Query 008059
Match_columns 579
No_of_seqs 264 out of 554
Neff 5.6
Searched_HMMs 46136
Date Thu Mar 28 18:56:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008059.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008059hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04784 DUF547: Protein of un 100.0 1.3E-38 2.8E-43 288.0 11.0 112 364-499 1-117 (117)
2 PF14389 Lzipper-MIP1: Leucine 99.9 1E-25 2.2E-30 194.3 11.6 88 13-100 1-88 (88)
3 cd00089 HR1 Protein kinase C-r 86.7 2.5 5.4E-05 35.1 6.5 64 22-98 4-67 (72)
4 PF07106 TBPIP: Tat binding pr 86.5 2.6 5.7E-05 40.5 7.5 68 18-94 70-137 (169)
5 KOG4271 Rho-GTPase activating 77.9 0.84 1.8E-05 54.1 0.6 86 8-96 821-909 (1100)
6 PF12240 Angiomotin_C: Angiomo 72.3 20 0.00044 36.0 8.4 27 65-91 59-89 (205)
7 KOG0995 Centromere-associated 66.4 28 0.0006 39.9 9.0 72 12-101 258-329 (581)
8 PF02403 Seryl_tRNA_N: Seryl-t 63.6 29 0.00064 30.6 7.1 75 18-100 27-101 (108)
9 PF03962 Mnd1: Mnd1 family; I 63.0 44 0.00095 33.1 8.8 69 20-93 62-130 (188)
10 PRK10884 SH3 domain-containing 62.5 9.5 0.00021 38.4 4.1 26 13-38 86-111 (206)
11 PF08172 CASP_C: CASP C termin 58.9 86 0.0019 32.5 10.4 83 23-105 2-135 (248)
12 PRK11637 AmiB activator; Provi 53.9 43 0.00093 36.9 7.8 34 67-100 90-123 (428)
13 TIGR02231 conserved hypothetic 52.2 24 0.00051 40.0 5.6 34 64-97 136-169 (525)
14 KOG0804 Cytoplasmic Zn-finger 51.2 20 0.00043 40.0 4.5 41 10-50 372-412 (493)
15 PRK05431 seryl-tRNA synthetase 49.8 90 0.002 34.7 9.5 75 19-101 27-101 (425)
16 PF09726 Macoilin: Transmembra 49.6 43 0.00094 39.6 7.3 76 18-99 543-623 (697)
17 PRK11637 AmiB activator; Provi 49.4 73 0.0016 35.1 8.7 13 461-473 405-417 (428)
18 PLN02678 seryl-tRNA synthetase 48.4 92 0.002 35.0 9.3 73 20-100 33-105 (448)
19 PF02185 HR1: Hr1 repeat; Int 47.6 76 0.0016 26.0 6.5 25 27-51 1-25 (70)
20 PF15619 Lebercilin: Ciliary p 47.4 26 0.00056 35.0 4.3 70 22-91 120-189 (194)
21 KOG1760 Molecular chaperone Pr 43.9 2.3E+02 0.0051 26.5 9.5 83 17-100 27-122 (131)
22 PRK14127 cell division protein 43.1 40 0.00088 30.7 4.5 27 70-96 41-67 (109)
23 PF06698 DUF1192: Protein of u 41.7 43 0.00094 27.3 4.0 25 67-91 22-46 (59)
24 PF09457 RBD-FIP: FIP domain ; 41.5 46 0.00099 26.1 3.9 26 69-94 3-35 (48)
25 PF01920 Prefoldin_2: Prefoldi 40.8 63 0.0014 27.9 5.4 80 19-98 11-94 (106)
26 cd00632 Prefoldin_beta Prefold 40.5 1.2E+02 0.0026 26.8 7.1 76 22-97 15-94 (105)
27 PRK11239 hypothetical protein; 40.0 45 0.00098 33.8 4.7 29 68-96 185-213 (215)
28 PF09726 Macoilin: Transmembra 39.7 1.6E+02 0.0036 35.0 10.0 74 17-101 415-488 (697)
29 PF03148 Tektin: Tektin family 38.7 51 0.0011 36.1 5.4 83 13-95 251-346 (384)
30 COG1579 Zn-ribbon protein, pos 38.0 1.2E+02 0.0026 31.4 7.5 33 18-50 50-82 (239)
31 TIGR02338 gimC_beta prefoldin, 37.7 1.6E+02 0.0035 26.3 7.5 75 25-99 22-100 (110)
32 PRK11020 hypothetical protein; 37.5 1.6E+02 0.0035 27.2 7.3 61 24-100 2-62 (118)
33 PF09744 Jnk-SapK_ap_N: JNK_SA 37.4 60 0.0013 31.4 5.0 65 23-94 53-117 (158)
34 COG3937 Uncharacterized conser 36.8 48 0.001 30.2 3.9 34 64-97 66-107 (108)
35 PF14197 Cep57_CLD_2: Centroso 35.9 98 0.0021 25.9 5.4 63 24-93 2-67 (69)
36 PF04102 SlyX: SlyX; InterPro 35.9 2.1E+02 0.0045 23.6 7.4 27 24-50 1-27 (69)
37 PF07716 bZIP_2: Basic region 35.9 88 0.0019 24.4 4.9 27 68-94 27-53 (54)
38 PF04880 NUDE_C: NUDE protein, 35.4 61 0.0013 31.7 4.7 28 70-97 21-48 (166)
39 PF07957 DUF3294: Protein of u 34.9 97 0.0021 31.6 6.1 37 24-60 74-112 (216)
40 PLN02320 seryl-tRNA synthetase 34.9 2.3E+02 0.005 32.5 9.8 74 19-101 92-165 (502)
41 KOG4674 Uncharacterized conser 34.6 35 0.00077 44.1 3.6 84 16-99 801-884 (1822)
42 PF10458 Val_tRNA-synt_C: Valy 34.5 1.1E+02 0.0025 24.8 5.6 63 25-92 2-65 (66)
43 PRK09039 hypothetical protein; 32.7 1.5E+02 0.0032 32.1 7.7 32 20-51 74-105 (343)
44 TIGR03755 conj_TIGR03755 integ 32.6 92 0.002 34.7 6.0 70 28-99 308-382 (418)
45 PF12761 End3: Actin cytoskele 31.6 1.9E+02 0.0041 29.1 7.5 33 64-96 158-190 (195)
46 PF03961 DUF342: Protein of un 31.3 2E+02 0.0043 32.1 8.6 74 21-99 335-408 (451)
47 PF09727 CortBP2: Cortactin-bi 31.2 2.5E+02 0.0055 28.1 8.3 51 25-100 139-189 (192)
48 PTZ00464 SNF-7-like protein; P 30.8 1.6E+02 0.0034 29.8 7.0 49 28-82 125-173 (211)
49 PTZ00446 vacuolar sorting prot 30.6 2.3E+02 0.005 28.3 8.0 54 28-91 131-184 (191)
50 PF03148 Tektin: Tektin family 27.9 4E+02 0.0086 29.2 10.0 84 14-97 51-147 (384)
51 COG4942 Membrane-bound metallo 27.6 3.4E+02 0.0073 30.4 9.3 31 20-50 38-68 (420)
52 TIGR01005 eps_transp_fam exopo 27.4 4.1E+02 0.0089 31.5 10.8 84 20-103 237-339 (754)
53 PF14282 FlxA: FlxA-like prote 27.1 4.2E+02 0.0091 23.7 8.4 60 19-99 18-77 (106)
54 PRK01203 prefoldin subunit alp 27.1 1.1E+02 0.0024 28.8 4.8 30 68-97 2-31 (130)
55 KOG2685 Cystoskeletal protein 26.9 2.7E+02 0.0058 31.1 8.2 83 12-94 277-372 (421)
56 KOG4010 Coiled-coil protein TP 26.7 95 0.0021 31.0 4.4 29 69-97 47-82 (208)
57 PF04201 TPD52: Tumour protein 26.2 1.1E+02 0.0025 29.7 4.8 34 64-97 27-67 (162)
58 TIGR03752 conj_TIGR03752 integ 26.1 2.9E+02 0.0064 31.3 8.6 45 39-97 96-140 (472)
59 KOG4673 Transcription factor T 25.6 3E+02 0.0066 32.7 8.7 59 25-101 709-767 (961)
60 smart00338 BRLZ basic region l 25.5 1.8E+02 0.004 23.3 5.3 28 68-95 28-55 (65)
61 TIGR00414 serS seryl-tRNA synt 25.4 3.1E+02 0.0068 30.4 8.8 73 20-100 30-103 (418)
62 PF15147 DUF4578: Domain of un 25.4 30 0.00066 31.7 0.7 11 469-479 5-16 (127)
63 PF07798 DUF1640: Protein of u 25.2 6E+02 0.013 24.6 9.8 25 18-42 78-102 (177)
64 PF00769 ERM: Ezrin/radixin/mo 25.2 3.2E+02 0.007 28.1 8.2 39 62-100 78-116 (246)
65 PF13851 GAS: Growth-arrest sp 24.8 2.4E+02 0.0051 28.2 7.0 66 23-96 65-130 (201)
66 PF13107 DUF3964: Protein of u 24.7 36 0.00078 30.3 1.0 16 365-381 89-104 (109)
67 PF07544 Med9: RNA polymerase 24.0 3.4E+02 0.0075 23.2 6.9 57 23-94 24-80 (83)
68 KOG1937 Uncharacterized conser 23.5 4.6E+02 0.01 29.7 9.3 76 23-100 348-423 (521)
69 PF10186 Atg14: UV radiation r 23.3 1.2E+02 0.0026 31.0 4.8 83 19-101 69-154 (302)
70 PRK09343 prefoldin subunit bet 22.8 3.6E+02 0.0079 24.7 7.3 43 58-100 59-105 (121)
71 PF08946 Osmo_CC: Osmosensory 22.4 1.3E+02 0.0028 23.4 3.4 22 67-88 5-34 (46)
72 TIGR03007 pepcterm_ChnLen poly 21.8 4.1E+02 0.009 29.6 9.0 79 14-96 155-234 (498)
73 PF09755 DUF2046: Uncharacteri 21.8 6.2E+02 0.014 27.3 9.6 68 23-91 170-247 (310)
74 KOG4074 Leucine zipper nuclear 21.5 5E+02 0.011 28.0 8.7 72 17-101 134-205 (383)
75 PF00038 Filament: Intermediat 21.3 3.9E+02 0.0084 27.8 8.2 68 21-99 76-143 (312)
76 PF05700 BCAS2: Breast carcino 21.3 2.5E+02 0.0053 28.4 6.4 36 64-99 180-215 (221)
77 PF10805 DUF2730: Protein of u 21.2 6E+02 0.013 22.7 8.9 63 16-94 31-93 (106)
78 PRK11239 hypothetical protein; 21.2 1.1E+02 0.0025 31.0 3.9 26 73-98 183-208 (215)
79 PF06005 DUF904: Protein of un 21.1 2.2E+02 0.0048 24.0 5.0 27 66-92 11-37 (72)
80 TIGR03185 DNA_S_dndD DNA sulfu 20.8 3.2E+02 0.007 31.9 8.1 64 23-100 226-289 (650)
81 KOG3863 bZIP transcription fac 20.8 3.3E+02 0.0071 31.9 7.8 65 4-100 495-559 (604)
82 KOG3915 Transcription regulato 20.4 1.5E+02 0.0034 33.4 4.9 33 19-51 541-580 (641)
83 PRK13729 conjugal transfer pil 20.3 2.6E+02 0.0055 31.8 6.7 23 69-91 100-122 (475)
84 PF13870 DUF4201: Domain of un 20.1 4E+02 0.0087 25.6 7.4 71 25-96 103-175 (177)
No 1
>PF04784 DUF547: Protein of unknown function, DUF547; InterPro: IPR006869 This is a conserved region found in uncharacterised proteins from Caenorhabditis elegans and Arabidopsis thaliana (Mouse-ear cress).
