Query 011110
Match_columns 493
No_of_seqs 95 out of 97
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 08:13:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011110.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011110hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1881 Anion exchanger adapto 100.0 1.7E-51 3.8E-56 441.0 19.8 450 1-493 321-793 (793)
2 PRK11637 AmiB activator; Provi 92.6 1.4 3E-05 46.6 11.8 21 211-231 230-250 (428)
3 PRK11546 zraP zinc resistance 79.6 17 0.00036 34.4 9.5 78 18-98 37-118 (143)
4 PF04420 CHD5: CHD5-like prote 72.5 12 0.00025 35.2 6.6 47 39-94 45-91 (161)
5 COG3883 Uncharacterized protei 68.0 20 0.00043 37.0 7.5 56 40-95 44-99 (265)
6 KOG0996 Structural maintenance 66.0 49 0.0011 40.4 11.1 78 28-106 399-476 (1293)
7 KOG4253 Tryptophan-rich basic 63.8 20 0.00044 34.7 6.3 56 23-87 33-88 (175)
8 PF03961 DUF342: Protein of un 59.4 57 0.0012 35.0 9.4 66 27-93 334-399 (451)
9 KOG0996 Structural maintenance 58.8 70 0.0015 39.2 10.6 76 27-102 857-940 (1293)
10 PF10458 Val_tRNA-synt_C: Valy 58.6 34 0.00073 27.6 5.9 57 37-93 6-63 (66)
11 COG1579 Zn-ribbon protein, pos 58.5 1.6E+02 0.0034 30.1 11.8 57 36-92 5-61 (239)
12 COG3074 Uncharacterized protei 58.2 70 0.0015 27.5 7.7 65 30-94 7-71 (79)
13 PF10174 Cast: RIM-binding pro 57.2 1.4E+02 0.0031 35.1 12.6 64 30-93 325-388 (775)
14 PF12329 TMF_DNA_bd: TATA elem 56.2 64 0.0014 27.0 7.3 60 33-92 4-63 (74)
15 PHA02562 46 endonuclease subun 53.3 2.1E+02 0.0045 30.9 12.5 26 148-173 298-323 (562)
16 PRK11637 AmiB activator; Provi 50.6 59 0.0013 34.6 7.8 35 195-229 219-255 (428)
17 PF08826 DMPK_coil: DMPK coile 47.5 30 0.00065 28.4 3.9 44 52-95 9-58 (61)
18 PF12718 Tropomyosin_1: Tropom 46.9 89 0.0019 29.1 7.4 70 27-96 28-100 (143)
19 KOG2991 Splicing regulator [RN 44.0 66 0.0014 33.7 6.6 150 69-236 136-307 (330)
20 PF11932 DUF3450: Protein of u 43.6 1.2E+02 0.0027 29.9 8.4 66 30-95 45-110 (251)
21 cd07595 BAR_RhoGAP_Rich-like T 43.5 55 0.0012 33.0 6.0 74 23-101 110-183 (244)
22 KOG0250 DNA repair protein RAD 43.4 5.6E+02 0.012 31.6 14.7 68 30-98 284-352 (1074)
23 PRK06342 transcription elongat 42.8 48 0.001 31.5 5.1 49 35-88 35-83 (160)
24 cd07599 BAR_Rvs167p The Bin/Am 40.9 2.1E+02 0.0046 27.5 9.3 66 31-96 107-176 (216)
25 PRK09458 pspB phage shock prot 40.5 58 0.0013 28.0 4.7 39 54-92 27-65 (75)
26 TIGR00606 rad50 rad50. This fa 40.0 4.5E+02 0.0097 32.4 13.7 29 210-238 504-532 (1311)
27 TIGR00606 rad50 rad50. This fa 39.6 1.6E+02 0.0035 36.0 10.0 20 212-231 1026-1045(1311)
28 PF10234 Cluap1: Clusterin-ass 38.8 1.1E+02 0.0023 31.8 7.2 61 34-94 169-236 (267)
29 PTZ00419 valyl-tRNA synthetase 38.5 92 0.002 37.1 7.6 61 31-94 929-989 (995)
30 PLN02943 aminoacyl-tRNA ligase 38.4 95 0.0021 37.0 7.7 52 43-94 898-949 (958)
31 PF06005 DUF904: Protein of un 37.8 2.2E+02 0.0047 24.0 7.7 58 30-94 7-64 (72)
32 PRK05729 valS valyl-tRNA synth 37.1 1E+02 0.0022 36.2 7.5 61 31-94 811-871 (874)
33 COG5509 Uncharacterized small 36.8 51 0.0011 27.5 3.7 24 71-94 27-50 (65)
34 TIGR02169 SMC_prok_A chromosom 35.8 7.3E+02 0.016 29.1 14.0 22 71-92 800-821 (1164)
35 PF00435 Spectrin: Spectrin re 35.1 2.2E+02 0.0048 22.3 7.7 67 145-230 30-96 (105)
36 PF06667 PspB: Phage shock pro 34.7 1E+02 0.0022 26.3 5.3 39 54-92 27-65 (75)
37 PRK09039 hypothetical protein; 33.8 1.7E+02 0.0036 30.9 7.9 23 34-56 130-152 (343)
38 PF09726 Macoilin: Transmembra 33.6 5.5E+02 0.012 30.0 12.5 55 148-202 537-598 (697)
39 TIGR02976 phageshock_pspB phag 33.0 1.1E+02 0.0024 26.0 5.3 39 54-92 27-65 (75)
40 PRK01885 greB transcription el 32.7 1.3E+02 0.0029 28.3 6.3 56 33-88 12-73 (157)
41 KOG0517 Beta-spectrin [Cytoske 32.7 4.1E+02 0.0088 35.0 11.6 123 37-173 987-1114(2473)
42 PRK15422 septal ring assembly 32.3 2.2E+02 0.0048 24.8 6.9 65 30-94 7-71 (79)
43 PF02403 Seryl_tRNA_N: Seryl-t 32.2 3.3E+02 0.007 23.4 9.8 67 30-96 32-101 (108)
44 PF00038 Filament: Intermediat 31.5 2E+02 0.0043 28.9 7.7 68 30-97 212-283 (312)
45 PF13805 Pil1: Eisosome compon 31.0 1.2E+02 0.0026 31.6 6.1 54 43-104 147-204 (271)
46 TIGR01462 greA transcription e 30.6 1.4E+02 0.003 27.7 6.0 57 34-90 8-70 (151)
47 PF10018 Med4: Vitamin-D-recep 30.5 83 0.0018 30.1 4.7 35 69-103 22-56 (188)
48 PLN02381 valyl-tRNA synthetase 30.3 1.5E+02 0.0033 35.9 7.7 61 31-94 997-1057(1066)
49 cd07618 BAR_Rich1 The Bin/Amph 30.3 1.1E+02 0.0023 31.3 5.5 75 20-97 107-181 (246)
50 cd07619 BAR_Rich2 The Bin/Amph 30.2 58 0.0013 33.3 3.7 74 21-95 108-181 (248)
51 PF10779 XhlA: Haemolysin XhlA 30.1 3.1E+02 0.0067 22.4 8.7 33 70-102 28-60 (71)
52 TIGR03825 FliH_bacil flagellar 29.6 2.5E+02 0.0054 28.1 8.0 47 43-89 75-124 (255)
53 PRK02224 chromosome segregatio 29.5 6.7E+02 0.014 29.0 12.3 25 210-234 422-446 (880)
54 PRK09039 hypothetical protein; 29.2 4.3E+02 0.0092 27.9 10.0 70 30-106 140-213 (343)
55 COG2916 Hns DNA-binding protei 28.8 42 0.0009 31.4 2.2 32 449-486 78-109 (128)
56 PF07813 LTXXQ: LTXXQ motif fa 27.9 1.8E+02 0.0039 23.7 5.7 70 24-99 14-87 (100)
57 PRK10947 global DNA-binding tr 27.9 54 0.0012 30.6 2.8 29 452-486 88-116 (135)
58 PF10498 IFT57: Intra-flagella 27.8 7.9E+02 0.017 26.4 13.3 54 37-100 219-272 (359)
59 PF04568 IATP: Mitochondrial A 27.8 1.1E+02 0.0023 27.5 4.5 16 78-93 85-100 (100)
60 TIGR03185 DNA_S_dndD DNA sulfu 27.7 2.7E+02 0.0058 31.5 8.7 49 43-94 232-287 (650)
61 KOG4673 Transcription factor T 27.6 2.3E+02 0.005 33.5 8.1 63 68-134 345-412 (961)
62 PF13801 Metal_resist: Heavy-m 27.2 3.5E+02 0.0077 22.2 9.3 75 17-98 34-109 (125)
63 PF02994 Transposase_22: L1 tr 26.1 93 0.002 33.1 4.5 52 42-93 106-168 (370)
64 PF10779 XhlA: Haemolysin XhlA 25.7 2.3E+02 0.0049 23.2 5.8 28 67-94 18-45 (71)
65 KOG4325 Uncharacterized conser 25.7 1.8E+02 0.004 28.7 6.0 47 42-89 163-211 (212)
66 PRK05892 nucleoside diphosphat 25.6 4.4E+02 0.0095 25.0 8.4 57 32-88 12-73 (158)
67 PF02050 FliJ: Flagellar FliJ 25.5 3.8E+02 0.0082 22.0 8.6 69 34-102 12-85 (123)
68 PF13851 GAS: Growth-arrest sp 25.4 2.4E+02 0.0051 27.7 6.8 55 38-92 24-78 (201)
69 PRK02224 chromosome segregatio 25.2 1.1E+03 0.024 27.3 15.1 19 151-169 574-592 (880)
70 TIGR02168 SMC_prok_B chromosom 25.2 6.7E+02 0.015 29.1 11.4 18 212-229 466-483 (1179)
71 PF07798 DUF1640: Protein of u 25.0 4.3E+02 0.0093 25.0 8.3 32 66-97 70-101 (177)
72 PF14257 DUF4349: Domain of un 24.9 2.5E+02 0.0055 27.8 7.1 58 32-94 130-187 (262)
73 COG3937 Uncharacterized conser 24.9 3.7E+02 0.0081 24.7 7.4 32 61-92 75-106 (108)
74 PF13851 GAS: Growth-arrest sp 24.6 4.4E+02 0.0096 25.8 8.6 30 68-97 106-135 (201)
75 PF12718 Tropomyosin_1: Tropom 24.4 1E+02 0.0023 28.6 4.0 25 151-175 75-99 (143)
76 PF06273 eIF-4B: Plant specifi 24.4 44 0.00095 37.3 1.8 78 16-98 346-425 (492)
77 PF06698 DUF1192: Protein of u 24.4 1.3E+02 0.0028 24.7 4.1 25 71-95 23-47 (59)
78 KOG0432 Valyl-tRNA synthetase 24.1 2.4E+02 0.0051 34.1 7.5 59 31-92 930-988 (995)
79 PF04977 DivIC: Septum formati 23.8 2E+02 0.0044 22.7 5.1 34 69-102 31-67 (80)
80 COG1196 Smc Chromosome segrega 23.8 1.3E+03 0.027 28.3 13.7 8 350-357 597-604 (1163)
81 PRK04863 mukB cell division pr 23.1 5.8E+02 0.013 32.5 10.9 43 191-233 493-542 (1486)
82 PRK14127 cell division protein 22.8 1.1E+02 0.0023 27.9 3.6 40 189-228 24-65 (109)
83 cd07620 BAR_SH3BP1 The Bin/Amp 22.7 1.1E+02 0.0024 31.7 4.1 78 19-97 106-192 (257)
84 PF05667 DUF812: Protein of un 22.5 2.4E+02 0.0051 32.3 7.1 82 16-97 415-533 (594)
85 KOG0804 Cytoplasmic Zn-finger 22.5 3.1E+02 0.0068 30.8 7.7 25 72-96 424-448 (493)
86 TIGR03752 conj_TIGR03752 integ 22.4 3.4E+02 0.0074 30.5 8.0 41 17-61 60-100 (472)
87 KOG0804 Cytoplasmic Zn-finger 22.3 4.5E+02 0.0098 29.6 8.8 76 19-94 323-400 (493)
88 PF15070 GOLGA2L5: Putative go 21.9 3.2E+02 0.0069 31.5 7.9 79 16-94 25-105 (617)
89 COG3883 Uncharacterized protei 21.6 4.9E+02 0.011 27.1 8.5 33 68-100 79-111 (265)
90 KOG2391 Vacuolar sorting prote 21.1 3.1E+02 0.0067 29.8 7.1 60 32-94 215-278 (365)
91 TIGR01461 greB transcription e 20.5 3.1E+02 0.0066 25.9 6.3 56 33-88 10-71 (156)
92 PF04977 DivIC: Septum formati 20.5 2E+02 0.0044 22.7 4.5 26 69-94 24-49 (80)
93 COG3839 MalK ABC-type sugar tr 20.5 76 0.0016 33.7 2.6 43 60-102 131-178 (338)
94 PF06401 Alpha-2-MRAP_C: Alpha 20.4 9.1E+02 0.02 24.5 10.7 75 22-96 123-206 (214)
95 COG1317 FliH Flagellar biosynt 20.4 4.7E+02 0.01 26.2 8.0 37 61-97 78-120 (234)
96 PRK10884 SH3 domain-containing 20.3 3.7E+02 0.0079 26.7 7.1 14 78-91 148-161 (206)
97 PF10186 Atg14: UV radiation r 20.3 3.8E+02 0.0083 26.1 7.2 70 25-94 18-95 (302)
98 PRK14900 valS valyl-tRNA synth 20.2 2.7E+02 0.0058 33.8 7.2 52 43-94 851-902 (1052)
99 PRK00226 greA transcription el 20.1 2.7E+02 0.0058 25.8 5.8 41 49-89 29-74 (157)
100 PF08317 Spc7: Spc7 kinetochor 20.1 4.2E+02 0.0092 27.5 7.8 69 151-231 179-247 (325)
No 1
>KOG1881 consensus Anion exchanger adaptor protein Kanadaptin, contains FHA domain [General function prediction only]
Probab=100.00 E-value=1.7e-51 Score=441.01 Aligned_cols=450 Identities=24% Similarity=0.244 Sum_probs=343.8
Q ss_pred CCccccccccccccchhhccccCCCCHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhh-cccCCCchhHHHHHHHHHHHHH
Q 011110 1 MGEDAIEEAEDEDDAVTWQTYKGQLTEKQEKTREKVIKRTQKIAHMKREIDLIRAKD-ISQGGLTQGQQTQIARNEQRIA 79 (493)
Q Consensus 1 ~geda~ee~edd~de~~wq~y~g~ltekQqk~~eki~kr~~Ki~nmk~EidrIraKe-~~~~GLtqGQqtqi~RNEqri~ 79 (493)
|||||++++.++.+.+.|++|.+-.|..| .....+++|.+++..+...--.++++. ..++++.+++.++++|+.++-.
