Query 040244
Match_columns 381
No_of_seqs 97 out of 110
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 06:30:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040244.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040244hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06830 Root_cap: Root cap; 100.0 1.7E-36 3.6E-41 231.6 3.1 57 316-372 1-57 (57)
2 PF06668 ITI_HC_C: Inter-alpha 98.8 1.1E-07 2.5E-12 87.3 12.9 134 183-339 1-137 (188)
3 smart00216 VWD von Willebrand 97.9 0.0006 1.3E-08 58.3 14.9 117 153-291 13-136 (162)
4 PF00094 VWD: von Willebrand f 97.5 0.0018 4E-08 53.8 11.5 82 154-248 3-90 (159)
5 cd01951 lectin_L-type legume l 86.4 12 0.00026 34.1 11.3 96 161-282 70-177 (223)
6 PLN02590 probable tyrosine dec 79.9 1.3 2.8E-05 47.0 2.7 7 156-162 129-135 (539)
7 PF07172 GRP: Glycine rich pro 78.1 4.9 0.00011 34.0 5.0 19 1-20 1-21 (95)
8 PRK11546 zraP zinc resistance 73.8 4.4 9.4E-05 36.9 3.9 21 8-28 10-30 (143)
9 PF13650 Asp_protease_2: Aspar 61.9 13 0.00027 28.1 3.8 21 314-334 70-90 (90)
10 PF03633 Glyco_hydro_65C: Glyc 56.3 18 0.00039 26.6 3.7 39 209-247 11-52 (54)
11 PF07481 DUF1521: Domain of Un 55.2 29 0.00063 32.7 5.6 63 153-224 41-105 (171)
12 cd00225 API3 Ascaris pepsin in 53.3 13 0.00027 34.7 2.9 26 162-193 95-120 (159)
13 smart00282 LamG Laminin G doma 51.3 58 0.0013 26.7 6.3 68 162-244 13-84 (135)
14 PF02929 Bgal_small_N: Beta ga 46.0 8.5 0.00018 37.1 0.7 122 176-315 102-243 (276)
15 PF12992 DUF3876: Domain of un 43.2 43 0.00093 28.5 4.4 67 254-330 18-84 (95)
16 KOG3915 Transcription regulato 40.7 33 0.00071 37.3 4.0 7 194-200 300-306 (641)
17 COG3354 FlaG Putative archaeal 40.2 2.5E+02 0.0054 26.3 9.0 40 217-256 72-116 (154)
18 KOG1446 Histone H3 (Lys4) meth 39.5 45 0.00098 34.1 4.6 84 221-324 182-272 (311)
19 PF07423 DUF1510: Protein of u 36.2 55 0.0012 31.6 4.4 18 8-25 18-35 (217)
20 PF06394 Pepsin-I3: Pepsin inh 35.8 18 0.0004 29.9 1.0 31 162-206 12-42 (76)
21 cd05479 RP_DDI RP_DDI; retrope 32.9 97 0.0021 26.2 5.0 33 235-267 18-52 (124)
22 PRK08944 motB flagellar motor 32.7 27 0.00059 34.7 1.8 14 8-21 27-40 (302)
23 PF05984 Cytomega_UL20A: Cytom 32.6 1.1E+02 0.0024 26.5 5.2 15 1-16 1-15 (100)
24 COG2013 Uncharacterized conser 32.4 3.1E+02 0.0067 26.6 8.8 76 179-270 107-184 (227)
25 cd05483 retropepsin_like_bacte 31.7 63 0.0014 24.4 3.4 22 236-257 5-28 (96)
26 PF09087 Cyc-maltodext_N: Cycl 29.6 63 0.0014 27.2 3.3 39 234-279 14-55 (88)
27 COG3111 Periplasmic protein wi 29.1 97 0.0021 28.2 4.5 23 7-31 4-26 (128)
28 PF13677 MotB_plug: Membrane M 28.9 45 0.00097 25.7 2.1 15 8-22 27-41 (58)
29 smart00159 PTX Pentraxin / C-r 28.6 4.6E+02 0.01 24.0 11.6 107 162-284 3-115 (206)
30 PRK08457 motB flagellar motor 28.5 36 0.00079 32.8 1.9 14 8-21 26-39 (257)
31 PF13510 Fer2_4: 2Fe-2S iron-s 28.4 37 0.00079 27.3 1.6 19 234-252 2-20 (82)
32 PRK06667 motB flagellar motor 27.6 36 0.00077 32.5 1.6 14 8-21 28-41 (252)
33 PF05720 Dicty_CAD: Cell-cell 26.4 1E+02 0.0022 26.2 3.9 44 210-258 27-73 (82)
34 PRK13128 D-aminopeptidase; Rev 26.3 1.2E+02 0.0025 32.4 5.3 72 264-340 393-468 (518)
35 PRK10340 ebgA cryptic beta-D-g 24.3 1.6E+02 0.0035 34.0 6.2 122 177-316 825-967 (1021)
36 PRK06742 flagellar motor prote 24.2 47 0.001 31.4 1.8 14 8-21 22-35 (225)
37 PF10717 ODV-E18: Occlusion-de 23.8 1.1E+02 0.0025 26.1 3.7 25 8-32 30-54 (85)
38 PRK05659 sulfur carrier protei 22.9 76 0.0016 23.8 2.4 16 236-251 1-16 (66)