Probab=100.00 E-value=1.3e-38 Score=288.02 Aligned_cols=112 Identities=39% Similarity=0.707 Sum_probs=105.7
Q ss_pred cCCCCCCChhhhHHHHHHHHHHHHHHHHHhhCCCCChHHH---HhhccceeEEECCEeeeHHHHHhhhccCCCCCccccc
Q 008059 364 SVSLEGLNHQQKLAFWINIYNSCIMNAFLEHGIPETPEMV---VALMQKATIVVGGHLLNAITIEHFILRLPYHLKFVST 440 (579)
Q Consensus 364 ~Vdl~~Ls~eEKLAFWINiYNaLvmHa~L~~G~P~s~~~~---~~~~~k~~Y~IGG~~~Sl~dIEh~ILR~~~~~~~l~~ 440 (579)
+||++.|+++||+|||||+||+|+||+++++|+|.+..++ ..||.+..|+|||+.+||+||||+|||++..
T Consensus 1 ~v~~~~l~~~e~lAFwIN~yNal~~h~~l~~~~~~s~~~~~~~~~~~~~~~y~Igg~~~SL~dIe~~ILR~~~~------ 74 (117)
T PF04784_consen 1 RVDLSSLSREEKLAFWINLYNALVLHAILENGPPKSILDRKLGGSFFSKVRYNIGGQRFSLDDIEHGILRGNRP------ 74 (117)
T ss_pred CcChHHCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHhhcccccccceEEEECCEEecHHHHHHhhccCCCC------
Confidence 5899999999999999999999999999999999899887 6999999999999999999999999998521
Q ss_pred CCccccchhhhhhhhcCCCCCCCeeeEeeccCCCCCCCcc--ccchhhHHHHHHHHHHHHH
Q 008059 441 CPKAAKNDEMKARSIFGLEWSEPLVTFALCCGSWSSPAVR--VYTASQVEEELEAAKKDYL 499 (579)
Q Consensus 441 ~~k~~k~~~~~~r~~~~L~~~dPrVhFAL~cGs~SsP~lR--vYta~~v~~qLe~A~~efl 499 (579)
.++|||||||||||++|||+|| +|||++|++||++|+++||
T Consensus 75 ------------------~~~DprihFaL~cgs~s~P~lr~~~yt~~~l~~qL~~a~~~fi 117 (117)
T PF04784_consen 75 ------------------PWPDPRIHFALNCGSKSCPPLRREAYTAENLDEQLEEAAREFI 117 (117)
T ss_pred ------------------CCCCCceeeeeecCCCCChhhhhhccCHHHHHHHHHHHHHhhC
Confidence 1789999999999999999999 9999999999999999997
No 2
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=99.93 E-value=1e-25 Score=194.32 Aligned_cols=88 Identities=41% Similarity=0.688 Sum_probs=85.6
Q ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 13 NRRRSNRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNF 92 (579)
Q Consensus 13 ~~~~~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l 92 (579)
|||.+.+++|.+|||||.+||++|++|+++|+|||+||+++.|+++++|.+||++|+|||+|||+||+||++||++|++|
T Consensus 1 ~rk~~~~~~r~~LeqeV~~Lq~~L~~E~~~r~aLe~al~~~~~~~~~~~~~lp~~~keLL~EIA~lE~eV~~LE~~v~~L 80 (88)
T PF14389_consen 1 KRKQALHERRSALEQEVAELQKQLQEEQDLRRALEKALGRSSGSLPSSPSSLPKKAKELLEEIALLEAEVAKLEQKVLSL 80 (88)
T ss_pred CCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcccCCccccCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhHH
Q 008059 93 RQGLYQEA 100 (579)
Q Consensus 93 ~~~l~~e~ 100 (579)
+++||+|+
T Consensus 81 ~~~l~~q~ 88 (88)
T PF14389_consen 81 YRQLFQQR 88 (88)
T ss_pred HHHHHhcC
Confidence 99999984
No 3
>cd00089 HR1 Protein kinase C-related kinase homology region 1 domain; also known as the ACC (antiparallel coiled-coil) finger domain or Rho-binding domain. Found in vertebrate PRK1 and yeast PKC1 protein kinases C; those found in rhophilin bind RhoGTP; those in PRK1 bind RhoA and RhoB. Rho family members function as molecular switches, cycling between inactive and active forms, controlling a variety of cellular processes. HR1 repeats often occur in tandem repeat arrangments, seperated by a short linker region.
Probab=86.69 E-value=2.5 Score=35.10 Aligned_cols=64 Identities=14% Similarity=0.136 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 008059 22 KMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQ 98 (579)
Q Consensus 22 r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~ 98 (579)
+.-+++-+..|+++|+.|..++..+|+.+.-- ...+. + .-++.+|.+...-.+++..||.+|..
T Consensus 4 ~~~~~~~l~~L~~~l~~E~~~r~Gaenm~~~~----~~~~~------~---~~~~~~~~~l~es~~ki~~Lr~~L~k 67 (72)
T cd00089 4 RSKLQSRLERLEKELSIELKVKEGAENLLRLY----SDEKK------K---KLLAEAEQMLRESKQKLELLKMQLEK 67 (72)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----hcCCC------c---cCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44578889999999999999999999987521 11011 0 34566778888888889888888864
No 4
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=86.46 E-value=2.6 Score=40.49 Aligned_cols=68 Identities=26% Similarity=0.373 Sum_probs=54.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 18 NRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQ 94 (579)
Q Consensus 18 ~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~ 94 (579)
..+.-.+|..++.+|+.+|..-..-...|+.-|..=.+. | .+.||..+|+.|+.|+..||.++..|+.
T Consensus 70 s~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~-~--------t~~el~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 70 SPEELAELDAEIKELREELAELKKEVKSLEAELASLSSE-P--------TNEELREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-C--------CHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345667899999999999999998888888777431111 1 2589999999999999999999999775
No 5
>KOG4271 consensus Rho-GTPase activating protein [Signal transduction mechanisms]
Probab=77.87 E-value=0.84 Score=54.10 Aligned_cols=86 Identities=16% Similarity=0.189 Sum_probs=71.0
Q ss_pred ccccccccccchHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH--hCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHH
Q 008059 8 GIGAGNRRRSNRERKMALL-EDVDKLKRKLRHEENVHRALERA--FTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVR 84 (579)
Q Consensus 8 ~~~~~~~~~~~~~~r~~Le-qeV~~Lq~~L~~E~~~r~~Le~a--l~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~ 84 (579)
|++.++|+++.+++|.+|| +|+.+||..+|.|...|.+..++ +..+.|..- -...|.++++-+.+++.-|.+ ++
T Consensus 821 QaSder~nks~~~~rts~E~~ekgr~rs~~qapr~~rka~~k~~~lt~~~~~~d--~~~~~sktskkl~k~k~a~hD-a~ 897 (1100)
T KOG4271|consen 821 QASDERRNKSDSERRTSLEFLEKGRLRSIVQAPRLYRKACLKGGLLTNSAGGSD--LSAGPSKTSKKLEKNKLAKHD-AK 897 (1100)
T ss_pred hhhhhhcccccccccccccHhhhhhhhhccccchhHHHHHHhccCccccccccc--cccCcccchHHHhhhcccccc-cc
Confidence 7789999999999999999 99999999999999999999987 555444321 245788999999999999998 88
Q ss_pred HHHHHHHHHHHH
Q 008059 85 LEEQVVNFRQGL 96 (579)
Q Consensus 85 LE~~v~~l~~~l 96 (579)
|.+++.++..+.
T Consensus 898 lktk~~n~pa~~ 909 (1100)
T KOG4271|consen 898 LKTKTKNTPARR 909 (1100)
T ss_pred ccccccCCcccc
Confidence 887776643333
No 6
>PF12240 Angiomotin_C: Angiomotin C terminal; InterPro: IPR024646 This domain represents the C-terminal region of angiomotin. Angiomotin regulates the action of angiogenesis-inhibitor angiostatin []. The C-terminal region of angiomotin appears to be involved in directing the protein chemotactically [].
Probab=72.25 E-value=20 Score=36.00 Aligned_cols=27 Identities=26% Similarity=0.431 Sum_probs=18.2
Q ss_pred ChhHHHHHHH----HHHHHHHHHHHHHHHHH
Q 008059 65 PPYTLELLAE----VAVLEEEVVRLEEQVVN 91 (579)
Q Consensus 65 p~~~~eLl~E----ia~lE~eV~~LE~~v~~ 91 (579)
.+..+++|.| |--||+|+++.||+-+.
T Consensus 59 ~~~L~~~LrEkEErILaLEad~~kWEqkYLE 89 (205)
T PF12240_consen 59 ASNLKELLREKEERILALEADMTKWEQKYLE 89 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456777766 56677778777776543
No 7
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=66.43 E-value=28 Score=39.95 Aligned_cols=72 Identities=19% Similarity=0.296 Sum_probs=54.3
Q ss_pred ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 12 GNRRRSNRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVN 91 (579)
Q Consensus 12 ~~~~~~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~ 91 (579)
..+..+.++++.+|+-||.+.|.=+.+=...... ++..+..|=.||+..|+|+-.|-+++.+
T Consensus 258 ~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~------------------~~~~l~~l~~Eie~kEeE~e~lq~~~d~ 319 (581)
T KOG0995|consen 258 PGKEESLREKKARLQDDVNKFQAYVSQMKSKKQH------------------MEKKLEMLKSEIEEKEEEIEKLQKENDE 319 (581)
T ss_pred cchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHH------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455667777777888887777655544444443 4555688899999999999999999999
Q ss_pred HHHHHhhHHH
Q 008059 92 FRQGLYQEAV 101 (579)
Q Consensus 92 l~~~l~~e~~ 101 (579)
|+.++--|.+
T Consensus 320 Lk~~Ie~Q~i 329 (581)
T KOG0995|consen 320 LKKQIELQGI 329 (581)
T ss_pred HHHHHHhcCC
Confidence 9999987754
No 8
>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=63.63 E-value=29 Score=30.62 Aligned_cols=75 Identities=23% Similarity=0.254 Sum_probs=57.4
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 008059 18 NRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLY 97 (579)
Q Consensus 18 ~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~ 97 (579)
.-+.=.+|-++...|+.+++.=+.-|..+.+.++.....- ..+.+|++|+..+=.+|..||.++..+..++.
T Consensus 27 ~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~--------~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l~ 98 (108)
T PF02403_consen 27 DVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKAG--------EDAEELKAEVKELKEEIKELEEQLKELEEELN 98 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTT--------CCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCc--------ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344556777788888888888888888888887432211 35689999999999999999999999888877
Q ss_pred hHH
Q 008059 98 QEA 100 (579)
Q Consensus 98 ~e~ 100 (579)
...
T Consensus 99 ~~l 101 (108)
T PF02403_consen 99 ELL 101 (108)
T ss_dssp HHH
T ss_pred HHH
Confidence 654
No 9
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=63.00 E-value=44 Score=33.08 Aligned_cols=69 Identities=19% Similarity=0.277 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 20 ERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFR 93 (579)
Q Consensus 20 ~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~ 93 (579)
+....+++.+.+|++++++-+.-...|+..+.......+. ...=.++|+++..|+.++..|+.++..+.
