRDKVFAQLGR---VEEATKRL---SEIREELETLADPLRKDVSVVRKKI-----DTLNKELK 109 (169)
Q Consensus 41 ls~F~aKEEEIErkKmeVrekV~aqLGR---vEeetkrL---a~IreELE~laDP~RKEV~~vRKkI-----D~vNreLK 109 (169)
+......|++|.+...++...+-..+.+ .....+++ -.|--.||.+||=...=+..+.+.. +.+-++|.
T Consensus 40 ~~~i~~~e~~id~l~~~i~~~~l~~i~~~~~~~~~~~~~~~~~~i~~~lErigD~~~~ia~~~~~~~~~~~~~~~~~el~ 119 (212)
T TIGR02135 40 ARKVIEDDDQINALEVKIEEKCLRLIALQQPVAKDLRLIISIIKISSDLERIGDYAVNIAKRALRLKEEDAKPKHLEELE 119 (212)
T ss_pred HHHHHHChHHHHHHHHHHHHHHHHHHHHhCccHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCccHHHHH
Confidence 3455667888888888887765555443 22333333 3555799999998665333333322 45567777
Q ss_pred chhhhHHhhHHHHHHHHHHhhhhhHHHHH
Q 030894 110 PLGLTCQRKEREYKEALEAFNDKNKEKAQ 138 (169)
Q Consensus 110 pLg~tcqKKEkEYKeaLEAfNEKnkEKa~ 138 (169)
.++..|.+ -+..|.++|...+...+.
T Consensus 120 ~m~~~v~~---~l~~a~~al~~~d~~~~~ 145 (212)
T TIGR02135 120 KMGKLALK---MLKDALDAFLNKDAELAR 145 (212)
T ss_pred HHHHHHHH---HHHHHHHHHHhCCHHHHH
Confidence 88777765 677788888766665554
No 110
>cd07617 BAR_Endophilin_B2 The Bin/Amphiphysin/Rvs (BAR) domain of Endophilin-B2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Endophilins play roles in synaptic vesicle formation, virus budding, mitochondrial morphology maintenance, receptor-mediated endocytosis inhibition, and endosomal sorting. Endophilins contain an N-terminal N-BAR domain (BAR domain with an additional N-terminal amphipathic helix), followed by a variable region containing proline clusters, and a C-terminal SH3 domain. They are classified into two types, A and B. Vertebrates contain two endophilin-B isoforms. Endophilin-B proteins are cytoplasmic proteins expressed mainly in the heart, placenta, and skeletal muscle. Endophilin-B2, also called SH3GLB2 (SH3-domain GRB2-like endophilin B2), is a cytoplasmic protein that interacts with the apoptosis inducer Bax. It is overexpressed in prostate cancer metastasis and has been identified
Probab=22.67 E-value=4.9e+02 Score=22.28 Aligned_cols=85 Identities=24% Similarity=0.352 Sum_probs=46.7
Q ss_pred HHHhhHHHHHHHHhhcc-----chhh-------HHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHHHH
Q 030894 71 EATKRLSEIREELETLA-----DPLR-------KDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEKAQ 138 (169)
Q Consensus 71 eetkrLa~IreELE~la-----DP~R-------KEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEKa~ 138 (169)
+.-+||+.++..+..-+ +|++ |++..-||++...==++----..-.|-+.|.+.|-+-|.+ ++|
T Consensus 100 ~a~~~ia~~~~~~~~~v~~~fl~pL~~~l~~dlk~i~k~RKkLe~rRLd~D~~K~r~~kae~elr~A~~kf~~-~~E--- 175 (220)
T cd07617 100 ETQKRLGAAERDFIHTSSINFLTPLRNFLEGDWKTISKERRLLQNRRLDLDACKARLKKAEHELRVAQTEFDR-QAE--- 175 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH-HHH---
Confidence 44456666666654433 5555 5777788887632111111111111127799999999987 444
Q ss_pred HHHHHHHHhhHHHHHHHHHHH
Q 030894 139 LVSKLMELVSESEKMRMKKLE 159 (169)
Q Consensus 139 LV~~LmELv~ESErlRmkKLE 159 (169)
+-..+|.-|.+++=--+.-|-
T Consensus 176 ~a~~~M~~il~~~~e~l~~L~ 196 (220)
