Query 021573
Match_columns 310
No_of_seqs 82 out of 84
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 04:03:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021573.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021573hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09402 MSC: Man1-Src1p-C-ter 100.0 2.3E-41 5.1E-46 320.3 -1.9 212 71-290 18-278 (334)
2 PF12946 EGF_MSP1_1: MSP1 EGF 95.1 0.0067 1.4E-07 42.1 0.4 28 94-121 5-37 (37)
3 PF01683 EB: EB module; Inter 86.8 0.92 2E-05 32.2 3.5 27 91-120 26-52 (52)
4 KOG2629 Peroxisomal membrane a 76.8 6.3 0.00014 38.6 6.1 23 167-189 23-45 (300)
5 PTZ00382 Variant-specific surf 74.8 3.9 8.3E-05 33.5 3.5 35 89-123 18-56 (96)
6 PF06387 Calcyon: D1 dopamine 72.6 4.1 8.9E-05 37.3 3.5 27 109-135 113-149 (186)
7 PF07645 EGF_CA: Calcium-bindi 68.1 3.4 7.3E-05 28.3 1.5 22 95-116 11-36 (42)
8 PF03918 CcmH: Cytochrome C bi 67.5 5.7 0.00012 34.9 3.2 32 233-264 101-132 (148)
9 TIGR03147 cyt_nit_nrfF cytochr 66.3 39 0.00085 29.3 8.0 25 233-257 101-125 (126)
10 PRK14758 hypothetical protein; 65.9 9.6 0.00021 24.8 3.1 20 231-250 2-21 (27)
11 KOG1214 Nidogen and related ba 62.9 4.3 9.4E-05 45.0 1.8 34 90-123 827-866 (1289)
12 PF01826 TIL: Trypsin Inhibito 62.6 4.2 9.2E-05 29.1 1.2 26 96-124 27-53 (55)
13 COG2976 Uncharacterized protei 59.4 25 0.00055 32.9 5.9 51 226-277 13-65 (207)
14 PF12273 RCR: Chitin synthesis 58.4 9.2 0.0002 32.3 2.8 7 234-240 2-8 (130)
15 PF06667 PspB: Phage shock pro 57.8 18 0.00039 28.7 4.1 42 237-279 8-57 (75)
16 PHA02817 EEV Host range protei 57.4 11 0.00024 35.5 3.3 50 72-124 66-136 (225)
17 PRK10144 formate-dependent nit 57.1 77 0.0017 27.5 8.2 49 123-182 27-78 (126)
18 PF12947 EGF_3: EGF domain; I 56.8 5.2 0.00011 27.1 0.8 26 95-120 7-36 (36)
19 PF07543 PGA2: Protein traffic 55.7 17 0.00036 31.9 4.0 37 243-279 21-57 (140)
20 PF10144 SMP_2: Bacterial viru 55.6 38 0.00082 31.5 6.5 54 230-284 7-60 (210)
21 KOG4217 Nuclear receptors of t 53.1 1.6E+02 0.0035 31.2 11.0 100 178-283 437-549 (605)
22 TIGR02976 phageshock_pspB phag 50.6 27 0.00058 27.7 4.0 36 243-279 14-57 (75)
23 smart00032 CCP Domain abundant 50.2 10 0.00022 25.6 1.4 18 107-124 28-48 (57)
24 cd00053 EGF Epidermal growth f 50.1 14 0.00031 22.5 2.0 25 95-120 7-35 (36)
25 smart00179 EGF_CA Calcium-bind 47.9 16 0.00034 23.2 2.0 27 94-121 9-39 (39)
26 PRK14758 hypothetical protein; 47.6 30 0.00064 22.6 3.1 25 227-251 2-26 (27)
27 cd00033 CCP Complement control 47.6 11 0.00023 25.7 1.3 18 107-124 27-47 (57)
28 PF04695 Pex14_N: Peroxisomal 46.0 16 0.00035 31.3 2.3 26 169-194 26-51 (136)
29 PF14316 DUF4381: Domain of un 45.5 54 0.0012 28.1 5.5 25 234-258 23-47 (146)
30 PHA02639 EEV host range protei 43.3 17 0.00038 35.3 2.3 50 72-124 126-196 (295)
31 PF10256 Erf4: Golgin subfamil 42.7 88 0.0019 25.7 6.1 33 255-287 76-108 (118)
32 PF00084 Sushi: Sushi domain ( 41.5 14 0.00031 25.2 1.1 18 107-124 27-47 (56)
33 PF07974 EGF_2: EGF-like domai 41.5 20 0.00044 23.7 1.7 21 94-114 6-28 (32)
34 PF00558 Vpu: Vpu protein; In 40.7 25 0.00054 28.4 2.5 26 252-277 26-51 (81)
35 PRK11246 hypothetical protein; 40.0 68 0.0015 30.3 5.6 56 227-282 4-62 (218)
36 PF13268 DUF4059: Protein of u 39.1 68 0.0015 25.5 4.6 37 236-272 13-51 (72)
37 PF02009 Rifin_STEVOR: Rifin/s 36.1 49 0.0011 32.5 4.2 22 242-263 268-289 (299)
38 PRK09458 pspB phage shock prot 35.6 46 0.00099 26.6 3.2 38 241-279 12-57 (75)
39 PRK10772 cell division protein 35.5 2E+02 0.0044 24.3 7.2 50 219-268 7-57 (108)
40 PF13314 DUF4083: Domain of un 34.7 72 0.0016 24.4 4.0 13 265-277 44-56 (58)
41 TIGR00964 secE_bact preprotein 34.6 81 0.0018 22.9 4.2 24 39-62 17-40 (55)
42 PF12669 P12: Virus attachment 33.4 46 0.001 24.9 2.8 6 252-257 18-23 (58)
43 PF07127 Nodulin_late: Late no 32.7 80 0.0017 22.9 3.9 26 73-113 26-52 (54)
44 KOG0196 Tyrosine kinase, EPH ( 32.7 39 0.00085 37.8 3.2 29 89-117 289-320 (996)
45 PRK07597 secE preprotein trans 31.9 85 0.0019 23.4 4.1 24 39-62 26-49 (64)
46 TIGR03141 cytochro_ccmD heme e 31.5 1.8E+02 0.0038 20.5 5.4 19 251-269 23-41 (45)
47 TIGR02209 ftsL_broad cell divi 30.6 2.1E+02 0.0046 21.8 6.2 27 235-261 6-32 (85)
48 PF12729 4HB_MCP_1: Four helix 30.3 1.8E+02 0.0039 23.5 6.1 25 252-276 24-48 (181)
49 PF09802 Sec66: Preprotein tra 30.2 74 0.0016 29.4 4.1 23 242-264 13-35 (190)
50 PF10576 EndIII_4Fe-2S: Iron-s 30.0 23 0.00049 20.7 0.5 13 90-102 5-17 (17)
51 PF13124 DUF3963: Protein of u 29.9 92 0.002 21.9 3.5 22 227-248 16-37 (40)
52 PHA02831 EEV host range protei 29.7 50 0.0011 31.9 3.1 49 72-124 119-186 (268)
53 COG0690 SecE Preprotein transl 29.6 1.1E+02 0.0024 23.8 4.4 22 38-59 35-56 (73)
54 PF04999 FtsL: Cell division p 29.0 2.6E+02 0.0056 22.0 6.7 21 251-271 30-50 (97)
55 PF15048 OSTbeta: Organic solu 28.3 46 0.00099 29.0 2.3 46 233-278 36-86 (125)
56 PF09064 Tme5_EGF_like: Thromb 28.0 45 0.00097 22.9 1.7 22 95-118 7-31 (34)
57 PF00584 SecE: SecE/Sec61-gamm 27.2 1.5E+02 0.0033 21.3 4.6 21 39-59 18-38 (57)
58 PRK11114 cellulose synthase re 26.8 1E+02 0.0022 33.6 5.1 44 219-262 708-752 (756)
59 PF00558 Vpu: Vpu protein; In 26.5 1.1E+02 0.0024 24.7 4.0 35 249-283 19-53 (81)
60 PHA02642 C-type lectin-like pr 26.3 1.2E+02 0.0026 28.5 4.8 19 48-66 56-74 (216)
61 PF12662 cEGF: Complement Clr- 25.5 41 0.00089 21.2 1.1 16 107-122 4-21 (24)
62 KOG2903 Predicted glutathione 25.4 51 0.0011 32.4 2.3 30 131-164 209-238 (319)
63 COG3726 AhpA Uncharacterized m 25.1 1.8E+02 0.004 27.4 5.7 54 233-286 11-67 (214)
64 PF10588 NADH-G_4Fe-4S_3: NADH 25.0 32 0.0007 23.8 0.6 16 88-103 11-26 (41)
65 PF10805 DUF2730: Protein of u 24.9 1.9E+02 0.0041 23.9 5.3 37 230-268 4-40 (106)
66 KOG4289 Cadherin EGF LAG seven 24.5 44 0.00096 39.7 1.9 35 74-117 1232-1272(2531)
67 COG2165 PulG Type II secretory 24.3 1.7E+02 0.0036 23.3 4.9 23 252-274 32-54 (149)
68 cd03580 NTR_Sfrp1_like NTR dom 23.9 26 0.00056 29.7 -0.0 28 90-117 1-30 (126)
69 KOG1225 Teneurin-1 and related 23.8 61 0.0013 34.3 2.6 23 94-116 316-338 (525)
70 PF07047 OPA3: Optic atrophy 3 23.4 1.6E+02 0.0034 25.3 4.7 36 244-279 85-120 (134)
71 PF00957 Synaptobrevin: Synapt 23.1 1.2E+02 0.0026 23.6 3.6 25 229-253 61-85 (89)
72 PF06679 DUF1180: Protein of u 22.8 3.5E+02 0.0077 24.4 7.0 36 33-68 82-117 (163)
73 PF12273 RCR: Chitin synthesis 22.5 65 0.0014 27.1 2.1 14 236-249 7-20 (130)
74 smart00181 EGF Epidermal growt 22.0 73 0.0016 19.9 1.8 25 94-120 6-34 (35)
75 PF00954 S_locus_glycop: S-loc 21.8 77 0.0017 25.6 2.4 22 95-116 85-109 (110)
76 PF07466 DUF1517: Protein of u 21.5 2.7E+02 0.0059 27.1 6.4 23 43-65 62-84 (289)
77 KOG0859 Synaptobrevin/VAMP-lik 20.9 3.6E+02 0.0078 25.6 6.7 89 106-199 54-150 (217)
78 KOG1420 Ca2+-activated K+ chan 20.3 3.4E+02 0.0073 29.9 7.2 42 158-200 230-273 (1103)
79 PF11830 DUF3350: Domain of un 20.3 94 0.002 23.6 2.3 19 176-194 24-42 (56)
80 PRK04778 septation ring format 20.2 2.2E+02 0.0047 29.9 5.9 20 258-277 24-43 (569)
81 PF13811 DUF4186: Domain of un 20.2 1.3E+02 0.0028 25.8 3.4 42 161-202 2-47 (111)
No 1
>PF09402 MSC: Man1-Src1p-C-terminal domain; InterPro: IPR018996 This entry represents the Inner nuclear membrane proteins MAN1 (also known as LEM domain-containing protein 3) and LEM domain-containing protein 2 (or LEM protein 2). Emerin and MAN1 are LEM domain-containing integral membrane proteins of the vertebrate nuclear envelope []. MAN1 is an integral protein of the inner nuclear membrane which binds to chromatin associated proteins and plays a role in nuclear organisation. The C-terminal nulceoplasmic region forms a DNA binding winged helix and binds to Smad []. LEM protein 2 is an essential protein involved in chromosome segregation and cell division, probably via its interaction with lmn-1, the main component of nuclear lamina. Has some overlapping function with emr-1.; GO: 0005639 integral to nuclear inner membrane; PDB: 2CH0_A.