T Consensus 62 ~~~~~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~-----~~eR~~~l~~l~~l~~~~~~l~~el~~~~ 130 (188)
T PF03962_consen 62 QAKQKRQNKLEKLQKEIEELEKKIEELEEKIEEAKKGREE-----SEEREELLEELEELKKELKELKKELEKYS 130 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc-----cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666666666666665555555555422111111 15668899999999999999999988643
No 10
>PRK10884 SH3 domain-containing protein; Provisional
Probab=62.52 E-value=9.5 Score=38.37 Aligned_cols=26 Identities=31% Similarity=0.299 Sum_probs=20.9
Q ss_pred cccccchHHHHHHHHHHHHHHHHHHH
Q 008059 13 NRRRSNRERKMALLEDVDKLKRKLRH 38 (579)
Q Consensus 13 ~~~~~~~~~r~~LeqeV~~Lq~~L~~ 38 (579)
....+.+++=-+||+|+.+|+.+|.+
T Consensus 86 s~~p~~~~rlp~le~el~~l~~~l~~ 111 (206)
T PRK10884 86 STTPSLRTRVPDLENQVKTLTDKLNN 111 (206)
T ss_pred cCCccHHHHHHHHHHHHHHHHHHHHH
Confidence 34567777778899999999988876
No 11
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=58.93 E-value=86 Score=32.49 Aligned_cols=83 Identities=22% Similarity=0.358 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC--C----C------CCCCC-----------CCCCCh-------------
Q 008059 23 MALLEDVDKLKRKLRHEENVHRALERAFTRP--L----G------SLPRL-----------PPYLPP------------- 66 (579)
Q Consensus 23 ~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~--~----~------~~~~~-----------~~~lp~------------- 66 (579)
.+|+++|..|+.++++.+.+..-||.-|..- . . +.... ....|.
T Consensus 2 ~~lq~~l~~l~~~~~~~~~L~~kLE~DL~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~g~~sp~ss~~~~~~~~siL 81 (248)
T PF08172_consen 2 EELQKELSELEAKLEEQKELNAKLENDLAKVQASSSASRSFNDGASMASGATRQIPNSGRSGSLSPTSSIIGGGGDSSIL 81 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCCCCcccccccchhhccCccccCCCCCCccCCCCCCcccHH
Confidence 3689999999999999999999999766521 0 0 00000 011222
Q ss_pred ------------hHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhhHHHhhhh
Q 008059 67 ------------YTLELLAEVAVLEEEVVRLEEQVVNFRQG---LYQEAVYISS 105 (579)
Q Consensus 67 ------------~~~eLl~Eia~lE~eV~~LE~~v~~l~~~---l~~e~~~~ss 105 (579)
...||=+|+..+..+|..|..+|..|+.+ ||...-|++|
T Consensus 82 pIVtsQRDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiRylqS 135 (248)
T PF08172_consen 82 PIVTSQRDRFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIRYLQS 135 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 35678888888888888888888888754 8877656644
No 12
>PRK11637 AmiB activator; Provisional
Probab=53.86 E-value=43 Score=36.94 Aligned_cols=34 Identities=12% Similarity=0.139 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 008059 67 YTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQEA 100 (579)
Q Consensus 67 ~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e~ 100 (579)
+..++=.+|+.++.+|..|++++..++.+|-+..
T Consensus 90 ~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~ 123 (428)
T PRK11637 90 KLRETQNTLNQLNKQIDELNASIAKLEQQQAAQE 123 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555556666666666655555555443
No 13
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=52.18 E-value=24 Score=39.99 Aligned_cols=34 Identities=24% Similarity=0.206 Sum_probs=26.5
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 008059 64 LPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLY 97 (579)
Q Consensus 64 lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~ 97 (579)
+-.+..+|..++..+|.++..|++++..|+.+|.
T Consensus 136 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~ 169 (525)
T TIGR02231 136 NGSEIERLLTEDREAERRIRELEKQLSELQNELN 169 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3346677788888888888888888888777774
No 14
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=51.24 E-value=20 Score=39.95 Aligned_cols=41 Identities=12% Similarity=0.219 Sum_probs=32.7
Q ss_pred ccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 008059 10 GAGNRRRSNRERKMALLEDVDKLKRKLRHEENVHRALERAF 50 (579)
Q Consensus 10 ~~~~~~~~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al 50 (579)
.++..++....+-.+|..-|++++++|++|+.+...|-+-+
T Consensus 372 ~~e~~kk~~e~k~~q~q~k~~k~~kel~~~~E~n~~l~knq 412 (493)
T KOG0804|consen 372 DLEAEKKIVERKLQQLQTKLKKCQKELKEEREENKKLIKNQ 412 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence 34455566666777888899999999999999999888754
No 15
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=49.78 E-value=90 Score=34.68 Aligned_cols=75 Identities=21% Similarity=0.247 Sum_probs=59.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 008059 19 RERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQ 98 (579)
Q Consensus 19 ~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~ 98 (579)
-+.=.+|-++-.+|+.+++.=+.-|..+-+.++..... ...+.+|++|+..|-++|..||+++..+..++.+
T Consensus 27 vd~i~~ld~~~r~l~~~~~~lr~~rn~~sk~i~~~~~~--------~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 98 (425)
T PRK05431 27 VDELLELDEERRELQTELEELQAERNALSKEIGQAKRK--------GEDAEALIAEVKELKEEIKALEAELDELEAELEE 98 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc--------CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667788888889999988888888888888641110 1246789999999999999999999999888888
Q ss_pred HHH
Q 008059 99 EAV 101 (579)
Q Consensus 99 e~~ 101 (579)
...
T Consensus 99 ~~~ 101 (425)
T PRK05431 99 LLL 101 (425)
T ss_pred HHH
Confidence 753
No 16
>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=49.58 E-value=43 Score=39.65 Aligned_cols=76 Identities=22% Similarity=0.374 Sum_probs=57.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHH---H
Q 008059 18 NRERKMALLEDVDKLKRKLRHEENVHRALERAFT--RPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVN---F 92 (579)
Q Consensus 18 ~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~--~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~---l 92 (579)
.+++|.+||.|+.+|+..|+.=++--..||.-+. |.-. .--...+..|+..++.|-+.=..||.-+.. +
T Consensus 543 ~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~------~e~~~~~e~L~~aL~amqdk~~~LE~sLsaEtri 616 (697)
T PF09726_consen 543 CRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKYE------KESEKDTEVLMSALSAMQDKNQHLENSLSAETRI 616 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------hhhhhhHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence 4668999999999999999876666666776442 1000 012446899999999999999999998876 7
Q ss_pred HHHHhhH
Q 008059 93 RQGLYQE 99 (579)
Q Consensus 93 ~~~l~~e 99 (579)
+++||.-
T Consensus 617 KldLfsa 623 (697)
T PF09726_consen 617 KLDLFSA 623 (697)
T ss_pred HHHHHHH
Confidence 7777743
No 17
>PRK11637 AmiB activator; Provisional
Probab=49.45 E-value=73 Score=35.12 Aligned_cols=13 Identities=15% Similarity=0.284 Sum_probs=9.8
Q ss_pred CCCeeeEeeccCC
Q 008059 461 SEPLVTFALCCGS 473 (579)
Q Consensus 461 ~dPrVhFAL~cGs 473 (579)
..|.+||.+.-+.
T Consensus 405 ~~~~l~fei~~~~ 417 (428)
T PRK11637 405 GRPSLYFEIRRQG 417 (428)
T ss_pred CCCeEEEEEEECC
Confidence 4688999988654
No 18
>PLN02678 seryl-tRNA synthetase
Probab=48.44 E-value=92 Score=35.04 Aligned_cols=73 Identities=18% Similarity=0.173 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 008059 20 ERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQE 99 (579)
Q Consensus 20 ~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e 99 (579)
+.-.+|.++-.+|+.+++.-+.-|..+.+.++.-.. -...+.+|++|+..|-++|..||.++..+..+|++.
T Consensus 33 d~il~ld~~~r~l~~~~e~lr~erN~~sk~I~~~k~--------~~~~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~~~ 104 (448)
T PLN02678 33 DEVIALDKEWRQRQFELDSLRKEFNKLNKEVAKLKI--------AKEDATELIAETKELKKEITEKEAEVQEAKAALDAK 104 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--------CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566778888888888888888888888888753100 114568999999999999999999999999999876
Q ss_pred H
Q 008059 100 A 100 (579)
Q Consensus 100 ~ 100 (579)
.
T Consensus 105 ~ 105 (448)
T PLN02678 105 L 105 (448)
T ss_pred H
Confidence 5
No 19
>PF02185 HR1: Hr1 repeat; InterPro: IPR000861 The HR1 repeat was first described as a three times repeated homology region of the N-terminal non-catalytic part of protein kinase PRK1(PKN) []. The first two of these repeats were later shown to bind the small G protein rho [, ] known to activate PKN in its GTP-bound form. Similar rho-binding domains also occur in a number of other protein kinases and in the rho-binding proteins rhophilin and rhotekin. Recently, the structure of the N-terminal HR1 repeat complexed with RhoA has been determined by X-ray crystallography []. It forms an antiparallel coiled-coil fold termed an ACC finger. This entry includes domains found within rho-associated protein kinases.; GO: 0007165 signal transduction, 0005622 intracellular; PDB: 1CXZ_B 3O0Z_C 2RMK_B 1URF_A.
Probab=47.61 E-value=76 Score=26.04 Aligned_cols=25 Identities=16% Similarity=0.442 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhC
Q 008059 27 EDVDKLKRKLRHEENVHRALERAFT 51 (579)
Q Consensus 27 qeV~~Lq~~L~~E~~~r~~Le~al~ 51 (579)
|-+..|+++|+.|..++.-.|+.+.
T Consensus 1 q~i~~L~~~i~~E~ki~~Gae~m~~ 25 (70)
T PF02185_consen 1 QRIEELQKKIDKELKIKEGAENMLQ 25 (70)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4588999999999999999888763
No 20
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=47.42 E-value=26 Score=34.96 Aligned_cols=70 Identities=24% Similarity=0.291 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 22 KMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVN 91 (579)
Q Consensus 22 r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~ 91 (579)
|..|.+.|..++..|++...--..|++=+.-...++..--..-=.++.++-.|+..|+.||..|.+++.+
T Consensus 120 ReeL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~rql~~e~kK~~~~~~~~~~l~~ei~~L~~klkE 189 (194)
T PF15619_consen 120 REELQRKLSQLEQKLQEKEKKIQELEKQLELENKSFRRQLASEKKKHKEAQEEVKSLQEEIQRLNQKLKE 189 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7889999999999999988888888875543222221111122346788888888888888888888766
No 21
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=43.91 E-value=2.3e+02 Score=26.54 Aligned_cols=83 Identities=19% Similarity=0.197 Sum_probs=51.8
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCC--CCC-----------CCChhHHHHHHHHHHHHHHHH
Q 008059 17 SNRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPR--LPP-----------YLPPYTLELLAEVAVLEEEVV 83 (579)
Q Consensus 17 ~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~--~~~-----------~lp~~~~eLl~Eia~lE~eV~ 83 (579)
.++.|...|++||...+.+++.=.+.-.=++-+=.. ....|. ... .|-.....|..+|+.||.++-
T Consensus 27 rl~~R~~~lk~dik~~k~~~enledA~~EieL~Ded-d~~Ip~~vGdvF~~~~~~~~~~~LEe~ke~l~k~i~~les~~e 105 (131)
T KOG1760|consen 27 RLNSRKDDLKADIKEAKTEIENLEDASNEIELLDED-DEDIPFKVGDVFIHVKLDKLQDQLEEKKETLEKEIEELESELE 105 (131)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHhhHhhcCcc-ccccceehhhhheeccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355678899999999999987533222211111111 011111 111 122234457788999999999
Q ss_pred HHHHHHHHHHHHHhhHH
Q 008059 84 RLEEQVVNFRQGLYQEA 100 (579)
Q Consensus 84 ~LE~~v~~l~~~l~~e~ 100 (579)
..+..+..|+..||...