T Consensus 321 mgeDa~ed~~~e~et~~~~~~e~E~~y~q-dPkk~l~~ffereg~~l~~~~deq~~~~w~c~v~lp~~~~~~~~~v~~~~ 399 (793)
T KOG1881|consen 321 MGEDADEDDADEVETDAEAMEEREATYIQ-DPKKALLGFFEREGEDLEYEFDEQGHGKWVCRVELPVDDSGGARAVAEAA 399 (793)
T ss_pred CCccccccccccccccccccccccccccc-CHHHHHHHHHHhhhhhhhhhhhhcCCceEEeeeeeecccccchhHHHHHh
Confidence 89999999999999999999999999999 777889999999999999999999999 8889999999999999999999
Q ss_pred HHHHHHHhHHHHHHHHHHHhhhc---ccCCcccCccCCCCCCCCCCCCCchhhhcccC----Cchhhh-----hhcCCCC
Q 011110 80 QIMEELENLEETLNESIRESLGA---RSGNTYRGKKKGMGEDEEDFLSDDDEFYDRTK----KKPSIQ-----KANESQS 147 (493)
Q Consensus 80 ~L~eEle~LEEtLneSireslGA---r~ga~SrrRKkknwEdeDyYDSDDDeFlDRTG----KRq~Kk-----agk~~e~ 147 (493)
.+-+..|.+.+..++++|...++ |.+.++|+++ +|||++||||||||+|||||| ||..++ .+.+.+.
T Consensus 400 ~~g~kke~~iqc~ldaCrild~~~llrk~~~erk~~-k~~Ed~dfl~sded~fldrtg~vekk~~~kk~~~~sv~~~~e~ 478 (793)
T KOG1881|consen 400 HSGEKKEAFIQCALDACRILDTAGLLRKENHERKKG-KNLEDEDFLDSDEDDFLDRTGLVEKKRAKKKFAEESVGAIDED 478 (793)
T ss_pred hhchhHHHHHHHHHhhhhhccccchhhhhhHHHhhh-cccccccccccccchhhcchhhhhhhhcchhhhhccccccccC
Confidence 99999999999999999987766 5555566666 899999999999999999999 443333 3345788
Q ss_pred cccHHHH-HHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCCCChHHHHHhhc-ccchhhh--hHHHHHHHHHHHHHHH
Q 011110 148 IETADTL-LDKRDVIMKEMEDKKELFEKEKDKMASETDVETESGDALDAYMSGL-SSQLVLD--KTMQHQKELSTLQSEL 223 (493)
Q Consensus 148 vETYESL-l~Kl~el~kEl~e~~e~L~~ek~K~ak~~~~~~s~~DsLDAFMs~L-~S~l~~D--kveKLr~eL~eLkkE~ 223 (493)
+.||+++ ....+....+|..- + .+..+..+....+...+|+||+||..| +++...| +..+||+++++|++|+
T Consensus 479 ~~~~es~l~~~~~~~e~eis~~---~-d~~sk~es~s~te~~sgDsld~~~~~mtk~~s~ld~~~~kk~~~e~~~~~~e~ 554 (793)
T KOG1881|consen 479 PDKFESDLKAEEEDAEQEISKA---E-DEASKAESLSLTEDASGDSLDAFMAEMTKSGSTLDGAKTKKLHLELFELEDEQ 554 (793)
T ss_pred cccccchhHHHHhhHHHHHHHH---H-HHHHhhhhhheecccccchHHHHHHHHhccccccccHHHHHHHHHHHhhhhHH
Confidence 9999994 44444445455411 1 122333223333556889999999999 5555555 5558999999999999
Q ss_pred HHHHHHHHhcCCCchhhhccchhhhhhcccccccchhhhhccCCCCCCCCCCCCCCcccccccCCCcchhhhcc-CCCcc
Q 011110 224 DRILYLLKFADPTGEATKRRDLKVQVENFQKSEKSTTDIKKKAPTEPKKSSGSGKPVNVSVQKETTPVTAVEIN-KKPEA 302 (493)
Q Consensus 224 qRL~kLLKIAKPA~lpa~Krd~k~~e~~~~~se~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~kp~~ 302 (493)
|||.+|||||+||++|..+ +++..|.+ ++++++....+++-|.-...... .+.+.++-+ .++.. .-+..
T Consensus 555 Qkie~l~Kiakpa~i~~~~-el~~~E~~-q~~e~~~~~kk~~~Pl~ga~~~~-~k~k~~~~~-------~v~~e~~~~~~ 624 (793)
T KOG1881|consen 555 QKIEGLLKIAKPAAIPFHE-ELKATETE-QAAEAEGAAKKKALPLFGARKGI-SKFKEKAED-------VVKAEPKNEEA 624 (793)
T ss_pred HHHHHHhhccccccccchh-hhhhcchh-hhcccchhhhhhhcccccccccc-cccccccch-------hccCCCCCccc
Confidence 9999999999999999877 99999888 99999999999888844322211 221111111 11222 22224
Q ss_pred cccccccccccccccccCCCcccCCcchhhhhhhhc-cccCCCccccccccchhhhhhhhcCCccccccccccccccccc
Q 011110 303 DKIVSDANEEKTSAYAIPKPQWLGAVEDREMKAIQR-EDEGLHVEESEQFVGYKERQKMLKNTDDAFLKVDSMIEDASGL 381 (493)
Q Consensus 303 ~~~~~~~~~~~~~~~~~~kpqwlga~~~~~~~~~~~-~~~~~~~~e~~~fvdykdr~~~~~~~d~~~~~~~~~~e~a~gl 381 (493)
.+..-.|.+..++++.-.+++|++--..+.+-+... +...+--+..++ -|+.. .|++ |+.+++
T Consensus 625 ~ks~~~a~~e~~~~E~e~e~k~~~~~~ek~~~e~~~~e~~s~S~Ps~~~--------e~~p~--~A~~------ev~~~~ 688 (793)
T KOG1881|consen 625 TKSAAEAKDEEEVEEEEEEEKMEEEEAEKEIAEKKALEPESASKPSPDD--------EIEPA--AAKD------EVGEET 688 (793)
T ss_pred ccccccccCCcceeeccccccccchhhhhhhhhhccCCccccCCCCCcc--------cccch--hhhh------hccCcc
Confidence 667777888888999999999999654444322222 111111122222 33333 3333 888999
Q ss_pred hhhhccccCCCCCCCCccCCCcchhhhhhHHHHHHHHhhhcCCCccChhhhhcc----cccccccccCCCCCCCCCcccC
Q 011110 382 IIRKKNQVDKPDDNTLDQSTSSSARTQFKAEDAVALLLKHKRGYHADDDEVKSE----SQESVGTNQSRNDTKRPRRVLG 457 (493)
Q Consensus 382 i~rk~k~~~~~~~~~~~~~tss~~~~~~~a~davalllkh~~g~~~~~~~~~~~----~q~~~~~~q~~~~~~~~krvlg 457 (493)
+||++|+.+.. --+..+-++++|++||++|.-|.+......... -+..++..++++.+++.+-+.|
T Consensus 689 ~~~~tkes~~~----------~~~~q~~~ee~a~~il~~~d~ge~~~~r~~~~~s~ee~~K~~~~~k~k~~kk~a~~~v~ 758 (793)
T KOG1881|consen 689 DIRETKESDDH----------KEASQESEEEDAADILDHEDCGETELARAGDLSSPEEAEKKRGQLKRKDIKKKAKGDVD 758 (793)
T ss_pred cchhhhccchH----------hHhhhchhhhhhhhhhhcccccchhhhhhccccChhhhhhccchhhhccccccccCCCC
Confidence 99999965221 125688899999999999999998877664433 3345777888899999999999
Q ss_pred CCCCCCCCCCCCCCcCCCCCCCCCCCccccccccCC
Q 011110 458 PEKPAFLNIDTDYESWVPPEGQSGDGQTALNKRFGY 493 (493)
Q Consensus 458 p~~p~fl~~~~d~~~wvppegqsgdgrtsln~r~gy 493 (493)
|..|-+ +...+|..||||.||||||||+||+||||
T Consensus 759 ~ds~~~-de~~~y~~wvpp~~QsgdG~T~Ln~k~gy 793 (793)
T KOG1881|consen 759 LDSEAE-DDDEDYAEWVPPAGQSGDGRTHLNDKFGY 793 (793)
T ss_pred CCcccc-cccchhhcccCccCCCccccchhhhhccC
Confidence 999988 99999999999999999999999999999
No 2
>PRK11637 AmiB activator; Provisional
Probab=92.61 E-value=1.4 Score=46.62 Aligned_cols=21 Identities=24% Similarity=0.349 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 011110 211 QHQKELSTLQSELDRILYLLK 231 (493)
Q Consensus 211 KLr~eL~eLkkE~qRL~kLLK 231 (493)
.....|..|+.+.++|..+|+
T Consensus 230 ~~~~~l~~l~~~~~~L~~~I~ 250 (428)
T PRK11637 230 KDQQQLSELRANESRLRDSIA 250 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344556666666666666664
No 3
>PRK11546 zraP zinc resistance protein; Provisional
Probab=79.58 E-value=17 Score=34.41 Aligned_cols=78 Identities=15% Similarity=0.316 Sum_probs=44.6
Q ss_pred hccccCCCCHHHHHHHHHHHHHH-HHHHhhHHHHHHHHHhhcccCCCchhH---HHHHHHHHHHHHHHHHHHHhHHHHHH
Q 011110 18 WQTYKGQLTEKQEKTREKVIKRT-QKIAHMKREIDLIRAKDISQGGLTQGQ---QTQIARNEQRIAQIMEELENLEETLN 93 (493)
Q Consensus 18 wq~y~g~ltekQqk~~eki~kr~-~Ki~nmk~EidrIraKe~~~~GLtqGQ---qtqi~RNEqri~~L~eEle~LEEtLn 93 (493)
|+.|-.+||+.|+...++|..+- -++..|+.++ .+|.-...-|..+. ...|....+.|..|.-.|.++.-.++
T Consensus 37 ~~~~~~~LT~EQQa~~q~I~~~f~~~t~~LRqqL---~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~r~~~~ 113 (143)
T PRK11546 37 WQQNAAPLTTEQQAAWQKIHNDFYAQTSALRQQL---VSKRYEYNALLTANPPDSSKINAVAKEMENLRQSLDELRVKRD 113 (143)
T ss_pred CccccccCCHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788899999999888887643 3345554432 33332222222211 12466666666666666666655555
Q ss_pred HHHHH
Q 011110 94 ESIRE 98 (493)
Q Consensus 94 eSire 98 (493)
..+++
T Consensus 114 ~~~~k 118 (143)
T PRK11546 114 IAMAE 118 (143)
T ss_pred HHHHH
Confidence 55543
No 4
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=72.50 E-value=12 Score=35.25 Aligned_cols=47 Identities=28% Similarity=0.497 Sum_probs=34.7
Q ss_pred HHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 39 RTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 39 r~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
....+..++.|...|.+. .+=.+-+|+++++++|++||+.+.+.+..
T Consensus 45 l~~Ei~~l~~E~~~iS~q---------DeFAkwaKl~Rk~~kl~~el~~~~~~~~~ 91 (161)
T PF04420_consen 45 LRKEILQLKRELNAISAQ---------DEFAKWAKLNRKLDKLEEELEKLNKSLSS 91 (161)
T ss_dssp HHHHHHHHHHHHTTS-TT---------TSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCcH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333455666666666543 37788999999999999999999888743
No 5
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=68.01 E-value=20 Score=37.02 Aligned_cols=56 Identities=16% Similarity=0.271 Sum_probs=35.4
Q ss_pred HHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 011110 40 TQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNES 95 (493)
Q Consensus 40 ~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneS 95 (493)
....+|++.||+.|.++=..-.+=-+-.+..|.+..+.|.+|..+|+.|+++|++.
T Consensus 44 ~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r 99 (265)
T COG3883 44 QKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVER 99 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455566666666554333322233455677788888888888888888888654
No 6
>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=66.04 E-value=49 Score=40.45 Aligned_cols=78 Identities=28% Similarity=0.363 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhcccCC
Q 011110 28 KQEKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNESIRESLGARSGN 106 (493)
Q Consensus 28 kQqk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSireslGAr~ga 106 (493)
...+..+.+-.-..||.-+.++|+.-+-|..-.--...+-+..|..++-.|.+|.+.++.++..|-+ |+.++--++.+
T Consensus 399 ~~vk~~E~lK~~~~k~kKleke~ek~~~~~~e~e~~pe~~~~~i~~~~~ei~~L~~~~~~~~~~l~e-~~~~l~~~t~~ 476 (1293)
T KOG0996|consen 399 EDVKREEKLKRLTSKIKKLEKEIEKARRKKSELEKAPEKARIEIQKCQTEIEQLEELLEKEERELDE-ILDSLKQETEG 476 (1293)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhCchhhHhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhhhhhh
Confidence 3456666666677788888899999888888777778888888888888998888888887777754 34444444433
No 7
>KOG4253 consensus Tryptophan-rich basic nuclear protein [General function prediction only]
Probab=63.82 E-value=20 Score=34.71 Aligned_cols=56 Identities=23% Similarity=0.331 Sum_probs=45.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHh
Q 011110 23 GQLTEKQEKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELEN 87 (493)
Q Consensus 23 g~ltekQqk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~ 87 (493)
..++-.+.|..+|.-....-|+.||+|++++.+ |-|--.-+||++.|.+|+.|||-
T Consensus 33 i~~s~~~nkdakk~~q~~~ei~dmKqelnavs~---------qD~fAkwaRlnRKi~kl~~ele~ 88 (175)
T KOG4253|consen 33 IFMSRVGNKDAKKESQKVAEIQDMKQELNAVSM---------QDNFAKWARLNRKINKLDKELET 88 (175)
T ss_pred hhhhcccchhHHHHHHHHHHHHHHHHHHhhhhh---------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566777777777777889999999999986 44677889999999999999954
No 8
>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=59.37 E-value=57 Score=35.03 Aligned_cols=66 Identities=23% Similarity=0.418 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 011110 27 EKQEKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLN 93 (493)
Q Consensus 27 ekQqk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLn 93 (493)
.+.+.+.+.+..-...|..+++.+..+..... .+.++.-+..++.+..+...+|+++|..|++.|.
T Consensus 334 ~~~~~l~~~~~~~~~~l~~l~~~l~~l~~~~~-~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~ 399 (451)
T PF03961_consen 334 EKLEELEEELEELKEELEKLKKNLKKLKKLKK-QGKLPPEKKEQLKKLKEKKKELKEELKELKEELK 399 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc-cccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455556666666666666677766665444 6778888888888888888888888888777665
No 9
>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=58.80 E-value=70 Score=39.23 Aligned_cols=76 Identities=20% Similarity=0.284 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHHHHH-HHhh-----H-HHHHHHHHhhccc-CCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 011110 27 EKQEKTREKVIKRTQK-IAHM-----K-REIDLIRAKDISQ-GGLTQGQQTQIARNEQRIAQIMEELENLEETLNESIRE 98 (493)
Q Consensus 27 ekQqk~~eki~kr~~K-i~nm-----k-~EidrIraKe~~~-~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSire 98 (493)
.++.+..++++..+.| +.++ + .+|..|+.|=... |.+.++|+-.+....++|..|..+|-.+.-.|..+-+.