Probab=100.00 E-value=2.3e-41 Score=320.33 Aligned_cols=212 Identities=24% Similarity=0.385 Sum_probs=28.2
Q ss_pred CCCCCCCCCCCCCCCC--------------CCCCCCCccCCCCccccCC-eeeecCCceec-----------CCccccCc
Q 021573 71 STSKPFCDSNLLLDSP--------------QSPTDSCEPCPSNGECHQG-KLECFHGYRKH-----------GKLCVEDG 124 (310)
Q Consensus 71 ~~~~~FCDS~~~~~~~--------------~~~~p~CePCP~nA~C~~g-~v~C~~Gyvl~-----------~~~Cv~D~ 124 (310)
+...+|||++. ++. +...|+|+|||+||+|++| ++.|++||+++ +++|++|+
T Consensus 18 ~~~vgyC~~~~--~~~~~~~~~~~~~~~~~~~~~P~C~pCP~~a~C~~~~~~~C~~~y~~~~~~l~~~g~~p~~~Ci~D~ 95 (334)
T PF09402_consen 18 KIAVGYCGTES--PSPSFADDDISVPDWLLENFKPSCEPCPEHAICYPGLKLECEPGYVLKPSPLSLFGLIPPPKCIPDT 95 (334)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccccccccc--ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccH
Confidence 46899999996 223 3457899999999999999 79999999999 99999999
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhcccc---CCCCcceehhhhHhhhhhhhhhhhccCChHHHHHHHHHHHHHHHhhhhhc
Q 021573 125 DINETAGRLSRWVENRLCRAYAQFLCD---GTGSIWVEENDIWNDLEGHELMKIFELDNPVYLYTKKRTMETVGRYLESR 201 (310)
Q Consensus 125 ek~~~i~~va~~i~~~Lr~rrAk~eCg---~~~s~~i~e~DL~~~l~~~~~~~~~~ls~~ef~~l~~~Al~~i~~~le~~ 201 (310)
+++++++.|++++.++||+++|+++|| +..+..++++||++.+.+++ +..+++++|+++|++|++++.+.-|..
T Consensus 96 ~k~~~i~~l~~~~~~~Lr~~~a~~~Cg~~~~~~~~~ls~~el~~~~~~~~---~~~~~~~efe~l~~~a~~~L~~~~ei~ 172 (334)
T PF09402_consen 96 EKEEKIEELAKKILDELRERNAQYECGDSEDDESPGLSEEELKDILSSKK---SPWISDEEFEELWSAALQELKKNPEII 172 (334)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCcHHHHHHHHHhcc---CccccHHHHHHHHHHHHHHHHhCCcEE
Confidence 999999999999999999999999999 56688999999999999875 568999999999999999996555543
Q ss_pred cc------------CCCceEeeccchhhccccCcchHHhH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 021573 202 TN------------SYGMKELKCPELLAEHYKPLSCRIHQ----WVSTHALIIVPVCSLLVGCLLLLWKVHRRRYFAIRV 265 (310)
Q Consensus 202 ~~------------s~~~~~~ks~~sls~a~lPlsC~iRr----~I~r~~l~I~~l~~l~~g~~~ir~~i~~rra~~aRv 265 (310)
+. ..+.+.+.++ +++++||+|++++ ++.+|++.|+++++++++++|+++++++++...++|
T Consensus 173 ~~~~~~~~~~~~~~~~~~~~~~s~---s~~~lpl~C~~~~~i~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~v 249 (334)
T PF09402_consen 173 IRDDIINSHSSDDSNEKDKYFRSS---SLPYLPLKCRLRRQIRQFISRYRLIILGVLILLLLIKYIRYRYRKRREEKARV 249 (334)
T ss_dssp ----------------------------------------------------------------------STHHHHHTTT
T ss_pred EecccccccccccccCCcEEEEee---CCCccccEEEEehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33 1233344433 7899999996555 457999999999999999999999999999999999
Q ss_pred HHHHHHHhhccCCchhh----hhccchhh
Q 021573 266 EELYHQVYNPFFPPLSR----SMVSSFLI 290 (310)
Q Consensus 266 ~eLv~~v~drL~~~a~~----~~~~~~~~ 290 (310)
++||++|+|+|++++.. +-..||+.
T Consensus 250 ~~lv~~ii~~L~~~~~~~~~~~~~~p~v~ 278 (334)
T PF09402_consen 250 EELVKKIIDRLQDQARASDPNSSPEPYVS 278 (334)
T ss_dssp TTTHHHHHHHHHHHHHHHTTSS-S-S-B-
T ss_pred HHHHHHHHHHHHHHhhhhccCCCCCCCcc
Confidence 99999999999999993 33666654
No 2
>PF12946 EGF_MSP1_1: MSP1 EGF domain 1; InterPro: IPR024730 This EGF-like domain is found at the C terminus of the malaria parasite MSP1 protein. MSP1 is the merozoite surface protein 1. This domain is part of the C-terminal fragment that is proteolytically processed from the the rest of the protein and is left attached to the surface of the invading parasite [].; PDB: 1N1I_C 2FLG_A 1CEJ_A 2NPR_A 1B9W_A 1OB1_F.
Probab=95.14 E-value=0.0067 Score=42.05 Aligned_cols=28 Identities=43% Similarity=1.067 Sum_probs=20.5
Q ss_pred ccCCCCccccC---Ce--eeecCCceecCCccc
Q 021573 94 EPCPSNGECHQ---GK--LECFHGYRKHGKLCV 121 (310)
Q Consensus 94 ePCP~nA~C~~---g~--v~C~~Gyvl~~~~Cv 121 (310)
.+||+||.|++ |+ -+|..||++.+.+|+
T Consensus 5 ~~cP~NA~C~~~~dG~eecrCllgyk~~~~~C~ 37 (37)
T PF12946_consen 5 TKCPANAGCFRYDDGSEECRCLLGYKKVGGKCV 37 (37)
T ss_dssp S---TTEEEEEETTSEEEEEE-TTEEEETTEEE
T ss_pred ccCCCCcccEEcCCCCEEEEeeCCccccCCCcC
Confidence 58999999986 42 599999999999986
No 3
>PF01683 EB: EB module; InterPro: IPR006149 The EB domain has no known function. It is found in several Caenorhabditis sp. and Drosophila sp. proteins. The domain contains 8 conserved cysteines that probably form four disulphide bridges and is found associated with kunitz domains IPR002223 from INTERPRO
Probab=86.80 E-value=0.92 Score=32.25 Aligned_cols=27 Identities=30% Similarity=0.786 Sum_probs=23.7
Q ss_pred CCCccCCCCccccCCeeeecCCceecCCcc
Q 021573 91 DSCEPCPSNGECHQGKLECFHGYRKHGKLC 120 (310)
Q Consensus 91 p~CePCP~nA~C~~g~v~C~~Gyvl~~~~C 120 (310)
.+|. .++.|.+|.-.|.+||+..+.+|
T Consensus 26 ~qC~---~~s~C~~g~C~C~~g~~~~~~~C 52 (52)
T PF01683_consen 26 EQCI---GGSVCVNGRCQCPPGYVEVGGRC 52 (52)
T ss_pred CCCC---CcCEEcCCEeECCCCCEecCCCC
Confidence 4555 99999999999999999998877
No 4
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=76.79 E-value=6.3 Score=38.61 Aligned_cols=23 Identities=22% Similarity=0.174 Sum_probs=19.7
Q ss_pred hhhhhhhhhccCChHHHHHHHHH
Q 021573 167 LEGHELMKIFELDNPVYLYTKKR 189 (310)
Q Consensus 167 l~~~~~~~~~~ls~~ef~~l~~~ 189 (310)
+.+..|.++|||+++|+++.+++
T Consensus 23 i~kr~FLksKGLT~eEI~eAfk~ 45 (300)
T KOG2629|consen 23 IKKREFLKSKGLTEEEIQEAFKR 45 (300)
T ss_pred HHHHHHHHhcCCCHHHHHHHHHh
Confidence 55567788999999999999988
No 5
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=74.81 E-value=3.9 Score=33.50 Aligned_cols=35 Identities=23% Similarity=0.492 Sum_probs=24.3
Q ss_pred CCCCCccCCC--CccccCCe--eeecCCceecCCccccC
Q 021573 89 PTDSCEPCPS--NGECHQGK--LECFHGYRKHGKLCVED 123 (310)
Q Consensus 89 ~~p~CePCP~--nA~C~~g~--v~C~~Gyvl~~~~Cv~D 123 (310)
....|.+||. =+.|.+.. -+|.+||.+.+..|+.+
T Consensus 18 ~~~~C~~C~~~~C~~C~~~~~C~~C~~GY~~~~~~Cv~~ 56 (96)
T PTZ00382 18 DGSGCVLCSVGNCKSCVVDGVCGECNSGFSLDNGKCVSS 56 (96)
T ss_pred CCCcCCcCCCCCCcCCCCCCccccCcCCcccCCCccccc
Confidence 3456999985 23443333 28999999999988763
No 6
>PF06387 Calcyon: D1 dopamine receptor-interacting protein (calcyon); InterPro: IPR009431 This family consists of several D1 dopamine receptor-interacting (calcyon) proteins. D1/D5 dopamine receptors in the basal ganglia, hippocampus, and cerebral cortex modulate motor, reward, and cognitive behaviour. D1-like dopamine receptors likely modulate neocortical and hippocampal neuronal excitability and synaptic function via Ca2+ as well as cAMP-dependent signalling []. Defective calcyon proteins have been implicated in both attention-deficit/hyperactivity disorder (ADHD) [] and schizophrenia.; GO: 0050780 dopamine receptor binding, 0007212 dopamine receptor signaling pathway, 0016021 integral to membrane
Probab=72.61 E-value=4.1 Score=37.30 Aligned_cols=27 Identities=19% Similarity=0.287 Sum_probs=19.1
Q ss_pred ecCCceecCCcccc----------CchhhHHHHHHHH
Q 021573 109 CFHGYRKHGKLCVE----------DGDINETAGRLSR 135 (310)
Q Consensus 109 C~~Gyvl~~~~Cv~----------D~ek~~~i~~va~ 135 (310)
|.+||+++.+.|.| |++..+++-.+..
T Consensus 113 CPdGFv~khk~C~P~~LemYY~eqdp~~~~~~~taI~ 149 (186)
T PF06387_consen 113 CPDGFVLKHKRCTPLTLEMYYTEQDPERRRSLYTAIG 149 (186)
T ss_pred CCCcceeecccccchhhhheecccCCCcccchhhhhh
Confidence 45699999999987 6677766544433
No 7
>PF07645 EGF_CA: Calcium-binding EGF domain; InterPro: IPR001881 A sequence of about forty amino-acid residues found in epidermal growth factor (EGF) has been shown [, , , , , ] to be present in a large number of membrane-bound and extracellular, mostly animal, proteins. Many of these proteins require calcium for their biological function and a calcium-binding site has been found at the N terminus of some EGF-like domains []. Calcium-binding may be crucial for numerous protein-protein interactions. For human coagulation factor IX it has been shown [] that the calcium-ligands form a pentagonal bipyramid. The first, third and fourth conserved negatively charged or polar residues are side chain ligands. The latter is possibly hydroxylated (see aspartic acid and asparagine hydroxylation site) []. A conserved aromatic residue, as well as the second conserved negative residue, are thought to be involved in stabilising the calcium-binding site. As in non-calcium binding EGF-like domains, there are six conserved cysteines and the structure of both types is very similar as calcium-binding induces only strictly local structural changes []. +------------------+ +---------+ | | | | nxnnC-x(3,14)-C-x(3,7)-CxxbxxxxaxC-x(1,6)-C-x(8,13)-Cx | | +------------------+ 'n': negatively charged or polar residue [DEQN] 'b': possibly beta-hydroxylated residue [DN] 'a': aromatic amino acid 'C': cysteine, involved in disulphide bond 'x': any amino acid. ; GO: 0005509 calcium ion binding; PDB: 2VJ3_A 1TOZ_A 1LMJ_A 1UZQ_A 1UZK_A 1UZJ_B 1UZP_A 1EMO_A 1EMN_A 2RR0_A ....
Probab=68.08 E-value=3.4 Score=28.32 Aligned_cols=22 Identities=41% Similarity=0.981 Sum_probs=18.2
Q ss_pred cCCCCccccC--Ce--eeecCCceec
Q 021573 95 PCPSNGECHQ--GK--LECFHGYRKH 116 (310)
Q Consensus 95 PCP~nA~C~~--g~--v~C~~Gyvl~ 116 (310)
+|+.++.|.+ |. -.|.+||...
T Consensus 11 ~C~~~~~C~N~~Gsy~C~C~~Gy~~~ 36 (42)
T PF07645_consen 11 NCPENGTCVNTEGSYSCSCPPGYELN 36 (42)
T ss_dssp SSSTTSEEEEETTEEEEEESTTEEEC
T ss_pred cCCCCCEEEcCCCCEEeeCCCCcEEC
Confidence 6899999998 54 4999999943
No 8
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=67.55 E-value=5.7 Score=34.93 Aligned_cols=32 Identities=34% Similarity=0.406 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 021573 233 THALIIVPVCSLLVGCLLLLWKVHRRRYFAIR 264 (310)
Q Consensus 233 r~~l~I~~l~~l~~g~~~ir~~i~~rra~~aR 264 (310)
.+.+-+++++++++|.+.+.+.+++++...+.