T cd07617 176 VTRLLLEGISSTHVNHLRCLH 196 (220)
T ss_pred HHHHHHHHHHhcChHHHHHHH
Confidence 234468877777533333333
No 111
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=22.26 E-value=94 Score=21.79 Aligned_cols=21 Identities=5% Similarity=0.422 Sum_probs=12.2
Q ss_pred chhhHHHHHHHHHHhhhhhcc
Q 030894 88 DPLRKDVSVVRKKIDTLNKEL 108 (169)
Q Consensus 88 DP~RKEV~~vRKkID~vNreL 108 (169)
+-.|+|...||+-|+.+|.-+
T Consensus 17 ~tvk~en~~i~~~ve~i~env 37 (55)
T PF05377_consen 17 NTVKKENEEISESVEKIEENV 37 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 445566666666666665544
No 112
>PRK10622 pheA bifunctional chorismate mutase/prephenate dehydratase; Provisional
Probab=22.15 E-value=54 Score=29.39 Aligned_cols=20 Identities=25% Similarity=0.413 Sum_probs=15.1
Q ss_pred hhHHHHHHHHHHhhhhhccc
Q 030894 90 LRKDVSVVRKKIDTLNKELK 109 (169)
Q Consensus 90 ~RKEV~~vRKkID~vNreLK 109 (169)
+.++++.+|+.||.++++|=
T Consensus 3 ~~~~L~~lR~~ID~ID~~ii 22 (386)
T PRK10622 3 SENPLLALREKISALDEKLL 22 (386)
T ss_pred chhHHHHHHHHHHHHHHHHH
Confidence 45677788888888888764
No 113
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=22.13 E-value=3.2e+02 Score=19.89 Aligned_cols=54 Identities=20% Similarity=0.384 Sum_probs=28.0
Q ss_pred HHHHHHhhccchhhHHHHHHHHHHhhhhhcccch------------hhhHHhhHHHHHHHHHHhhh
Q 030894 78 EIREELETLADPLRKDVSVVRKKIDTLNKELKPL------------GLTCQRKEREYKEALEAFND 131 (169)
Q Consensus 78 ~IreELE~laDP~RKEV~~vRKkID~vNreLKpL------------g~tcqKKEkEYKeaLEAfNE 131 (169)
.++..|+.+.+-+.+=+..++.+|..+...-..+ -..+.+=-+.+++++..||.
T Consensus 41 ~~~~~l~~~~~~~~~~~~~ik~~lk~l~~~~~~~~~~~~s~~~r~~~~q~~~L~~~f~~~m~~fq~ 106 (151)
T cd00179 41 ELKQELESLVQEIKKLAKEIKGKLKELEESNEQNEALNGSSVDRIRKTQHSGLSKKFVEVMTEFNK 106 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666655555555555555544332111 12233345566777777664
No 114
>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]
Probab=22.09 E-value=1e+03 Score=25.69 Aligned_cols=109 Identities=23% Similarity=0.344 Sum_probs=0.0
Q ss_pred HHHHHHhchhHHHHhhHHHHHHHHhhccchhhH--------HHHHHHHH------Hhhhhhc--------------ccch
Q 030894 60 DKVFAQLGRVEEATKRLSEIREELETLADPLRK--------DVSVVRKK------IDTLNKE--------------LKPL 111 (169)
Q Consensus 60 ekV~aqLGRvEeetkrLa~IreELE~laDP~RK--------EV~~vRKk------ID~vNre--------------LKpL 111 (169)
+.+-.+|..|+++..+|..=--||+...--+|. +-.++.|| |+.++.+ |.-+
T Consensus 254 ~~~~~~~~~~~d~~~~~~~~i~ele~~l~~l~~ekeq~~a~~t~~~k~kt~lel~~kdlq~~i~~n~q~r~~~l~~l~~~ 333 (1200)
T KOG0964|consen 254 EQYIDALDKVEDESEDLKCEIKELENKLTNLREEKEQLKARETKISKKKTKLELKIKDLQDQITGNEQQRNLALHVLQKV 333 (1200)
T ss_pred hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhhhhHHHHHHHH
Q ss_pred hhhHHhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHhh-------------------HHHHHHHHHHHHHHhhhhhc
Q 030894 112 GLTCQRKEREYKEALEAFNDKNKEKAQLVSKLMELVS-------------------ESEKMRMKKLEELSKNVELL 168 (169)
Q Consensus 112 g~tcqKKEkEYKeaLEAfNEKnkEKa~LV~~LmELv~-------------------ESErlRmkKLEELsK~iesl 168 (169)
+.--+.++.|..+++--||.--.+-..+..+|+.|-. |-+.-=.+-++.|+..|.+.