T Consensus 857 ~~~l~~~~~~ie~l~kE~e~~qe~~~Kk~~i~~lq~~i~~i~~e~~q~qk~kv~~~~~~~~~l~~~i~k~~~~i~~s~~~ 936 (1293)
T KOG0996|consen 857 KKRLKELEEQIEELKKEVEELQEKAAKKARIKELQNKIDEIGGEKVQAQKDKVEKINEQLDKLEADIAKLTVAIKTSDRN 936 (1293)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhchhhHHhHHHHHHHHHHHHHHHHHHHHhHHHHhcCccc
Confidence 3444444444444433 4444 2 5666666665544 68999999999999999999999999888877666665
Q ss_pred hhhc
Q 011110 99 SLGA 102 (493)
Q Consensus 99 slGA 102 (493)
..++
T Consensus 937 i~k~ 940 (1293)
T KOG0996|consen 937 IAKA 940 (1293)
T ss_pred HHHH
Confidence 5555
No 10
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=58.64 E-value=34 Score=27.60 Aligned_cols=57 Identities=25% Similarity=0.483 Sum_probs=36.8
Q ss_pred HHHHHH-HHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 011110 37 IKRTQK-IAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLN 93 (493)
Q Consensus 37 ~kr~~K-i~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLn 93 (493)
+.|+.| +..++.+|.++..|=...+=++-==..-++.+..++..++.+|+.|+++|.
T Consensus 6 ~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~ 63 (66)
T PF10458_consen 6 IERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEALE 63 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334443 666778899999888777655433334456666677777777777766664
No 11
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=58.49 E-value=1.6e+02 Score=30.14 Aligned_cols=57 Identities=16% Similarity=0.196 Sum_probs=35.0
Q ss_pred HHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 011110 36 VIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETL 92 (493)
Q Consensus 36 i~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtL 92 (493)
..+.+.+|+++-.+++|+..+-...--.=.-.+-.+.++--++..++.++++++..+
T Consensus 5 ~~~~L~~iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv 61 (239)
T COG1579 5 NLKSLLAIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQV 61 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777888888888888776664433334444455555555555555555555544
No 12
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=58.19 E-value=70 Score=27.52 Aligned_cols=65 Identities=28% Similarity=0.281 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 30 EKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 30 qk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
.|+-.||+.-+.-|+=|+-||+.+.-|-.+.-.=-+--+.+.+.++++-.+|..|--+--|+|+.
T Consensus 7 ekLE~KiqqAvdTI~LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~~~WQerlrs 71 (79)
T COG3074 7 EKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQERLRA 71 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788999999999999999999999876542211222467788888888888888887777764
No 13
>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=57.23 E-value=1.4e+02 Score=35.13 Aligned_cols=64 Identities=17% Similarity=0.338 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 011110 30 EKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLN 93 (493)
Q Consensus 30 qk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLn 93 (493)
..+.+-+..+......|+.+++++|.+=.--.....-.+.+|.+.+..+..+.-||.+|-+.+.
T Consensus 325 ~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk~~~~~~~qeE~~~~~~Ei~~l~d~~d 388 (775)
T PF10174_consen 325 EVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKKQAQIEKLQEEKSRLQGEIEDLRDMLD 388 (775)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666777888888999999999999986666555555555666666666666666666555553
No 14
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole 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. 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.
Probab=56.18 E-value=64 Score=27.00 Aligned_cols=60 Identities=22% Similarity=0.393 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 011110 33 REKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETL 92 (493)
Q Consensus 33 ~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtL 92 (493)
..+|..+-+.|+-|..|-..+..++.......-..+.++..++..|..|...|+.++..|
T Consensus 4 ~~~l~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~ 63 (74)
T PF12329_consen 4 EKKLAEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKEL 63 (74)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777888899999999999999988877777777777777777776666666666554
No 15
>PHA02562 46 endonuclease subunit; Provisional
Probab=53.27 E-value=2.1e+02 Score=30.91 Aligned_cols=26 Identities=12% Similarity=0.188 Sum_probs=18.4
Q ss_pred cccHHHHHHHHHHHHHHHHHHHHHHH
Q 011110 148 IETADTLLDKRDVIMKEMEDKKELFE 173 (493)
Q Consensus 148 vETYESLl~Kl~el~kEl~e~~e~L~ 173 (493)
+.-+..|...+..+..++..+...+.
T Consensus 298 ~~~~~~l~d~i~~l~~~l~~l~~~i~ 323 (562)
T PHA02562 298 PDRITKIKDKLKELQHSLEKLDTAID 323 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66677777777777777777666555
No 16
>PRK11637 AmiB activator; Provisional
Probab=50.62 E-value=59 Score=34.56 Aligned_cols=35 Identities=20% Similarity=0.207 Sum_probs=20.5
Q ss_pred HHHhhcccchhh--hhHHHHHHHHHHHHHHHHHHHHH
Q 011110 195 AYMSGLSSQLVL--DKTMQHQKELSTLQSELDRILYL 229 (493)
Q Consensus 195 AFMs~L~S~l~~--DkveKLr~eL~eLkkE~qRL~kL 229 (493)
..+..|.+.... ..+..|+.....|.+.+.++.+-
T Consensus 219 ~~l~~L~~~~~~~~~~l~~l~~~~~~L~~~I~~l~~~ 255 (428)
T PRK11637 219 KTLTGLESSLQKDQQQLSELRANESRLRDSIARAERE 255 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555544331 23456777777777777776653
No 17
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=47.45 E-value=30 Score=28.40 Aligned_cols=44 Identities=30% Similarity=0.414 Sum_probs=32.9
Q ss_pred HHHHhhcccCCCchhHHH------HHHHHHHHHHHHHHHHHhHHHHHHHH
Q 011110 52 LIRAKDISQGGLTQGQQT------QIARNEQRIAQIMEELENLEETLNES 95 (493)
Q Consensus 52 rIraKe~~~~GLtqGQqt------qi~RNEqri~~L~eEle~LEEtLneS 95 (493)
.||||+.-+..|+.-+-+ +|---+.++..|+.+|+.|++.+.++
T Consensus 9 EirakQ~~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~ 58 (61)
T PF08826_consen 9 EIRAKQAIQEELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEMEEL 58 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467777777777765543 34456788899999999999998774
No 18
>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=46.86 E-value=89 Score=29.07 Aligned_cols=70 Identities=20% Similarity=0.343 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhccc-CCCc--hhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 011110 27 EKQEKTREKVIKRTQKIAHMKREIDLIRAKDISQ-GGLT--QGQQTQIARNEQRIAQIMEELENLEETLNESI 96 (493)
Q Consensus 27 ekQqk~~eki~kr~~Ki~nmk~EidrIraKe~~~-~GLt--qGQqtqi~RNEqri~~L~eEle~LEEtLneSi 96 (493)
+.-.+.-+.|..-..|++.+..+++.+..+=... .-|. .-..+..+-...||..|.++|+..+.+|.+..
T Consensus 28 ~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq~LEeele~ae~~L~e~~ 100 (143)
T PF12718_consen 28 QENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQLLEEELEEAEKKLKETT 100 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 3334555667777788999999999887543322 1222 22234566888999999999999999996654
No 19
>KOG2991 consensus Splicing regulator [RNA processing and modification]
Probab=43.98 E-value=66 Score=33.68 Aligned_cols=150 Identities=17% Similarity=0.175 Sum_probs=86.4
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhcccCCcccCccCCCCCCCCCCCCCchhhhcccCCc------hhhh--
Q 011110 69 TQIARNEQRIAQIMEELENLEETLNESIRESLGARSGNTYRGKKKGMGEDEEDFLSDDDEFYDRTKKK------PSIQ-- 140 (493)
Q Consensus 69 tqi~RNEqri~~L~eEle~LEEtLneSireslGAr~ga~SrrRKkknwEdeDyYDSDDDeFlDRTGKR------q~Kk-- 140 (493)
.+++..||.|..+...|-.|-..+.-+.- -+|+- .-|--=-.||-|-++- +-+.
T Consensus 136 ~rlA~kEQEmqe~~sqi~~lK~qq~Ps~~---qlR~~---------------llDPAinl~F~rlK~ele~tk~Klee~Q 197 (330)
T KOG2991|consen 136 MRLATKEQEMQECTSQIQYLKQQQQPSVA---QLRST---------------LLDPAINLFFLRLKGELEQTKDKLEEAQ 197 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCcHHH---HHHHH---------------hhChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888888888888888777654431 12221 1111122577776511 1111
Q ss_pred ----hhcCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHH-----hhhh--ccc-cccCCCCChHHHHHhhcccchhhh-
Q 011110 141 ----KANESQSIETADTLLDKRDVIMKEMEDKKELFEKEK-----DKMA--SET-DVETESGDALDAYMSGLSSQLVLD- 207 (493)
Q Consensus 141 ----agk~~e~vETYESLl~Kl~el~kEl~e~~e~L~~ek-----~K~a--k~~-~~~~s~~DsLDAFMs~L~S~l~~D- 207 (493)
+-+.....-|=--|++|--.|..|-+++-.+...-+ .+++ ++- +--.+..+.|+.||..|...+..-
T Consensus 198 nelsAwkFTPdS~tGK~LMAKCR~L~qENeElG~q~s~Gria~Le~eLAmQKs~seElkssq~eL~dfm~eLdedVEgmq 277 (330)
T KOG2991|consen 198 NELSAWKFTPDSKTGKMLMAKCRTLQQENEELGHQASEGRIAELEIELAMQKSQSEELKSSQEELYDFMEELDEDVEGMQ 277 (330)
T ss_pred hhhheeeecCCCcchHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHhcch
Confidence 112234445556788887777777666665544211 1111 110 001235689999999998776522
Q ss_pred -hHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 011110 208 -KTMQHQKELSTLQSELDRILYLLKFADPT 236 (493)
Q Consensus 208 -kveKLr~eL~eLkkE~qRL~kLLKIAKPA 236 (493)
-+--|..+|.+-+++++||.+=+.+..-+
T Consensus 278 sTiliLQq~Lketr~~Iq~l~k~~~q~sqa 307 (330)
T KOG2991|consen 278 STILILQQKLKETRKEIQRLKKGLEQVSQA 307 (330)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 24467788888888888888877766544
No 20
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=43.62 E-value=1.2e+02 Score=29.91 Aligned_cols=66 Identities=18% Similarity=0.225 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 011110 30 EKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNES 95 (493)
Q Consensus 30 qk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneS 95 (493)
.+..+.-+.-...|..++.|++.+.+.-.+...+..-|+..|++.+++|..+..--..+.--+...
T Consensus 45 d~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m 110 (251)
T PF11932_consen 45 DQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQM 110 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444556677888888888887766666777777777777777755554444444433333
No 21
>cd07595 BAR_RhoGAP_Rich-like The Bin/Amphiphysin/Rvs (BAR) domain of Rich-like Rho GTPase Activating Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of Rho and Rac GTPase activating proteins (GAPs) with similarity to GAP interacting with CIP4 homologs proteins (Rich). Members contain an N-terminal BAR domain, followed by a Rho GAP domain, and a C-terminal prolin-rich region. Vertebrates harbor at least three Rho GAPs in this subfamily including Rich1, Rich2, and SH3-domain binding protein 1 (SH3BP1). Rich1 and Rich2 play complementary roles in the establishment and maintenance of cell polarity. Rich1 is a Cdc42- and Rac-specific GAP that binds to polarity proteins through the scaffold protein angiomotin and plays a role in maintaining the integrity of tight junctions. Rich2 is a Rac GAP that interacts with CD317 and plays a role in actin cytoskeleton organization and
Probab=43.54 E-value=55 Score=32.96 Aligned_cols=74 Identities=15% Similarity=0.209 Sum_probs=54.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhh
Q 011110 23 GQLTEKQEKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNESIRESLG 101 (493)
Q Consensus 23 g~ltekQqk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSireslG 101 (493)
-.|+..+...+..|.+-..|+++.+...|..|++-.+.---+.|+. +...+.+|.+|+++++..+.++-...++
T Consensus 110 ~pL~~~le~dik~i~k~RKkLe~~RLd~D~~k~r~~ka~k~~~~~~-----~~~K~~~l~eE~e~ae~k~e~~~e~~~~ 183 (244)
T cd07595 110 SPLQNILEVEIPNIQKQKKRLSKLVLDMDSARSRYNAAHKSSGGQG-----AAAKVDALKDEYEEAELKLEQCRDALAT 183 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhccccccccc-----cccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566677788888899999999999999998754321111222 5666788899999999999988765443
No 22
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=43.35 E-value=5.6e+02 Score=31.60 Aligned_cols=68 Identities=21% Similarity=0.305 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHhhccc-CCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 011110 30 EKTREKVIKRTQKIAHMKREIDLIRAKDISQ-GGLTQGQQTQIARNEQRIAQIMEELENLEETLNESIRE 98 (493)
Q Consensus 30 qk~~eki~kr~~Ki~nmk~EidrIraKe~~~-~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSire 98 (493)
....+.|.+..+|+..++.+++.+..|.... +-||.=|. +|...-..-..-.+||+++-+.|..-.|+
T Consensus 284 ~~~~~~i~~~qek~~~l~~ki~~~~~k~~~~r~k~teiea-~i~~~~~e~~~~d~Ei~~~r~~~~~~~re 352 (1074)
T KOG0250|consen 284 NNQEEEIKKKQEKVDTLQEKIEEKQGKIEEARQKLTEIEA-KIGELKDEVDAQDEEIEEARKDLDDLRRE 352 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHH-HHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Confidence 4556677777777777777777777776655 35554443 33333333333355666666655555443
No 23
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=42.78 E-value=48 Score=31.47 Aligned_cols=49 Identities=8% Similarity=0.160 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhH
Q 011110 35 KVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENL 88 (493)
Q Consensus 35 ki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~L 88 (493)
.+.+=..-+.+|+.+|..-| .+|-|++ -+.+...++.||..|...|.++
T Consensus 35 G~~~L~~El~~L~~~i~~Ar----~~GDlsE-ak~~~~~~e~rI~~L~~~L~~A 83 (160)
T PRK06342 35 GLKALEDQLAQARAAYEAAQ----AIEDVNE-RRRQMARPLRDLRYLAARRRTA 83 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHH----HCCChhH-HHHHHHHHHHHHHHHHHHHccC
Confidence 33333334455555544444 5788988 4556777777777777777664
No 24
>cd07599 BAR_Rvs167p The Bin/Amphiphysin/Rvs (BAR) domain of Saccharomyces cerevisiae Reduced viability upon starvation protein 167 and similar proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of fungal proteins with similarity to Saccharomyces cerevisiae Reduced viability upon starvation protein 167 (Rvs167p) and Schizosaccharomyces pombe Hob1 (homolog of Bin1). S. cerevisiae Rvs167p plays a role in regulation of the actin cytoskeleton, endocytosis, and sporulation. It forms a heterodimer with another BAR domain protein Rvs161p. Rvs161p and Rvs167p share common functions but are not interchangeable. Their BAR domains cannot be replaced with each other and the overexpression of one cannot suppress the mutant phenotypes of the other. Rvs167p also interacts with the GTPase activating protein (GAP) Gyp5p, which is involved in ER to Golgi vesicle trafficking. BAR domains fo
Probab=40.94 E-value=2.1e+02 Score=27.53 Aligned_cols=66 Identities=27% Similarity=0.343 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHhhcc----cCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 011110 31 KTREKVIKRTQKIAHMKREIDLIRAKDIS----QGGLTQGQQTQIARNEQRIAQIMEELENLEETLNESI 96 (493)
Q Consensus 31 k~~eki~kr~~Ki~nmk~EidrIraKe~~----~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSi 96 (493)
..+..|++++.|-.+-+.+-|+.+.|=.. -..+|..+..+|++.+..+....++.+.|-..|.+-+
T Consensus 107 ~~~~~i~k~IkKR~~k~lDyd~~~~k~~k~~~~k~~~~~kd~~kl~kae~~l~~a~~~y~~lN~~Lk~eL 176 (216)
T cd07599 107 KYIKKIRKTIKKRDHKKLDYDKLQNKLNKLLQKKKELSLKDEKQLAKLERKLEEAKEEYEALNELLKSEL 176 (216)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566777888888888888888886544 2578999999999999999999998888887776654
No 25
>PRK09458 pspB phage shock protein B; Provisional
Probab=40.51 E-value=58 Score=27.97 Aligned_cols=39 Identities=28% Similarity=0.471 Sum_probs=29.5
Q ss_pred HHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 011110 54 RAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETL 92 (493)
Q Consensus 54 raKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtL 92 (493)
+.|-....|||++-+.+++.+-.+-.++.+-|+-||.-|
T Consensus 27 ~sk~~~~~~Ls~~d~~~L~~L~~~A~rm~~RI~tLE~IL 65 (75)
T PRK09458 27 RSKRQGSQGLSQEEQQRLAQLTEKAERMRERIQALEAIL 65 (75)
T ss_pred cccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667789999988888877777777777777776543
No 26
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.99 E-value=4.5e+02 Score=32.43 Aligned_cols=29 Identities=14% Similarity=0.110 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCch
Q 011110 210 MQHQKELSTLQSELDRILYLLKFADPTGE 238 (493)
Q Consensus 210 eKLr~eL~eLkkE~qRL~kLLKIAKPA~l 238 (493)
..+..++..|..++.+|..-+..+.=...