T Consensus 101 ~~~lW~~P~~~l~~g~~~~~~~~rr~~~~~~~ 132 (148)
T PF03918_consen 101 TWLLWLGPFLLLLLGGALLFRRLRRWRRRAAQ 132 (148)
T ss_dssp --------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccCCCC
Confidence 45555667777777777777767666554443
No 9
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=66.26 E-value=39 Score=29.28 Aligned_cols=25 Identities=36% Similarity=0.430 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 021573 233 THALIIVPVCSLLVGCLLLLWKVHR 257 (310)
Q Consensus 233 r~~l~I~~l~~l~~g~~~ir~~i~~ 257 (310)
.+.+-+++++++++|...+.+.++|
T Consensus 101 t~~LW~~P~lll~~G~~~~~~~~rr 125 (126)
T TIGR03147 101 TLLLWLLPVLLLLLAFVLLWRVRRR 125 (126)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4455566666677777655554443
No 10
>PRK14758 hypothetical protein; Provisional
Probab=65.90 E-value=9.6 Score=24.79 Aligned_cols=20 Identities=10% Similarity=0.155 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 021573 231 VSTHALIIVPVCSLLVGCLL 250 (310)
Q Consensus 231 I~r~~l~I~~l~~l~~g~~~ 250 (310)
+.||||.++++++++.|++-
T Consensus 2 v~RYrFEliLivlIlCalia 21 (27)
T PRK14758 2 VGRYRFEFILIILILCALIA 21 (27)
T ss_pred chHHHHHHHHHHHHHHHHHH
Confidence 35788888777666666553
No 11
>KOG1214 consensus Nidogen and related basement membrane protein proteins [Cell wall/membrane/envelope biogenesis; Extracellular structures]
Probab=62.90 E-value=4.3 Score=45.03 Aligned_cols=34 Identities=35% Similarity=0.818 Sum_probs=30.0
Q ss_pred CCCCcc--CCCCccccCC--e--eeecCCceecCCccccC
Q 021573 90 TDSCEP--CPSNGECHQG--K--LECFHGYRKHGKLCVED 123 (310)
Q Consensus 90 ~p~CeP--CP~nA~C~~g--~--v~C~~Gyvl~~~~Cv~D 123 (310)
-++|.| |=++|.||+. . .+|.+||.-.+-.||||
T Consensus 827 vDeC~psrChp~A~CyntpgsfsC~C~pGy~GDGf~CVP~ 866 (1289)
T KOG1214|consen 827 VDECSPSRCHPAATCYNTPGSFSCRCQPGYYGDGFQCVPD 866 (1289)
T ss_pred ccccCccccCCCceEecCCCcceeecccCccCCCceecCC
Confidence 377876 9999999995 3 49999999999999999
No 12
>PF01826 TIL: Trypsin Inhibitor like cysteine rich domain; InterPro: IPR002919 This domain is found in proteinase inhibitors as well as in many extracellular proteins. The domain typically contains ten cysteine residues that form five disulphide bonds. The cysteine residues that form the disulphide bonds are 1-7, 2-6, 3-5, 4-10 and 8-9. This inhibitor domain belongs to MEROPS inhibitor family I8 (clan IA). Proteins containing this domain inhibit peptidases belonging to families S1 (IPR001254 from INTERPRO), S8 (IPR000209 from INTERPRO), and M4 (IPR001570 from INTERPRO) [] and are restricted to the chordata, nematoda, arthropoda and echinodermata. Examples of proteins containing this domain are: chymotrypsin/elastase inhibitor from Ascaris suum (pig roundworm) Acp62F protein from Drosophila melanogaster Bombina trypsin inhibitor from Bombina maxima (large-webbed bell toad) Bombyx subtilisin inhibitor from Bombyx mori (silk moth) von Willebrand factor ; PDB: 2P3F_N 1HX2_A 1CCV_A 1EAI_D 2H9E_C 1COU_A 1ATE_A 1ATB_A 1ATD_A 1ATA_A ....
Probab=62.62 E-value=4.2 Score=29.08 Aligned_cols=26 Identities=31% Similarity=0.752 Sum_probs=21.3
Q ss_pred CCCCccccCCeeeecCCceecCC-ccccCc
Q 021573 96 CPSNGECHQGKLECFHGYRKHGK-LCVEDG 124 (310)
Q Consensus 96 CP~nA~C~~g~v~C~~Gyvl~~~-~Cv~D~ 124 (310)
|+ ..|.+| -.|.+||++... .||+-.
T Consensus 27 C~--~~C~~g-C~C~~G~v~~~~~~CV~~~ 53 (55)
T PF01826_consen 27 CS--EPCVEG-CFCPPGYVRNDNGRCVPPS 53 (55)
T ss_dssp CS--SS-ESE-EEETTTEEEETTSEEEEGG
T ss_pred cC--CCCCcc-CCCCCCeeEcCCCCEEcHH
Confidence 55 779999 899999999997 999754
No 13
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.35 E-value=25 Score=32.93 Aligned_cols=51 Identities=14% Similarity=0.277 Sum_probs=36.2
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hHHHHHHHHhhccC
Q 021573 226 RIHQWVSTHALIIVPVCSLLVGCLLLLWKVHRRRYFAI--RVEELYHQVYNPFF 277 (310)
Q Consensus 226 ~iRr~I~r~~l~I~~l~~l~~g~~~ir~~i~~rra~~a--Rv~eLv~~v~drL~ 277 (310)
+||+|.++|-..++..+++.+|.++ -|+|+..+.... .+-..|.++.+-++
T Consensus 13 ~ik~wwkeNGk~li~gviLg~~~lf-GW~ywq~~q~~q~~~AS~~Y~~~i~~~~ 65 (207)
T COG2976 13 AIKDWWKENGKALIVGVILGLGGLF-GWRYWQSHQVEQAQEASAQYQNAIKAVQ 65 (207)
T ss_pred HHHHHHHHCCchhHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5889999888777776666666664 566666655533 56777888887775
No 14
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=58.40 E-value=9.2 Score=32.27 Aligned_cols=7 Identities=14% Similarity=0.192 Sum_probs=2.8
Q ss_pred HHHHHHH
Q 021573 234 HALIIVP 240 (310)
Q Consensus 234 ~~l~I~~ 240 (310)
|.+.+++
T Consensus 2 W~l~~ii 8 (130)
T PF12273_consen 2 WVLFAII 8 (130)
T ss_pred eeeHHHH
Confidence 4444333
No 15
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=57.80 E-value=18 Score=28.70 Aligned_cols=42 Identities=19% Similarity=0.242 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--------HHHhHHHHHHHHhhccCCc
Q 021573 237 IIVPVCSLLVGCLLLLWKVHRRRY--------FAIRVEELYHQVYNPFFPP 279 (310)
Q Consensus 237 ~I~~l~~l~~g~~~ir~~i~~rra--------~~aRv~eLv~~v~drL~~~ 279 (310)
+.+++.+++||..|+.--|+.++. +.++.++|+++. ++|++|
T Consensus 8 ~plivf~ifVap~WL~lHY~sk~~~~~gLs~~d~~~L~~L~~~a-~rm~eR 57 (75)
T PF06667_consen 8 VPLIVFMIFVAPIWLILHYRSKWKSSQGLSEEDEQRLQELYEQA-ERMEER 57 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHH-HHHHHH
Confidence 333445556666665544443332 455677777764 444443
No 16
>PHA02817 EEV Host range protein; Provisional
Probab=57.42 E-value=11 Score=35.53 Aligned_cols=50 Identities=18% Similarity=0.412 Sum_probs=31.3
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCc--cCC----CCc----------cccCCe--eeecCCceecC---CccccCc
Q 021573 72 TSKPFCDSNLLLDSPQSPTDSCE--PCP----SNG----------ECHQGK--LECFHGYRKHG---KLCVEDG 124 (310)
Q Consensus 72 ~~~~FCDS~~~~~~~~~~~p~Ce--PCP----~nA----------~C~~g~--v~C~~Gyvl~~---~~Cv~D~ 124 (310)
+..-.|..+. .++ ...|.|+ .|| +|| +.++.. ++|++||.+.| -+|..||
T Consensus 66 ~~~i~C~~dG-~Ws--~~~P~C~~v~C~~P~i~NG~v~~~~~~~~y~yg~~Vty~C~~Gy~L~G~~~~tC~~~G 136 (225)
T PHA02817 66 EKNIICEKDG-KWN--KEFPVCKIIRCRFPALQNGFVNGIPDSKKFYYESEVSFSCKPGFVLIGTKYSVCGINS 136 (225)
T ss_pred CCeEEECCCC-cCC--CCCCeeeeeECCCCCCcCceeEccccCCceEcCCEEEEEcCCCCEEcCCCceEECCCC
Confidence 4556787653 222 2468997 686 344 344554 49999999988 4555554
No 17
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=57.13 E-value=77 Score=27.53 Aligned_cols=49 Identities=6% Similarity=-0.082 Sum_probs=24.9
Q ss_pred CchhhHHHHHHHHHHHHHHHHHhhhccccCC---CCcceehhhhHhhhhhhhhhhhccCChHH
Q 021573 123 DGDINETAGRLSRWVENRLCRAYAQFLCDGT---GSIWVEENDIWNDLEGHELMKIFELDNPV 182 (310)
Q Consensus 123 D~ek~~~i~~va~~i~~~Lr~rrAk~eCg~~---~s~~i~e~DL~~~l~~~~~~~~~~ls~~e 182 (310)
|++.++++.+++..+. =-.|.+- +|..--..|+.+.+.++- ..|.||+|
T Consensus 27 ~~~~e~r~~~L~~~LR--------C~vCqnqsiadSna~iA~dmR~~Vr~~i---~~G~sd~e 78 (126)
T PRK10144 27 NPQQQQQALNIASQLR--------CPQCQNQNLLESNAPVAVSMRHQVYSMV---AEGKSEVE 78 (126)
T ss_pred CHHHHHHHHHHHHcCC--------CCCCCCCChhhcCCHHHHHHHHHHHHHH---HcCCCHHH
Confidence 5677777666655443 1123321 122212346666666543 46888874
No 18
>PF12947 EGF_3: EGF domain; InterPro: IPR024731 This entry represents an EGF domain found in the the C terminus of malarial parasite merozoite surface protein 1 [], as well as other proteins.; PDB: 2NPR_A 1N1I_C 1B9W_A 1YO8_A 2RHP_A.
Probab=56.80 E-value=5.2 Score=27.14 Aligned_cols=26 Identities=31% Similarity=0.797 Sum_probs=18.8
Q ss_pred cCCCCccccCC--ee--eecCCceecCCcc
Q 021573 95 PCPSNGECHQG--KL--ECFHGYRKHGKLC 120 (310)
Q Consensus 95 PCP~nA~C~~g--~v--~C~~Gyvl~~~~C 120 (310)
.|=+||.|.+- .+ +|++||.-.+..|
T Consensus 7 ~C~~nA~C~~~~~~~~C~C~~Gy~GdG~~C 36 (36)
T PF12947_consen 7 GCHPNATCTNTGGSYTCTCKPGYEGDGFFC 36 (36)
T ss_dssp GS-TTCEEEE-TTSEEEEE-CEEECCSTCE
T ss_pred CCCCCcEeecCCCCEEeECCCCCccCCcCC
Confidence 68889999984 33 9999999887665
No 19
>PF07543 PGA2: Protein trafficking PGA2; InterPro: IPR011431 A Saccharomyces cerevisiae (Baker's yeast) member of this family (PGA2, P53903 from SWISSPROT) is a single pass membrane protein which has been implicated in protein trafficking [, ].
Probab=55.74 E-value=17 Score=31.92 Aligned_cols=37 Identities=16% Similarity=0.107 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhccCCc
Q 021573 243 SLLVGCLLLLWKVHRRRYFAIRVEELYHQVYNPFFPP 279 (310)
Q Consensus 243 ~l~~g~~~ir~~i~~rra~~aRv~eLv~~v~drL~~~ 279 (310)
+++||.|++.+.|..+.+...++.++-.+-.+.-.++
T Consensus 21 ViIVggYiLlRPY~~kl~~k~~~kq~eke~ae~e~~~ 57 (140)
T PF07543_consen 21 VIIVGGYILLRPYFRKLAAKDQKKQLEKEKAEREAEK 57 (140)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4456666677778888888888888877776666654
No 20
>PF10144 SMP_2: Bacterial virulence factor haemolysin; InterPro: IPR019305 This entry represents a group of bacterial proteins that are membrane proteins that effect the expression of haemolysin under anaerobic conditions [].