39 PF00394 Cu-oxidase: Multicopp 22.9 3.3E+02 0.0073 23.7 6.7 51 210-288 83-136 (159)
40 PRK15172 putative aldose-1-epi 22.7 6E+02 0.013 24.7 9.0 77 226-302 59-163 (300)
41 PRK06944 sulfur carrier protei 22.6 74 0.0016 23.7 2.3 15 236-250 1-15 (65)
42 PF00054 Laminin_G_1: Laminin 22.4 4.7E+02 0.01 21.9 9.3 45 233-285 28-77 (131)
43 PRK10053 hypothetical protein; 22.2 1.1E+02 0.0023 27.6 3.5 11 19-29 14-24 (130)
44 KOG2002 TPR-containing nuclear 21.8 68 0.0015 37.3 2.7 42 37-78 897-939 (1018)
45 PRK09525 lacZ beta-D-galactosi 21.8 1.6E+02 0.0035 34.1 5.6 116 176-316 858-993 (1027)
46 PF11954 DUF3471: Domain of un 21.4 4E+02 0.0087 21.3 6.4 47 217-271 28-75 (100)
47 PF13464 DUF4115: Domain of un 21.4 90 0.002 24.4 2.6 18 233-250 47-64 (77)
48 PF06439 DUF1080: Domain of Un 21.0 1.4E+02 0.003 25.6 3.9 24 216-247 129-152 (185)
49 COG3823 Glutamine cyclotransfe 20.6 2.4E+02 0.0053 28.2 5.8 96 211-320 135-244 (262)
50 PRK07734 motB flagellar motor 20.2 64 0.0014 31.0 1.8 14 8-21 29-42 (259)
No 1
>PF06830 Root_cap: Root cap; InterPro: IPR009646 The cells at the periphery of the root cap are continuously sloughed off from the root into the mucilage, and are thought to be programmed to die [].This family represents a conserved region approximately 60 residues in length within plant root cap proteins, which may be involved in the process.
Probab=100.00 E-value=1.7e-36 Score=231.62 Aligned_cols=57 Identities=68% Similarity=1.218 Sum_probs=56.5
Q ss_pred ceeeecCCcccccccceeecCCCcccCCCCcccccccCCCcccCCCcccCCCCceee
Q 040244 316 QFKFTNLSDLVEGVLGKTYRPYYVSPVKRGVPMPMMGGEDKYQTPSLYSPHCKACRF 372 (381)
Q Consensus 316 ~FKF~~LTd~V~GVLGQTYRpdyvn~vk~gv~MPvmGGe~~Y~tSsLfsaDC~v~rF 372 (381)
||||++|||+|||||||||||||+||||+||+|||||||++|+|||||||||++|||
T Consensus 1 ~FkF~~Lt~~V~GVLGQTYr~~yvn~vk~g~~MPvmGG~~~y~ts~lfs~DC~v~rF 57 (57)
T PF06830_consen 1 QFKFYSLTDDVHGVLGQTYRPDYVNPVKVGVAMPVMGGEDKYRTSSLFSTDCAVCRF 57 (57)
T ss_pred CceeeccccccceeccccccCCcccccccCCCCccccCCccceeccccccCcchhcC
Confidence 799999999999999999999999999999999999999999999999999999998
No 2
>PF06668 ITI_HC_C: Inter-alpha-trypsin inhibitor heavy chain C-terminus; InterPro: IPR010600 This entry represents the C-terminal region of inter-alpha-trypsin inhibitor heavy chains. Inter-alpha-trypsin inhibitors are glycoproteins with a high inhibitory activity against trypsin, built up from different combinations of four polypeptides: bikunin and the three heavy chains that belong to this family (HC1, HC2, HC3). The heavy chains do not have any protease inhibitory properties but have the capacity to interact in vitro and in vivo with hyaluronic acid, which promotes the stability of the extra-cellular matrix. This domain is associated with the VWA domain IPR002035 from INTERPRO.; GO: 0004867 serine-type endopeptidase inhibitor activity, 0030212 hyaluronan metabolic process
Probab=98.77 E-value=1.1e-07 Score=87.31 Aligned_cols=134 Identities=17% Similarity=0.236 Sum_probs=95.8
Q ss_pred cCCceeeeEEeeeCCC-CCCCCceeEEEEEEeecCeEEEEeeecccccCCCCCeeEEEECCeeeecCCCCCceeEeCCCC
Q 040244 183 DDNLQINAHFIGTRPE-GRTRDYTWVQALAVMFDTHTLVIAANRVMHWDDNVDALSIRLNGEAVDIPTGGDAEWKTNADE 261 (381)
Q Consensus 183 D~~LhINAHFIG~r~~-g~~RDfTWIQALGI~F~~H~l~i~A~k~a~Wd~~vD~l~vt~dGe~v~ip~~~~a~W~s~~~~ 261 (381)
|..+.+|.++||..++ +..+--|+...|||.|+...+.|+.+ .++++|+=++....++=...+.-..