T Consensus 106 ~I~~~m~~LK~~LYaKF 122 (131)
T KOG1760|consen 106 SISARMDELKKVLYAKF 122 (131)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 99999999999999764
No 22
>PRK14127 cell division protein GpsB; Provisional
Probab=43.14 E-value=40 Score=30.71 Aligned_cols=27 Identities=26% Similarity=0.394 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 70 ELLAEVAVLEEEVVRLEEQVVNFRQGL 96 (579)
Q Consensus 70 eLl~Eia~lE~eV~~LE~~v~~l~~~l 96 (579)
+|++|++-|++++..||+++..++.++
T Consensus 41 ~l~~e~~~Lk~e~~~l~~~l~e~~~~~ 67 (109)
T PRK14127 41 AFQKEIEELQQENARLKAQVDELTKQV 67 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344444456666666666666544433
No 23
>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=41.71 E-value=43 Score=27.30 Aligned_cols=25 Identities=36% Similarity=0.511 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 67 YTLELLAEVAVLEEEVVRLEEQVVN 91 (579)
Q Consensus 67 ~~~eLl~Eia~lE~eV~~LE~~v~~ 91 (579)
.+-||=.=||.||+||.++|.++..
T Consensus 22 Sv~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 22 SVEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888899999999999998876
No 24
>PF09457 RBD-FIP: FIP domain ; InterPro: IPR019018 The Rab11 GTPase regulates recycling of internalized plasma membrane receptors and is essential for completion of cytokinesis. A family of Rab11 interacting proteins (FIPs) that conserve a C-terminal Rab-binding domain (RBD) selectively recognise the active form of Rab11. FIPs are diverse in sequence length and composition toward their N-termini, presumably a feature that underpins their specific roles in Rab11-mediated vesicle trafficking. They have been divided into three subfamilies (classe I, II, and III)on the basis of domain architecture. Class I FIPs comprises a subfamily of three proteins (Rip11/pp75/FIP5, Rab-coupling protein (RCP), and FIP2) that possess an N- terminal C2 domain, localize to recycling endosomes, and regulate plasma membrane recycling. The class II subfamily consists of two proteins (FIP3/eferin/arfophilin and FIP4) with tandem EF hands and a proline-rich region. Class II FIPs localize to recycling endosomes, the trans-Golgi network, and have been implicated in the regulation of membrane trafficking during cytokinesis. The class III subfamily consists of a single protein, FIP1, which does not contain obvious homology domains or motifs other than the FIP-RBD [, , , ]. The FIP-RBD domain is also found in Rab6-interacting protein Erc1/Elks. Erc1 is the regulatory subunit of the IKK complex and probably recruits IkappaBalpha/NFKBIA to the complex []. It may be involved in the organisation of the cytomatrix at the nerve terminals active zone (CAZ) which regulates neurotransmitter release. It may also be involved in vesicle trafficking at the CAZ, as well as in Rab-6 regulated endosomes to Golgi transport []. The FIB-RBD domain consists of an N-terminal long alpha-helix, followed by a 90 degrees bend at a conserved proline residue, a 3(10) helix and a C-terminal short beta-strand, adopting an "L" shape. The long alpha-helix forms a parallel coiled-coil homodimer that symmetrically interacts with two Rab11 molecules on both sides, forming a quaternary Rab11-(FIP)2-Rab11 complex. The Rab11-interacting region of FIP-RBD is confined to the C-terminal 24 amino acids, which cover the C-terminal half of the long alpha-helix and the short beta-strand [, , , ]. This entry represents the FIP-RBD domain.; PDB: 2HV8_E 2D7C_D 2K6S_B 2GZD_D 2GZH_B.
Probab=41.53 E-value=46 Score=26.05 Aligned_cols=26 Identities=35% Similarity=0.364 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHH-------HHHHHHHHHH
Q 008059 69 LELLAEVAVLEEEVVR-------LEEQVVNFRQ 94 (579)
Q Consensus 69 ~eLl~Eia~lE~eV~~-------LE~~v~~l~~ 94 (579)
.||+.++.-.|.++.+ ||.++..|=.
T Consensus 3 eeL~~~l~~~e~~~~~k~~~v~eLe~YiD~LL~ 35 (48)
T PF09457_consen 3 EELISLLKKQEEENARKDSRVRELEDYIDNLLV 35 (48)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5899999999999999 7777777433
No 25
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=40.84 E-value=63 Score=27.89 Aligned_cols=80 Identities=20% Similarity=0.218 Sum_probs=42.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Q 008059 19 RERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLA----EVAVLEEEVVRLEEQVVNFRQ 94 (579)
Q Consensus 19 ~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~----Eia~lE~eV~~LE~~v~~l~~ 94 (579)
+.....+.+.+..|+.++++=..+-..|+.+=.........++.++.....+++. +++.+|.+|..|+..+..+..
T Consensus 11 ~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~~~~y~~vG~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~ 90 (106)
T PF01920_consen 11 NQQLQQLEQQIQQLERQLRELELTLEELEKLDDDRKVYKSVGKMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEK 90 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSTT-EEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444566667777777776544444555543222122223345566555555443 445666666666666666555
Q ss_pred HHhh
Q 008059 95 GLYQ 98 (579)
Q Consensus 95 ~l~~ 98 (579)
.+..
T Consensus 91 ~l~~ 94 (106)
T PF01920_consen 91 KLKE 94 (106)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 5543
No 26
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=40.50 E-value=1.2e+02 Score=26.81 Aligned_cols=76 Identities=16% Similarity=0.100 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHh
Q 008059 22 KMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLA----EVAVLEEEVVRLEEQVVNFRQGLY 97 (579)
Q Consensus 22 r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~----Eia~lE~eV~~LE~~v~~l~~~l~ 97 (579)
...|-+....|..++.+=..+-..|+..=.........++.++....-+++. .++.+|.+|..|++++..+..++-
T Consensus 15 ~~~l~~~~~~l~~~~~E~~~v~~EL~~l~~d~~vy~~VG~vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~ 94 (105)
T cd00632 15 LQAYIVQRQKVEAQLNENKKALEELEKLADDAEVYKLVGNVLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLK 94 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcchHHHHhhhHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345555555555665555555555543222222223334555554444443 356677777777777777666655
No 27
>PRK11239 hypothetical protein; Provisional
Probab=39.97 E-value=45 Score=33.83 Aligned_cols=29 Identities=31% Similarity=0.344 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 68 TLELLAEVAVLEEEVVRLEEQVVNFRQGL 96 (579)
Q Consensus 68 ~~eLl~Eia~lE~eV~~LE~~v~~l~~~l 96 (579)
..+|=++|+.||+||+.|+.++..|..+|
T Consensus 185 ~~~Le~rv~~Le~eva~L~~~l~~l~~~~ 213 (215)
T PRK11239 185 DGDLQARVEALEIEVAELKQRLDSLLAHL 213 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566677777777777777777766554
No 28
>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=39.71 E-value=1.6e+02 Score=34.95 Aligned_cols=74 Identities=24% Similarity=0.301 Sum_probs=45.9
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 17 SNRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGL 96 (579)
Q Consensus 17 ~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l 96 (579)
+..+....||+||++|+-.|+.-+.+-.-|..-+. . +...-+.|-.||..+-.|.--||.++..|-.+.
T Consensus 415 ~~~~a~~rLE~dvkkLraeLq~~Rq~E~ELRsqis----~-------l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aR 483 (697)
T PF09726_consen 415 SEPDAISRLEADVKKLRAELQSSRQSEQELRSQIS----S-------LTNNERSLKSELSQLRQENEQLQNKLQNLVQAR 483 (697)
T ss_pred cChHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHh----h-------ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456678999999999999876666665555432 1 222234555666666666666666666655555
Q ss_pred hhHHH
Q 008059 97 YQEAV 101 (579)
Q Consensus 97 ~~e~~ 101 (579)
.++..
T Consensus 484 q~DKq 488 (697)
T PF09726_consen 484 QQDKQ 488 (697)
T ss_pred HHHHH
Confidence 55543
No 29
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=38.74 E-value=51 Score=36.09 Aligned_cols=83 Identities=23% Similarity=0.259 Sum_probs=56.3
Q ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC-------------CCCCCCCCCChhHHHHHHHHHHHH
Q 008059 13 NRRRSNRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLG-------------SLPRLPPYLPPYTLELLAEVAVLE 79 (579)
Q Consensus 13 ~~~~~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~-------------~~~~~~~~lp~~~~eLl~Eia~lE 79 (579)
+|-....+.+..||.+..+..+++.+-+.--..|+.|+..-.+ .-|....+-.++-..|+.||..|+
T Consensus 251 ~Ri~et~~ak~~Le~ql~~~~~ei~~~e~~i~~L~~ai~~k~~~lkvaqTRL~~R~~RP~vElcrD~~q~~L~~Ev~~l~ 330 (384)
T PF03148_consen 251 KRIHETQEAKNELEWQLKKTLQEIAEMEKNIEDLEKAIRDKEGPLKVAQTRLENRTQRPNVELCRDPPQYGLIEEVKELR 330 (384)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhHhcCCchHHHHhhHHHHHHHHHHHHH
Confidence 3334445566667777666666666666666667777663222 234444566677788999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 008059 80 EEVVRLEEQVVNFRQG 95 (579)
Q Consensus 80 ~eV~~LE~~v~~l~~~ 95 (579)
+.|..|.+++...+..
T Consensus 331 ~~i~~L~~~L~~a~~~ 346 (384)
T PF03148_consen 331 ESIEALQEKLDEAEAS 346 (384)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 9999999998875443
No 30
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=37.98 E-value=1.2e+02 Score=31.43 Aligned_cols=33 Identities=12% Similarity=0.112 Sum_probs=26.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 008059 18 NRERKMALLEDVDKLKRKLRHEENVHRALERAF 50 (579)
Q Consensus 18 ~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al 50 (579)
....-..|+++|.+++..+++...-..-++..+
T Consensus 50 ~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl 82 (239)
T COG1579 50 LEIELEDLENQVSQLESEIQEIRERIKRAEEKL 82 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556688899999999999888888888877
No 31
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=37.68 E-value=1.6e+02 Score=26.34 Aligned_cols=75 Identities=17% Similarity=0.114 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 008059 25 LLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELL----AEVAVLEEEVVRLEEQVVNFRQGLYQE 99 (579)
Q Consensus 25 LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl----~Eia~lE~eV~~LE~~v~~l~~~l~~e 99 (579)
+.+....|+.++++=..+...|+..=.......+.++.++.....+.+ ..|..+|.+|..||++...|+.++-.-
T Consensus 22 l~~q~~~le~~~~E~~~v~~eL~~l~~d~~vyk~VG~vlv~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~ 100 (110)
T TIGR02338 22 VATQKQQVEAQLKEAEKALEELERLPDDTPVYKSVGNLLVKTDKEEAIQELKEKKETLELRVKTLQRQEERLREQLKEL 100 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHhchhhheecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444443222222223444566666555554 456678888998988888888777644
No 32
>PRK11020 hypothetical protein; Provisional
Probab=37.50 E-value=1.6e+02 Score=27.16 Aligned_cols=61 Identities=26% Similarity=0.284 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 008059 24 ALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQEA 100 (579)
Q Consensus 24 ~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e~ 100 (579)
.|.+|+.+|-.+|+. .|+=|..|..+.. +..+.++..||+.|+.+|.+|..+=.. .|..|+
T Consensus 2 ~~K~Eiq~L~drLD~---~~~Klaaa~~rgd----------~~~i~qf~~E~~~l~k~I~~lk~~~~~---~lske~ 62 (118)
T PRK11020 2 VEKNEIKRLSDRLDA---IRHKLAAASLRGD----------AEKYAQFEKEKATLEAEIARLKEVQSQ---KLSKEA 62 (118)
T ss_pred cHHHHHHHHHHHHHH---HHHHHHHHHhcCC----------HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHH
Confidence 478999999999974 6666666665431 234677777888888888777654322 355554
No 33
>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans. Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.