Probab=55.65 E-value=38 Score=31.55 Aligned_cols=54 Identities=11% Similarity=0.104 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhccCCchhhhh
Q 021573 230 WVSTHALIIVPVCSLLVGCLLLLWKVHRRRYFAIRVEELYHQVYNPFFPPLSRSM 284 (310)
Q Consensus 230 ~I~r~~l~I~~l~~l~~g~~~ir~~i~~rra~~aRv~eLv~~v~drL~~~a~~~~ 284 (310)
..+-|+..|+++|+.+++.++.-+.+.......+|++|. ++.-.-|..+++.++
T Consensus 7 ~~rl~r~~iiliclall~~i~~g~~~~~~~~q~~~~~Q~-e~La~~L~~Q~A~~a 60 (210)
T PF10144_consen 7 KKRLHRTVIILICLALLVIIMQGVSWFSLSSQQARSNQV-ENLARSLVRQAANSA 60 (210)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence 345677777777766666654445444443443333333 233334455555544
No 21
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=53.13 E-value=1.6e+02 Score=31.24 Aligned_cols=100 Identities=25% Similarity=0.300 Sum_probs=57.7
Q ss_pred CChHHHHHHHHHHHHHH-HhhhhhcccCCCceEeeccchhhccccCcchH--HhHHHHH--------HHHHHHHHHHHHH
Q 021573 178 LDNPVYLYTKKRTMETV-GRYLESRTNSYGMKELKCPELLAEHYKPLSCR--IHQWVST--------HALIIVPVCSLLV 246 (310)
Q Consensus 178 ls~~ef~~l~~~Al~~i-~~~le~~~~s~~~~~~ks~~sls~a~lPlsC~--iRr~I~r--------~~l~I~~l~~l~~ 246 (310)
|..+.++.|.++|.-++ .=+|..+-+.+..++.-|.-.| +++ +.|. +--||-. |-+.|. +-++
T Consensus 437 l~paDq~lLlesaflelfvlRlAyRs~~~e~kliFcsG~v-lhr--~qC~rgfgewidsi~~FS~~l~~l~id---i~Af 510 (605)
T KOG4217|consen 437 LPPADQDLLLESAFLELFVLRLAYRSNPSEDKLIFCSGLV-LHR--LQCLRGFGEWIDSIREFSRSLHSLNID---ISAF 510 (605)
T ss_pred CChhhHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEecchh-hhH--HHHHHHHHHHHHHHHHHHHHhhhchhh---HHHH
Confidence 56788999999999766 3344555544444555554332 344 5664 2234421 112221 2233
Q ss_pred HHHHHHHHHHHHHHH--HHhHHHHHHHHhhccCCchhhh
Q 021573 247 GCLLLLWKVHRRRYF--AIRVEELYHQVYNPFFPPLSRS 283 (310)
Q Consensus 247 g~~~ir~~i~~rra~--~aRv~eLv~~v~drL~~~a~~~ 283 (310)
+++-++..|.-|.-+ -+|||||-+.+..-|.|+-+-+
T Consensus 511 acL~aLa~iTErhGL~epkrVeelqnkIi~~LKDHvt~~ 549 (605)
T KOG4217|consen 511 ACLSALALITERHGLKEPKRVEELQNKIINCLKDHVTGS 549 (605)
T ss_pred HHHHHHHhhhhhhcCCCcchHHHHHHHHHHHHHHHhhhc
Confidence 333344445545444 7899999999999888876433
No 22
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=50.60 E-value=27 Score=27.67 Aligned_cols=36 Identities=19% Similarity=0.272 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHH--------HHHhHHHHHHHHhhccCCc
Q 021573 243 SLLVGCLLLLWKVHRRRY--------FAIRVEELYHQVYNPFFPP 279 (310)
Q Consensus 243 ~l~~g~~~ir~~i~~rra--------~~aRv~eLv~~v~drL~~~ 279 (310)
+++++..|+.--|+.++. +.++..+|++++ ++|++|
T Consensus 14 ~ifVap~wl~lHY~~k~~~~~~ls~~d~~~L~~L~~~a-~rm~eR 57 (75)
T TIGR02976 14 VIFVAPLWLILHYRSKRKTAASLSTDDQALLQELYAKA-DRLEER 57 (75)
T ss_pred HHHHHHHHHHHHHHhhhccCCCCCHHHHHHHHHHHHHH-HHHHHH
Confidence 445555554443443322 234566776654 444443
No 23
>smart00032 CCP Domain abundant in complement control proteins; SUSHI repeat; short complement-like repeat (SCR). The complement control protein (CCP) modules (also known as short consensus repeats SCRs or SUSHI repeats) contain approximately 60 amino acid residues and have been identified in several proteins of the complement system. A missense mutation in seventh CCP domain causes deficiency of the b subunit of factor XIII.
Probab=50.18 E-value=10 Score=25.61 Aligned_cols=18 Identities=44% Similarity=0.903 Sum_probs=15.2
Q ss_pred eeecCCceecC---CccccCc
Q 021573 107 LECFHGYRKHG---KLCVEDG 124 (310)
Q Consensus 107 v~C~~Gyvl~~---~~Cv~D~ 124 (310)
++|++||.+.+ -+|..|+
T Consensus 28 ~~C~~Gy~l~g~~~~~C~~~g 48 (57)
T smart00032 28 YSCNPGYTLIGSSTITCLEDG 48 (57)
T ss_pred EEcCCCCEEcCCCeeEECCCC
Confidence 59999999998 5787776
No 24
>cd00053 EGF Epidermal growth factor domain, found in epidermal growth factor (EGF) presents in a large number of proteins, mostly animal; the list of proteins currently known to contain one or more copies of an EGF-like pattern is large and varied; the functional significance of EGF-like domains in what appear to be unrelated proteins is not yet clear; a common feature is that these repeats are found in the extracellular domain of membrane-bound proteins or in proteins known to be secreted (exception: prostaglandin G/H synthase); the domain includes six cysteine residues which have been shown to be involved in disulfide bonds; the main structure is a two-stranded beta-sheet followed by a loop to a C-terminal short two-stranded sheet; Subdomains between the conserved cysteines vary in length; the region between the 5th and 6th cysteine contains two conserved glycines of which at least one is present in most EGF-like domains; a subset of these bind calcium.
Probab=50.09 E-value=14 Score=22.49 Aligned_cols=25 Identities=32% Similarity=0.870 Sum_probs=18.7
Q ss_pred cCCCCccccCC--e--eeecCCceecCCcc
Q 021573 95 PCPSNGECHQG--K--LECFHGYRKHGKLC 120 (310)
Q Consensus 95 PCP~nA~C~~g--~--v~C~~Gyvl~~~~C 120 (310)
+|..||.|.+. . -.|..||... ..|
T Consensus 7 ~C~~~~~C~~~~~~~~C~C~~g~~g~-~~C 35 (36)
T cd00053 7 PCSNGGTCVNTPGSYRCVCPPGYTGD-RSC 35 (36)
T ss_pred CCCCCCEEecCCCCeEeECCCCCccc-CCc
Confidence 67788999984 2 3899999766 444
No 25
>smart00179 EGF_CA Calcium-binding EGF-like domain.
Probab=47.92 E-value=16 Score=23.24 Aligned_cols=27 Identities=37% Similarity=0.938 Sum_probs=19.8
Q ss_pred ccCCCCccccCC--e--eeecCCceecCCccc
Q 021573 94 EPCPSNGECHQG--K--LECFHGYRKHGKLCV 121 (310)
Q Consensus 94 ePCP~nA~C~~g--~--v~C~~Gyvl~~~~Cv 121 (310)
.||..+|.|.+. . -.|.+||. .+..|+
T Consensus 9 ~~C~~~~~C~~~~g~~~C~C~~g~~-~g~~C~ 39 (39)
T smart00179 9 NPCQNGGTCVNTVGSYRCECPPGYT-DGRNCE 39 (39)
T ss_pred CCcCCCCEeECCCCCeEeECCCCCc-cCCcCC
Confidence 369899999863 3 38999998 566663
No 26
>PRK14758 hypothetical protein; Provisional
Probab=47.65 E-value=30 Score=22.57 Aligned_cols=25 Identities=24% Similarity=0.511 Sum_probs=21.9
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHH
Q 021573 227 IHQWVSTHALIIVPVCSLLVGCLLL 251 (310)
Q Consensus 227 iRr~I~r~~l~I~~l~~l~~g~~~i 251 (310)
++|+-+.-++.+.++|+++.+.+|+
T Consensus 2 v~RYrFEliLivlIlCalia~~fy~ 26 (27)
T PRK14758 2 VGRYRFEFILIILILCALIAARFYL 26 (27)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4788889999999999999998875
No 27
>cd00033 CCP Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system. SUSHI repeats (short complement-like repeat, SCR) are abundant in complement control proteins. The complement control protein (CCP) modules (also known as short consensus repeats SCRs or SUSHI repeats) contain approximately 60 amino acid residues and have been identified in several proteins of the complement system. Typically, 2 to 4 modules contribute to a binding site, implying that the orientation of the modules to each other is critical for function.
Probab=47.58 E-value=11 Score=25.69 Aligned_cols=18 Identities=39% Similarity=0.855 Sum_probs=14.7
Q ss_pred eeecCCceecC---CccccCc
Q 021573 107 LECFHGYRKHG---KLCVEDG 124 (310)
Q Consensus 107 v~C~~Gyvl~~---~~Cv~D~ 124 (310)
++|++||.+.+ -+|..|+
T Consensus 27 ~~C~~Gy~~~g~~~~~C~~~g 47 (57)
T cd00033 27 YSCNEGYTLVGSSTITCTENG 47 (57)
T ss_pred EECCCCCeEeCCCeeEECCCC
Confidence 59999999987 4677666
No 28
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=46.03 E-value=16 Score=31.33 Aligned_cols=26 Identities=8% Similarity=-0.130 Sum_probs=17.3
Q ss_pred hhhhhhhccCChHHHHHHHHHHHHHH
Q 021573 169 GHELMKIFELDNPVYLYTKKRTMETV 194 (310)
Q Consensus 169 ~~~~~~~~~ls~~ef~~l~~~Al~~i 194 (310)
+..|.++|||+++|++.+.+++=+..
T Consensus 26 k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 26 KIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp HHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred HHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 34557789999999999988876554
No 29
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=45.49 E-value=54 Score=28.12 Aligned_cols=25 Identities=32% Similarity=0.468 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 021573 234 HALIIVPVCSLLVGCLLLLWKVHRR 258 (310)
Q Consensus 234 ~~l~I~~l~~l~~g~~~ir~~i~~r 258 (310)
|-+.++++++++++.+|.+++.+++
T Consensus 23 Wwll~~lll~~~~~~~~~~~r~~~~ 47 (146)
T PF14316_consen 23 WWLLLALLLLLLILLLWRLWRRWRR 47 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3444444444444444334433333
No 30
>PHA02639 EEV host range protein; Provisional
Probab=43.27 E-value=17 Score=35.28 Aligned_cols=50 Identities=20% Similarity=0.411 Sum_probs=31.1
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCc--cCC----CCcc----------ccCCe--eeecCCceecC---CccccCc
Q 021573 72 TSKPFCDSNLLLDSPQSPTDSCE--PCP----SNGE----------CHQGK--LECFHGYRKHG---KLCVEDG 124 (310)
Q Consensus 72 ~~~~FCDS~~~~~~~~~~~p~Ce--PCP----~nA~----------C~~g~--v~C~~Gyvl~~---~~Cv~D~ 124 (310)
...-.|..+. .+ ....|.|+ .|| +||. .++.. ++|++||.+.| -+|..||
T Consensus 126 ~~~~~C~~dG-~W--S~~~P~C~~i~C~~P~i~nG~v~~~~~~~~~~yg~~V~fsC~~GY~L~Gs~~~tC~~nG 196 (295)
T PHA02639 126 NEKITCIQDK-SW--KPDPPICKMINCRFPALQNGYINGIPSNKKFYYKTRVGFSCKSGFDLVGEKYSTCNINA 196 (295)
T ss_pred CCeEEECCCC-eE--CCCCCeeeeEEeCCCCCCCCceEcccCCCceecCCEEEEEcCCCCeEcCCCcEEECCCC
Confidence 4456786432 11 23468886 585 2443 34443 49999999998 5677776
No 31
>PF10256 Erf4: Golgin subfamily A member 7/ERF4 family; InterPro: IPR019383 Proteins in this entry include Golgin subfamily A member 7 and the Ras modification protein ERF4.