T Consensus 1 ~sGi~VnGqliGak~~~~~~~~~TYF~~i~I~~~~~~~~I~vt--------~~~I~l~~g~~~~~l~w~~t~~~~~---- 68 (188)
T PF06668_consen 1 DSGITVNGQLIGAKKPPGEKKLRTYFGRIGITFQKPDVKIEVT--------PEKITLTDGRRRSVLSWSDTASVKQ---- 68 (188)
T ss_pred CCCEEEeCEEccCCCCCCCCCCCceEEEEEEEECCCCeEEEEE--------ccEEEEecCCCceeEeEcceEEEcc----
Confidence 5789999999998543 38889999999999999888888888 6677776566666665333333332
Q ss_pred CCeEEEEecCCCeEEEEECCeEEEEEEEeeCccccCcccccCCCCcccccceeccee-eecCCcccccccceeecC-CCc
Q 040244 262 RQVLVERTDDTNNVRVKVAGLVELHIKVSPIGKEENKVHNYQLPDDDAFAHLETQFK-FTNLSDLVEGVLGKTYRP-YYV 339 (381)
Q Consensus 262 ~~l~V~Rt~~~N~V~V~l~g~~~I~~~VVPit~eDsriHnYgv~~dD~faHLdl~FK-F~~LTd~V~GVLGQTYRp-dyv 339 (381)
|+|.|+=.. .-.|.|++.+-+++.|-.-.+ --+.+.-.-||.+... =..||+.|||+|||-|++ +|.
T Consensus 69 ~~l~v~v~k-~~~l~v~~~~~v~F~Il~Hr~----------~~~~~~~~d~LGfYi~ds~~lS~~vhGLLGQF~~~~~~~ 137 (188)
T PF06668_consen 69 PGLEVSVNK-NKNLTVTLGDGVTFVILLHRV----------WKKHPYQRDFLGFYILDSHGLSPSVHGLLGQFYHEPDFE 137 (188)
T ss_pred CcEEEEEEC-CceEEEEeCCceEEEEEEEee----------cCCCCCCCCeeEEEecCCCCCCCcccccccCccCCCceE
Confidence 456665332 346999999999998865444 3333333447743322 268999999999999999 664
No 3
>smart00216 VWD von Willebrand factor (vWF) type D domain. Von Willebrand factor contains several type D domains: D1 and D2 are present within the N-terminal propeptide whereas the remaining D domains are required for multimerisation.
Probab=97.92 E-value=0.0006 Score=58.31 Aligned_cols=117 Identities=18% Similarity=0.335 Sum_probs=78.1
Q ss_pred CccCCCeEEccCCceEEEeecCCCceEEeec-C---CceeeeEEeeeCCCCCCCCceeEEEEEEeecCeEEEEeeecccc
Q 040244 153 SLCYDPRFVGGDGVMFYFHGAKGGNFAIVSD-D---NLQINAHFIGTRPEGRTRDYTWVQALAVMFDTHTLVIAANRVMH 228 (381)
Q Consensus 153 s~CgDPRFiGGDG~~FYFHGkkd~dFciVSD-~---~LhINAHFIG~r~~g~~RDfTWIQALGI~F~~H~l~i~A~k~a~ 228 (381)
++-+||+|+=.||.+|.|+| .-.|.|+.| . ++.|-++..... .+-+|..++-|..+++.+.|...