Probab=37.43 E-value=60 Score=31.44 Aligned_cols=65 Identities=25% Similarity=0.309 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 23 MALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQ 94 (579)
Q Consensus 23 ~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~ 94 (579)
..|..|+.+|..+.+.|...|...|.-+.. +.-.+-..+++|..=|+.||+++-.|+.++.++..
T Consensus 53 ~~L~~d~e~L~~q~~~ek~~r~~~e~~l~~-------~Ed~~~~e~k~L~~~v~~Le~e~r~L~~~~~~~~~ 117 (158)
T PF09744_consen 53 ELLREDNEQLETQYEREKELRKQAEEELLE-------LEDQWRQERKDLQSQVEQLEEENRQLELKLKNLSD 117 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 357789999999999999999888754321 01123446788889999999999888887777433
No 34
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=36.79 E-value=48 Score=30.18 Aligned_cols=34 Identities=32% Similarity=0.451 Sum_probs=22.9
Q ss_pred CChhHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHh
Q 008059 64 LPPYTLELLAEV--------AVLEEEVVRLEEQVVNFRQGLY 97 (579)
Q Consensus 64 lp~~~~eLl~Ei--------a~lE~eV~~LE~~v~~l~~~l~ 97 (579)
+|.++++.|.+. ..++++|-.||++|..|...+.
T Consensus 66 ~~r~i~~ml~~~~~~r~~~~~~l~~rvd~Lerqv~~Lenk~k 107 (108)
T COG3937 66 IPRKIEEMLSDLEVARQSEMDELTERVDALERQVADLENKLK 107 (108)
T ss_pred hhHHHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 555666665543 4778888888888888766553
No 35
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=35.88 E-value=98 Score=25.86 Aligned_cols=63 Identities=19% Similarity=0.256 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHH---HHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 24 ALLEDVDKLKRKL---RHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFR 93 (579)
Q Consensus 24 ~LeqeV~~Lq~~L---~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~ 93 (579)
.||.+|..||.+| .....++.+.-+.|.+-.. ..-.+......|+.-|=+|+..|.+++.+++
T Consensus 2 ~Lea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd-------~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~r 67 (69)
T PF14197_consen 2 KLEAEIATLRNRLDSLTRKNSVHEIENKRLRRERD-------SAERQLGDAYEENNKLKEENEALRKELEELR 67 (69)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5889999999887 3455555555555542110 0112345566666666666666666655543
No 36
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=35.87 E-value=2.1e+02 Score=23.64 Aligned_cols=27 Identities=26% Similarity=0.379 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 008059 24 ALLEDVDKLKRKLRHEENVHRALERAF 50 (579)
Q Consensus 24 ~LeqeV~~Lq~~L~~E~~~r~~Le~al 50 (579)
.||+-|..|+.+|-...+.-..|..++
T Consensus 1 ~le~Ri~~LE~~la~qe~~ie~Ln~~v 27 (69)
T PF04102_consen 1 MLEERIEELEIKLAFQEDTIEELNDVV 27 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367788889988888887776666644
No 37
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=35.87 E-value=88 Score=24.40 Aligned_cols=27 Identities=33% Similarity=0.426 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 68 TLELLAEVAVLEEEVVRLEEQVVNFRQ 94 (579)
Q Consensus 68 ~~eLl~Eia~lE~eV~~LE~~v~~l~~ 94 (579)
+.+|-.+|..|+.++..|+++|..|+.
T Consensus 27 ~~~le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 27 EEELEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 456667777777777777777777553
No 38
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=35.41 E-value=61 Score=31.70 Aligned_cols=28 Identities=36% Similarity=0.483 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 008059 70 ELLAEVAVLEEEVVRLEEQVVNFRQGLY 97 (579)
Q Consensus 70 eLl~Eia~lE~eV~~LE~~v~~l~~~l~ 97 (579)
+-|.|-..|.++|-+|..++-+|+++|.
T Consensus 21 ~ELdEKE~L~~~~QRLkDE~RDLKqEl~ 48 (166)
T PF04880_consen 21 SELDEKENLREEVQRLKDELRDLKQELI 48 (166)
T ss_dssp HHHHHHHHHHHCH---------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3458899999999999999999888884
No 39
>PF07957 DUF3294: Protein of unknown function (DUF3294); InterPro: IPR012917 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of mitochondrial ribosomal proteins, which appears to be fungal specific [].
Probab=34.90 E-value=97 Score=31.56 Aligned_cols=37 Identities=24% Similarity=0.313 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHH--HHHHHHHHHHHHhCCCCCCCCCC
Q 008059 24 ALLEDVDKLKRKLR--HEENVHRALERAFTRPLGSLPRL 60 (579)
Q Consensus 24 ~LeqeV~~Lq~~L~--~E~~~r~~Le~al~~~~~~~~~~ 60 (579)
.|-|-|.+||.||. +|+++|++...-...+...+.++
T Consensus 74 DLVQLV~ELQgQLd~lEeRsiRR~~NS~~~~~~d~laPl 112 (216)
T PF07957_consen 74 DLVQLVGELQGQLDNLEERSIRRTVNSTKTDDDDLLAPL 112 (216)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcccccccC
Confidence 68999999999997 68999999888777665444333
No 40
>PLN02320 seryl-tRNA synthetase
Probab=34.87 E-value=2.3e+02 Score=32.48 Aligned_cols=74 Identities=26% Similarity=0.301 Sum_probs=57.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 008059 19 RERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQ 98 (579)
Q Consensus 19 ~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~ 98 (579)
-+.=.+|-++-.+|+.++++=+.-|..+-+.++... -+..+++|++|+..|-+++..||+++..+..+|.+
T Consensus 92 vd~l~~ld~~~r~~~~~~~~lr~ern~~sk~i~~~~---------~~~~~~~l~~~~k~lk~~i~~le~~~~~~~~~l~~ 162 (502)
T PLN02320 92 LELVLELYENMLALQKEVERLRAERNAVANKMKGKL---------EPSERQALVEEGKNLKEGLVTLEEDLVKLTDELQL 162 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh---------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666777777888888777777778777775411 12357899999999999999999999998888887
Q ss_pred HHH
Q 008059 99 EAV 101 (579)
Q Consensus 99 e~~ 101 (579)
...
T Consensus 163 ~~l 165 (502)
T PLN02320 163 EAQ 165 (502)
T ss_pred HHH
Confidence 753
No 41
>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]
Probab=34.57 E-value=35 Score=44.12 Aligned_cols=84 Identities=20% Similarity=0.287 Sum_probs=57.4
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 16 RSNRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQG 95 (579)
Q Consensus 16 ~~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~ 95 (579)
.....+-..|+.++.+|++.|+.+..=.+-|..-+....-.....--.+=.....++++|+.++.++..||.++.+|-..
T Consensus 801 ~~~e~~i~eL~~el~~lk~klq~~~~~~r~l~~~~~~~l~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~le~k~~eL~k~ 880 (1822)
T KOG4674|consen 801 DKCESRIKELERELQKLKKKLQEKSSDLRELTNSLEKQLENAQNLVDELESELKSLLTSLDSVSTNIAKLEIKLSELEKR 880 (1822)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33446777899999999999999987777676655533211111111223356778888888888888888888887777
Q ss_pred HhhH
Q 008059 96 LYQE 99 (579)
Q Consensus 96 l~~e 99 (579)
|--.
T Consensus 881 l~~~ 884 (1822)
T KOG4674|consen 881 LKSA 884 (1822)
T ss_pred HHHh
Confidence 6643
No 42
>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=34.54 E-value=1.1e+02 Score=24.82 Aligned_cols=63 Identities=21% Similarity=0.303 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 25 LLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYT-LELLAEVAVLEEEVVRLEEQVVNF 92 (579)
Q Consensus 25 LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~-~eLl~Eia~lE~eV~~LE~~v~~l 92 (579)
++.|+.+|+++|..=..--..++.-|+.+. -+. .-|+.+ .+--+-++-++.++..|++++..|
T Consensus 2 ~~~E~~rL~Kel~kl~~~i~~~~~kL~n~~-F~~----kAP~eVve~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 2 VEAEIERLEKELEKLEKEIERLEKKLSNEN-FVE----KAPEEVVEKEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCSTT-HHH----HS-CCHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCcc-ccc----cCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 677888888888876666666666665431 111 123333 333445667788888888887765
No 43
>PRK09039 hypothetical protein; Validated
Probab=32.73 E-value=1.5e+02 Score=32.07 Aligned_cols=32 Identities=19% Similarity=0.279 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 008059 20 ERKMALLEDVDKLKRKLRHEENVHRALERAFT 51 (579)
Q Consensus 20 ~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~ 51 (579)
.+...|+++|..|+.+|..=+..|.-|+.++.
T Consensus 74 ~~~~~l~~~l~~l~~~l~~a~~~r~~Le~~~~ 105 (343)
T PRK09039 74 QGNQDLQDSVANLRASLSAAEAERSRLQALLA 105 (343)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45567999999999999988888888888776
No 44
>TIGR03755 conj_TIGR03755 integrating conjugative element protein, PFL_4711 family. Members of this protein family are found in genomic regions associated with conjugative transfer and integrated TOL-like plasmids. The specific function is unknown.
Probab=32.62 E-value=92 Score=34.70 Aligned_cols=70 Identities=26% Similarity=0.376 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhC--CCC--C-CCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 008059 28 DVDKLKRKLRHEENVHRALERAFT--RPL--G-SLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQE 99 (579)
Q Consensus 28 eV~~Lq~~L~~E~~~r~~Le~al~--~~~--~-~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e 99 (579)
|..-|-.+|-.|.+|.+++|+||- |-. | ..|.. .-.+.-..|+=..|+.|+-||..|+-++ +||+.|-.+
T Consensus 308 dq~~l~~RLA~EiA~a~~~ekALl~RR~L~tG~~ePnv-a~~~~A~~~~~~~i~~LDrEI~~Lk~E~-~lRk~l~~n 382 (418)
T TIGR03755 308 DQSLLVQRLASEIALADTLEKALLMRRMLLTGLQEPNV-AANKPAQQEVDKAIDKLDREINNLKTEL-ELRKELASN 382 (418)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccc-ccCHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhc
Confidence 566788999999999999999986 211 2 12222 2345556666677777777777777664 356555544
No 45
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=31.64 E-value=1.9e+02 Score=29.11 Aligned_cols=33 Identities=21% Similarity=0.225 Sum_probs=23.7
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 64 LPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGL 96 (579)
Q Consensus 64 lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l 96 (579)
-+...+.+=.+|..+|+.|--||.|+.+=+..|
T Consensus 158 ~~~~l~~v~~Dl~~ie~QV~~Le~~L~~k~~eL 190 (195)
T PF12761_consen 158 SGKNLKSVREDLDTIEEQVDGLESHLSSKKQEL 190 (195)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667777788888888888888887644444
No 46
>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=31.32 E-value=2e+02 Score=32.08 Aligned_cols=74 Identities=22% Similarity=0.315 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 008059 21 RKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQE 99 (579)
Q Consensus 21 ~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e 99 (579)
+...|++++.+++++|.+=...-..|+++ .....++.......+.+......+.+++..|+.++..|+.+|.+-
T Consensus 335 ~~~~l~~~~~~~~~~l~~l~~~l~~l~~~-----~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~l~~~ 408 (451)
T PF03961_consen 335 KLEELEEELEELKEELEKLKKNLKKLKKL-----KKQGKLPPEKKEQLKKLKEKKKELKEELKELKEELKELKEELERS 408 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhh-----cccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33455555555555554433332222221 112333334445566677777778888888888888776666643
No 47
>PF09727 CortBP2: Cortactin-binding protein-2; InterPro: IPR019131 This entry represents a N-terminal domain found in cortactin-binding protein 2 and in filamin A interacting protein 1 (Filip1). In addition to being a positional candidate for autism, cortactin-binding protein 2 is expressed at highest levels in the brain in humans. Towards the C-terminal end of this protein are a series of proline-rich regions which are likely to be the points of interaction with the SH3 domain of cortactin. The human protein has six associated ankyrin repeat domains (IPR002110 from INTERPRO) towards the C terminus of the protein which act as protein-protein interaction domains []. Filip1 controls the start of neocortical cell migration from the ventricular zone by acting through a filamin-A/F-actin axis. It may be able to induce the degradation of Filamin A [, ].