T Consensus 504 ~~~~~~~~~le~~~~~l~~~~~~~~~~~~ 532 (1311)
T TIGR00606 504 KSLQNEKADLDRKLRKLDQEMEQLNHHTT 532 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555566777777777665554444333
No 27
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.58 E-value=1.6e+02 Score=36.04 Aligned_cols=20 Identities=25% Similarity=0.378 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 011110 212 HQKELSTLQSELDRILYLLK 231 (493)
Q Consensus 212 Lr~eL~eLkkE~qRL~kLLK 231 (493)
+..++.+++.++..|..-+.
T Consensus 1026 ~~~~l~el~~eI~~l~~~~~ 1045 (1311)
T TIGR00606 1026 RENELKEVEEELKQHLKEMG 1045 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 35566666677666664443
No 28
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=38.81 E-value=1.1e+02 Score=31.78 Aligned_cols=61 Identities=20% Similarity=0.438 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHH-------HHHHHhHHHHHHH
Q 011110 34 EKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQI-------MEELENLEETLNE 94 (493)
Q Consensus 34 eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L-------~eEle~LEEtLne 94 (493)
+.|..=...++.++..++.+.+=+-....=...-+.-++||+.|...| |+|.|.||+.|..
T Consensus 169 ~ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~ 236 (267)
T PF10234_consen 169 EAIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQK 236 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHH
Confidence 333333444555666666666655555555666778899999998776 6888888888854
No 29
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=38.49 E-value=92 Score=37.07 Aligned_cols=61 Identities=20% Similarity=0.278 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 31 KTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 31 k~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
+.+.+++|+ ++.+++|++++..|-.+.+=++---..-+++..+++..+.++|+.|++.|..
T Consensus 929 ~E~~rL~K~---l~kl~~ei~~~~~kL~N~~F~~kAp~~vve~e~~kl~~~~~~l~~l~~~l~~ 989 (995)
T PTZ00419 929 KELAKLEKK---LAKLQKSLESYLKKISIPNYEDKVPEDVRKLNDEKIDELNEEIKQLEQAIEE 989 (995)
T ss_pred HHHHHHHHH---HHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555544 5567889999999998888777777788899999999999999999998865
No 30
>PLN02943 aminoacyl-tRNA ligase
Probab=38.43 E-value=95 Score=37.00 Aligned_cols=52 Identities=15% Similarity=0.183 Sum_probs=44.1
Q ss_pred HHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 43 IAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 43 i~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
++.+++||+++..|-.+.+=+.---..-++++..++..+.++|+.+++.|..
T Consensus 898 l~klekei~~~~~kLsN~~F~~KAP~evv~~e~~kl~~~~~~l~~~~~~l~~ 949 (958)
T PLN02943 898 LSKMQTEYDALAARLSSPKFVEKAPEDVVRGVREKAAEAEEKIKLTKNRLAF 949 (958)
T ss_pred HHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6677899999999999888777777778888888899999999998888765
No 31
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=37.80 E-value=2.2e+02 Score=24.00 Aligned_cols=58 Identities=19% Similarity=0.241 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 30 EKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 30 qk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
.++-.||+.=+.-|+-|+.||+.++.|-.+.. ...+.+.+...+|..+-....++|+.
T Consensus 7 ~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~-------~e~~~L~~en~~L~~e~~~~~~rl~~ 64 (72)
T PF06005_consen 7 EQLEEKIQQAVETIALLQMENEELKEKNNELK-------EENEELKEENEQLKQERNAWQERLRS 64 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46678888999999999999999998855443 34555566666666666666666543
No 32
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=37.10 E-value=1e+02 Score=36.18 Aligned_cols=61 Identities=20% Similarity=0.384 Sum_probs=48.0
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 31 KTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 31 k~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
+..++++++ +..+++|++++..|-...+=+.---..-++.+..++..+.++|+.|++.|..
T Consensus 811 ~e~~rL~K~---l~kl~~ei~~~~~kL~n~~F~~KAP~~vve~e~~kl~~~~~~~~~l~~~l~~ 871 (874)
T PRK05729 811 AELARLEKE---LAKLEKEIERVEKKLSNEGFVAKAPEEVVEKEREKLAEYEEKLAKLKERLAR 871 (874)
T ss_pred HHHHHHHHH---HHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555554 5567889999999999888777777778888889999999999999888753
No 33
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=36.83 E-value=51 Score=27.53 Aligned_cols=24 Identities=38% Similarity=0.553 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 71 IARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 71 i~RNEqri~~L~eEle~LEEtLne 94 (493)
.+-.++||.-|+.||+-|+..++-
T Consensus 27 V~El~eRIalLq~EIeRlkAe~~k 50 (65)
T COG5509 27 VAELEERIALLQAEIERLKAELAK 50 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456789999999999999998864
No 34
>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=35.81 E-value=7.3e+02 Score=29.06 Aligned_cols=22 Identities=23% Similarity=0.530 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHhHHHHH
Q 011110 71 IARNEQRIAQIMEELENLEETL 92 (493)
Q Consensus 71 i~RNEqri~~L~eEle~LEEtL 92 (493)
+...+..+..+..++..++..+
T Consensus 800 l~~l~~~~~~l~~~~~~l~~~~ 821 (1164)
T TIGR02169 800 LSKLEEEVSRIEARLREIEQKL 821 (1164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444443333
No 35
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=35.10 E-value=2.2e+02 Score=22.32 Aligned_cols=67 Identities=18% Similarity=0.259 Sum_probs=38.6
Q ss_pred CCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCCCChHHHHHhhcccchhhhhHHHHHHHHHHHHHHHH
Q 011110 145 SQSIETADTLLDKRDVIMKEMEDKKELFEKEKDKMASETDVETESGDALDAYMSGLSSQLVLDKTMQHQKELSTLQSELD 224 (493)
Q Consensus 145 ~e~vETYESLl~Kl~el~kEl~e~~e~L~~ek~K~ak~~~~~~s~~DsLDAFMs~L~S~l~~DkveKLr~eL~eLkkE~q 224 (493)
...+.+...++.++..+..+|......+... -++...| ..........++.++..|+..++
T Consensus 30 ~~~~~~~~~~~~~~~~~~~ei~~~~~~l~~l------------------~~~~~~L-~~~~~~~~~~i~~~~~~l~~~w~ 90 (105)
T PF00435_consen 30 GSDLEELEEQLKKHKELQEEIESRQERLESL------------------NEQAQQL-IDSGPEDSDEIQEKLEELNQRWE 90 (105)
T ss_dssp SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------HHHHHHH-HHTTHTTHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhhhhhHHHHHHHHHHHH------------------HHHHHHH-HHcCCCcHHHHHHHHHHHHHHHH
Confidence 3455666777888888888887766555422 2222233 11112334556666666776666
Q ss_pred HHHHHH
Q 011110 225 RILYLL 230 (493)
Q Consensus 225 RL~kLL 230 (493)
.|..++
T Consensus 91 ~l~~~~ 96 (105)
T PF00435_consen 91 ALCELV 96 (105)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 666655
No 36
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=34.70 E-value=1e+02 Score=26.29 Aligned_cols=39 Identities=26% Similarity=0.379 Sum_probs=29.5
Q ss_pred HHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 011110 54 RAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETL 92 (493)
Q Consensus 54 raKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtL 92 (493)
|.|-....|||++=..+|..+-++..++.+-|+-||.=|
T Consensus 27 ~sk~~~~~gLs~~d~~~L~~L~~~a~rm~eRI~tLE~IL 65 (75)
T PF06667_consen 27 RSKWKSSQGLSEEDEQRLQELYEQAERMEERIETLERIL 65 (75)
T ss_pred HHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356566789999988888888877777777777776544
No 37
>PRK09039 hypothetical protein; Validated
Probab=33.81 E-value=1.7e+02 Score=30.90 Aligned_cols=23 Identities=9% Similarity=0.280 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHh
Q 011110 34 EKVIKRTQKIAHMKREIDLIRAK 56 (493)
Q Consensus 34 eki~kr~~Ki~nmk~EidrIraK 56 (493)
..|-.-...|.-|+.+|.++|+.
T Consensus 130 ~~~se~~~~V~~L~~qI~aLr~Q 152 (343)
T PRK09039 130 QVSARALAQVELLNQQIAALRRQ 152 (343)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHH
Confidence 34444455566666666666654
No 38
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=33.59 E-value=5.5e+02 Score=29.98 Aligned_cols=55 Identities=22% Similarity=0.292 Sum_probs=33.2
Q ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHH---HHhhhhcccc---cc-CCCCChHHHHHhhccc
Q 011110 148 IETADTLLDKRDVIMKEMEDKKELFEK---EKDKMASETD---VE-TESGDALDAYMSGLSS 202 (493)
Q Consensus 148 vETYESLl~Kl~el~kEl~e~~e~L~~---ek~K~ak~~~---~~-~s~~DsLDAFMs~L~S 202 (493)
.+..|.|..++.+++.|+..+...|.. ....+..+.. .. .+..-+.+.-|+.|.+
T Consensus 537 ~e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~a 598 (697)
T PF09726_consen 537 QECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSA 598 (697)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence 388889998988999888887665542 1111111110 00 2234678888888864
No 39
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=32.97 E-value=1.1e+02 Score=26.00 Aligned_cols=39 Identities=21% Similarity=0.338 Sum_probs=30.4
Q ss_pred HHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 011110 54 RAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETL 92 (493)
Q Consensus 54 raKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtL 92 (493)
+.|-....|||+....++...-+...+|.+-|+-||.-|
T Consensus 27 ~~k~~~~~~ls~~d~~~L~~L~~~a~rm~eRI~tLE~IL 65 (75)
T TIGR02976 27 RSKRKTAASLSTDDQALLQELYAKADRLEERIDTLERIL 65 (75)
T ss_pred HhhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556678999999999888888888888888887544
No 40
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=32.74 E-value=1.3e+02 Score=28.31 Aligned_cols=56 Identities=14% Similarity=0.214 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHh-hHHHHHHHHHhhcccCCCchh-----HHHHHHHHHHHHHHHHHHHHhH
Q 011110 33 REKVIKRTQKIAH-MKREIDLIRAKDISQGGLTQG-----QQTQIARNEQRIAQIMEELENL 88 (493)
Q Consensus 33 ~eki~kr~~Ki~n-mk~EidrIraKe~~~~GLtqG-----Qqtqi~RNEqri~~L~eEle~L 88 (493)
+++++..++.+.+ -+-|+-+..+.-+.+|-|++= -+....+++.||..|...|.++
T Consensus 12 ~~~L~~EL~~L~~~~r~e~~~~i~~Ar~~GDl~ENaeY~aAk~~~~~~e~rI~~L~~~L~~A 73 (157)
T PRK01885 12 YARLKQELDYLWREERPEVTQKVSWAASLGDRSENADYIYGKKRLREIDRRVRFLTKRLENL 73 (157)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHcCCcchhhcHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 4566666666654 566666666667778888865 3556677777777777776653
No 41
>KOG0517 consensus Beta-spectrin [Cytoskeleton]
Probab=32.71 E-value=4.1e+02 Score=34.96 Aligned_cols=123 Identities=18% Similarity=0.286 Sum_probs=76.6
Q ss_pred HHHHHHHHhhHHHHHHHHHhhccc----CCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhcccCCcccCcc
Q 011110 37 IKRTQKIAHMKREIDLIRAKDISQ----GGLTQGQQTQIARNEQRIAQIMEELENLEETLNESIRESLGARSGNTYRGKK 112 (493)
Q Consensus 37 ~kr~~Ki~nmk~EidrIraKe~~~----~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSireslGAr~ga~SrrRK 112 (493)
..=.+++++|...+..|-+|-... .-|..+==.+-....++|.+|....+.|-.++.+.-. .++. .++. .