T Consensus 13 ~v~g~~~~~TFDg~~y~~~g--~C~yvL~~~~~~~~~f~V~~~~~~~~-----~~~~~~~~v~v~~~~~~i~~~~~---- 81 (162)
T smart00216 13 SVSGDPHYTTFDGVAYTFPG--NCYYVLAQDCSSEPTFSVLLKNVPCG-----GGATCLKSVKVELNGDEIELKDD---- 81 (162)
T ss_pred EEcCCCCeECcCCCEEeecC--ceEEEEEEECCCCCCEEEEEEecCCC-----CCceEEEEEEEEECCEEEEEEeC----
Confidence 47899999999999999966 567999988 3 445555544221 12689999999999998777631
Q ss_pred cCCCCCeeEEEECCeeeecCCCCCc-e--eEeCCCCCCeEEEEecCCCeEEEEECCeEEEEEEEee
Q 040244 229 WDDNVDALSIRLNGEAVDIPTGGDA-E--WKTNADERQVLVERTDDTNNVRVKVAGLVELHIKVSP 291 (381)
Q Consensus 229 Wd~~vD~l~vt~dGe~v~ip~~~~a-~--W~s~~~~~~l~V~Rt~~~N~V~V~l~g~~~I~~~VVP 291 (381)
.++|++||+++.+|..... . |... ..+.|..+ .-.|.|..+|.-.|.|.+-|
T Consensus 82 ------~~~v~vng~~v~~p~~~~~~~v~~~~~---~~~~v~~~--~~gl~v~~dg~~~~~V~~~~ 136 (162)
T smart00216 82 ------NGTVTVNGQQVSLPYKTSDGSIQIRSS---GGYVVVIT--SLGLQVTFDGLTLLSVQLPS 136 (162)
T ss_pred ------CCEEEECCEEeeCCcCcCCceEEEEEC---ceEEEEEC--CCCEEEEECCCcEEEEEECH
Confidence 6899999999999954322 1 2221 12333333 24566666655555555543
No 4
>PF00094 VWD: von Willebrand factor type D domain; InterPro: IPR001846 A family of growth regulators (originally called cef10, connective tissue growth factor, fisp-12, cyr61, or, alternatively, beta IG-M1 and beta IG-M2), all belong to immediate-early genes expressed after induction by growth factors or certain oncogenes. Sequence analysis of this family revealed the presence of four distinct modules. Each module has homologues in other extracellular mosaic proteins such as Von Willebrand factor, slit, thrombospondins, fibrillar collagens, IGF-binding proteins and mucins. Classification and analysis of these modules suggests the location of binding regions and, by analogy to better characterised modules in other proteins, sheds some light onto the structure of this new family []. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. One of the functions of von Willebrand factor (vWF) is to serve as a carrier of clotting factor VIII (FVIII). The native conformation of the D' domain of vWF is not only required for factor VIII (FVIII) binding but also for normal multimerisation and optimal secretion. The interaction between blood clotting factor VIII and VWF is necessary for normal survival of blood clotting factor VIII in blood circulation. The VWFD domain is a highly structured region, in which the first conserved Cys has been found to form a disulphide bridge with the second conserved one [].
Probab=97.51 E-value=0.0018 Score=53.83 Aligned_cols=82 Identities=17% Similarity=0.325 Sum_probs=60.5
Q ss_pred ccCCCeEEccCCceEEEeecCCCceE--EeecCC----ceeeeEEeeeCCCCCCCCceeEEEEEEeecCeEEEEeeeccc
Q 040244 154 LCYDPRFVGGDGVMFYFHGAKGGNFA--IVSDDN----LQINAHFIGTRPEGRTRDYTWVQALAVMFDTHTLVIAANRVM 227 (381)
Q Consensus 154 ~CgDPRFiGGDG~~FYFHGkkd~dFc--iVSD~~----LhINAHFIG~r~~g~~RDfTWIQALGI~F~~H~l~i~A~k~a 227 (381)
+-+||+|+=.||..|.|+| ...|. +++|.. +.+.++.. +.+.....-+++.+|.|.+.+|.+.|....
T Consensus 3 v~g~~~~~TFDg~~y~~~~--~c~y~~vl~~~~~~~~~~~~~v~~~--~~~~~~~~~~~~~~v~i~~~~~~i~i~~~~-- 76 (159)
T PF00094_consen 3 VYGDPHITTFDGKSYSFPG--NCTYILVLAQDCSSDPKFSFSVENK--NCPCGQSGTSCTRKVTIRLGNHEIEIKPNN-- 76 (159)
T ss_pred EeCCCeEEcCCCCEEecCC--CceEEEEeecccCccccccccceee--eeccCCCCcceeeEEEEEcccceeeEeccc--
Confidence 4589999999999999999 56788 776633 33444321 112223333499999999999998887662
Q ss_pred ccCCCCCeeEEEECCeeeecC
Q 040244 228 HWDDNVDALSIRLNGEAVDIP 248 (381)
Q Consensus 228 ~Wd~~vD~l~vt~dGe~v~ip 248 (381)
.+.+++||+++.+|
T Consensus 77 -------~~~v~vng~~~~~p 90 (159)
T PF00094_consen 77 -------GDQVTVNGQPVSLP 90 (159)
T ss_pred -------cceEEEeeecccCc
Confidence 78999999999985
No 5
>cd01951 lectin_L-type legume lectins. The L-type (legume-type) lectins are a highly diverse family of carbohydrate binding proteins that generally display no enzymatic activity toward the sugars they bind. This family includes arcelin, concanavalinA, the lectin-like receptor kinases, the ERGIC-53/VIP36/EMP46 type1 transmembrane proteins, and an alpha-amylase inhibitor. L-type lectins have a dome-shaped beta-barrel carbohydrate recognition domain with a curved seven-stranded beta-sheet referred to as the "front face" and a flat six-stranded beta-sheet referred to as the "back face". This domain homodimerizes so that adjacent back sheets form a contiguous 12-stranded sheet and homotetramers occur by a back-to-back association of these homodimers. Though L-type lectins exhibit both sequence and structural similarity to one another, their carbohydrate binding specificities differ widely.