Probab=42.65 E-value=88 Score=25.67 Aligned_cols=33 Identities=15% Similarity=0.222 Sum_probs=24.0
Q ss_pred HHHHHHHHHhHHHHHHHHhhccCCchhhhhccc
Q 021573 255 VHRRRYFAIRVEELYHQVYNPFFPPLSRSMVSS 287 (310)
Q Consensus 255 i~~rra~~aRv~eLv~~v~drL~~~a~~~~~~~ 287 (310)
....+...+++++.++++-..+..+.-.++++|
T Consensus 76 ~~~~~~~~~~le~~l~~~N~~~~~~~gi~ii~p 108 (118)
T PF10256_consen 76 KTHYKRKLRELEKYLEQLNEELFKPRGIKIISP 108 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccCCcEEEch
Confidence 333445678899999999887777776677666
No 32
>PF00084 Sushi: Sushi domain (SCR repeat); InterPro: IPR000436 Sushi domains are also known as Complement control protein (CCP) modules, or short consensus repeats (SCR), exist in a wide variety of complement and adhesion proteins. The structure is known for this domain, it is based on a beta-sandwich arrangement; one face made up of three beta-strands hydrogen-bonded to form a triple-stranded region at its centre and the other face formed from two separate beta-strands []. CD21 (also called C3d receptor, CR2, Epstein Barr virus receptor or EBV-R) is the receptor for EBV and for C3d, C3dg and iC3b. Complement components may activate B cells through CD21. CD21 is part of a large signal-transduction complex that also involves CD19, CD81, and Leu13. Some of the proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Complement decay-accelerating factor (Antigen CD55) belongs to the Cromer blood group system and is associated with Cr(a), Dr(a), Es(a), Tc(a/b/c), Wd(a), WES(a/b), IFC and UMC antigens. Complement receptor type 1 (C3b/C4b receptor) (Antigen CD35) belongs to the Knops blood group system and is associated with Kn(a/b), McC(a), Sl(a) and Yk(a) antigens. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; PDB: 1HFH_A 1HFI_A 1E5G_A 2UWN_A 2V8E_A 2XWB_H 3HS0_I 2OK5_A 2XWJ_J 3HRZ_D ....
Probab=41.53 E-value=14 Score=25.22 Aligned_cols=18 Identities=33% Similarity=0.818 Sum_probs=14.4
Q ss_pred eeecCCceecC---CccccCc
Q 021573 107 LECFHGYRKHG---KLCVEDG 124 (310)
Q Consensus 107 v~C~~Gyvl~~---~~Cv~D~ 124 (310)
++|++||.+.+ -+|..|+
T Consensus 27 ~~C~~Gy~~~g~~~~~C~~~g 47 (56)
T PF00084_consen 27 FSCNPGYELSGSSTITCQSNG 47 (56)
T ss_dssp EEESTTEEEESSSEEEEETTS
T ss_pred EcCCCCCEecCCCEEEECCCC
Confidence 69999999987 5676655
No 33
>PF07974 EGF_2: EGF-like domain; InterPro: IPR013111 A sequence of about thirty to forty amino-acid residues long found in the sequence of epidermal growth factor (EGF) has been shown [, , , , ] to be present, in a more or less conserved form, in a large number of other, mostly animal proteins. The list of proteins currently known to contain one or more copies of an EGF-like pattern is large and varied. The functional significance of EGF domains in what appear to be unrelated proteins is not yet clear. However, a common feature is that these repeats are found in the extracellular domain of membrane-bound proteins or in proteins known to be secreted (exception: prostaglandin G/H synthase). The EGF domain includes six cysteine residues which have been shown (in EGF) to be involved in disulphide bonds. The main structure is a two-stranded beta-sheet followed by a loop to a C-terminal short two-stranded sheet. Subdomains between the conserved cysteines vary in length. This entry contains EGF domains found in a variety of extracellular and membrane proteins
Probab=41.52 E-value=20 Score=23.73 Aligned_cols=21 Identities=33% Similarity=0.830 Sum_probs=17.7
Q ss_pred ccCCCCcccc--CCeeeecCCce
Q 021573 94 EPCPSNGECH--QGKLECFHGYR 114 (310)
Q Consensus 94 ePCP~nA~C~--~g~v~C~~Gyv 114 (310)
..|=.||.|. .|.-.|++||.
T Consensus 6 ~~C~~~G~C~~~~g~C~C~~g~~ 28 (32)
T PF07974_consen 6 NICSGHGTCVSPCGRCVCDSGYT 28 (32)
T ss_pred CccCCCCEEeCCCCEEECCCCCc
Confidence 4688999999 56789999984
No 34
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=40.75 E-value=25 Score=28.42 Aligned_cols=26 Identities=8% Similarity=0.079 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHhHHHHHHHHhhccC
Q 021573 252 LWKVHRRRYFAIRVEELYHQVYNPFF 277 (310)
Q Consensus 252 r~~i~~rra~~aRv~eLv~~v~drL~ 277 (310)
.++-|++...++++.+|++-+.||=+
T Consensus 26 v~ieYrk~~rqrkId~li~RIreraE 51 (81)
T PF00558_consen 26 VYIEYRKIKRQRKIDRLIERIRERAE 51 (81)
T ss_dssp H------------CHHHHHHHHCTTT
T ss_pred HHHHHHHHHHHHhHHHHHHHHHcccc
Confidence 34455555556777777665544433
No 35
>PRK11246 hypothetical protein; Provisional
Probab=40.03 E-value=68 Score=30.33 Aligned_cols=56 Identities=18% Similarity=0.098 Sum_probs=35.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhHHHHHHHHhhccCCchhh
Q 021573 227 IHQWVSTHALIIVPVCSLLVGCLLLLWKVHRRR---YFAIRVEELYHQVYNPFFPPLSR 282 (310)
Q Consensus 227 iRr~I~r~~l~I~~l~~l~~g~~~ir~~i~~rr---a~~aRv~eLv~~v~drL~~~a~~ 282 (310)
.++..+=||..|+++|+.++..++.-|.+-... +...|+++|-+...++.+.-|+-
T Consensus 4 ~~~~fRl~r~~iiliclallv~l~~g~s~f~~~~Q~~~~~Q~e~LarlL~rQ~A~sas~ 62 (218)
T PRK11246 4 AKLKFRLHRTAIVLICLALLVALMQGASWFSQSHQRARNPQLEELARTLARQVALSLAP 62 (218)
T ss_pred hHHHhHHHHHHHHHHHHHHHHHHHhchhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence 345556789999999888887776666662222 22566777766665555554443
No 36
>PF13268 DUF4059: Protein of unknown function (DUF4059)
Probab=39.13 E-value=68 Score=25.48 Aligned_cols=37 Identities=27% Similarity=0.511 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHhHHHHHHHH
Q 021573 236 LIIVPVCSLLVGCLLLLWKVHRRRYF--AIRVEELYHQV 272 (310)
Q Consensus 236 l~I~~l~~l~~g~~~ir~~i~~rra~--~aRv~eLv~~v 272 (310)
+.+..+.+++++.+|+.|+-.++.-+ +.|-..|||..
T Consensus 13 L~ls~i~V~~~~~~wi~~Ra~~~~DKT~~eRQa~LyD~l 51 (72)
T PF13268_consen 13 LLLSSILVLLVSGIWILWRALRKKDKTAKERQAFLYDML 51 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHH
Confidence 44555567778888888877766444 45566788865
No 37
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=36.11 E-value=49 Score=32.46 Aligned_cols=22 Identities=14% Similarity=0.306 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 021573 242 CSLLVGCLLLLWKVHRRRYFAI 263 (310)
Q Consensus 242 ~~l~~g~~~ir~~i~~rra~~a 263 (310)
+++++.++|+-|+|||++-+.+
T Consensus 268 IVLIMvIIYLILRYRRKKKmkK 289 (299)
T PF02009_consen 268 IVLIMVIIYLILRYRRKKKMKK 289 (299)
T ss_pred HHHHHHHHHHHHHHHHHhhhhH
Confidence 3444445566677777665544
No 38
>PRK09458 pspB phage shock protein B; Provisional
Probab=35.61 E-value=46 Score=26.60 Aligned_cols=38 Identities=16% Similarity=0.192 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH--------HHHhHHHHHHHHhhccCCc
Q 021573 241 VCSLLVGCLLLLWKVHRRRY--------FAIRVEELYHQVYNPFFPP 279 (310)
Q Consensus 241 l~~l~~g~~~ir~~i~~rra--------~~aRv~eLv~~v~drL~~~ 279 (310)
+.+++||-.|+.--|+.++. +.+|.++|++++ ++|++|
T Consensus 12 iF~ifVaPiWL~LHY~sk~~~~~~Ls~~d~~~L~~L~~~A-~rm~~R 57 (75)
T PRK09458 12 IFVLFVAPIWLWLHYRSKRQGSQGLSQEEQQRLAQLTEKA-ERMRER 57 (75)
T ss_pred HHHHHHHHHHHHHhhcccccCCCCCCHHHHHHHHHHHHHH-HHHHHH
Confidence 34556666665444443333 456677777654 444443
No 39
>PRK10772 cell division protein FtsL; Provisional
Probab=35.45 E-value=2e+02 Score=24.26 Aligned_cols=50 Identities=16% Similarity=0.190 Sum_probs=31.2
Q ss_pred cccCcchHHhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 021573 219 HYKPLSCRIHQWVST-HALIIVPVCSLLVGCLLLLWKVHRRRYFAIRVEEL 268 (310)
Q Consensus 219 a~lPlsC~iRr~I~r-~~l~I~~l~~l~~g~~~ir~~i~~rra~~aRv~eL 268 (310)
-+.||...|-.=+.+ |++.++++++++++.+.+.+.-+..|..-..-+++
T Consensus 7 ~~~~L~~iI~~Dl~~~~kl~l~Ll~~vv~SAl~VV~~~h~tR~l~~ele~l 57 (108)
T PRK10772 7 ERHALPGVIGDDLLRNGKLPLCLFIAVIVSAVTVVTTAHHTRLLTAEREQL 57 (108)
T ss_pred CCCChHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666666666665 88888877666666666666555555554444433
No 40
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=34.74 E-value=72 Score=24.36 Aligned_cols=13 Identities=8% Similarity=0.151 Sum_probs=6.1
Q ss_pred HHHHHHHHhhccC
Q 021573 265 VEELYHQVYNPFF 277 (310)
Q Consensus 265 v~eLv~~v~drL~ 277 (310)
+++=.|.+.+-|+
T Consensus 44 ~eqKLDrIIeLLE 56 (58)
T PF13314_consen 44 MEQKLDRIIELLE 56 (58)
T ss_pred HHHHHHHHHHHHc
Confidence 4444444444444
No 41
>TIGR00964 secE_bact preprotein translocase, SecE subunit, bacterial. This model represents exclusively the bacterial (and some organellar) SecE protein. SecE is part of the core heterotrimer, SecYEG, of the Sec preprotein translocase system. Other components are the ATPase SecA, a cytosolic chaperone SecB, and an accessory complex of SecDF and YajC.
Probab=34.65 E-value=81 Score=22.94 Aligned_cols=24 Identities=21% Similarity=0.325 Sum_probs=17.4
Q ss_pred CCChhhHHHHHHHHHHHHHHHHHH
Q 021573 39 FPSKQDLLRLITVVAIASSVALTC 62 (310)
Q Consensus 39 fp~~~~~~rll~vl~ia~~~a~~c 62 (310)
.|+|+|..+.-.+.++++++....
T Consensus 17 WPt~~e~~~~t~~Vi~~~~~~~~~ 40 (55)
T TIGR00964 17 WPSRKELITYTIVVIVFVIFFSLF 40 (55)
T ss_pred CcCHHHHHhHHHHHHHHHHHHHHH
Confidence 699999999877776666555333
No 42
>PF12669 P12: Virus attachment protein p12 family
Probab=33.45 E-value=46 Score=24.89 Aligned_cols=6 Identities=0% Similarity=-0.307 Sum_probs=2.6
Q ss_pred HHHHHH
Q 021573 252 LWKVHR 257 (310)
Q Consensus 252 r~~i~~ 257 (310)
|+.+++
T Consensus 18 r~~~k~ 23 (58)
T PF12669_consen 18 RKFIKD 23 (58)
T ss_pred HHHHHH
Confidence 444443
No 43
>PF07127 Nodulin_late: Late nodulin protein; InterPro: IPR009810 This family consists of several plant specific late nodulin sequences which are homologous to the Pisum sativum (Garden pea) ENOD3 protein. ENOD3 is expressed in the late stages of root nodule formation and contains two pairs of cysteine residues toward the proteins C terminus which may be involved in metal-binding [].; GO: 0046872 metal ion binding, 0009878 nodule morphogenesis
Probab=32.71 E-value=80 Score=22.91 Aligned_cols=26 Identities=19% Similarity=0.571 Sum_probs=19.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCCccCCCCccccCCe-eeecCCc
Q 021573 73 SKPFCDSNLLLDSPQSPTDSCEPCPSNGECHQGK-LECFHGY 113 (310)
Q Consensus 73 ~~~FCDS~~~~~~~~~~~p~CePCP~nA~C~~g~-v~C~~Gy 113 (310)
....|.++. -||.+ |..+. .+|.+|+
T Consensus 26 ~~~~C~~d~-------------DCp~~--c~~~~~~kCi~~~ 52 (54)
T PF07127_consen 26 AIIPCKTDS-------------DCPKD--CPPPFIPKCINNI 52 (54)
T ss_pred CCcccCccc-------------cCCCC--CCCCcCcEeCcCC
Confidence 567899874 58888 88774 5887764
No 44
>KOG0196 consensus Tyrosine kinase, EPH (ephrin) receptor family [Signal transduction mechanisms]
Probab=32.67 E-value=39 Score=37.77 Aligned_cols=29 Identities=31% Similarity=0.773 Sum_probs=24.2
Q ss_pred CCCCCccCCCCccc-cCC--eeeecCCceecC
Q 021573 89 PTDSCEPCPSNGEC-HQG--KLECFHGYRKHG 117 (310)
Q Consensus 89 ~~p~CePCP~nA~C-~~g--~v~C~~Gyvl~~ 117 (310)
....|.|||+|-+= .+| ..+|+.||-+.+
T Consensus 289 ~~~~C~~CP~~S~s~~ega~~C~C~~gyyRA~ 320 (996)
T KOG0196|consen 289 GDSLCLPCPPNSHSSSEGATSCTCENGYYRAD 320 (996)
T ss_pred CCCCCCCCCCCCCCCCCCCCcccccCCcccCC
Confidence 46889999999998 446 359999999988
No 45
>PRK07597 secE preprotein translocase subunit SecE; Reviewed
Probab=31.93 E-value=85 Score=23.40 Aligned_cols=24 Identities=21% Similarity=0.387 Sum_probs=17.5
Q ss_pred CCChhhHHHHHHHHHHHHHHHHHH
Q 021573 39 FPSKQDLLRLITVVAIASSVALTC 62 (310)
Q Consensus 39 fp~~~~~~rll~vl~ia~~~a~~c 62 (310)
.|+++|..+...+.++++++..+.