T Consensus 987 ~alqrrL~~lErdl~aie~kv~~L~~ea~~v~~~~Paea~~i~~r~~el~~~w~~l~~~~~~~~~-~l~e----a~~l-Q 1060 (2473)
T KOG0517|consen 987 MALQRRLQGLERDLAAIEAKVAALEKEANKVEEEHPAEAQAINARIAELQALWEQLQQRLQEREE-RLEE----AGGL-Q 1060 (2473)
T ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH----HHHH-H
Confidence 344678999999999999886654 2333333345566778888888888888888754332 1211 0110 0
Q ss_pred CCCCCCCCCCCCCchhhhcccCCchhhhhh-cCCCCcccHHHHHHHHHHHHHHHHHHHHHHH
Q 011110 113 KGMGEDEEDFLSDDDEFYDRTKKKPSIQKA-NESQSIETADTLLDKRDVIMKEMEDKKELFE 173 (493)
Q Consensus 113 kknwEdeDyYDSDDDeFlDRTGKRq~Kkag-k~~e~vETYESLl~Kl~el~kEl~e~~e~L~ 173 (493)
-|..|=|.|+.=-.+-+.--++ ..+..+.+++-|+.++..|..||...++-..
T Consensus 1061 --------~Fl~dld~f~~Wl~~tq~~~~see~p~~l~eAe~LL~qH~~l~eEI~~~~e~y~ 1114 (2473)
T KOG0517|consen 1061 --------RFLRDLDDFQAWLESTQTQVASEEGPVDLAEAEQLLKQHAALREEIDGYQEDYQ 1114 (2473)
T ss_pred --------HHHHHHHHHHHHHHHHHHHHhcccCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2344556665433222211122 1267789999999999999999988766554
No 42
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=32.30 E-value=2.2e+02 Score=24.82 Aligned_cols=65 Identities=25% Similarity=0.269 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 30 EKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 30 qk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
.++-.||+.-+.=|.=|+-||+.+..|-.....=-+.-+..-.-+++...+|..|..+-.++||.
T Consensus 7 eqLE~KIqqAvdtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~ 71 (79)
T PRK15422 7 EKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQA 71 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778899999999999999999998865542110111112234566777788888877777764
No 43
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=32.20 E-value=3.3e+02 Score=23.37 Aligned_cols=67 Identities=18% Similarity=0.269 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHh---hcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 011110 30 EKTREKVIKRTQKIAHMKREIDLIRAK---DISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNESI 96 (493)
Q Consensus 30 qk~~eki~kr~~Ki~nmk~EidrIraK---e~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSi 96 (493)
..+.++.++-+.++.+++.+...|... -...|+-.+.........-..|..|.+++..+++.|+.-+
T Consensus 32 ~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~~l 101 (108)
T PF02403_consen 32 IELDQERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQLKELEEELNELL 101 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555556666666666555422 2222456677777888888888888888888888887755
No 44
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=31.52 E-value=2e+02 Score=28.88 Aligned_cols=68 Identities=26% Similarity=0.420 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHhhccc----CCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 011110 30 EKTREKVIKRTQKIAHMKREIDLIRAKDISQ----GGLTQGQQTQIARNEQRIAQIMEELENLEETLNESIR 97 (493)
Q Consensus 30 qk~~eki~kr~~Ki~nmk~EidrIraKe~~~----~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSir 97 (493)
...++-+..-...|+.|+.+++.++++-... ..|..-...........|..|..||..|...+...++
T Consensus 212 ~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~~~~~~~~~~i~~le~el~~l~~~~~~~~~ 283 (312)
T PF00038_consen 212 ESAKEELKELRRQIQSLQAELESLRAKNASLERQLRELEQRLDEEREEYQAEIAELEEELAELREEMARQLR 283 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHH
Confidence 3445555555666788888888888775544 2333334455556667777777777777777766554
No 45
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=31.00 E-value=1.2e+02 Score=31.59 Aligned_cols=54 Identities=19% Similarity=0.230 Sum_probs=35.0
Q ss_pred HHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHH----HHHHHHhhhccc
Q 011110 43 IAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETL----NESIRESLGARS 104 (493)
Q Consensus 43 i~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtL----neSireslGAr~ 104 (493)
-+.+..+|.+|..|+-+ -..|..+||.|-.++.+.--.|+.| +..++++++++-
T Consensus 147 r~~l~d~I~kLk~k~P~--------s~kl~~LeqELvraEae~lvaEAqL~n~kR~~lKEa~~~~f 204 (271)
T PF13805_consen 147 RRKLQDEIAKLKYKDPQ--------SPKLVVLEQELVRAEAENLVAEAQLSNIKRQKLKEAYSLKF 204 (271)
T ss_dssp HHHHHHHHHHHHHH-TT--------TTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHhcCCC--------ChHHHHHHHHHHHHHHHhhHHHHHHHHhhHHHHHHHHHHHH
Confidence 34556788888777532 3456777777777777766667666 666777776643
No 46
>TIGR01462 greA transcription elongation factor GreA. In the Chlamydias and some spirochetes, the region described by this model is found as the C-terminal region of a much larger protein.
Probab=30.59 E-value=1.4e+02 Score=27.66 Aligned_cols=57 Identities=25% Similarity=0.296 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHh-hHHHHHHHHHhhcccCCCchh-----HHHHHHHHHHHHHHHHHHHHhHHH
Q 011110 34 EKVIKRTQKIAH-MKREIDLIRAKDISQGGLTQG-----QQTQIARNEQRIAQIMEELENLEE 90 (493)
Q Consensus 34 eki~kr~~Ki~n-mk~EidrIraKe~~~~GLtqG-----Qqtqi~RNEqri~~L~eEle~LEE 90 (493)
.+++..++.+.+ -+-||-...+.-+.+|.|++- -+.....++.||..|..+|+.+.=
T Consensus 8 ~~L~~el~~L~~~~r~~~~~~~~~a~~~gDl~Ena~y~aak~~~~~~e~ri~~L~~~L~~a~i 70 (151)
T TIGR01462 8 EKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQV 70 (151)
T ss_pred HHHHHHHHHHHhcccHHHHHHHHHHHHCCChhhccchHHHHHHHHHHHHHHHHHHHHHHhCcc
Confidence 445555555543 244444444445566676653 366777888888888888877543
No 47
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=30.52 E-value=83 Score=30.13 Aligned_cols=35 Identities=29% Similarity=0.494 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhcc
Q 011110 69 TQIARNEQRIAQIMEELENLEETLNESIRESLGAR 103 (493)
Q Consensus 69 tqi~RNEqri~~L~eEle~LEEtLneSireslGAr 103 (493)
.+-..|.++|.+|..+++.|++.|++-++.-..++
T Consensus 22 ~~hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~ 56 (188)
T PF10018_consen 22 QEHQENQARIQQLRAEIEELDEQIRDILKQLKEAR 56 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34457888999999999999988888776555444
No 48
>PLN02381 valyl-tRNA synthetase
Probab=30.33 E-value=1.5e+02 Score=35.87 Aligned_cols=61 Identities=13% Similarity=0.253 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 31 KTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 31 k~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
+.+.+++++ |..|++||+++..|-...+=+.---..-++++.+++..+.++|+.|++.|..
T Consensus 997 ~E~~rL~K~---l~klekei~~~~~kLsN~~F~~KAP~~vve~e~~kl~~~~~~l~~l~~~l~~ 1057 (1066)
T PLN02381 997 AELEKLRNK---MDEIQKQQEKLEKKMNASGYKEKVPANIQEEDARKLTKLLQELEFFEKESKR 1057 (1066)
T ss_pred HHHHHHHHH---HHHHHHHHHHHHhhhcCCchhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555554 5567789999999998888777777778888888999999999999887754
No 49
>cd07618 BAR_Rich1 The Bin/Amphiphysin/Rvs (BAR) domain of RhoGAP interacting with CIP4 homologs protein 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. RhoGAP interacting with CIP4 homologs protein 1 (Rich1) is also called Neuron-associated developmentally-regulated protein (Nadrin) or Rho GTPase activating protein 17 (ARHGAP17). It is a Cdc42- and Rac-specific GAP that binds to polarity proteins through the scaffold protein angiomotin and plays a role in maintaining the integrity of tight junctions. It may be a component of a sorting mechanism in the recycling of tight junction transmembrane proteins. Rich1 contains an N-terminal BAR domain followed by a Rho GAP domain and a C-terminal proline-rich domain. It interacts with the BAR domain proteins endophilin and amphiphysin through its proline-rich region. The BAR domain of Rich1 forms oligomers and can bind membranes and induce membrane tubulation.
Probab=30.26 E-value=1.1e+02 Score=31.34 Aligned_cols=75 Identities=13% Similarity=0.191 Sum_probs=54.7
Q ss_pred cccCCCCHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 011110 20 TYKGQLTEKQEKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNESIR 97 (493)
Q Consensus 20 ~y~g~ltekQqk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSir 97 (493)
.|-..|+.-+...+-.|.+...|+++.+...|.-|++-.+...=+ |+ ...-+..+|..|.+|+++++..+..+-.
T Consensus 107 ~fl~PL~~~le~dlk~I~K~RkkLe~~RLD~D~~K~r~~~a~~~~-~~--~~~~~~~K~~~l~ee~e~a~~k~E~~kD 181 (246)
T cd07618 107 DILDPLNQLAEVEIPNIQKQRKQLAKLVLDWDSARGRYNQAHKSS-GT--NFQAMPSKIDMLKEEMDEAGNKVEQCKD 181 (246)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHhHHhhHHHHHHHHHhccccC-cc--ccccccchhhhhHHHHHHHHHHHHHHHH
Confidence 333455566677788899999999999999999998875442211 21 1124578889999999999999988865
No 50
>cd07619 BAR_Rich2 The Bin/Amphiphysin/Rvs (BAR) domain of RhoGAP interacting with CIP4 homologs protein 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. RhoGAP interacting with CIP4 homologs protein 2 (Rich2) is a Rho GTPase activating protein that interacts with CD317, a lipid raft-associated integral membrane protein. It plays a role in actin cytoskeleton organization and the maintenance of microvilli in polarized epithelial cells. Rich2 contains an N-terminal BAR domain followed by a GAP domain for Rho and Rac GTPases and a C-terminal proline-rich domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=30.22 E-value=58 Score=33.29 Aligned_cols=74 Identities=12% Similarity=0.129 Sum_probs=50.7
Q ss_pred ccCCCCHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 011110 21 YKGQLTEKQEKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNES 95 (493)
Q Consensus 21 y~g~ltekQqk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneS 95 (493)
|--.|+.-+...+-.|.+...|+++.+...|+-|++-.+.-.=+.|. +....+......|.+|+|++|+.+...
T Consensus 108 fl~PL~~~le~dlk~I~k~RK~Le~~RLD~D~~K~r~~~a~~~~~~~-~~~~~~~~k~e~lr~e~E~ae~~~e~~ 181 (248)
T cd07619 108 VVEPLYVLAEVEIPNIQKQRKHLAKLVLDMDSSRTRWQQSSKSSGLS-SNLQPTGAKADALREEMEEAANRMEIC 181 (248)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHhhHhhHHHHHHHHHhcccccccc-ccccCCCCccHHHHHHHHHHHHHHHHH
Confidence 33445555677778899999999999999999999876542112221 222223334578899999999888765
No 51
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=30.05 E-value=3.1e+02 Score=22.44 Aligned_cols=33 Identities=27% Similarity=0.357 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhc
Q 011110 70 QIARNEQRIAQIMEELENLEETLNESIRESLGA 102 (493)
Q Consensus 70 qi~RNEqri~~L~eEle~LEEtLneSireslGA 102 (493)
..++++.+|..+-+.|+++++++.=-+|=.+||
T Consensus 28 ~~~~~e~~i~~~~~~l~~I~~n~kW~~r~iiGa 60 (71)
T PF10779_consen 28 RDAANEKDIKNLNKQLEKIKSNTKWIWRTIIGA 60 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888888888888888888888777766666
No 52
>TIGR03825 FliH_bacil flagellar assembly protein FliH. This bacillus clade of FliH proteins is not found by the Pfam FliH model pfam02108, but is closely related to the sequences identified by that model. Sequences identified by this model are observed in flagellar operons in an analogous position relative to other flagellar operon genes.
Probab=29.57 E-value=2.5e+02 Score=28.05 Aligned_cols=47 Identities=13% Similarity=0.210 Sum_probs=33.7
Q ss_pred HHhhHHHHHHHHHhhccc---CCCchhHHHHHHHHHHHHHHHHHHHHhHH
Q 011110 43 IAHMKREIDLIRAKDISQ---GGLTQGQQTQIARNEQRIAQIMEELENLE 89 (493)
Q Consensus 43 i~nmk~EidrIraKe~~~---~GLtqGQqtqi~RNEqri~~L~eEle~LE 89 (493)
+..++.|..+|+.+=..+ .|+-+|+....+.-.+.|.++...++.+.
T Consensus 75 ~~~~~~e~e~~~e~A~~eGy~eG~~~G~~e~~~~~~~~i~~a~~i~~~a~ 124 (255)
T TIGR03825 75 RAQWEEERERLIQEAKQEGYEAGFQAGESEALSIYQSTIDEANAIVEEAK 124 (255)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777888888775555 49999998887777777766666665553
No 53
>PRK02224 chromosome segregation protein; Provisional
Probab=29.47 E-value=6.7e+02 Score=29.02 Aligned_cols=25 Identities=12% Similarity=0.064 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Q 011110 210 MQHQKELSTLQSELDRILYLLKFAD 234 (493)
Q Consensus 210 eKLr~eL~eLkkE~qRL~kLLKIAK 234 (493)
..++..+..++..+.-+.+.|..++
T Consensus 422 ~~l~~~~~~~~~~~~~~~~~l~~~~ 446 (880)
T PRK02224 422 DELREREAELEATLRTARERVEEAE 446 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444443
No 54
>PRK09039 hypothetical protein; Validated
Probab=29.22 E-value=4.3e+02 Score=27.92 Aligned_cols=70 Identities=20% Similarity=0.363 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHH-HHh---HHHHHHHHHHHhhhcccC
Q 011110 30 EKTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEE-LEN---LEETLNESIRESLGARSG 105 (493)
Q Consensus 30 qk~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eE-le~---LEEtLneSireslGAr~g 105 (493)
+.+.+.|..=...++.++.+|+.+.+.. ..++.+|+.++++|..++.+ +.+ +...+-..+++.+|.+.|
T Consensus 140 ~~L~~qI~aLr~Qla~le~~L~~ae~~~-------~~~~~~i~~L~~~L~~a~~~~~~~l~~~~~~~~~~l~~~~~~~~~ 212 (343)
T PRK09039 140 ELLNQQIAALRRQLAALEAALDASEKRD-------RESQAKIADLGRRLNVALAQRVQELNRYRSEFFGRLREILGDREG 212 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhCCCCC
Confidence 4555555555555788888888887776 78888899888888887644 444 334444444667766544
Q ss_pred C
Q 011110 106 N 106 (493)
Q Consensus 106 a 106 (493)
.