Probab=86.44 E-value=12 Score=34.14 Aligned_cols=96 Identities=24% Similarity=0.295 Sum_probs=57.3
Q ss_pred EccCCceEEEeecCCCceEEeecCCceeeeEEeeeCCCCCCCCceeEEEEEEeecCeEEEEeeecccccCCCCCeeEEEE
Q 040244 161 VGGDGVMFYFHGAKGGNFAIVSDDNLQINAHFIGTRPEGRTRDYTWVQALAVMFDTHTLVIAANRVMHWDDNVDALSIRL 240 (381)
Q Consensus 161 iGGDG~~FYFHGkkd~dFciVSD~~LhINAHFIG~r~~g~~RDfTWIQALGI~F~~H~l~i~A~k~a~Wd~~vD~l~vt~ 240 (381)
.||||..|-|+......-.. +.. .--+|. . .- -+.|+|-||.|+= ...||.+.+|+.|-+
T Consensus 70 ~~gdG~aF~l~~~~~~~~~~-~g~-----~~~lG~-----~--~~-~~~~aVefDT~~N------~~~~dp~~~higi~~ 129 (223)
T cd01951 70 NGADGIAFVLQNDPAGALGG-GGG-----GGGLGY-----G--GI-GNSVAVEFDTYKN------DDNNDPNGNHISIDV 129 (223)
T ss_pred CCCCcEEEEEecCCCCcccc-CCC-----CCccCc-----c--cc-CCeEEEEEecccc------CCCCCCCCCEEEEEc
Confidence 58999999998754321110 100 001111 1 11 2578999987731 223888899999999
Q ss_pred CCeeee-----------cCCCCC-ceeEeCCCCCCeEEEEecCCCeEEEEECCe
Q 040244 241 NGEAVD-----------IPTGGD-AEWKTNADERQVLVERTDDTNNVRVKVAGL 282 (381)
Q Consensus 241 dGe~v~-----------ip~~~~-a~W~s~~~~~~l~V~Rt~~~N~V~V~l~g~ 282 (381)
++..-. ++.... -+|. .+.|+.....+.+.|+|.+.
T Consensus 130 n~~~~~~~~~~~~~~~~~~~~~~~g~~~------~v~I~Y~~~~~~L~v~l~~~ 177 (223)
T cd01951 130 NGNGNNTALATSLGSASLPNGTGLGNEH------TVRITYDPTTNTLTVYLDNG 177 (223)
T ss_pred CCCCCCcccccccceeeCCCccCCCCEE------EEEEEEeCCCCEEEEEECCC
Confidence 988532 111111 2333 37888888888999998765
No 6
>PLN02590 probable tyrosine decarboxylase
Probab=79.91 E-value=1.3 Score=47.00 Aligned_cols=7 Identities=14% Similarity=0.567 Sum_probs=3.2
Q ss_pred CCCeEEc
Q 040244 156 YDPRFVG 162 (381)
Q Consensus 156 gDPRFiG 162 (381)
+.|||.|
T Consensus 129 ~hP~f~a 135 (539)
T PLN02590 129 QSPSYFA 135 (539)
T ss_pred CCCCeeE
Confidence 3455444
No 7
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=78.14 E-value=4.9 Score=34.00 Aligned_cols=19 Identities=26% Similarity=0.623 Sum_probs=9.4
Q ss_pred CCCCcchHHHHHH--HHHHHHH
Q 040244 1 MASRKSYILVAFF--VFLMGTE 20 (381)
Q Consensus 1 m~~rk~~~lva~~--~ll~~~~ 20 (381)
|++++ +||+||| +|||.++
T Consensus 1 MaSK~-~llL~l~LA~lLlisS 21 (95)
T PF07172_consen 1 MASKA-FLLLGLLLAALLLISS 21 (95)
T ss_pred CchhH-HHHHHHHHHHHHHHHh
Confidence 88544 4455443 4444443
No 8
>PRK11546 zraP zinc resistance protein; Provisional
Probab=73.75 E-value=4.4 Score=36.89 Aligned_cols=21 Identities=24% Similarity=0.414 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHhccC
Q 040244 8 ILVAFFVFLMGTEAVLAANNG 28 (381)
Q Consensus 8 ~lva~~~ll~~~~~~~~~g~g 28 (381)
.|+||+.|+++..+|+|....