T Consensus 26 WPs~~e~~~~t~~Vi~~~~~~~~~ 49 (64)
T PRK07597 26 WPTRKELVRSTIVVLVFVAFFALF 49 (64)
T ss_pred CcCHHHHHhHHHHHHHHHHHHHHH
Confidence 699999999877777666555333
No 46
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=31.54 E-value=1.8e+02 Score=20.51 Aligned_cols=19 Identities=26% Similarity=0.544 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHhHHHHH
Q 021573 251 LLWKVHRRRYFAIRVEELY 269 (310)
Q Consensus 251 ir~~i~~rra~~aRv~eLv 269 (310)
+.+.++++|+..++..++.
T Consensus 23 i~~~~~~~r~~~~~l~~~~ 41 (45)
T TIGR03141 23 ILWSLLDRRRLLRELRRLE 41 (45)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4666777777777776654
No 47
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=30.59 E-value=2.1e+02 Score=21.75 Aligned_cols=27 Identities=4% Similarity=0.065 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 021573 235 ALIIVPVCSLLVGCLLLLWKVHRRRYF 261 (310)
Q Consensus 235 ~l~I~~l~~l~~g~~~ir~~i~~rra~ 261 (310)
.+.++.++++.+++++....++.....
T Consensus 6 ~~l~~~v~~~~~~~v~~~~~~~~~~~~ 32 (85)
T TIGR02209 6 VLLLLAILVSAISVVSAQHQTRQLNNE 32 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445455555555555555544443
No 48
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=30.30 E-value=1.8e+02 Score=23.50 Aligned_cols=25 Identities=16% Similarity=0.190 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHhHHHHHHHHhhcc
Q 021573 252 LWKVHRRRYFAIRVEELYHQVYNPF 276 (310)
Q Consensus 252 r~~i~~rra~~aRv~eLv~~v~drL 276 (310)
...++.=+....++.++|+.....+
T Consensus 24 ~~~~~~l~~~~~~~~~i~~~~~~~~ 48 (181)
T PF12729_consen 24 IVGLYSLSQINQNVEEIYENNLPSI 48 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHH
Confidence 3334555566777778777655433
No 49
>PF09802 Sec66: Preprotein translocase subunit Sec66; InterPro: IPR018624 Members of this family of proteins are a component of the heterotetrameric Sec62/63 complex composed of SEC62, SEC63, SEC66 and SEC72. The Sec62/63 complex associates with the Sec61 complex to form the Sec complex. Sec 66 is involved in SRP-independent post-translational translocation across the endoplasmic reticulum and functions together with the Sec61 complex and KAR2 in a channel-forming translocon complex. Furthermore, Sec66 is also required for growth at elevated temperatures [, , , ].
Probab=30.19 E-value=74 Score=29.41 Aligned_cols=23 Identities=30% Similarity=0.378 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 021573 242 CSLLVGCLLLLWKVHRRRYFAIR 264 (310)
Q Consensus 242 ~~l~~g~~~ir~~i~~rra~~aR 264 (310)
+++++|++++.+++||+|...+.
T Consensus 13 ~~vl~~sl~~Fs~~YRkr~~~~~ 35 (190)
T PF09802_consen 13 VAVLVGSLATFSSIYRKRKAAKS 35 (190)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 46667777788888888776443
No 50
>PF10576 EndIII_4Fe-2S: Iron-sulfur binding domain of endonuclease III; InterPro: IPR003651 Endonuclease III (4.2.99.18 from EC) is a DNA repair enzyme which removes a number of damaged pyrimidines from DNA via its glycosylase activity and also cleaves the phosphodiester backbone at apurinic / apyrimidinic sites via a beta-elimination mechanism [, ]. The structurally related DNA glycosylase MutY recognises and excises the mutational intermediate 8-oxoguanine-adenine mispair []. The 3-D structures of Escherichia coli endonuclease III [] and catalytic domain of MutY [] have been determined. The structures contain two all-alpha domains: a sequence-continuous, six-helix domain (residues 22-132) and a Greek-key, four-helix domain formed by one N-terminal and three C-terminal helices (residues 1-21 and 133-211) together with the [Fe4S4] cluster. The cluster is bound entirely within the C-terminal loop by four cysteine residues with a ligation pattern Cys-(Xaa)6-Cys-(Xaa)2-Cys-(Xaa)5-Cys which is distinct from all other known Fe4S4 proteins. This structural motif is referred to as a [Fe4S4] cluster loop (FCL) []. Two DNA-binding motifs have been proposed, one at either end of the interdomain groove: the helix-hairpin-helix (HhH) and FCL motifs. The primary role of the iron-sulphur cluster appears to involve positioning conserved basic residues for interaction with the DNA phosphate backbone by forming the loop of the FCL motif [, ]. The iron-sulphur cluster loop (FCL) is also found in DNA-(apurinic or apyrimidinic site) lyase, a subfamily of endonuclease III. The enzyme has both apurinic and apyrimidinic endonuclease activity and a DNA N-glycosylase activity. It cuts damaged DNA at cytosines, thymines and guanines, and acts on the damaged strand 5' of the damaged site. The enzyme binds a 4Fe-4S cluster which is not important for the catalytic activity, but is probably involved in the alignment of the enzyme along the DNA strand.; GO: 0004519 endonuclease activity, 0051539 4 iron, 4 sulfur cluster binding; PDB: 1VRL_A 1RRQ_A 3G0Q_A 3FSQ_A 1RRS_A 3FSP_A 2ABK_A 1KG7_A 1KG2_A 1MUN_A ....
Probab=30.04 E-value=23 Score=20.65 Aligned_cols=13 Identities=38% Similarity=1.017 Sum_probs=8.1
Q ss_pred CCCCccCCCCccc
Q 021573 90 TDSCEPCPSNGEC 102 (310)
Q Consensus 90 ~p~CePCP~nA~C 102 (310)
.|.|+-||-+.+|
T Consensus 5 ~P~C~~Cpl~~~C 17 (17)
T PF10576_consen 5 KPKCEECPLADYC 17 (17)
T ss_dssp S--GGG-TTGGG-
T ss_pred CCccccCCCcccC
Confidence 6899999999887
No 51
>PF13124 DUF3963: Protein of unknown function (DUF3963)
Probab=29.89 E-value=92 Score=21.88 Aligned_cols=22 Identities=18% Similarity=0.475 Sum_probs=14.0
Q ss_pred HhHHHHHHHHHHHHHHHHHHHH
Q 021573 227 IHQWVSTHALIIVPVCSLLVGC 248 (310)
Q Consensus 227 iRr~I~r~~l~I~~l~~l~~g~ 248 (310)
+++||++-.+.++++++.++++
T Consensus 16 iqkwirnit~cfal~vv~lvsl 37 (40)
T PF13124_consen 16 IQKWIRNITFCFALLVVVLVSL 37 (40)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777777666655555443
No 52
>PHA02831 EEV host range protein; Provisional
Probab=29.75 E-value=50 Score=31.91 Aligned_cols=49 Identities=18% Similarity=0.313 Sum_probs=29.9
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCc--cCCC----Ccc--------ccCCe--eeecCCceecC---CccccCc
Q 021573 72 TSKPFCDSNLLLDSPQSPTDSCE--PCPS----NGE--------CHQGK--LECFHGYRKHG---KLCVEDG 124 (310)
Q Consensus 72 ~~~~FCDS~~~~~~~~~~~p~Ce--PCP~----nA~--------C~~g~--v~C~~Gyvl~~---~~Cv~D~ 124 (310)
++.-.|..+ .+ +...|.|+ .||. ||. .++.. ++|++||.+.| .+|.+|+
T Consensus 119 ~s~~tC~dG--~W--S~~~P~C~~i~C~~P~i~NG~i~~~~~~y~~G~~Vty~C~~GY~L~Gss~~tC~~nG 186 (268)
T PHA02831 119 NETVKCINK--QW--VPKYPVCKLIRCKYPALQNGFLNVFEKKFYYGDIVNFKCKKGFILLGSSVSTCDINS 186 (268)
T ss_pred CceeEeCCC--cC--CCCCCeeeEeeCCCCCCCCCccccCCCceecCCEEEEEcCCCCEECCCccEEECCCC
Confidence 455678422 22 23457886 5754 332 34443 48999999998 4676655
No 53
>COG0690 SecE Preprotein translocase subunit SecE [Intracellular trafficking and secretion]
Probab=29.58 E-value=1.1e+02 Score=23.79 Aligned_cols=22 Identities=18% Similarity=0.536 Sum_probs=15.1
Q ss_pred CCCChhhHHHHHHHHHHHHHHH
Q 021573 38 LFPSKQDLLRLITVVAIASSVA 59 (310)
Q Consensus 38 lfp~~~~~~rll~vl~ia~~~a 59 (310)
-+|+|+|..+...+.++..++.
T Consensus 35 ~WPsrke~~~~t~~Vl~~v~~~ 56 (73)
T COG0690 35 VWPTRKELIRSTLIVLVVVAFF 56 (73)
T ss_pred cCCCHHHHHHHHHHHHHHHHHH
Confidence 3699999998766555544444
No 54
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=29.05 E-value=2.6e+02 Score=22.03 Aligned_cols=21 Identities=14% Similarity=0.387 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHhHHHHHHH
Q 021573 251 LLWKVHRRRYFAIRVEELYHQ 271 (310)
Q Consensus 251 ir~~i~~rra~~aRv~eLv~~ 271 (310)
..|..+..+....++.++-.+
T Consensus 30 ~v~~~~~~~~~~~~l~~l~~~ 50 (97)
T PF04999_consen 30 VVYSRHQSRQLFYELQQLEKE 50 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334343444444444444433
No 55
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=28.30 E-value=46 Score=28.98 Aligned_cols=46 Identities=11% Similarity=0.151 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----HHHHHHHHhhccCC
Q 021573 233 THALIIVPVCSLLVGCLLLLWKVHRRRYFAIR-----VEELYHQVYNPFFP 278 (310)
Q Consensus 233 r~~l~I~~l~~l~~g~~~ir~~i~~rra~~aR-----v~eLv~~v~drL~~ 278 (310)
+|-+....++++++|++++.+.|+++|.-..+ -+|...+.--++.+
T Consensus 36 NysiL~Ls~vvlvi~~~LLgrsi~ANRnrK~~~~~k~~pE~~~~~es~~kd 86 (125)
T PF15048_consen 36 NYSILALSFVVLVISFFLLGRSIQANRNRKMQPQEKQTPEVLSLDESGLKD 86 (125)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhHhccccccccccccCHHHhhcccccccc
Confidence 56666667788888999889999988766544 45554444444443
No 56
>PF09064 Tme5_EGF_like: Thrombomodulin like fifth domain, EGF-like; InterPro: IPR015149 This domain adopts a fold similar to other EGF domains, with a flat major and a twisted minor beta sheet. Disulphide pairing, however, is not of the usual 1-3, 2-4, 5-6 type; rather 1-2, 3-4, 5-6 pairing is found. Its extended major sheet (strands beta-2 and beta-3 and the connecting loop) projects into thrombin's active site groove. This domain is required for interaction of thrombomodulin with thrombin, and subsequent activation of protein-C []. ; GO: 0004888 transmembrane signaling receptor activity, 0016021 integral to membrane
Probab=27.98 E-value=45 Score=22.93 Aligned_cols=22 Identities=27% Similarity=0.714 Sum_probs=15.6
Q ss_pred cCCCCccccCC---eeeecCCceecCC
Q 021573 95 PCPSNGECHQG---KLECFHGYRKHGK 118 (310)
Q Consensus 95 PCP~nA~C~~g---~v~C~~Gyvl~~~ 118 (310)
.||. .|.++ .-.|..||++...