Probab=31.19 E-value=2.5e+02 Score=28.12 Aligned_cols=51 Identities=31% Similarity=0.442 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 008059 25 LLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQEA 100 (579)
Q Consensus 25 LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e~ 100 (579)
||+|-.+|+++|..|..=+..+|+-+ =.-++.|++|..++.+=++- |-.|+
T Consensus 139 LEkEReRLkq~lE~Ek~~~~~~EkE~---------------------~K~~~~l~eE~~k~K~~~l~----Lv~E~ 189 (192)
T PF09727_consen 139 LEKERERLKQQLEQEKAQQKKLEKEH---------------------KKLVSQLEEERTKLKSFVLM----LVKER 189 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHH----HHHHH
Confidence 99999999999999999999888744 34467889999999888887 66664
No 48
>PTZ00464 SNF-7-like protein; Provisional
Probab=30.78 E-value=1.6e+02 Score=29.84 Aligned_cols=49 Identities=16% Similarity=0.241 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHH
Q 008059 28 DVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEV 82 (579)
Q Consensus 28 eV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV 82 (579)
+|..|...++++.+...-+-.||+++.+.- .-+. =-||.+|++.||.|+
T Consensus 125 ~Vd~l~Dei~E~~e~~~EI~e~Ls~~~~~~----~~~D--EdELe~ELe~Le~e~ 173 (211)
T PTZ00464 125 KVEDLQDELADLYEDTQEIQEIMGRAYDVP----DDID--EDEMLGELDALDFDM 173 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCCCC----CCCC--HHHHHHHHHHHHHHH
Confidence 578888888888888888888888764421 1122 378999999988875
No 49
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=30.61 E-value=2.3e+02 Score=28.32 Aligned_cols=54 Identities=19% Similarity=0.362 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 28 DVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVN 91 (579)
Q Consensus 28 eV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~ 91 (579)
+|..|...++++.+...-+-.||+++.+ ..+ .=-||.+|++.||.| .||++++.
T Consensus 131 kVd~lmDei~E~~e~~~EIseaLs~~~~------~~~--DEdELe~ELe~Le~e--~l~~~ll~ 184 (191)
T PTZ00446 131 KVEKIIDTIQENKDIQEEINQALSFNLL------NNV--DDDEIDKELDLLKEQ--TMEEKLLK 184 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCC------CCC--CHHHHHHHHHHHHHH--HHHHHHHH
Confidence 6889999999999999999999976422 112 347999999999885 56666543
No 50
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=27.93 E-value=4e+02 Score=29.23 Aligned_cols=84 Identities=26% Similarity=0.300 Sum_probs=56.1
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC---CCC----------CCCCCCCCCChhHHHHHHHHHHHHH
Q 008059 14 RRRSNRERKMALLEDVDKLKRKLRHEENVHRALERAFTR---PLG----------SLPRLPPYLPPYTLELLAEVAVLEE 80 (579)
Q Consensus 14 ~~~~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~---~~~----------~~~~~~~~lp~~~~eLl~Eia~lE~ 80 (579)
|-..-.-++..|+..+.++......=...+..||+||.. |.. .-+...-.-+.--.||+.|+.++|.
T Consensus 51 Ri~di~~wk~eL~~~l~~~~~Ei~~L~~~K~~le~aL~~~~~pl~i~~ecL~~R~~R~~~dlv~D~ve~eL~kE~~li~~ 130 (384)
T PF03148_consen 51 RIRDIRFWKNELERELEELDEEIDLLEEEKRRLEKALEALRKPLSIAQECLSLREKRPGIDLVHDEVEKELLKEVELIEN 130 (384)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHhCCCCcccCCCcHHHHHHHHHHHHHH
Confidence 334445567777777777777766666778888888873 321 1122223455667999999999999
Q ss_pred HHHHHHHHHHHHHHHHh
Q 008059 81 EVVRLEEQVVNFRQGLY 97 (579)
Q Consensus 81 eV~~LE~~v~~l~~~l~ 97 (579)
--..|++.+...-.+|-
T Consensus 131 ~~~lL~~~l~~~~eQl~ 147 (384)
T PF03148_consen 131 IKRLLQRTLEQAEEQLR 147 (384)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 88888887777444443
No 51
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=27.63 E-value=3.4e+02 Score=30.43 Aligned_cols=31 Identities=16% Similarity=0.445 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 008059 20 ERKMALLEDVDKLKRKLRHEENVHRALERAF 50 (579)
Q Consensus 20 ~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al 50 (579)
+++...++|++++++.+.....-+.-|++.+
T Consensus 38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~l 68 (420)
T COG4942 38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQL 68 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666788888888888888888888777765
No 52
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=27.41 E-value=4.1e+02 Score=31.49 Aligned_cols=84 Identities=15% Similarity=0.184 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC--CCCCC---CCCCChhHHHHHHHHHHHHHH-------------
Q 008059 20 ERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLG--SLPRL---PPYLPPYTLELLAEVAVLEEE------------- 81 (579)
Q Consensus 20 ~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~--~~~~~---~~~lp~~~~eLl~Eia~lE~e------------- 81 (579)
++-.+|+++....+.++..-+..-..|++.+..... ..+.. ...+.+..++|-.+++.+|.+
T Consensus 237 ~~L~~l~~ql~~a~~~~~~a~a~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~L~~~l~~l~~~~~~l~~~y~~~hP 316 (754)
T TIGR01005 237 QQLAELNTELSRARANRAAAEGTADSVKKALQNGGSLDVLPEVLSSQLKLEDLIQRLRERQAELRATIADLSTTMLANHP 316 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchhhhhcCcccccHHHHHHHHHHHHHHHHHHHHHHhhCCCCH
Confidence 344455555555555555555555666666653211 11110 012236788888888888864
Q ss_pred -HHHHHHHHHHHHHHHhhHHHhh
Q 008059 82 -VVRLEEQVVNFRQGLYQEAVYI 103 (579)
Q Consensus 82 -V~~LE~~v~~l~~~l~~e~~~~ 103 (579)
|..|+.++.+|+.++.+|...+
T Consensus 317 ~v~~l~~qi~~l~~~i~~e~~~~ 339 (754)
T TIGR01005 317 RVVAAKSSLADLDAQIRSELQKI 339 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 6778888899999988876543
No 53
>PF14282 FlxA: FlxA-like protein
Probab=27.06 E-value=4.2e+02 Score=23.70 Aligned_cols=60 Identities=12% Similarity=0.262 Sum_probs=38.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 008059 19 RERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQ 98 (579)
Q Consensus 19 ~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~ 98 (579)
...-..|++.+..|+++|++-.+ ...++++++. .-+.+|..+|.-||.+|..|+.+.-+
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~-------------------~~~~~~e~k~--~q~q~Lq~QI~~LqaQI~qlq~q~~~ 76 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQ-------------------DSDLDAEQKQ--QQIQLLQAQIQQLQAQIAQLQSQQAE 76 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc-------------------ccCCCHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566788889999888874322 1235555443 45666777777777777776665555
Q ss_pred H
Q 008059 99 E 99 (579)
Q Consensus 99 e 99 (579)
+
T Consensus 77 ~ 77 (106)
T PF14282_consen 77 Q 77 (106)
T ss_pred H
Confidence 4
No 54
>PRK01203 prefoldin subunit alpha; Provisional
Probab=27.06 E-value=1.1e+02 Score=28.75 Aligned_cols=30 Identities=13% Similarity=0.264 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 008059 68 TLELLAEVAVLEEEVVRLEEQVVNFRQGLY 97 (579)
Q Consensus 68 ~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~ 97 (579)
++++++|+-+++++|..|.+++..|+....
T Consensus 2 ~~~~~~~~~~~~~q~e~l~~ql~~L~~a~s 31 (130)
T PRK01203 2 ARDVEAQLNYIESLISSVDSQIDSLNKTLS 31 (130)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478999999999999999999999877665
No 55
>KOG2685 consensus Cystoskeletal protein Tektin [Cytoskeleton]
Probab=26.87 E-value=2.7e+02 Score=31.13 Aligned_cols=83 Identities=24% Similarity=0.271 Sum_probs=55.3
Q ss_pred ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC-------------CCCCCCCCCChhHHHHHHHHHHH
Q 008059 12 GNRRRSNRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLG-------------SLPRLPPYLPPYTLELLAEVAVL 78 (579)
Q Consensus 12 ~~~~~~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~-------------~~~~~~~~lp~~~~eLl~Eia~l 78 (579)
++|-.-..+.|..|+-.+.+--+...+-+.==++||+|+..-.| .-|.+.-+-+..-..|+.||-.|
T Consensus 277 ~~ri~etqdar~kL~~ql~k~leEi~~~e~~I~~le~airdK~~pLKVAqTRle~Rt~RPnvELCrD~AQ~~L~~EV~~l 356 (421)
T KOG2685|consen 277 KKRIRETQDARNKLEWQLAKTLEEIADAENNIEALERAIRDKEGPLKVAQTRLENRTYRPNVELCRDQAQYRLVDEVHEL 356 (421)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccccHHHHHHHHHHcccCCchHHHHhHHHHHHHHHHHHH
Confidence 44455556667777766665444444444444567888764333 23555556666678999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 008059 79 EEEVVRLEEQVVNFRQ 94 (579)
Q Consensus 79 E~eV~~LE~~v~~l~~ 94 (579)
+..|..|++++..-+.
T Consensus 357 ~~t~~~L~~kL~eA~~ 372 (421)
T KOG2685|consen 357 DDTVAALKEKLDEAED 372 (421)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 9999999999887443
No 56
>KOG4010 consensus Coiled-coil protein TPD52 [General function prediction only]
Probab=26.70 E-value=95 Score=31.01 Aligned_cols=29 Identities=34% Similarity=0.465 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHH-------HHHHHHHHHHh
Q 008059 69 LELLAEVAVLEEEVVRLE-------EQVVNFRQGLY 97 (579)
Q Consensus 69 ~eLl~Eia~lE~eV~~LE-------~~v~~l~~~l~ 97 (579)
.||=+|++-+|+||+-|- +|..+|++.|.
T Consensus 47 eelr~EL~kvEeEI~TLrqVLaAKerH~~ELKRKLG 82 (208)
T KOG4010|consen 47 EELRTELAKVEEEIVTLRQVLAAKERHAAELKRKLG 82 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 466688899999888773 44555555443
No 57
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=26.18 E-value=1.1e+02 Score=29.74 Aligned_cols=34 Identities=26% Similarity=0.295 Sum_probs=23.2
Q ss_pred CChhHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHh
Q 008059 64 LPPYTLELLAEVAVLEEEVVRLE-------EQVVNFRQGLY 97 (579)
Q Consensus 64 lp~~~~eLl~Eia~lE~eV~~LE-------~~v~~l~~~l~ 97 (579)
-...-.||-.||+-+|+||.-|- .+..+|++.|+
T Consensus 27 sEeE~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrkLG 67 (162)
T PF04201_consen 27 SEEEREELRSELAKVEEEIQTLRQVLAAKERHCAELKRKLG 67 (162)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHC
Confidence 34556788889999999988763 44455555553
No 58
>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=26.11 E-value=2.9e+02 Score=31.34 Aligned_cols=45 Identities=22% Similarity=0.339 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 008059 39 EENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLY 97 (579)
Q Consensus 39 E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~ 97 (579)
|.++..-+..|+.. ..+||..|...|..|+..|...+.+|..+|.