T Consensus 10 ~~~ala~~~~~s~~a~A~~~~ 30 (143)
T PRK11546 10 VLMALSALAMGSGSAFAHHHW 30 (143)
T ss_pred HHHHHHHHHHhhhHHHHhhcc
Confidence 388999999999999987554
No 9
>PF13650 Asp_protease_2: Aspartyl protease
Probab=61.88 E-value=13 Score=28.05 Aligned_cols=21 Identities=29% Similarity=0.706 Sum_probs=15.1
Q ss_pred ecceeeecCCcccccccceee
Q 040244 314 ETQFKFTNLSDLVEGVLGKTY 334 (381)
Q Consensus 314 dl~FKF~~LTd~V~GVLGQTY 334 (381)
++.|-+.++...++||||..+
T Consensus 70 ~~~~~v~~~~~~~~~iLG~df 90 (90)
T PF13650_consen 70 NVPFLVVDLGDPIDGILGMDF 90 (90)
T ss_pred eEEEEEECCCCCCEEEeCCcC
Confidence 345666667889999999753
No 10
>PF03633 Glyco_hydro_65C: Glycosyl hydrolase family 65, C-terminal domain ; InterPro: IPR005194 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This family of glycosyl hydrolases (GH65 from CAZY) contains this domain and includes vacuolar acid trehalase and maltose phosphorylases. Maltose phosphorylase (MP) is a dimeric enzyme that catalyzes the conversion of maltose and inorganic phosphate into beta-D-glucose-1-phosphate and glucose. The C-terminal domain forms a two layered jelly roll motif. This domain is situated at the base of the catalytic domain, however its function remains unknown [].; PDB: 1H54_A.
Probab=56.35 E-value=18 Score=26.61 Aligned_cols=39 Identities=23% Similarity=0.302 Sum_probs=19.0
Q ss_pred EEEEeecCeEEEEeeec--ccccCCCCC-eeEEEECCeeeec
Q 040244 209 ALAVMFDTHTLVIAANR--VMHWDDNVD-ALSIRLNGEAVDI 247 (381)
Q Consensus 209 ALGI~F~~H~l~i~A~k--~a~Wd~~vD-~l~vt~dGe~v~i 247 (381)
++.|.|.+|.|.|..++ +.-.-.+.+ .|+|.++|+++.|
T Consensus 11 ~F~~~~rg~~l~v~i~~~~v~v~~~~g~~~l~i~v~g~~~~L 52 (54)
T PF03633_consen 11 SFRLRYRGHWLEVEITHEKVTVTLLSGDAPLTIKVYGEEVTL 52 (54)
T ss_dssp EEEEEETTEEEEEEEETTEEEEEEEESS--EEEEETT-----
T ss_pred EEEEEECCEEEEEEEECCEEEEEEccCCccEEEEECCCcccc
Confidence 34567778888877663 222222333 6667777776655
No 11
>PF07481 DUF1521: Domain of Unknown Function (DUF1521); InterPro: IPR011086 This domain of unknown function is found in a limited set of Bradyrhizobium proteins. There appears to be a periodic -DG- motif in the domain.
Probab=55.21 E-value=29 Score=32.74 Aligned_cols=63 Identities=21% Similarity=0.314 Sum_probs=41.9
Q ss_pred CccCCCeE-EccCCce-EEEeecCCCceEEeecCCceeeeEEeeeCCCCCCCCceeEEEEEEeecCeEEEEeee
Q 040244 153 SLCYDPRF-VGGDGVM-FYFHGAKGGNFAIVSDDNLQINAHFIGTRPEGRTRDYTWVQALAVMFDTHTLVIAAN 224 (381)
Q Consensus 153 s~CgDPRF-iGGDG~~-FYFHGkkd~dFciVSD~~LhINAHFIG~r~~g~~RDfTWIQALGI~F~~H~l~i~A~ 224 (381)
.+-+||+| +.|||.+ |.|-| +-. ++-|..-+|+-+....-+ .-|.-.-|-|.-.+..++|+--
T Consensus 41 riwGDPHvd~~Gdg~~~fDFk~--~~t--f~L~DGTKItV~T~p~gn-----g~T~askLtIt~Gd~~~~V~gi 105 (171)
T PF07481_consen 41 RIWGDPHVDADGDGKTDFDFKG--DMT--FQLDDGTKITVDTVPWGN-----GMTYASKLTITNGDNAWQVEGI 105 (171)
T ss_pred EEeCCCccccCCCcccceeecC--ceE--EEeCCCCEEEEeeeecCC-----CcEEeeeEEEEcCCceEEEeec
Confidence 46799999 9999866 99943 444 444666666555432221 5677777888877777776543
No 12
>cd00225 API3 Ascaris pepsin inhibitor-3 (API3); protein inhibitor that reversibly inhibits aspartic proteinase cathepsin E, and gastric enzymes pepsin and gastricsin.