T Consensus 334 ~~ki~e~~~EL~~I~Pky~~l~~ee~~~~~rl~~l~~~~~~l~~Kqgr~sqFssk~eRDkwir~ei~~l~~~i~~~ 409 (1200)
T KOG0964|consen 334 KDKIEEKKDELSKIEPKYNSLVDEEKRLKKRLAKLEQKQRDLLAKQGRYSQFSSKEERDKWIRSEIEKLKRGINDT 409 (1200)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccccccCcHHHHHHHHHHHHHHHHHHHhhh
No 115
>PF06216 RTBV_P46: Rice tungro bacilliform virus P46 protein; InterPro: IPR009347 This family consists of several Rice tungro bacilliform virus P46 proteins. The function of this family is unknown.
Probab=22.07 E-value=1.8e+02 Score=26.87 Aligned_cols=48 Identities=29% Similarity=0.370 Sum_probs=38.8
Q ss_pred HhhHHHHHHHHHH---HHHHHHHHhchhHHHHhhHHHHHHHHhhccchhhH
Q 030894 45 RAKEEEIERKKVE---VRDKVFAQLGRVEEATKRLSEIREELETLADPLRK 92 (169)
Q Consensus 45 ~aKEEEIErkKme---VrekV~aqLGRvEeetkrLa~IreELE~laDP~RK 92 (169)
--+|-||+--+.| +||.|-----.+++--.||+..|+-||||-.|..|
T Consensus 67 y~~e~e~~sy~~e~~~l~~qvs~l~~~~~~~r~~~~~~~~~~eglrep~kk 117 (389)
T PF06216_consen 67 YNKEFERQSYSNEWISLNDQVSHLQHQNSEQRQQIREMREIIEGLREPVKK 117 (389)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcC
Confidence 3577888887766 57777666667888889999999999999999865
No 116
>smart00498 FH2 Formin Homology 2 Domain. FH proteins control rearrangements of the actin cytoskeleton, especially in the context of cytokinesis and cell polarisation. Members of this family have been found to interact with Rho-GTPases, profilin and other actin-assoziated proteins. These interactions are mediated by the proline-rich FH1 domain, usually located in front of FH2 (but not listed in SMART). Despite this cytosolic function, vertebrate formins have been assigned functions within the nucleus. A set of Formin-Binding Proteins (FBPs) has been shown to bind FH1 with their WW domain.
Probab=20.93 E-value=6e+02 Score=22.62 Aligned_cols=55 Identities=16% Similarity=0.346 Sum_probs=38.3
Q ss_pred HHHhhccchhhHH---HHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHH
Q 030894 81 EELETLADPLRKD---VSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKE 135 (169)
Q Consensus 81 eELE~laDP~RKE---V~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkE 135 (169)
.++.++.+|.--. ...+.-=++.+..++.-|...|.+=+..|+.+++.|.|..+.