T Consensus 96 ~~~id~~i~~av~~--------------~~~~~~~~~~ql~~~~~~~~~~l~~l~~~l~ 140 (472)
T TIGR03752 96 EQSIDQQIQQAVQS--------------ETQELTKEIEQLKSERQQLQGLIDQLQRRLA 140 (472)
T ss_pred hhhHHHHHHHHHHh--------------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45555566666532 3488999999999999999999999888884
No 59
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=25.62 E-value=3e+02 Score=32.74 Aligned_cols=59 Identities=22% Similarity=0.285 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 008059 25 LLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQEAV 101 (579)
Q Consensus 25 LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e~~ 101 (579)
|++|-.+|+++|..|.+--+-++.-+ ..+=.|+..||++++.||+.+..++..+.|+-.
T Consensus 709 lraE~~~l~~~le~e~nr~~~~~~e~------------------~~~qeE~~~l~~r~~~le~e~r~~k~~~~q~lq 767 (961)
T KOG4673|consen 709 LRAEQGQLSKSLEKERNRAAENRQEY------------------LAAQEEADTLEGRANQLEVEIRELKRKHKQELQ 767 (961)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHH------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 77888899999988887665554422 344568999999999999999998888887753
No 60
>smart00338 BRLZ basic region leucin zipper.
Probab=25.53 E-value=1.8e+02 Score=23.29 Aligned_cols=28 Identities=32% Similarity=0.391 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 68 TLELLAEVAVLEEEVVRLEEQVVNFRQG 95 (579)
Q Consensus 68 ~~eLl~Eia~lE~eV~~LE~~v~~l~~~ 95 (579)
+.+|=.+|..|+.++..|..+|..|+.+
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~l~~e 55 (65)
T smart00338 28 IEELERKVEQLEAENERLKKEIERLRRE 55 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555555555554433
No 61
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=25.43 E-value=3.1e+02 Score=30.41 Aligned_cols=73 Identities=19% Similarity=0.264 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 008059 20 ERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPY-TLELLAEVAVLEEEVVRLEEQVVNFRQGLYQ 98 (579)
Q Consensus 20 ~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~-~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~ 98 (579)
+.-.+|-++-.+|+.++++=+.-|..+-+.++..... . .. +.+|++++..|-++|..||+++..+..++.+
T Consensus 30 d~i~~ld~~~r~~~~~~~~l~~erN~~sk~i~~~~~~-----~---~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 101 (418)
T TIGR00414 30 EKLIALDDERKKLLSEIEELQAKRNELSKQIGKAKGQ-----K---KDKIEEIKKELKELKEELTELSAALKALEAELQD 101 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-----C---cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5556777777788888888777788888777542111 0 12 6899999999999999999999998888887
Q ss_pred HH
Q 008059 99 EA 100 (579)
Q Consensus 99 e~ 100 (579)
..
T Consensus 102 ~~ 103 (418)
T TIGR00414 102 KL 103 (418)
T ss_pred HH
Confidence 64
No 62
>PF15147 DUF4578: Domain of unknown function (DUF4578)
Probab=25.39 E-value=30 Score=31.70 Aligned_cols=11 Identities=73% Similarity=1.845 Sum_probs=8.8
Q ss_pred eccC-CCCCCCc
Q 008059 469 LCCG-SWSSPAV 479 (579)
Q Consensus 469 L~cG-s~SsP~l 479 (579)
|||| +||||.-
T Consensus 5 lCCggSWScPst 16 (127)
T PF15147_consen 5 LCCGGSWSCPST 16 (127)
T ss_pred cccCCCcCCchh
Confidence 6665 9999985
No 63
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=25.25 E-value=6e+02 Score=24.58 Aligned_cols=25 Identities=32% Similarity=0.490 Sum_probs=19.2
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 18 NRERKMALLEDVDKLKRKLRHEENV 42 (579)
Q Consensus 18 ~~~~r~~LeqeV~~Lq~~L~~E~~~ 42 (579)
.+.....|+.||.+|+.+|++|.+-
T Consensus 78 lr~~~e~L~~eie~l~~~L~~ei~~ 102 (177)
T PF07798_consen 78 LRSENEKLQREIEKLRQELREEINK 102 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566899999999999998753
No 64
>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []. Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.
Probab=25.15 E-value=3.2e+02 Score=28.13 Aligned_cols=39 Identities=33% Similarity=0.286 Sum_probs=32.6
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 008059 62 PYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQEA 100 (579)
Q Consensus 62 ~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e~ 100 (579)
..|-.++.++-.+|+.|+.++...|..+..|+..|..-+
T Consensus 78 ~~Le~e~~e~~~~i~~l~ee~~~ke~Ea~~lq~el~~ar 116 (246)
T PF00769_consen 78 EQLEQELREAEAEIARLEEESERKEEEAEELQEELEEAR 116 (246)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 347778999999999999999999999999999988554
No 65
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=24.75 E-value=2.4e+02 Score=28.23 Aligned_cols=66 Identities=23% Similarity=0.268 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 23 MALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGL 96 (579)
Q Consensus 23 ~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l 96 (579)
..+++||..|+++|.+-..-...|..+-.+- ..+-.+.+.|=-|-.+||..+..||+.-..|+..+
T Consensus 65 ~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl--------~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf 130 (201)
T PF13851_consen 65 KKAEEEVEELRKQLKNYEKDKQSLQNLKARL--------KELEKELKDLKWEHEVLEQRFEKLEQERDELYRKF 130 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478999999999999888888887765331 12344566666677777777777777766655443
No 66
>PF13107 DUF3964: Protein of unknown function (DUF3964)
Probab=24.74 E-value=36 Score=30.27 Aligned_cols=16 Identities=44% Similarity=0.964 Sum_probs=11.4
Q ss_pred CCCCCCChhhhHHHHHH
Q 008059 365 VSLEGLNHQQKLAFWIN 381 (579)
Q Consensus 365 Vdl~~Ls~eEKLAFWIN 381 (579)
|++..+ .+|.+|||+|
T Consensus 89 v~Lp~i-~~~~~AFW~N 104 (109)
T PF13107_consen 89 VNLPEI-ENQQMAFWFN 104 (109)
T ss_pred eeCchh-hHHHHHHHhh
Confidence 455554 3678999998
No 67
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 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. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=23.98 E-value=3.4e+02 Score=23.19 Aligned_cols=57 Identities=26% Similarity=0.364 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 23 MALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQ 94 (579)
Q Consensus 23 ~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~ 94 (579)
..+.+.+..|+.+|+. .|.+++. +|. |-....|-..||+.||++|....+-+..|+.
T Consensus 24 kd~~~~~~~lk~Klq~---ar~~i~~--------lpg----i~~s~eeq~~~i~~Le~~i~~k~~~L~~~~~ 80 (83)
T PF07544_consen 24 KDLDTATGSLKHKLQK---ARAAIRE--------LPG----IDRSVEEQEEEIEELEEQIRKKREVLQKFKE 80 (83)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHh--------CCC----ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3688999999999986 4444443 233 3445677888899999998888777777554
No 68
>KOG1937 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.45 E-value=4.6e+02 Score=29.73 Aligned_cols=76 Identities=13% Similarity=0.256 Sum_probs=53.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 008059 23 MALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQEA 100 (579)
Q Consensus 23 ~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e~ 100 (579)
..||||+.-+-++.+.-+.+++-|.++|.+-.-..++ -..-.-++|+...|--.|++|.+.=..--.|+.+++.+.
T Consensus 348 qeleqdL~a~~eei~~~eel~~~Lrsele~lp~dv~r--k~ytqrikEi~gniRKq~~DI~Kil~etreLqkq~ns~s 423 (521)
T KOG1937|consen 348 QELEQDLEAVDEEIESNEELAEKLRSELEKLPDDVQR--KVYTQRIKEIDGNIRKQEQDIVKILEETRELQKQENSES 423 (521)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHhcCCchhHH--HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688888888888887778888888887541111111 011124688999999999999988887778888877653
No 69
>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=23.34 E-value=1.2e+02 Score=30.97 Aligned_cols=83 Identities=22% Similarity=0.289 Sum_probs=44.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCC---CCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 19 RERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPR---LPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQG 95 (579)
Q Consensus 19 ~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~---~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~ 95 (579)
+++-..|++.+.++++++++.+.--..+...+......+.. .-...-....++..++...+..+..|++++..-|..
T Consensus 69 ~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~r~~ 148 (302)
T PF10186_consen 69 RERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLSASQDLVESRQEQLEELQNELEERKQRLSQLQSQLARRRRQ 148 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445577777777777777777666666666532222110 001112233444555555555555555555555556
Q ss_pred HhhHHH
Q 008059 96 LYQEAV 101 (579)
Q Consensus 96 l~~e~~ 101 (579)
+.+|..
T Consensus 149 l~~~l~ 154 (302)
T PF10186_consen 149 LIQELS 154 (302)
T ss_pred HHHHHH
Confidence 665543
No 70
>PRK09343 prefoldin subunit beta; Provisional
Probab=22.79 E-value=3.6e+02 Score=24.67 Aligned_cols=43 Identities=16% Similarity=0.022 Sum_probs=30.6
Q ss_pred CCCCCCCChhHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 008059 58 PRLPPYLPPYTLELL----AEVAVLEEEVVRLEEQVVNFRQGLYQEA 100 (579)
Q Consensus 58 ~~~~~~lp~~~~eLl----~Eia~lE~eV~~LE~~v~~l~~~l~~e~ 100 (579)
...|.+++...-++. +.+..+|.+|..||++...|+..+-.-.
T Consensus 59 ~VG~vlv~qd~~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q 105 (121)
T PRK09343 59 IVGNLLVKVDKTKVEKELKERKELLELRSRTLEKQEKKLREKLKELQ 105 (121)
T ss_pred HhhHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556666555444 4567899999999999999888887553
No 71
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=22.41 E-value=1.3e+02 Score=23.41 Aligned_cols=22 Identities=32% Similarity=0.524 Sum_probs=8.0
Q ss_pred hHHHHHHH--------HHHHHHHHHHHHHH
Q 008059 67 YTLELLAE--------VAVLEEEVVRLEEQ 88 (579)
Q Consensus 67 ~~~eLl~E--------ia~lE~eV~~LE~~ 88 (579)
.++|||.| |.-+.++|+.||++
T Consensus 5 EAkelLqe~~d~IEqkiedid~qIaeLe~K 34 (46)
T PF08946_consen 5 EAKELLQEHYDNIEQKIEDIDEQIAELEAK 34 (46)
T ss_dssp ----------THHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHhHHHHHHHHHHHHHH
Confidence 46777765 44555666666655
No 72
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=21.85 E-value=4.1e+02 Score=29.59 Aligned_cols=79 Identities=16% Similarity=0.143 Sum_probs=38.9
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 14 RRRSNRERKMALLEDVDKLKRKLRHEE-NVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNF 92 (579)
Q Consensus 14 ~~~~~~~~r~~LeqeV~~Lq~~L~~E~-~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l 92 (579)
+......-+.-|++++.+++++|.+-+ ++.....+ ....++.....+.....++-.+++.++.++..++.++..|
T Consensus 155 ~~~~~~~~~~fl~~ql~~~~~~L~~ae~~l~~f~~~----~~~~~~~~~~~~~~~l~~l~~~l~~~~~~l~~~~a~~~~l 230 (498)
T TIGR03007 155 KRQDSDSAQRFIDEQIKTYEKKLEAAENRLKAFKQE----NGGILPDQEGDYYSEISEAQEELEAARLELNEAIAQRDAL 230 (498)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----CcccCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445677789999999999997643 33333221 1111222112223333444444444444444445544444
Q ss_pred HHHH
Q 008059 93 RQGL 96 (579)
Q Consensus 93 ~~~l 96 (579)
+.++
T Consensus 231 ~~~l 234 (498)
T TIGR03007 231 KRQL 234 (498)
T ss_pred HHHh
Confidence 4433
No 73
>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain.