T Consensus 213 i 213 (343)
T PRK09039 213 I 213 (343)
T ss_pred c
Confidence 3
No 55
>COG2916 Hns DNA-binding protein H-NS [General function prediction only]
Probab=28.75 E-value=42 Score=31.35 Aligned_cols=32 Identities=22% Similarity=0.606 Sum_probs=27.8
Q ss_pred CCCCCcccCCCCCCCCCCCCCCCcCCCCCCCCCCCccc
Q 011110 449 TKRPRRVLGPEKPAFLNIDTDYESWVPPEGQSGDGQTA 486 (493)
Q Consensus 449 ~~~~krvlgp~~p~fl~~~~d~~~wvppegqsgdgrts 486 (493)
..+.||--+|.++.|.+.+-.-.|| ||-|||.
T Consensus 78 ~~~~kr~~rpa~~~~~~~n~eg~TW------TGrGR~P 109 (128)
T COG2916 78 RRKAKRAARPAKYKYYDENGEGKTW------TGRGRTP 109 (128)
T ss_pred chhhhccCCCCCCCeecCCCCCCcc------cCCCCCc
Confidence 4445788899999999999999999 7999985
No 56
>PF07813 LTXXQ: LTXXQ motif family protein; InterPro: IPR012899 This five residue motif is found in a number of bacterial proteins bearing similarity to the protein CpxP (P32158 from SWISSPROT). This is a periplasmic protein that aids in combating extracytoplasmic protein-mediated toxicity, and may also be involved in the response to alkaline pH []. Another member of this family, Spy (P77754 from SWISSPROT) is also a periplasmic protein that may be involved in the response to stress []. The homology between CpxP and Spy may indicate that these two proteins are functionally related []. The motif is found repeated twice in many members of this entry. ; GO: 0042597 periplasmic space; PDB: 3ITF_B 3QZC_B 3OEO_D 3O39_A.
Probab=27.86 E-value=1.8e+02 Score=23.75 Aligned_cols=70 Identities=10% Similarity=0.205 Sum_probs=34.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHH----hhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Q 011110 24 QLTEKQEKTREKVIKRTQKIA----HMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNESIRES 99 (493)
Q Consensus 24 ~ltekQqk~~eki~kr~~Ki~----nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSires 99 (493)
+||+.|+..+..|........ .++...-.++. +.........+.+. .++..++.++....-.....++.+
T Consensus 14 ~LT~eQ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~v 87 (100)
T PF07813_consen 14 NLTDEQKAKWRAIRQAMKAKMKPLKAMREQLRALRD-----PSFDEAAPEALAAM-AEMMELRAEMMEERAKAQHALYAV 87 (100)
T ss_dssp --THHHHHHHHHHHHHHCTTS------HHHHHHHHH-----SS--HHHHHHHH---HHCHHHHHHHHHHHHHHHHHHHTT
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhhcccHHHHHHhcc-----ccCChhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 799999999999988765422 22333333333 55555555444422 455555555544444444444433
No 57
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=27.86 E-value=54 Score=30.61 Aligned_cols=29 Identities=24% Similarity=0.684 Sum_probs=23.1
Q ss_pred CCcccCCCCCCCCCCCCCCCcCCCCCCCCCCCccc
Q 011110 452 PRRVLGPEKPAFLNIDTDYESWVPPEGQSGDGQTA 486 (493)
Q Consensus 452 ~krvlgp~~p~fl~~~~d~~~wvppegqsgdgrts 486 (493)
.||.-.|.|+-|.|.+....|| ||-||+.
T Consensus 88 ~kr~~~paKYky~dp~G~~~TW------TGrGR~P 116 (135)
T PRK10947 88 AKRAARPAKYSYVDENGETKTW------TGQGRTP 116 (135)
T ss_pred ccCCCCCCCCcccCCCCCcCcc------cCCCCCC
Confidence 4566679999999976666899 7999985
No 58
>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=27.76 E-value=7.9e+02 Score=26.42 Aligned_cols=54 Identities=17% Similarity=0.332 Sum_probs=40.3
Q ss_pred HHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhh
Q 011110 37 IKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNESIRESL 100 (493)
Q Consensus 37 ~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSiresl 100 (493)
+.+++.|..++..|..+. ..=..+|.|..+.|..-++.|...|..||..+...+
T Consensus 219 R~hleqm~~~~~~I~~~~----------~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~ 272 (359)
T PF10498_consen 219 RSHLEQMKQHKKSIESAL----------PETKSQLDKLQQDISKTLEKIESREKYINNQLEPLI 272 (359)
T ss_pred HHHHHHHHHHHHHHHHhh----------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 445666666666655442 344568899999999999999999999999886443
No 59
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=27.76 E-value=1.1e+02 Score=27.50 Aligned_cols=16 Identities=25% Similarity=0.515 Sum_probs=10.8
Q ss_pred HHHHHHHHHhHHHHHH
Q 011110 78 IAQIMEELENLEETLN 93 (493)
Q Consensus 78 i~~L~eEle~LEEtLn 93 (493)
|..-.++|++||+.|+
T Consensus 85 ~~~~~k~i~~le~~I~ 100 (100)
T PF04568_consen 85 IEHHRKEIDELEKHIE 100 (100)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhcC
Confidence 3337777888877764
No 60
>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=27.71 E-value=2.7e+02 Score=31.49 Aligned_cols=49 Identities=24% Similarity=0.304 Sum_probs=29.0
Q ss_pred HHhhHHHHHHHH-------HhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 43 IAHMKREIDLIR-------AKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 43 i~nmk~EidrIr-------aKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
+.+++.+++++. .+-.+.||- .+...+..+.+|..+..++.+++..|..
T Consensus 232 i~~l~~ele~a~~~l~~l~~~~~~~GG~---~~~~r~~Le~ei~~le~e~~e~~~~l~~ 287 (650)
T TIGR03185 232 IAHLRNELEEAQRSLESLEKKFRSEGGD---LFEEREQLERQLKEIEAARKANRAQLRE 287 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcch---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445544444444 434445653 4444566777777777777777776643
No 61
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=27.61 E-value=2.3e+02 Score=33.52 Aligned_cols=63 Identities=21% Similarity=0.278 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHH-HHHHHHhhhcc----cCCcccCccCCCCCCCCCCCCCchhhhcccC
Q 011110 68 QTQIARNEQRIAQIMEELENLEETL-NESIRESLGAR----SGNTYRGKKKGMGEDEEDFLSDDDEFYDRTK 134 (493)
Q Consensus 68 qtqi~RNEqri~~L~eEle~LEEtL-neSireslGAr----~ga~SrrRKkknwEdeDyYDSDDDeFlDRTG 134 (493)
|+-+++.-++|.-|..-|+-.|.+| ..+|..++=.. ....-+++|.. +-.-.|+-|+|.-|-.
T Consensus 345 q~eLdK~~~~i~~Ln~~leaReaqll~~e~~ka~lee~~~n~~~e~~~~k~~----~s~~ssl~~e~~QRva 412 (961)
T KOG4673|consen 345 QLELDKTKKEIKMLNNALEAREAQLLADEIAKAMLEEEQLNSVTEDLKRKSN----ESEVSSLREEYHQRVA 412 (961)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhh----cccccchHHHHHHHHH
Confidence 4567777777877777777777766 33333333110 00012344432 3345778899999975
No 62
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=27.20 E-value=3.5e+02 Score=22.20 Aligned_cols=75 Identities=16% Similarity=0.207 Sum_probs=36.2
Q ss_pred hhccccCCCCHHHHHHHHHHHHHH-HHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 011110 17 TWQTYKGQLTEKQEKTREKVIKRT-QKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNES 95 (493)
Q Consensus 17 ~wq~y~g~ltekQqk~~eki~kr~-~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneS 95 (493)
.|....-+||+.|+.....|.... .++..++.++...|..=... .... + =++.+|..+.++|..+...+...
T Consensus 34 ~~~~~~l~Lt~eQ~~~l~~~~~~~~~~~~~~r~~~~~~r~~l~~l---l~~~--~--~D~~~i~a~~~~~~~~~~~l~~~ 106 (125)
T PF13801_consen 34 PMLADMLNLTPEQQAKLRALMDEFRQEMRALRQELRAARQELRAL---LAAP--P--PDEAAIEALLEEIREAQAELRQE 106 (125)
T ss_dssp HHHHHHS-TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HCCS--S--S-HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HcCC--C--CCHHHHHHHHHHHHHHHHHHHHH
Confidence 344455799999977666665543 33555555444443322111 1100 0 12335555556666655555554
Q ss_pred HHH
Q 011110 96 IRE 98 (493)
Q Consensus 96 ire 98 (493)
+.+
T Consensus 107 ~~~ 109 (125)
T PF13801_consen 107 RLE 109 (125)
T ss_dssp HHH
T ss_pred HHH
Confidence 443
No 63
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=26.07 E-value=93 Score=33.07 Aligned_cols=52 Identities=21% Similarity=0.489 Sum_probs=17.8
Q ss_pred HHHhhHHHHHHHHHhhccc-----------CCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 011110 42 KIAHMKREIDLIRAKDISQ-----------GGLTQGQQTQIARNEQRIAQIMEELENLEETLN 93 (493)
Q Consensus 42 Ki~nmk~EidrIraKe~~~-----------~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLn 93 (493)
.+.+|+.|++.|+-..... +.+..|-...|...|+||..|+..|++++.++.
T Consensus 106 ~~~elkkEie~IKk~q~e~~~~i~~~~~~~~~~~~~l~~Ri~e~Eeris~lEd~~~~i~~~~~ 168 (370)
T PF02994_consen 106 RIKELKKEIENIKKNQSEMKLEIENLKKKLENIDESLNSRIDELEERISELEDRIEEIEQAIK 168 (370)
T ss_dssp ------------H-------------------------HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhHHH
Confidence 4567888888887433111 112234456677777777777777766666554
No 64
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=25.71 E-value=2.3e+02 Score=23.24 Aligned_cols=28 Identities=25% Similarity=0.418 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 67 QQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 67 Qqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
....+...|++...+...|.++.+.|+.
T Consensus 18 ~~~~i~~lE~~~~~~e~~i~~~~~~l~~ 45 (71)
T PF10779_consen 18 HEERIDKLEKRDAANEKDIKNLNKQLEK 45 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666677777777777777766653
No 65
>KOG4325 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.66 E-value=1.8e+02 Score=28.69 Aligned_cols=47 Identities=30% Similarity=0.424 Sum_probs=31.3
Q ss_pred HHHhhHHHHHHHHH--hhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHH
Q 011110 42 KIAHMKREIDLIRA--KDISQGGLTQGQQTQIARNEQRIAQIMEELENLE 89 (493)
Q Consensus 42 Ki~nmk~EidrIra--Ke~~~~GLtqGQqtqi~RNEqri~~L~eEle~LE 89 (493)
||.||++-|--.-+ --++.+.|++-|..++++++.+- ++.++||+++
T Consensus 163 kIkaLKKKiR~tEalQQkiaagdln~~qkEkfeKLaerR-a~eeaLED~a 211 (212)
T KOG4325|consen 163 KIKALKKKIRLTEALQQKIAAGDLNPEQKEKFEKLAERR-AEEEALEDKA 211 (212)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHH-HHHHHhhhhc
Confidence 45555554432211 22456899999999999998876 5567777764
No 66
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=25.64 E-value=4.4e+02 Score=24.96 Aligned_cols=57 Identities=12% Similarity=0.142 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHH-----HHHHHHHHHHHHHHHhH
Q 011110 32 TREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQI-----ARNEQRIAQIMEELENL 88 (493)
Q Consensus 32 ~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi-----~RNEqri~~L~eEle~L 88 (493)
-+++++..+..+.+-+-++-...+--+.+|-|++----.. .+++.||..|..-|.++
T Consensus 12 g~~~L~~EL~~L~~~r~~i~~~i~~Ar~~GDlsENaey~aak~~q~~~e~RI~~L~~~L~~A 73 (158)
T PRK05892 12 ARDHLEAELARLRARRDRLAVEVNDRGMIGDHGDQAEAIQRADELARLDDRINELDRRLRTG 73 (158)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHhCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3455555555555545555444555567788987554444 44455555555444443
No 67
>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.
Probab=25.52 E-value=3.8e+02 Score=21.96 Aligned_cols=69 Identities=22% Similarity=0.281 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHhhcccC-CCchhHH----HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhc
Q 011110 34 EKVIKRTQKIAHMKREIDLIRAKDISQG-GLTQGQQ----TQIARNEQRIAQIMEELENLEETLNESIRESLGA 102 (493)
Q Consensus 34 eki~kr~~Ki~nmk~EidrIraKe~~~~-GLtqGQq----tqi~RNEqri~~L~eEle~LEEtLneSireslGA 102 (493)
..+..-..++..|...++.+...-.... |.+..+. .-|...+.+|..+..+|+.++..++.....-+.+
T Consensus 12 ~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~r~~l~~a 85 (123)
T PF02050_consen 12 QELQEAEEQLEQLQQERQEYQEQLSESQQGVSVAQLRNYQRYISALEQAIQQQQQELERLEQEVEQAREELQEA 85 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHT-----SGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444556666666666644433333 5665553 4466677777777777777777776555433333
No 68
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=25.44 E-value=2.4e+02 Score=27.66 Aligned_cols=55 Identities=22% Similarity=0.283 Sum_probs=30.8
Q ss_pred HHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 011110 38 KRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETL 92 (493)
Q Consensus 38 kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtL 92 (493)
.-+..|..||.||..++.++.....+=..=+....|.-.-+.++.+|++.|...|
T Consensus 24 ~NL~lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L 78 (201)
T PF13851_consen 24 NNLELIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQL 78 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 3577899999999999987654433333323333333333444444444444443
No 69
>PRK02224 chromosome segregation protein; Provisional
Probab=25.22 E-value=1.1e+03 Score=27.28 Aligned_cols=19 Identities=16% Similarity=0.155 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 011110 151 ADTLLDKRDVIMKEMEDKK 169 (493)
Q Consensus 151 YESLl~Kl~el~kEl~e~~ 169 (493)
+..|-.+++++..++.++.
T Consensus 574 ~~~~~~~~~~l~~~~~~le 592 (880)
T PRK02224 574 VAELNSKLAELKERIESLE 592 (880)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4445555555555554444
No 70
>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=25.21 E-value=6.7e+02 Score=29.15 Aligned_cols=18 Identities=22% Similarity=0.171 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 011110 212 HQKELSTLQSELDRILYL 229 (493)
Q Consensus 212 Lr~eL~eLkkE~qRL~kL 229 (493)
++.++..++.++..+...