T Consensus 296 ~~~~~l~~~~~~~d~f~~~m~~F~~~a~~~~~~l~~~~~~~~~~~~~~~~yfge~~~~ 353 (432)
T smart00498 296 TDLGGLSDPENLDDKFIEVMKPFLKAAKEKYDKLQKDLSDLKTRFEKLVEYYGEDPKD 353 (432)
T ss_pred HHHHhcCCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Confidence 4556666554111 122333377788888888899999999999999999886663
No 117
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=20.73 E-value=1.7e+02 Score=23.80 Aligned_cols=42 Identities=17% Similarity=0.332 Sum_probs=19.9
Q ss_pred HHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHH
Q 030894 81 EELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREY 122 (169)
Q Consensus 81 eELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEY 122 (169)
+++=..++-.|+|...+++-++.|..++.-.-.-|-+=++.|
T Consensus 16 ~qIf~I~E~~R~E~~~l~~EL~evk~~v~~~I~evD~Le~~e 57 (159)
T PF05384_consen 16 EQIFEIAEQARQEYERLRKELEEVKEEVSEVIEEVDKLEKRE 57 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555555555555555555444444443333333
No 118
>PRK12595 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed
Probab=20.64 E-value=61 Score=28.85 Aligned_cols=22 Identities=32% Similarity=0.585 Sum_probs=15.6
Q ss_pred hhHHHHHHHHHHhhhhhcccch
Q 030894 90 LRKDVSVVRKKIDTLNKELKPL 111 (169)
Q Consensus 90 ~RKEV~~vRKkID~vNreLKpL 111 (169)
|..++..+|+.||.++++|=-|
T Consensus 2 ~~~~L~~lR~~ID~ID~eIl~L 23 (360)
T PRK12595 2 MNEELEQLRKEIDEINLQLLEL 23 (360)
T ss_pred chhHHHHHHHHHHHHHHHHHHH
Confidence 4456777888888888887543
No 119
>PRK09239 chorismate mutase; Provisional
Probab=20.62 E-value=63 Score=24.14 Aligned_cols=33 Identities=18% Similarity=0.356 Sum_probs=21.6
Q ss_pred HHHHHHHHHhhhhhcccchh-h--hHHhhHHHHHHH
Q 030894 93 DVSVVRKKIDTLNKELKPLG-L--TCQRKEREYKEA 125 (169)
Q Consensus 93 EV~~vRKkID~vNreLKpLg-~--tcqKKEkEYKea 125 (169)
.+..+|+.||.++++|=.|= + .|.++--+||-+
T Consensus 11 ~L~~lR~~ID~ID~eIv~LLa~R~~l~~~Ia~~K~~ 46 (104)
T PRK09239 11 ELAALRQSIDNIDAALIHMLAERFKCTQAVGVLKAE 46 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778999999999986542 2 234444555543
No 120
>cd00176 SPEC Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; the repeats are independent folding units; tandem repeats are found in differing numbers and arrange in an antiparallel manner to form dimers; the repeats are defined by a characteristic tryptophan (W) residue in helix A and a leucine (L) at the carboxyl end of helix C and separated by a linker of 5 residues; two copies of the repeat are present here
Probab=20.61 E-value=3.3e+02 Score=19.43 Aligned_cols=37 Identities=19% Similarity=0.409 Sum_probs=29.1
Q ss_pred HHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHH
Q 030894 92 KDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEA 128 (169)
Q Consensus 92 KEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEA 128 (169)
-+...|..++|.+|..-.-|.+.|..+......+++.