Probab=53.26 E-value=13 Score=34.71 Aligned_cols=26 Identities=23% Similarity=0.628 Sum_probs=23.8
Q ss_pred ccCCceEEEeecCCCceEEeecCCceeeeEEe
Q 040244 162 GGDGVMFYFHGAKGGNFAIVSDDNLQINAHFI 193 (381)
Q Consensus 162 GGDG~~FYFHGkkd~dFciVSD~~LhINAHFI 193 (381)
+.|-++|||-| |+|.+.-|-||.+|+
T Consensus 95 ~~DTtq~yFdG------C~VqnNklYvg~~~~ 120 (159)
T cd00225 95 PDDTTQFYFDG------CMVQNNKVYVGNTYA 120 (159)
T ss_pred CCcceEEEEee------eEEECCEEEECCEEe
Confidence 57899999987 999999999999988
No 13
>smart00282 LamG Laminin G domain.
Probab=51.31 E-value=58 Score=26.68 Aligned_cols=68 Identities=13% Similarity=0.338 Sum_probs=36.8
Q ss_pred ccCCceEEEeecCCCceEEeecCCceeeeEE-eeeCCCCCCCCceeEEEEEEee---cCeEEEEeeecccccCCCCCeeE
Q 040244 162 GGDGVMFYFHGAKGGNFAIVSDDNLQINAHF-IGTRPEGRTRDYTWVQALAVMF---DTHTLVIAANRVMHWDDNVDALS 237 (381)
Q Consensus 162 GGDG~~FYFHGkkd~dFciVSD~~LhINAHF-IG~r~~g~~RDfTWIQALGI~F---~~H~l~i~A~k~a~Wd~~vD~l~ 237 (381)
-.||.-||-++..+.+|..|.=.+=+|-.+| +|.. .--.|... ..+ .-|++.|... ...+.
T Consensus 13 ~~~g~l~~~~~~~~~~~l~l~l~~g~l~~~~~~g~~-----~~~~~~~~--~~~~dg~WH~v~i~~~--------~~~~~ 77 (135)
T smart00282 13 SPNGLLLYAGSKNGGDYLALELRDGRLVLRYDLGSG-----PARLTSDP--TPLNDGQWHRVAVERN--------GRRVT 77 (135)
T ss_pred CCCEEEEEeCCCCCCCEEEEEEECCEEEEEEECCCC-----CEEEEECC--eEeCCCCEEEEEEEEe--------CCEEE
Confidence 4578999988765566655543333344444 2221 11111111 222 1377777655 56789
Q ss_pred EEECCee
Q 040244 238 IRLNGEA 244 (381)
Q Consensus 238 vt~dGe~ 244 (381)
|++||+.
T Consensus 78 l~VD~~~ 84 (135)
T smart00282 78 LSVDGEN 84 (135)
T ss_pred EEECCCc
Confidence 9999864
No 14
>PF02929 Bgal_small_N: Beta galactosidase small chain; InterPro: IPR004199 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Beta-galactosidase enzymes (3.2.1.23 from EC) belong to several glycoside hydrolase families: GH1 from CAZY, GH2 from CAZY, GH35 from CAZY and GH42 from CAZY. Beta-galactosidase is the product of the lac operon Z gene of Escherichia coli. This enzyme catalyses the hydrolysis of the disaccharide lactose to galactose and glucose, and can also convert lactose to allolactose, the inducer of the lac operon. This domain is found in single chain beta-galactosidases, which are comprised of five domains. The active site is located in a deep pocket built around the central alpha-beta barrel, with the other domains conferring specificity for a disaccharide substrate. This entry represents domain 5 of glycoside hydrolase family 2, which contains an N-terminal loop that swings towards the active site upon the deep binding of a ligand to produce a closed conformation []. This domain is also found in the amino-terminal portion of the small chain of dimeric beta-galactosidases.; GO: 0004565 beta-galactosidase activity, 0005975 carbohydrate metabolic process, 0009341 beta-galactosidase complex; PDB: 1JZ3_D 1JYY_H 1GHO_P 3VD9_B 3I3E_B 3T0B_A 3T09_C 1F4A_D 3VDC_C 3VDB_D ....