T Consensus 7 ~CpA--~CDpn~~~~C~CPeGyIlde~ 31 (34)
T PF09064_consen 7 ECPA--DCDPNSPGQCFCPEGYILDEG 31 (34)
T ss_pred cCCC--ccCCCCCCceeCCCceEecCC
Confidence 3553 77665 4589999999864
No 57
>PF00584 SecE: SecE/Sec61-gamma subunits of protein translocation complex; InterPro: IPR001901 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. SecE, part of the main SecYEG translocase complex, is ~106 residues in length, and spans the inner membrane of the Gram-negative bacterial envelope. Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. In eukaryotes, the evolutionary related protein sec61-gamma plays a role in protein translocation through the endoplasmic reticulum; it is part of a trimeric complex that also consist of sec61-alpha and beta []. Both secE and sec61-gamma are small proteins of about 60 to 90 amino acids that contain a single transmembrane region at their C-terminal extremity (Escherichia coli secE is an exception, in that it possess an extra N-terminal segment of 60 residues that contains two additional transmembrane domains) [].; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0016020 membrane; PDB: 3J01_B 2WW9_B 2WWA_B 3DL8_C 2WWB_B 3DIN_G 2ZJS_E 2ZQP_E.
Probab=27.18 E-value=1.5e+02 Score=21.33 Aligned_cols=21 Identities=24% Similarity=0.505 Sum_probs=14.3
Q ss_pred CCChhhHHHHHHHHHHHHHHH
Q 021573 39 FPSKQDLLRLITVVAIASSVA 59 (310)
Q Consensus 39 fp~~~~~~rll~vl~ia~~~a 59 (310)
.|+++|..+.-.+.+++.++.
T Consensus 18 WP~~~e~~~~t~~Vl~~~~i~ 38 (57)
T PF00584_consen 18 WPSRKELLKSTIIVLVFVIIF 38 (57)
T ss_dssp CCCTHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHH
Confidence 599999998766555544433
No 58
>PRK11114 cellulose synthase regulator protein; Provisional
Probab=26.78 E-value=1e+02 Score=33.65 Aligned_cols=44 Identities=23% Similarity=0.307 Sum_probs=30.0
Q ss_pred cccCcchHHhHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Q 021573 219 HYKPLSCRIHQWVSTHALIIVPVCSLL-VGCLLLLWKVHRRRYFA 262 (310)
Q Consensus 219 a~lPlsC~iRr~I~r~~l~I~~l~~l~-~g~~~ir~~i~~rra~~ 262 (310)
.++||+=++.-|+.+|-+.++++.+++ +.+.++.|++.|+++.+
T Consensus 708 G~lP~~~~l~~~ls~hp~~l~~~~~~~~~l~~~~~~~~Lr~~~~r 752 (756)
T PRK11114 708 GHLPWYERLWWALSNHPVLLALLAALSVLLLALVLWRLLRRIARR 752 (756)
T ss_pred ccCCHHHHHHHHHccChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 788999888888899987777663333 23335567777665544
No 59
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=26.48 E-value=1.1e+02 Score=24.70 Aligned_cols=35 Identities=11% Similarity=0.243 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHhhccCCchhhh
Q 021573 249 LLLLWKVHRRRYFAIRVEELYHQVYNPFFPPLSRS 283 (310)
Q Consensus 249 ~~ir~~i~~rra~~aRv~eLv~~v~drL~~~a~~~ 283 (310)
+.+.|.+--+.+..-+-.+=.++.++|+.++|-.|
T Consensus 19 aIvvW~iv~ieYrk~~rqrkId~li~RIreraEDS 53 (81)
T PF00558_consen 19 AIVVWTIVYIEYRKIKRQRKIDRLIERIRERAEDS 53 (81)
T ss_dssp HHHHHHHH------------CHHHHHHHHCTTTCC
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHcccccC
Confidence 45689887777887777788899999999998765
No 60
>PHA02642 C-type lectin-like protein; Provisional
Probab=26.34 E-value=1.2e+02 Score=28.54 Aligned_cols=19 Identities=11% Similarity=0.034 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 021573 48 LITVVAIASSVALTCNYLA 66 (310)
Q Consensus 48 ll~vl~ia~~~a~~c~~L~ 66 (310)
+|.||+...++++..++++
T Consensus 56 ~i~~l~~~~~~~l~~~~~~ 74 (216)
T PHA02642 56 TICILITINLVPIIILMAF 74 (216)
T ss_pred hHHHHHHHHHHHHHHHHHh
Confidence 5666767777787777766
No 61
>PF12662 cEGF: Complement Clr-like EGF-like
Probab=25.48 E-value=41 Score=21.16 Aligned_cols=16 Identities=25% Similarity=0.630 Sum_probs=12.3
Q ss_pred eeecCCceecC--Ccccc
Q 021573 107 LECFHGYRKHG--KLCVE 122 (310)
Q Consensus 107 v~C~~Gyvl~~--~~Cv~ 122 (310)
-.|.+||.+.+ ..|+-
T Consensus 4 C~C~~Gy~l~~d~~~C~D 21 (24)
T PF12662_consen 4 CSCPPGYQLSPDGRSCED 21 (24)
T ss_pred eeCCCCCcCCCCCCcccc
Confidence 47999999865 67764
No 62
>KOG2903 consensus Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]
Probab=25.37 E-value=51 Score=32.41 Aligned_cols=30 Identities=30% Similarity=0.353 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHhhhccccCCCCcceehhhhH
Q 021573 131 GRLSRWVENRLCRAYAQFLCDGTGSIWVEENDIW 164 (310)
Q Consensus 131 ~~va~~i~~~Lr~rrAk~eCg~~~s~~i~e~DL~ 164 (310)
=+-.|+++.+|.+.|+-|+||+. +||.|+.
T Consensus 209 fe~LDr~E~vL~~~~~~f~~G~~----LTeaDir 238 (319)
T KOG2903|consen 209 FEALDRCEDVLGKNRKYFLCGDT----LTEADIR 238 (319)
T ss_pred HHHHHHHHHHHhcccceEeeccc----cchhhee
Confidence 34568889999999999999986 6666654
No 63
>COG3726 AhpA Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]
Probab=25.08 E-value=1.8e+02 Score=27.37 Aligned_cols=54 Identities=24% Similarity=0.268 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhHHHHHHHHhhccCCchhhhhcc
Q 021573 233 THALIIVPVCSLLVGCLLLL---WKVHRRRYFAIRVEELYHQVYNPFFPPLSRSMVS 286 (310)
Q Consensus 233 r~~l~I~~l~~l~~g~~~ir---~~i~~rra~~aRv~eLv~~v~drL~~~a~~~~~~ 286 (310)
.||-.|+++|+.++..++.- |++-.-++-..|+++|-.....+-+.-|+-=|++
T Consensus 11 ~~r~~iVllclailv~l~qg~~~fs~g~Q~~qa~Q~e~L~~~Li~Q~A~s~s~ll~s 67 (214)
T COG3726 11 LHRAVIVLLCLAILVALMQGASWFSQGHQRAQANQLEELAQTLIRQVALSASPLLVS 67 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHhhhhhHhhc
Confidence 67766666655444333222 3333344445567777665544444333333333
No 64
>PF10588 NADH-G_4Fe-4S_3: NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; InterPro: IPR019574 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This entry describes the G subunit (one of 14 subunits, A to N) of the NADH-quinone oxidoreductase complex I which generally couples NADH and ubiquinone oxidation/reduction in bacteria and mammalian mitochondria while translocating protons, but may act on NADPH and/or plastoquinone in cyanobacteria and plant chloroplasts. This family does not contain related subunits from formate dehydrogenase complexes. This entry represents the iron-sulphur binding domain of the G subunit.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3M9S_C 2FUG_L 3IAS_L 2YBB_3 3IAM_3 3I9V_3.
Probab=24.97 E-value=32 Score=23.84 Aligned_cols=16 Identities=31% Similarity=0.866 Sum_probs=8.4
Q ss_pred CCCCCCccCCCCcccc
Q 021573 88 SPTDSCEPCPSNGECH 103 (310)
Q Consensus 88 ~~~p~CePCP~nA~C~ 103 (310)
.++-.|..|+.||.|-
T Consensus 11 ~H~~dC~~C~~~G~Ce 26 (41)
T PF10588_consen 11 NHPLDCPTCDKNGNCE 26 (41)
T ss_dssp T----TTT-TTGGG-H
T ss_pred CCCCcCcCCCCCCCCH
Confidence 3567899999999993
No 65
>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=24.92 E-value=1.9e+02 Score=23.86 Aligned_cols=37 Identities=19% Similarity=0.161 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 021573 230 WVSTHALIIVPVCSLLVGCLLLLWKVHRRRYFAIRVEEL 268 (310)
Q Consensus 230 ~I~r~~l~I~~l~~l~~g~~~ir~~i~~rra~~aRv~eL 268 (310)
+|++|--.|..++.++.++ +.|.+.++.+...++++|
T Consensus 4 ~~~~~w~ii~a~~~~~~~~--~~~~l~~~~a~~~~~~~l 40 (106)
T PF10805_consen 4 FIKKNWGIIWAVFGIAGGI--FWLWLRRTYAKREDIEKL 40 (106)
T ss_pred HHHhCcHHHHHHHHHHHHH--HHHHHHHhhccHHHHHHH
Confidence 3455554455544333333 345566666777777777
No 66
>KOG4289 consensus Cadherin EGF LAG seven-pass G-type receptor [Signal transduction mechanisms]
Probab=24.52 E-value=44 Score=39.75 Aligned_cols=35 Identities=31% Similarity=0.907 Sum_probs=24.7
Q ss_pred CCCCCCCCCCCCCCCCCCCC--ccCCCCccccCC----eeeecCCceecC
Q 021573 74 KPFCDSNLLLDSPQSPTDSC--EPCPSNGECHQG----KLECFHGYRKHG 117 (310)
Q Consensus 74 ~~FCDS~~~~~~~~~~~p~C--ePCP~nA~C~~g----~v~C~~Gyvl~~ 117 (310)
.-|||+++ +.| -||-.||.|... ..+|.+||.-..
T Consensus 1232 gd~CeTei---------DlCYs~pC~nng~C~srEggYtCeCrpg~tGeh 1272 (2531)
T KOG4289|consen 1232 GDYCETEI---------DLCYSGPCGNNGRCRSREGGYTCECRPGFTGEH 1272 (2531)
T ss_pred cccccchh---------HhhhcCCCCCCCceEEecCceeEEecCCccccc
Confidence 56888885 233 499999999763 257777776554
No 67
>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=24.31 E-value=1.7e+02 Score=23.35 Aligned_cols=23 Identities=4% Similarity=-0.100 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHhHHHHHHHHhh
Q 021573 252 LWKVHRRRYFAIRVEELYHQVYN 274 (310)
Q Consensus 252 r~~i~~rra~~aRv~eLv~~v~d 274 (310)
.+.-..+++...+....+..+++
T Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~ 54 (149)
T COG2165 32 SLQGSIDKAKRLEAAQQALRVIR 54 (149)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333
No 68
>cd03580 NTR_Sfrp1_like NTR domain, Secreted frizzled-related protein (Sfrp) 1-like subfamily; composed of proteins similar to human Sfrp1, Sfrp2 and Sfrp5. Sfrps are soluble proteins containing an NTR domain C-terminal to a cysteine-rich Frizzled domain. They show diverse functions and are thought to work in Wnt signaling indirectly, as modulators or antagonists by binding Wnt ligands, and directly, via the Wnt receptor, Frizzled. They participate in regulating the patterning along the anteroposterior axis in vertebrates. Human Sfrp1 has been found frequently to be downregulated in breast cancer and is associated with disease progression and poor prognosis.
Probab=23.86 E-value=26 Score=29.75 Aligned_cols=28 Identities=21% Similarity=0.481 Sum_probs=23.7
Q ss_pred CCCCccCCCCccccCCee--eecCCceecC
Q 021573 90 TDSCEPCPSNGECHQGKL--ECFHGYRKHG 117 (310)
Q Consensus 90 ~p~CePCP~nA~C~~g~v--~C~~Gyvl~~ 117 (310)
++.|.+|+..+.+++..+ -|..+|++++
T Consensus 1 ~~~C~~C~~~~~~~~~l~~~fC~sDFvik~ 30 (126)
T cd03580 1 PKVCPPCENEEESAKTLLDNFCASDFALKV 30 (126)
T ss_pred CCcCCCcCcchhhHHHHHHHhccccEEEEE
Confidence 368999999999866654 8999999998
No 69
>KOG1225 consensus Teneurin-1 and related extracellular matrix proteins, contain EGF-like repeats [Signal transduction mechanisms; Extracellular structures]
Probab=23.77 E-value=61 Score=34.31 Aligned_cols=23 Identities=30% Similarity=0.800 Sum_probs=19.7
Q ss_pred ccCCCCccccCCeeeecCCceec
Q 021573 94 EPCPSNGECHQGKLECFHGYRKH 116 (310)
Q Consensus 94 ePCP~nA~C~~g~v~C~~Gyvl~ 116 (310)
..|..||.|.+|+-+|++||.-.