T Consensus 72 ~~~~~i~~~~~~l~~~w~~l~~~~~~r~~~L~~~~~~ 108 (213)
T cd00176 72 PDAEEIQERLEELNQRWEELRELAEERRQRLEEALDL 108 (213)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567788888888888888888888888888777653
No 121
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=20.53 E-value=6.2e+02 Score=22.61 Aligned_cols=31 Identities=26% Similarity=0.300 Sum_probs=17.3
Q ss_pred HhhHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Q 030894 116 QRKEREYKEALEAFNDKNKEKAQLVSKLMEL 146 (169)
Q Consensus 116 qKKEkEYKeaLEAfNEKnkEKa~LV~~LmEL 146 (169)
.++...|+.....|+..+.+-..|-..+.+|
T Consensus 371 ~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~l 401 (451)
T PF03961_consen 371 PEKKEQLKKLKEKKKELKEELKELKEELKEL 401 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666666665555555555554443
No 122
>PF05769 DUF837: Protein of unknown function (DUF837); InterPro: IPR008555 This family consists of several eukaryotic proteins of unknown function. One of the family members (O02197 from SWISSPROT) is a circulating cathodic antigen (CCA) found in Schistosoma mansoni (Blood fluke) [].
Probab=20.48 E-value=4.8e+02 Score=21.32 Aligned_cols=70 Identities=26% Similarity=0.463 Sum_probs=46.9
Q ss_pred HHHHhhHHHHHHHHhhccchhhHHHHHHHHHHhhhhhcccchhhhHHhhHHHHHHHHHHhhhhhHHH--HHH---HHHHH
Q 030894 70 EEATKRLSEIREELETLADPLRKDVSVVRKKIDTLNKELKPLGLTCQRKEREYKEALEAFNDKNKEK--AQL---VSKLM 144 (169)
Q Consensus 70 EeetkrLa~IreELE~laDP~RKEV~~vRKkID~vNreLKpLg~tcqKKEkEYKeaLEAfNEKnkEK--a~L---V~~Lm 144 (169)
=..+++|..--.+.+..||-+..+...+.++|...+ .|.+.+...|+-.+.+ +.+ -..+.
T Consensus 9 l~dak~L~~rL~~~d~~ad~Ll~qa~~l~~~i~sm~---------------~y~eei~~l~~~~~~~~~~~l~~En~qi~ 73 (181)
T PF05769_consen 9 LADAKRLVERLKDHDNAADSLLSQAEALNKQIESMR---------------QYQEEIQELNELSKNRPRAGLQQENRQIR 73 (181)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHhhcccchhHHHhhHHHH
Confidence 346778888788899999999999999999998665 5666666666543322 111 12345
Q ss_pred HHhhHHHHHH
Q 030894 145 ELVSESEKMR 154 (169)
Q Consensus 145 ELv~ESErlR 154 (169)
+|..|.--||
T Consensus 74 ~Lq~EN~eL~ 83 (181)
T PF05769_consen 74 QLQQENRELR 83 (181)
T ss_pred HHHHHHHHHH
Confidence 5656655555
No 123
>PRK01433 hscA chaperone protein HscA; Provisional
Probab=20.03 E-value=6.1e+02 Score=23.95 Aligned_cols=23 Identities=17% Similarity=-0.051 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHhchhH
Q 030894 48 EEEIERKKVEVRDKVFAQLGRVE 70 (169)
Q Consensus 48 EEEIErkKmeVrekV~aqLGRvE 70 (169)
+....+.+.+.+.+...-+-+++
T Consensus 500 ~d~~~~~~~~~~~~~~~~~~~~~ 522 (595)
T PRK01433 500 IDYTTRLLQEAVIEAEALIFNIE 522 (595)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444443333
No 124
>PHA01750 hypothetical protein
Probab=20.03 E-value=62 Score=24.21 Aligned_cols=26 Identities=19% Similarity=0.441 Sum_probs=18.3
Q ss_pred chhhHHHHHHHHHHhhhhhcccchhh
Q 030894 88 DPLRKDVSVVRKKIDTLNKELKPLGL 113 (169)
Q Consensus 88 DP~RKEV~~vRKkID~vNreLKpLg~ 113 (169)
|-.|+|+..+.+|+|.+-++++-+..
T Consensus 45 dNL~~ei~~~kikqDnl~~qv~eik~ 70 (75)
T PHA01750 45 DNLKTEIEELKIKQDELSRQVEEIKR 70 (75)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 45677888888888887666655543
Done!