T Consensus 466 l~~~~~~~~~~~~~l~~~ 483 (1179)
T TIGR02168 466 LREELEEAEQALDAAERE 483 (1179)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444444444433
No 71
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=24.98 E-value=4.3e+02 Score=25.03 Aligned_cols=32 Identities=22% Similarity=0.402 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 011110 66 GQQTQIARNEQRIAQIMEELENLEETLNESIR 97 (493)
Q Consensus 66 GQqtqi~RNEqri~~L~eEle~LEEtLneSir 97 (493)
=+...++.......+|..+|+.|+..|++-|-
T Consensus 70 ~~k~~~~~lr~~~e~L~~eie~l~~~L~~ei~ 101 (177)
T PF07798_consen 70 SRKSEFAELRSENEKLQREIEKLRQELREEIN 101 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566777788889999999999999998874
No 72
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=24.94 E-value=2.5e+02 Score=27.80 Aligned_cols=58 Identities=14% Similarity=0.209 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 32 TREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 32 ~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
.-+.|.--.-++.|++.+.+|++.=-.+.+- ...+-..|++|.+++.+||.++.+++.
T Consensus 130 vT~~y~D~~arl~~l~~~~~rl~~ll~ka~~-----~~d~l~ie~~L~~v~~eIe~~~~~~~~ 187 (262)
T PF14257_consen 130 VTEQYVDLEARLKNLEAEEERLLELLEKAKT-----VEDLLEIERELSRVRSEIEQLEGQLKY 187 (262)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666667788888888888764333221 234667888888888888888887754
No 73
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=24.93 E-value=3.7e+02 Score=24.69 Aligned_cols=32 Identities=19% Similarity=0.405 Sum_probs=21.6
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 011110 61 GGLTQGQQTQIARNEQRIAQIMEELENLEETL 92 (493)
Q Consensus 61 ~GLtqGQqtqi~RNEqri~~L~eEle~LEEtL 92 (493)
.+|.--+|+-.+-...+|+.|.+++-+||..|
T Consensus 75 ~~~~~~r~~~~~~l~~rvd~Lerqv~~Lenk~ 106 (108)
T COG3937 75 SDLEVARQSEMDELTERVDALERQVADLENKL 106 (108)
T ss_pred hhccccccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 34445566667777777777777777777654
No 74
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=24.64 E-value=4.4e+02 Score=25.78 Aligned_cols=30 Identities=20% Similarity=0.280 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 011110 68 QTQIARNEQRIAQIMEELENLEETLNESIR 97 (493)
Q Consensus 68 qtqi~RNEqri~~L~eEle~LEEtLneSir 97 (493)
...-+-.+|+..++..|-+.|..+.+.+|.
T Consensus 106 k~e~evL~qr~~kle~ErdeL~~kf~~~i~ 135 (201)
T PF13851_consen 106 KWEHEVLEQRFEKLEQERDELYRKFESAIQ 135 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556777778888888888888887776
No 75
>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=24.44 E-value=1e+02 Score=28.60 Aligned_cols=25 Identities=16% Similarity=0.371 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 011110 151 ADTLLDKRDVIMKEMEDKKELFEKE 175 (493)
Q Consensus 151 YESLl~Kl~el~kEl~e~~e~L~~e 175 (493)
.+.|..++..|..+++.....|...
T Consensus 75 ~E~l~rriq~LEeele~ae~~L~e~ 99 (143)
T PF12718_consen 75 AEQLNRRIQLLEEELEEAEKKLKET 99 (143)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 3477788888888887777666543
No 76
>PF06273 eIF-4B: Plant specific eukaryotic initiation factor 4B; InterPro: IPR010433 This family consists of several plant specific eukaryotic initiation factor 4B proteins.
Probab=24.44 E-value=44 Score=37.27 Aligned_cols=78 Identities=21% Similarity=0.297 Sum_probs=49.3
Q ss_pred hhhccccCCCCHHHHHHHHHHHHHHHH--HHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 011110 16 VTWQTYKGQLTEKQEKTREKVIKRTQK--IAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLN 93 (493)
Q Consensus 16 ~~wq~y~g~ltekQqk~~eki~kr~~K--i~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLn 93 (493)
+||+...-.|.-+...-.+.-..+..| |.+|+.++..+-+..... ...++. .-.-..|.+.+.||+.|-.-|.
T Consensus 346 ~D~~~~d~~le~~~~~r~e~~~ek~lKeeI~~lk~~l~~~~~~~~~~--~~~~~~---~~~~e~i~~kE~eLe~L~~elD 420 (492)
T PF06273_consen 346 QDWRKIDLELEHRAVDRPETEEEKFLKEEINALKERLEEEEASSEKS--KGSGEE---ESLREEISQKEKELEKLTRELD 420 (492)
T ss_pred cCHHHHHHHhhcccccccccccchhhhhhHHHHHHHHHhhhhhhhhc--cccccc---hhHHHHHHHHHHHHHHHHHHhh
Confidence 788877766655443323333333333 777777777776644333 224444 5556778888888888888888
Q ss_pred HHHHH
Q 011110 94 ESIRE 98 (493)
Q Consensus 94 eSire 98 (493)
++||=
T Consensus 421 dkvRF 425 (492)
T PF06273_consen 421 DKVRF 425 (492)
T ss_pred ccccc
Confidence 99983
No 77
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=24.38 E-value=1.3e+02 Score=24.71 Aligned_cols=25 Identities=28% Similarity=0.465 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHH
Q 011110 71 IARNEQRIAQIMEELENLEETLNES 95 (493)
Q Consensus 71 i~RNEqri~~L~eEle~LEEtLneS 95 (493)
++-++.||..|..||+-++..|...
T Consensus 23 v~EL~~RIa~L~aEI~R~~~~~~~K 47 (59)
T PF06698_consen 23 VEELEERIALLEAEIARLEAAIAKK 47 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567899999999999999888544
No 78
>KOG0432 consensus Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=24.06 E-value=2.4e+02 Score=34.14 Aligned_cols=59 Identities=20% Similarity=0.367 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 011110 31 KTREKVIKRTQKIAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETL 92 (493)
Q Consensus 31 k~~eki~kr~~Ki~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtL 92 (493)
+.++++++|++| |+++.++|++--.+.+.-..-=..-...|+.....+..||+++.+.|
T Consensus 930 ~e~~kl~kkl~k---lqk~~~~l~~r~~~~~~~~k~p~~v~~~~~~Kl~~~~~ei~~~~~~~ 988 (995)
T KOG0432|consen 930 SEIQKLAKKLEK---LQKQLDKLQARISSSDYQEKAPLEVKEKNKEKLKELEAEIENLKAAL 988 (995)
T ss_pred HHHHHHHHHHHH---HHHHHHHHHHHhhcccccccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556666666444 56777777776433332222222234556666677777777776655
No 79
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=23.77 E-value=2e+02 Score=22.74 Aligned_cols=34 Identities=26% Similarity=0.454 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHhH---HHHHHHHHHHhhhc
Q 011110 69 TQIARNEQRIAQIMEELENL---EETLNESIRESLGA 102 (493)
Q Consensus 69 tqi~RNEqri~~L~eEle~L---EEtLneSireslGA 102 (493)
++|+...+++..|..+|+.| .+.|..-.|+-+|.
T Consensus 31 ~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~AR~~lgm 67 (80)
T PF04977_consen 31 KEIEELKKENEELKEEIERLKNDPDYIEKVAREKLGM 67 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcCC
Confidence 45666666666667777766 56666666666666
No 80
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=23.76 E-value=1.3e+03 Score=28.34 Aligned_cols=8 Identities=0% Similarity=0.580 Sum_probs=5.2
Q ss_pred cccchhhh
Q 011110 350 QFVGYKER 357 (493)
Q Consensus 350 ~fvdykdr 357 (493)
++|+|.++
T Consensus 597 dli~~d~~ 604 (1163)
T COG1196 597 DLIDFDPK 604 (1163)
T ss_pred HHhcCCHH
Confidence 56777764
No 81
>PRK04863 mukB cell division protein MukB; Provisional
Probab=23.06 E-value=5.8e+02 Score=32.49 Aligned_cols=43 Identities=23% Similarity=0.147 Sum_probs=26.7
Q ss_pred ChHHHHHhhcccc----hhhhhHHHHHHHHHHHHH---HHHHHHHHHHhc
Q 011110 191 DALDAYMSGLSSQ----LVLDKTMQHQKELSTLQS---ELDRILYLLKFA 233 (493)
Q Consensus 191 DsLDAFMs~L~S~----l~~DkveKLr~eL~eLkk---E~qRL~kLLKIA 233 (493)
+.-+.|-..+..- ...+.+..|+.+|.+|+. .++++.+|+.=+
T Consensus 493 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~q~~~~~~~~~~ 542 (1486)
T PRK04863 493 EAWDVARELLRRLREQRHLAEQLQQLRMRLSELEQRLRQQQRAERLLAEF 542 (1486)
T ss_pred HHHHHHHHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555554321 123456689999999998 667777776543
No 82
>PRK14127 cell division protein GpsB; Provisional
Probab=22.79 E-value=1.1e+02 Score=27.86 Aligned_cols=40 Identities=15% Similarity=0.297 Sum_probs=26.8
Q ss_pred CCChHHHHHhhcccchh--hhhHHHHHHHHHHHHHHHHHHHH
Q 011110 189 SGDALDAYMSGLSSQLV--LDKTMQHQKELSTLQSELDRILY 228 (493)
Q Consensus 189 ~~DsLDAFMs~L~S~l~--~DkveKLr~eL~eLkkE~qRL~k 228 (493)
+.+.+|+|+..|..... ......|+.++..|+.++..+..
T Consensus 24 d~~EVD~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~ 65 (109)
T PRK14127 24 DQDEVDKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTK 65 (109)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45899999999975532 33444566666666666666664
No 83
>cd07620 BAR_SH3BP1 The Bin/Amphiphysin/Rvs (BAR) domain of SH3-domain Binding Protein 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. SH3-domain binding protein 1 (SH3BP1 or 3BP-1) is a Rac GTPase activating protein that inhibits Rac-mediated platelet-derived growth factor (PDGF)-induced membrane ruffling. SH3BP1 contains an N-terminal BAR domain followed by a GAP domain for Rho and Rac GTPases and a C-terminal proline-rich domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=22.67 E-value=1.1e+02 Score=31.66 Aligned_cols=78 Identities=17% Similarity=0.247 Sum_probs=57.1
Q ss_pred ccccCCCCHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhccc-------CCCc--hhHHHHHHHHHHHHHHHHHHHHhHH
Q 011110 19 QTYKGQLTEKQEKTREKVIKRTQKIAHMKREIDLIRAKDISQ-------GGLT--QGQQTQIARNEQRIAQIMEELENLE 89 (493)
Q Consensus 19 q~y~g~ltekQqk~~eki~kr~~Ki~nmk~EidrIraKe~~~-------~GLt--qGQqtqi~RNEqri~~L~eEle~LE 89 (493)
|.+--.|+.-+++..-.|.+...|++.+.++-|..|.+-.+. +|+. .|= ++--++-.+++.|.+|+++++
T Consensus 106 ~~vl~PL~~L~e~dL~~I~k~rKkL~k~~LD~D~~K~R~~~a~k~s~~~~~~~~~~~~-~~~~~~~~K~~~lkeE~eea~ 184 (257)
T cd07620 106 KDVLQPLNKLSEEDLPEILKNKKQFAKLTTDWNSAKSRSPQAAGRSPRSGGRSEEVGE-HQGIRRANKGEPLKEEEEECW 184 (257)
T ss_pred HHHHHHHHHhHHhhHHHHHHHHHHHHhHHhhHHHHHHHHHHhhccccCCccccccccc-cccccccccccccHHHHHHHH
Confidence 555667788888999999999999999999999999876321 2221 000 011124567778999999999
Q ss_pred HHHHHHHH
Q 011110 90 ETLNESIR 97 (493)
Q Consensus 90 EtLneSir 97 (493)
+.+..+..
T Consensus 185 ~K~E~~kd 192 (257)
T cd07620 185 RKLEQCKD 192 (257)
T ss_pred HHHHHHHH
Confidence 99999875
No 84
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=22.53 E-value=2.4e+02 Score=32.28 Aligned_cols=82 Identities=21% Similarity=0.347 Sum_probs=56.2
Q ss_pred hhhccccCCCCHHHHHHHHH-------HHHHHHHHHhhHHHHHHH----HHhhcccC-----------------------
Q 011110 16 VTWQTYKGQLTEKQEKTREK-------VIKRTQKIAHMKREIDLI----RAKDISQG----------------------- 61 (493)
Q Consensus 16 ~~wq~y~g~ltekQqk~~ek-------i~kr~~Ki~nmk~EidrI----raKe~~~~----------------------- 61 (493)
--|..|...|.++=..+++. ..+++.+|++|+.++..| +.|+....
T Consensus 415 ~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~~k~~~Rs~Yt~RIl 494 (594)
T PF05667_consen 415 QQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELEKLPKDVNRSAYTRRIL 494 (594)
T ss_pred HHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence 56999998888887777765 446677777777776654 55554311
Q ss_pred ---CCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 011110 62 ---GLTQGQQTQIARNEQRIAQIMEELENLEETLNESIR 97 (493)
Q Consensus 62 ---GLtqGQqtqi~RNEqri~~L~eEle~LEEtLneSir 97 (493)
|=.-.|+..|.+.-.-+-.|++||..|.++|.-+..
T Consensus 495 EIv~NI~KQk~eI~KIl~DTr~lQkeiN~l~gkL~RtF~ 533 (594)
T PF05667_consen 495 EIVKNIRKQKEEIEKILSDTRELQKEINSLTGKLDRTFT 533 (594)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 123467777777777777888888888877766553
No 85
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=22.53 E-value=3.1e+02 Score=30.79 Aligned_cols=25 Identities=20% Similarity=0.437 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHH
Q 011110 72 ARNEQRIAQIMEELENLEETLNESI 96 (493)
Q Consensus 72 ~RNEqri~~L~eEle~LEEtLneSi 96 (493)
++....+....+.|.+|+|.|++-.