T Consensus 316 adC~g~G~Ci~G~C~C~~Gy~G~ 338 (525)
T KOG1225|consen 316 ADCSGHGKCIDGECLCDEGYTGE 338 (525)
T ss_pred ccCCCCCcccCCceEeCCCCcCC
Confidence 57889999999999999998643
No 70
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=23.36 E-value=1.6e+02 Score=25.25 Aligned_cols=36 Identities=14% Similarity=0.134 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhccCCc
Q 021573 244 LLVGCLLLLWKVHRRRYFAIRVEELYHQVYNPFFPP 279 (310)
Q Consensus 244 l~~g~~~ir~~i~~rra~~aRv~eLv~~v~drL~~~ 279 (310)
..+|..++.+-++|.....++-++-+++-++.|+++
T Consensus 85 F~Va~~li~~E~~Rs~~ke~~Ke~~~~~~l~~L~~~ 120 (134)
T PF07047_consen 85 FSVAAGLIIYEYWRSARKEAKKEEELQERLEELEER 120 (134)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 334455566777777777777777777777766554
No 71
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=23.06 E-value=1.2e+02 Score=23.61 Aligned_cols=25 Identities=16% Similarity=0.388 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 021573 229 QWVSTHALIIVPVCSLLVGCLLLLW 253 (310)
Q Consensus 229 r~I~r~~l~I~~l~~l~~g~~~ir~ 253 (310)
.|.++|++.++.++++++.++++.+
T Consensus 61 ~~~~~~k~~~i~~~iv~~~~~~i~~ 85 (89)
T PF00957_consen 61 MWWRNYKLYIIIIIIVIIIILIIII 85 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHhhhhhhhhHHHH
Confidence 3556777766666666555555443
No 72
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=22.78 E-value=3.5e+02 Score=24.39 Aligned_cols=36 Identities=22% Similarity=0.256 Sum_probs=26.5
Q ss_pred CCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHhhh
Q 021573 33 EPPQSLFPSKQDLLRLITVVAIASSVALTCNYLANF 68 (310)
Q Consensus 33 epp~~lfp~~~~~~rll~vl~ia~~~a~~c~~L~~~ 68 (310)
.-|.++-+.+.-+.|-+.||..+++.+.+|+++-.|
T Consensus 82 ~~~s~~~~d~~~l~R~~~Vl~g~s~l~i~yfvir~~ 117 (163)
T PF06679_consen 82 SRPSPSSPDSPMLKRALYVLVGLSALAILYFVIRTF 117 (163)
T ss_pred cccCCCcCCccchhhhHHHHHHHHHHHHHHHHHHHH
Confidence 344456677888889998888888888888776433
No 73
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=22.47 E-value=65 Score=27.13 Aligned_cols=14 Identities=29% Similarity=0.356 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHH
Q 021573 236 LIIVPVCSLLVGCL 249 (310)
Q Consensus 236 l~I~~l~~l~~g~~ 249 (310)
+.|++|++++++++
T Consensus 7 iii~~i~l~~~~~~ 20 (130)
T PF12273_consen 7 IIIVAILLFLFLFY 20 (130)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444444433
No 74
>smart00181 EGF Epidermal growth factor-like domain.
Probab=22.01 E-value=73 Score=19.91 Aligned_cols=25 Identities=32% Similarity=0.802 Sum_probs=18.0
Q ss_pred ccCCCCccccCC--e--eeecCCceecCCcc
Q 021573 94 EPCPSNGECHQG--K--LECFHGYRKHGKLC 120 (310)
Q Consensus 94 ePCP~nA~C~~g--~--v~C~~Gyvl~~~~C 120 (310)
.+|..| .|.+. . -.|.+||... +.|
T Consensus 6 ~~C~~~-~C~~~~~~~~C~C~~g~~g~-~~C 34 (35)
T smart00181 6 GPCSNG-TCINTPGSYTCSCPPGYTGD-KRC 34 (35)
T ss_pred CCCCCC-EEECCCCCeEeECCCCCccC-Ccc
Confidence 468888 89863 3 3899999775 454
No 75
>PF00954 S_locus_glycop: S-locus glycoprotein family; InterPro: IPR000858 In Brassicaceae, self-incompatible plants have a self/non-self recognition system, which involves the inability of flowering plants to achieve self-fertilisation. This is sporophytically controlled by multiple alleles at a single locus (S). There are a total of 50 different S alleles in Brassica oleracea. S-locus glycoproteins, as well as S-receptor kinases, are in linkage with the S-alleles []. Most of the proteins within this family contain apple-like domain (IPR003609 from INTERPRO), which is predicted to possess protein- and/or carbohydrate-binding functions.; GO: 0048544 recognition of pollen
Probab=21.80 E-value=77 Score=25.56 Aligned_cols=22 Identities=27% Similarity=0.780 Sum_probs=18.3
Q ss_pred cCCCCccccCCe---eeecCCceec
Q 021573 95 PCPSNGECHQGK---LECFHGYRKH 116 (310)
Q Consensus 95 PCP~nA~C~~g~---v~C~~Gyvl~ 116 (310)
.|=+||+|..+. .+|-+||.-+
T Consensus 85 ~CG~~g~C~~~~~~~C~Cl~GF~P~ 109 (110)
T PF00954_consen 85 FCGPNGICNSNNSPKCSCLPGFEPK 109 (110)
T ss_pred ccCCccEeCCCCCCceECCCCcCCC
Confidence 699999998763 5999999754
No 76
>PF07466 DUF1517: Protein of unknown function (DUF1517); InterPro: IPR010903 This family consists of several hypothetical glycine rich plant and bacterial proteins of around 300 residues in length. The function of this family is unknown.
Probab=21.47 E-value=2.7e+02 Score=27.08 Aligned_cols=23 Identities=4% Similarity=0.163 Sum_probs=10.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Q 021573 43 QDLLRLITVVAIASSVALTCNYL 65 (310)
Q Consensus 43 ~~~~rll~vl~ia~~~a~~c~~L 65 (310)
..+.-++.+|+++.++.+...++
T Consensus 62 gg~~gl~~iLIl~~Ia~~vv~~~ 84 (289)
T PF07466_consen 62 GGFGGLFDILILFGIAFFVVRFF 84 (289)
T ss_pred cccchHHHHHHHHHHHHHHHHHH
Confidence 33445555554444444333333
No 77
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.93 E-value=3.6e+02 Score=25.56 Aligned_cols=89 Identities=15% Similarity=0.160 Sum_probs=52.7
Q ss_pred eeeecCCceecCCccccCchhhHHHH-HHHHHHHHHHHHHhhhccccCCCCcceehhhhHhhhhhhhh--hhhccCC---
Q 021573 106 KLECFHGYRKHGKLCVEDGDINETAG-RLSRWVENRLCRAYAQFLCDGTGSIWVEENDIWNDLEGHEL--MKIFELD--- 179 (310)
Q Consensus 106 ~v~C~~Gyvl~~~~Cv~D~ek~~~i~-~va~~i~~~Lr~rrAk~eCg~~~s~~i~e~DL~~~l~~~~~--~~~~~ls--- 179 (310)
++.|++||+ ..|+-|.+-.|++- +..+.+.+.--+++|.-. .+.-..-=-+|.+..++++.- ..+.++|
T Consensus 54 h~l~~dg~t---ylcvadds~gR~ipfaFLe~Ik~~F~k~YG~~a--~ta~AysmN~EFs~vL~qqm~y~s~~p~id~ls 128 (217)
T KOG0859|consen 54 HYLVEDGLT---YLCVADDSAGRQIPFAFLERIKEDFKKRYGGGA--HTAVAYSMNKEFSSVLKQQMQYCSEHPEISKLA 128 (217)
T ss_pred EEEEeCCeE---EEEEEeccccccccHHHHHHHHHHHHHHhccch--hHHHHhHhHHHHHHHHHHHHHHHHcCcchhHHH
Confidence 358888876 57999998888766 778888888888887651 110000001233333443321 1122222
Q ss_pred --hHHHHHHHHHHHHHHHhhhh
Q 021573 180 --NPVYLYTKKRTMETVGRYLE 199 (310)
Q Consensus 180 --~~ef~~l~~~Al~~i~~~le 199 (310)
..+.++++.-++++|...++
T Consensus 129 kvkaqv~evk~vM~eNIekvld 150 (217)
T KOG0859|consen 129 KVKAQVTEVKGVMMENIEKVLD 150 (217)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 45678888888888855544
No 78
>KOG1420 consensus Ca2+-activated K+ channel Slowpoke, alpha subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=20.30 E-value=3.4e+02 Score=29.95 Aligned_cols=42 Identities=14% Similarity=0.113 Sum_probs=23.3
Q ss_pred eehhhhHhhhhhhhhhhhccCCh--HHHHHHHHHHHHHHHhhhhh
Q 021573 158 VEENDIWNDLEGHELMKIFELDN--PVYLYTKKRTMETVGRYLES 200 (310)
Q Consensus 158 i~e~DL~~~l~~~~~~~~~~ls~--~ef~~l~~~Al~~i~~~le~ 200 (310)
++-.||.+.+.-++.-.+++|.+ ..|-.+|--|.|-+. .+|+
T Consensus 230 mtvpdilqylnilktsssirl~qlvsifisvwltaag~ih-llen 273 (1103)
T KOG1420|consen 230 MTVPDILQYLNILKTSSSIRLVQLVSIFISVWLTAAGFIH-LLEN 273 (1103)
T ss_pred ccHHHHHHHHHHHhccchhhHHHHHHHHHHHHHhhcceee-hhhc
Confidence 45567777666543323344432 247778887776662 3443
No 79
>PF11830 DUF3350: Domain of unknown function (DUF3350); InterPro: IPR021785 This domain is functionally uncharacterised. This domain is found in eukaryotes. This presumed domain is typically between 50 to 64 amino acids in length.
Probab=20.26 E-value=94 Score=23.59 Aligned_cols=19 Identities=0% Similarity=-0.150 Sum_probs=15.1
Q ss_pred ccCChHHHHHHHHHHHHHH
Q 021573 176 FELDNPVYLYTKKRTMETV 194 (310)
Q Consensus 176 ~~ls~~ef~~l~~~Al~~i 194 (310)
.+-+.+|+..||++||.+.
T Consensus 24 ~krt~eelR~LWrkAI~Qq 42 (56)
T PF11830_consen 24 KKRTREELRELWRKAIHQQ 42 (56)
T ss_pred cccCHHHHHHHHHHHHHHH
Confidence 3456889999999999553
No 80
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=20.20 E-value=2.2e+02 Score=29.91 Aligned_cols=20 Identities=20% Similarity=0.064 Sum_probs=11.6
Q ss_pred HHHHHHhHHHHHHHHhhccC
Q 021573 258 RRYFAIRVEELYHQVYNPFF 277 (310)
Q Consensus 258 rra~~aRv~eLv~~v~drL~ 277 (310)
||...+++.+|=+..-++..
T Consensus 24 rr~~~~~i~~Le~~k~~l~~ 43 (569)
T PRK04778 24 RKRNYKRIDELEERKQELEN 43 (569)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 34566677777665544443
No 81
>PF13811 DUF4186: Domain of unknown function (DUF4186)
Probab=20.19 E-value=1.3e+02 Score=25.78 Aligned_cols=42 Identities=14% Similarity=0.382 Sum_probs=31.2
Q ss_pred hhhHhhhhhhhhhhhccCChHHHHHHHHHHHHHH----Hhhhhhcc
Q 021573 161 NDIWNDLEGHELMKIFELDNPVYLYTKKRTMETV----GRYLESRT 202 (310)
Q Consensus 161 ~DL~~~l~~~~~~~~~~ls~~ef~~l~~~Al~~i----~~~le~~~ 202 (310)
+++.+.|..-.+-.++.|++.+.+|++++-++.| .+++..+.
T Consensus 2 ~~lf~rL~~S~FRsrF~L~~kd~~Y~~~kG~~~I~~Ha~dfi~~RL 47 (111)
T PF13811_consen 2 DALFERLARSRFRSRFHLGAKDRAYIRDKGLDTIREHARDFIAKRL 47 (111)
T ss_pred hHHHHHHhhCchhccCCCCHHHHHHHHHhCHHHHHHHHHHHHHHHh
Confidence 4566666666555568999999999999988666 66666655
Done!