Probab=21.78 E-value=6.2e+02 Score=27.27 Aligned_cols=68 Identities=24% Similarity=0.374 Sum_probs=40.5
Q ss_pred HHHHHH----HHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCC------ChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 23 MALLED----VDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYL------PPYTLELLAEVAVLEEEVVRLEEQVVN 91 (579)
Q Consensus 23 ~~Leqe----V~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~l------p~~~~eLl~Eia~lE~eV~~LE~~v~~ 91 (579)
.+|||| |-+|++|..+=..-.+.|+.-|..+.+..| .|.-+ -..+..+-+-|..|=.||.+|-+++..
T Consensus 170 n~LE~EQE~lvN~L~Kqm~~l~~eKr~Lq~~l~~~~s~~~-s~~d~~~~~~~~Dt~e~~~shI~~Lr~EV~RLR~qL~~ 247 (310)
T PF09755_consen 170 NTLEQEQEALVNRLWKQMDKLEAEKRRLQEKLEQPVSAPP-SPRDTVNVSEENDTAERLSSHIRSLRQEVSRLRQQLAA 247 (310)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCCCC-CcchHHhhcccCCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555 667777777767777888888888755433 23211 112344555666666666666655554
No 74
>KOG4074 consensus Leucine zipper nuclear factor [Function unknown]
Probab=21.51 E-value=5e+02 Score=27.99 Aligned_cols=72 Identities=26% Similarity=0.429 Sum_probs=52.7
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 17 SNRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGL 96 (579)
Q Consensus 17 ~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l 96 (579)
..++|-..|++|..-|++||.-|..|+.-|.+-|=-+.| -+|=.-+..|-++-..|=..++++-..|
T Consensus 134 t~Sere~~l~~e~~~l~~ql~iqt~vNsELK~LlVASvg-------------ddLQ~~ve~LtedK~qLa~~~~~~~~nl 200 (383)
T KOG4074|consen 134 TSSEREAELERELDLLRKQLNIQTKVNSELKRLLVASVG-------------DDLQGQVEALTEDKVQLAHRVDEYMGNL 200 (383)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-------------HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 345666789999999999999999999999998855544 3444455566666666666666666666
Q ss_pred hhHHH
Q 008059 97 YQEAV 101 (579)
Q Consensus 97 ~~e~~ 101 (579)
-++..
T Consensus 201 ~~~~E 205 (383)
T KOG4074|consen 201 MVEDE 205 (383)
T ss_pred hhhHH
Confidence 65543
No 75
>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=21.32 E-value=3.9e+02 Score=27.78 Aligned_cols=68 Identities=22% Similarity=0.211 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 008059 21 RKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQE 99 (579)
Q Consensus 21 ~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e 99 (579)
.+..|..+|..++.++..|...+..|+.-+..-. ....+......-||.+|..|++++..++..--+|
T Consensus 76 e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lr-----------k~ld~~~~~r~~le~~i~~L~eEl~fl~~~heeE 143 (312)
T PF00038_consen 76 EIDNLKEELEDLRRKYEEELAERKDLEEELESLR-----------KDLDEETLARVDLENQIQSLKEELEFLKQNHEEE 143 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-----------hhhhhhhhhHhHHHHHHHHHHHHHHHHHhhhhhh
Confidence 4455677788888999999999999987663211 3344444445556777777777776555544443
No 76
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=21.30 E-value=2.5e+02 Score=28.38 Aligned_cols=36 Identities=17% Similarity=0.176 Sum_probs=30.7
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 008059 64 LPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQE 99 (579)
Q Consensus 64 lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e 99 (579)
|=.+-++++.-...+|.++..||++|..|+.+.-..
T Consensus 180 Le~~W~~~v~kn~eie~a~~~Le~ei~~l~~~~~~~ 215 (221)
T PF05700_consen 180 LEQRWKELVSKNLEIEVACEELEQEIEQLKRKAAEL 215 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555789999999999999999999999988776544
No 77
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=21.21 E-value=6e+02 Score=22.71 Aligned_cols=63 Identities=29% Similarity=0.357 Sum_probs=38.1
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 16 RSNRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQ 94 (579)
Q Consensus 16 ~~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~ 94 (579)
.+.++.-.+|++.+.+...+|+ .||.-+. .+|.- ..+.+|=.+|+-++.++..|+.++..+..
T Consensus 31 ~a~~~~~~~l~~~~~~~~~Rl~-------~lE~~l~----~LPt~-----~dv~~L~l~l~el~G~~~~l~~~l~~v~~ 93 (106)
T PF10805_consen 31 YAKREDIEKLEERLDEHDRRLQ-------ALETKLE----HLPTR-----DDVHDLQLELAELRGELKELSARLQGVSH 93 (106)
T ss_pred hccHHHHHHHHHHHHHHHHHHH-------HHHHHHH----hCCCH-----HHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 3445555566666666666654 3555442 22321 24667777788888888888888777443
No 78
>PRK11239 hypothetical protein; Provisional
Probab=21.16 E-value=1.1e+02 Score=31.01 Aligned_cols=26 Identities=31% Similarity=0.271 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 008059 73 AEVAVLEEEVVRLEEQVVNFRQGLYQ 98 (579)
Q Consensus 73 ~Eia~lE~eV~~LE~~v~~l~~~l~~ 98 (579)
..++.||++|..||++|..|+.+|-+
T Consensus 183 ~~~~~Le~rv~~Le~eva~L~~~l~~ 208 (215)
T PRK11239 183 AVDGDLQARVEALEIEVAELKQRLDS 208 (215)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34577999999999999999988764
No 79
>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=21.10 E-value=2.2e+02 Score=23.98 Aligned_cols=27 Identities=19% Similarity=0.213 Sum_probs=22.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 66 PYTLELLAEVAVLEEEVVRLEEQVVNF 92 (579)
Q Consensus 66 ~~~~eLl~Eia~lE~eV~~LE~~v~~l 92 (579)
.+++.+|..|+.|..||..|+++...|
T Consensus 11 ~ki~~aveti~~Lq~e~eeLke~n~~L 37 (72)
T PF06005_consen 11 EKIQQAVETIALLQMENEELKEKNNEL 37 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 467889999999999999999985553
No 80
>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=20.78 E-value=3.2e+02 Score=31.93 Aligned_cols=64 Identities=22% Similarity=0.284 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 008059 23 MALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGLYQEA 100 (579)
Q Consensus 23 ~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l~~e~ 100 (579)
..+++++..++.+++.-..-...|+..+...- -+++.|...||.++..+|++....+.++.+.+
T Consensus 226 e~l~~~i~~l~~ele~a~~~l~~l~~~~~~~G--------------G~~~~~r~~Le~ei~~le~e~~e~~~~l~~l~ 289 (650)
T TIGR03185 226 EDLAQEIAHLRNELEEAQRSLESLEKKFRSEG--------------GDLFEEREQLERQLKEIEAARKANRAQLRELA 289 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--------------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444444444444444444444454443321 34666677777777777777777777666553
No 81
>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]
Probab=20.78 E-value=3.3e+02 Score=31.92 Aligned_cols=65 Identities=23% Similarity=0.403 Sum_probs=45.3
Q ss_pred ccCCccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHH
Q 008059 4 QGRKGIGAGNRRRSNRERKMALLEDVDKLKRKLRHEENVHRALERAFTRPLGSLPRLPPYLPPYTLELLAEVAVLEEEVV 83 (579)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~r~~LeqeV~~Lq~~L~~E~~~r~~Le~al~~~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~ 83 (579)
+|+....+-+.++..-+.-..||.||.+|+++= ..||.|=..++.++-
T Consensus 495 RgKNkvAAQnCRKRKLd~I~nLE~ev~~l~~eK--------------------------------eqLl~Er~~~d~~L~ 542 (604)
T KOG3863|consen 495 RGKNKVAAQNCRKRKLDCILNLEDEVEKLQKEK--------------------------------EQLLRERDELDSTLG 542 (604)
T ss_pred ccccchhccchhhhHHHHHHHHHHHHHHHHHHH--------------------------------HHHHHHHHHHHHHHH
Confidence 344444444555555567778999999888742 346667777777778
Q ss_pred HHHHHHHHHHHHHhhHH
Q 008059 84 RLEEQVVNFRQGLYQEA 100 (579)
Q Consensus 84 ~LE~~v~~l~~~l~~e~ 100 (579)
.+-+++..|++..+++.
T Consensus 543 ~~kqqls~L~~~Vf~~l 559 (604)
T KOG3863|consen 543 VMKQQLSELYQEVFQQL 559 (604)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 88999999777777764
No 82
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=20.40 E-value=1.5e+02 Score=33.40 Aligned_cols=33 Identities=24% Similarity=0.482 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHhC
Q 008059 19 RERKMALLEDVD-------KLKRKLRHEENVHRALERAFT 51 (579)
Q Consensus 19 ~~~r~~LeqeV~-------~Lq~~L~~E~~~r~~Le~al~ 51 (579)
+|.|..||+.+. .+|+||.+|+..++.|..||.
T Consensus 541 relreslekql~~ErklR~~~qkr~kkEkk~k~k~qe~L~ 580 (641)
T KOG3915|consen 541 RELRESLEKQLAMERKLRAIVQKRLKKEKKAKRKLQEALE 580 (641)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
No 83
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=20.30 E-value=2.6e+02 Score=31.85 Aligned_cols=23 Identities=22% Similarity=0.154 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 008059 69 LELLAEVAVLEEEVVRLEEQVVN 91 (579)
Q Consensus 69 ~eLl~Eia~lE~eV~~LE~~v~~ 91 (579)
+++-..|..+|.|+..|++++..
T Consensus 100 ~dle~KIkeLEaE~~~Lk~Ql~a 122 (475)
T PRK13729 100 GDDQRRIEKLGQDNAALAEQVKA 122 (475)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHh
Confidence 45556667777777777777743
No 84
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=20.08 E-value=4e+02 Score=25.63 Aligned_cols=71 Identities=23% Similarity=0.270 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCC--CCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008059 25 LLEDVDKLKRKLRHEENVHRALERAFTR--PLGSLPRLPPYLPPYTLELLAEVAVLEEEVVRLEEQVVNFRQGL 96 (579)
Q Consensus 25 LeqeV~~Lq~~L~~E~~~r~~Le~al~~--~~~~~~~~~~~lp~~~~eLl~Eia~lE~eV~~LE~~v~~l~~~l 96 (579)
.+.++.+++.+|.....-|..+.+..+. ..+.+...|..+ .......+++..++.+|..|+.++..+-..+
T Consensus 103 ~~~~~~~~r~~l~~~k~~r~k~~~~~~~l~~~~~~~~~P~ll-~Dy~~~~~~~~~l~~~i~~l~rk~~~l~~~i 175 (177)
T PF13870_consen 103 REEELAKLREELYRVKKERDKLRKQNKKLRQQGGLLGVPALL-RDYDKTKEEVEELRKEIKELERKVEILEMRI 175 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4455666666666666666666666552 222222222211 1123456677777788888888777755444
Done!