T Consensus 424 e~~~~~~~s~d~~I~dLqEQlrDlm 448 (493)
T KOG0804|consen 424 EREKEALGSKDEKITDLQEQLRDLM 448 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHh
Confidence 3444556677888888888887743
No 86
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=22.40 E-value=3.4e+02 Score=30.46 Aligned_cols=41 Identities=17% Similarity=0.258 Sum_probs=25.9
Q ss_pred hhccccCCCCHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhcccC
Q 011110 17 TWQTYKGQLTEKQEKTREKVIKRTQKIAHMKREIDLIRAKDISQG 61 (493)
Q Consensus 17 ~wq~y~g~ltekQqk~~eki~kr~~Ki~nmk~EidrIraKe~~~~ 61 (493)
|.+|..+++ ..++.++++=+..-..|+.|++++|..+..-+
T Consensus 60 TlrTlva~~----k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id 100 (472)
T TIGR03752 60 TLRTLVAEV----KELRKRLAKLISENEALKAENERLQKREQSID 100 (472)
T ss_pred hHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence 445544443 34555555555556678999999988776543
No 87
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=22.26 E-value=4.5e+02 Score=29.61 Aligned_cols=76 Identities=16% Similarity=0.207 Sum_probs=47.0
Q ss_pred ccccCCCCHHHHHHHHHHHHHHHH--HHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 19 QTYKGQLTEKQEKTREKVIKRTQK--IAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 19 q~y~g~ltekQqk~~eki~kr~~K--i~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
-+.-++.-++|.+.++.+..++++ ++|++.........-.+.-+.+.--.+.-.-.|+++.+++.-+..+...|++
T Consensus 323 s~ll~sqleSqr~y~e~~~~e~~qsqlen~k~~~e~~~~e~~~l~~~~~~~e~~kk~~e~k~~q~q~k~~k~~kel~~ 400 (493)
T KOG0804|consen 323 SPLLTSQLESQRKYYEQIMSEYEQSQLENQKQYYELLITEADSLKQESSDLEAEKKIVERKLQQLQTKLKKCQKELKE 400 (493)
T ss_pred chhhhhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334456668889999999888887 8888877766554444433333333333444566666666666666555543
No 88
>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5
Probab=21.89 E-value=3.2e+02 Score=31.46 Aligned_cols=79 Identities=18% Similarity=0.305 Sum_probs=51.4
Q ss_pred hhhccccCCCCHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhccc--CCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 011110 16 VTWQTYKGQLTEKQEKTREKVIKRTQKIAHMKREIDLIRAKDISQ--GGLTQGQQTQIARNEQRIAQIMEELENLEETLN 93 (493)
Q Consensus 16 ~~wq~y~g~ltekQqk~~eki~kr~~Ki~nmk~EidrIraKe~~~--~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLn 93 (493)
.-|+-+--+|++.-..+++....-+..|+.|...|..++..--.. -....|-...--+....+..|.+||++|++.|.
T Consensus 25 a~~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~~~~~pa~pse~E~~Lq~E~~~L~kElE~L~~qlq 104 (617)
T PF15070_consen 25 AQWQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPPPPEPPAGPSEVEQQLQAEAEHLRKELESLEEQLQ 104 (617)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCccccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777778888777777777777777888888887776432211 122334333334556667777888888877664
Q ss_pred H
Q 011110 94 E 94 (493)
Q Consensus 94 e 94 (493)
.
T Consensus 105 a 105 (617)
T PF15070_consen 105 A 105 (617)
T ss_pred H
Confidence 3
No 89
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.63 E-value=4.9e+02 Score=27.14 Aligned_cols=33 Identities=21% Similarity=0.355 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhh
Q 011110 68 QTQIARNEQRIAQIMEELENLEETLNESIRESL 100 (493)
Q Consensus 68 qtqi~RNEqri~~L~eEle~LEEtLneSiresl 100 (493)
+.-|.++++.|..|.+.|.+..+.|.+..|-.+
T Consensus 79 ~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq 111 (265)
T COG3883 79 KAEIKKLQKEIAELKENIVERQELLKKRARAMQ 111 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 347899999999999999999999999988333
No 90
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.13 E-value=3.1e+02 Score=29.80 Aligned_cols=60 Identities=20% Similarity=0.392 Sum_probs=35.0
Q ss_pred HHHHHHHHH-HHHHhhHHHHHHHHHhhcccCCCchhHH---HHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 32 TREKVIKRT-QKIAHMKREIDLIRAKDISQGGLTQGQQ---TQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 32 ~~eki~kr~-~Ki~nmk~EidrIraKe~~~~GLtqGQq---tqi~RNEqri~~L~eEle~LEEtLne 94 (493)
.+++++.|. ++|.++..|...|+--+. .|-.|++ .-+.++||++..|.+.||=|-..+++
T Consensus 215 ~~eklR~r~eeeme~~~aeq~slkRt~E---eL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~e 278 (365)
T KOG2391|consen 215 VREKLRRRREEEMERLQAEQESLKRTEE---ELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVRE 278 (365)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHH---HHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence 345555443 346777777777754332 3445555 34567777777777777765444444
No 91
>TIGR01461 greB transcription elongation factor GreB. The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB.
Probab=20.53 E-value=3.1e+02 Score=25.88 Aligned_cols=56 Identities=18% Similarity=0.239 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHh-hHHHHHHHHHhhcccCCCchhH-----HHHHHHHHHHHHHHHHHHHhH
Q 011110 33 REKVIKRTQKIAH-MKREIDLIRAKDISQGGLTQGQ-----QTQIARNEQRIAQIMEELENL 88 (493)
Q Consensus 33 ~eki~kr~~Ki~n-mk~EidrIraKe~~~~GLtqGQ-----qtqi~RNEqri~~L~eEle~L 88 (493)
+++++..+..+.+ -+-|+-+..+--+.+|-|++=- +.....++.||..|...|.++
T Consensus 10 ~~~L~~El~~L~~~~r~~~~~~i~~Ar~~GDlsENaeY~aak~~~~~le~rI~~L~~~L~~A 71 (156)
T TIGR01461 10 YEKLKQELNYLWREERPEVTQKVTWAASLGDRSENADYQYGKKRLREIDRRVRFLTKRLENL 71 (156)
T ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHHcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3455555555543 3444444445556778888644 445666777777777666664
No 92
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=20.48 E-value=2e+02 Score=22.74 Aligned_cols=26 Identities=27% Similarity=0.454 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 69 TQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 69 tqi~RNEqri~~L~eEle~LEEtLne 94 (493)
.+|...+.+|.+|..+.++|++.|..
T Consensus 24 ~ei~~l~~~i~~l~~e~~~L~~ei~~ 49 (80)
T PF04977_consen 24 QEIAELQKEIEELKKENEELKEEIER 49 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555666666666666555543
No 93
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=20.46 E-value=76 Score=33.72 Aligned_cols=43 Identities=23% Similarity=0.336 Sum_probs=30.9
Q ss_pred cCCCchhHHHHHHHHHHHHHH-----HHHHHHhHHHHHHHHHHHhhhc
Q 011110 60 QGGLTQGQQTQIARNEQRIAQ-----IMEELENLEETLNESIRESLGA 102 (493)
Q Consensus 60 ~~GLtqGQqtqi~RNEqri~~-----L~eEle~LEEtLneSireslGA 102 (493)
-..||.|||+..+=--.=+.+ +.|=|-||+..||.++|.-|..
T Consensus 131 P~~LSGGQrQRVAlaRAlVr~P~v~L~DEPlSnLDa~lR~~mr~ei~~ 178 (338)
T COG3839 131 PLQLSGGQRQRVALARALVRKPKVFLLDEPLSNLDAKLRVLMRSEIKK 178 (338)
T ss_pred cccCChhhHHHHHHHHHHhcCCCEEEecCchhHhhHHHHHHHHHHHHH
Confidence 468999999766544333333 4455999999999999977644
No 94
>PF06401 Alpha-2-MRAP_C: Alpha-2-macroglobulin RAP, C-terminal domain ; InterPro: IPR010483 The alpha-2-macroglobulin receptor-associated protein (RAP) is a intracellular glycoprotein that binds to the 2-macroglobulin receptor and other members of the low density lipoprotein receptor family. The protein inhibits binding of all currently known ligands of these receptors []. Two different studies have provided conflicting domain boundaries.; GO: 0008201 heparin binding, 0050750 low-density lipoprotein particle receptor binding, 0005783 endoplasmic reticulum; PDB: 2FCW_A 2P03_A 2FTU_A 2P01_A.
Probab=20.44 E-value=9.1e+02 Score=24.52 Aligned_cols=75 Identities=21% Similarity=0.306 Sum_probs=50.9
Q ss_pred cCCCCHHH----HHHHHHHHHHHHHHHhhHHHHHHHHHhhc---ccCCCchhH--HHHHHHHHHHHHHHHHHHHhHHHHH
Q 011110 22 KGQLTEKQ----EKTREKVIKRTQKIAHMKREIDLIRAKDI---SQGGLTQGQ--QTQIARNEQRIAQIMEELENLEETL 92 (493)
Q Consensus 22 ~g~ltekQ----qk~~eki~kr~~Ki~nmk~EidrIraKe~---~~~GLtqGQ--qtqi~RNEqri~~L~eEle~LEEtL 92 (493)
.++||+.- ....-=+.+|++|+.+++.|...-.+|-. ..|....++ .....-.+++|-.+---|..|..-|
T Consensus 123 ~~nFT~~ELeSlkeEL~HfE~rl~K~~H~~~el~~~~~k~~~ve~~g~~~~~~~~~e~~~~leek~Kk~~~KV~Kl~~dL 202 (214)
T PF06401_consen 123 NANFTEDELESLKEELKHFEKRLEKHRHYQEELELSHEKLKHVESLGDEEHFDRKSEKYKTLEEKIKKLGRKVKKLHQDL 202 (214)
T ss_dssp TTT--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46888776 33444578999999999999887777765 445555443 4445666777777777777777777
Q ss_pred HHHH
Q 011110 93 NESI 96 (493)
Q Consensus 93 neSi 96 (493)
...|
T Consensus 203 e~rI 206 (214)
T PF06401_consen 203 ESRI 206 (214)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 7666
No 95
>COG1317 FliH Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=20.41 E-value=4.7e+02 Score=26.23 Aligned_cols=37 Identities=27% Similarity=0.406 Sum_probs=26.2
Q ss_pred CCCchhHHHH------HHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 011110 61 GGLTQGQQTQ------IARNEQRIAQIMEELENLEETLNESIR 97 (493)
Q Consensus 61 ~GLtqGQqtq------i~RNEqri~~L~eEle~LEEtLneSir 97 (493)
.|+.+|++.. ..+...-|..++.+++.+++.+...|-
T Consensus 78 ~G~~eG~~~g~~~~~~~e~~~~li~~~~~~~~~~~~~~e~qLv 120 (234)
T COG1317 78 LGYEEGFEEGQEEGRVLERLAKLIAEFQAELEALKEVVEKQLV 120 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4777777666 377777778888888887776665553
No 96
>PRK10884 SH3 domain-containing protein; Provisional
Probab=20.34 E-value=3.7e+02 Score=26.70 Aligned_cols=14 Identities=0% Similarity=0.055 Sum_probs=5.6
Q ss_pred HHHHHHHHHhHHHH
Q 011110 78 IAQIMEELENLEET 91 (493)
Q Consensus 78 i~~L~eEle~LEEt 91 (493)
+..++.+++.|+..
T Consensus 148 l~~~~~~~~~l~~~ 161 (206)
T PRK10884 148 LIVAQKKVDAANLQ 161 (206)
T ss_pred HHHHHHHHHHHHHH
Confidence 33344444444333
No 97
>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=20.25 E-value=3.8e+02 Score=26.12 Aligned_cols=70 Identities=16% Similarity=0.246 Sum_probs=0.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHhhHHHHHHHHH--------hhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 25 LTEKQEKTREKVIKRTQKIAHMKREIDLIRA--------KDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 25 ltekQqk~~eki~kr~~Ki~nmk~EidrIra--------Ke~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
++.+-..++..|+........++.+|+.+.. .-...-.-....+.++.....+|.++.++|+.+.+.|.+
T Consensus 18 ~~~~L~~~~~~l~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~ 95 (302)
T PF10186_consen 18 VNNRLLELRSELQQLKEENEELRRRIEEILESDSNGQLLEIQQLKREIEELRERLERLRERIERLRKRIEQKRERLEE 95 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 98
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=20.19 E-value=2.7e+02 Score=33.79 Aligned_cols=52 Identities=12% Similarity=0.217 Sum_probs=43.2
Q ss_pred HHhhHHHHHHHHHhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011110 43 IAHMKREIDLIRAKDISQGGLTQGQQTQIARNEQRIAQIMEELENLEETLNE 94 (493)
Q Consensus 43 i~nmk~EidrIraKe~~~~GLtqGQqtqi~RNEqri~~L~eEle~LEEtLne 94 (493)
++.+++|++++..+-.+.+.+.-....-+++...++..+.++|..|++.|..
T Consensus 851 l~kl~Kel~kl~~~L~n~~f~~kap~~~veka~~kl~~~~~~l~~le~~l~~ 902 (1052)
T PRK14900 851 IGKVDQDLAVLERKLQNPSFVQNAPPAVVEKDRARAEELREKRGKLEAHRAM 902 (1052)
T ss_pred HHHHHHHHHHHHHHhcCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6678899999999888888777777888888888888888999888887754
No 99
>PRK00226 greA transcription elongation factor GreA; Reviewed
Probab=20.08 E-value=2.7e+02 Score=25.83 Aligned_cols=41 Identities=27% Similarity=0.306 Sum_probs=26.8
Q ss_pred HHHHHHHhhcccCCCchhH-----HHHHHHHHHHHHHHHHHHHhHH
Q 011110 49 EIDLIRAKDISQGGLTQGQ-----QTQIARNEQRIAQIMEELENLE 89 (493)
Q Consensus 49 EidrIraKe~~~~GLtqGQ-----qtqi~RNEqri~~L~eEle~LE 89 (493)
++-...+--+.+|.|++-. +.....++.||.+|..+|..+.
T Consensus 29 ~~~~~~~~A~~~gdl~En~~y~~a~~~~~~~~~ri~~l~~~L~~a~ 74 (157)
T PRK00226 29 EIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAE 74 (157)
T ss_pred HHHHHHHHHHHcCCccccccchHHHHHHHHHHHHHHHHHHHHHhCe
Confidence 4433333334556666544 5666778889999988888866
No 100
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=20.05 E-value=4.2e+02 Score=27.46 Aligned_cols=69 Identities=25% Similarity=0.366 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCCCChHHHHHhhcccchhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 011110 151 ADTLLDKRDVIMKEMEDKKELFEKEKDKMASETDVETESGDALDAYMSGLSSQLVLDKTMQHQKELSTLQSELDRILYLL 230 (493)
Q Consensus 151 YESLl~Kl~el~kEl~e~~e~L~~ek~K~ak~~~~~~s~~DsLDAFMs~L~S~l~~DkveKLr~eL~eLkkE~qRL~kLL 230 (493)
+..|..+++.|..++..++....... ..+.+.|.++...|... ...++.++.+|.+|+.+++.+.-=|
T Consensus 179 ~~~l~~~~~~L~~e~~~Lk~~~~e~~----------~~D~~eL~~lr~eL~~~--~~~i~~~k~~l~el~~el~~l~~~i 246 (325)
T PF08317_consen 179 LPKLRERKAELEEELENLKQLVEEIE----------SCDQEELEALRQELAEQ--KEEIEAKKKELAELQEELEELEEKI 246 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh----------hcCHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred H
Q 011110 231 K 231 (493)
Q Consensus 231 K 231 (493)
.
T Consensus 247 ~ 247 (325)
T PF08317_consen 247 E 247 (325)
T ss_pred H
Done!