Probab=46.04 E-value=8.5 Score=37.09 Aligned_cols=122 Identities=16% Similarity=0.283 Sum_probs=67.8
Q ss_pred CceEEeecCCceeeeEEeeeCCCCCCCCceeEEEEEEeec----CeEE-EEeee------------cccccCCCCCeeEE
Q 040244 176 GNFAIVSDDNLQINAHFIGTRPEGRTRDYTWVQALAVMFD----THTL-VIAAN------------RVMHWDDNVDALSI 238 (381)
Q Consensus 176 ~dFciVSD~~LhINAHFIG~r~~g~~RDfTWIQALGI~F~----~H~l-~i~A~------------k~a~Wd~~vD~l~v 238 (381)
-.|.|-.|-.+.|.++|..... .-++=-||+.|. -.++ +.|-- ....|..+||.+-
T Consensus 102 ~~y~i~~dG~i~v~~~~~~~~~------~p~lpRiGl~~~Lp~~~~~v~wyGrGP~EnY~DRk~~a~~G~y~~~v~~~~- 174 (276)
T PF02929_consen 102 ITYTIYADGTIKVDMTFEPSGD------LPELPRIGLQFQLPKSFDNVEWYGRGPHENYPDRKTGAFLGIYESTVDDMY- 174 (276)
T ss_dssp EEEEEETTSEEEEEEEEEEETT------SSC-SEEEEEEEEETTEEEEEEEEEESS--BTTB-SSSEEEEEEEEHHHHS-
T ss_pred EEEEEcCCCEEEEEEEEEeCCC------CCCccceEEEEEecCcceeEEEECCCCCCCCccccccCCcCEEcCcHHHcC-
Confidence 4577778888999999975532 334556888873 2222 22322 2333444444332
Q ss_pred EECCeeeecCCCCCceeEeCCCCCCeEEEEecCCCeEEEEECCeEEEEEEEeeCcccc--CcccccCCCCcc-cccceec
Q 040244 239 RLNGEAVDIPTGGDAEWKTNADERQVLVERTDDTNNVRVKVAGLVELHIKVSPIGKEE--NKVHNYQLPDDD-AFAHLET 315 (381)
Q Consensus 239 t~dGe~v~ip~~~~a~W~s~~~~~~l~V~Rt~~~N~V~V~l~g~~~I~~~VVPit~eD--sriHnYgv~~dD-~faHLdl 315 (381)
.|-..|.+.|.+..- .-|+|+..+ .+++.|+-+..|.++ |-|=|.+| .--|.|.|+.+| .++|||.
T Consensus 175 ----~~Y~~PQE~Gnr~dv----rw~~l~~~~-g~gl~v~~~~~~~fs--a~~yt~~~L~~a~H~~eL~~~~~~~l~lD~ 243 (276)
T PF02929_consen 175 ----TPYIRPQENGNRTDV----RWLSLTDSD-GGGLLVTSDDPFSFS--ASPYTPEELEEAKHTYELPKSDRTYLNLDY 243 (276)
T ss_dssp -------SS--S---EEEE----EEEEEEETT-SEEEEEEEEEEEEEE--EESS-HHHHHH-SSGGGSEEESEEEEEEEE
T ss_pred ----cCCCCcccCCCccee----EEEEEEcCC-CCeEEEecCCCeEEE--EEeCchhHhhhcCccccCCCCCCEEEEEec
Confidence 355688888887653 246776643 377777776555554 55998888 666999998765 3555543
No 15
>PF12992 DUF3876: Domain of unknown function, B. Theta Gene description (DUF3876); InterPro: IPR024452 This bacterial family of conserved proteins has no known function.
Probab=43.23 E-value=43 Score=28.47 Aligned_cols=67 Identities=21% Similarity=0.320 Sum_probs=36.7
Q ss_pred eeEeCCCCCCeEEEEecCCCeEEEEECCeEEEEEEEeeCccccCcccccCCCCcccccceecceeeecCCccccccc
Q 040244 254 EWKTNADERQVLVERTDDTNNVRVKVAGLVELHIKVSPIGKEENKVHNYQLPDDDAFAHLETQFKFTNLSDLVEGVL 330 (381)
Q Consensus 254 ~W~s~~~~~~l~V~Rt~~~N~V~V~l~g~~~I~~~VVPit~eDsriHnYgv~~dD~faHLdl~FKF~~LTd~V~GVL 330 (381)
+|+|..-.|.++|.|.+..=.|.++-.. .+..-.+--.|.|.++|...-.+++|+..=.-|....||
T Consensus 18 ~W~Sv~~~P~v~I~r~g~~Y~vti~~~~----------~~~~~~~p~tY~i~~~~g~~fI~~g~ri~l~Yd~~~D~L 84 (95)
T PF12992_consen 18 EWESVNGKPDVTIYRNGGSYKVTITYRS----------GYTGRAKPETYPIQEEDGNLFIETGFRIDLAYDEEKDVL 84 (95)
T ss_pred EeEccCCCCCEEEEECCCeEEEEEEEEc----------CcCCcccceEEEEEEeCCEEEEecCcEEEEEEcccCCEE
Confidence 7999777899999998643333332211 111112223455555555555677775544444454444
No 16
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=40.70 E-value=33 Score=37.27 Aligned_cols=7 Identities=29% Similarity=0.401 Sum_probs=2.8
Q ss_pred eeCCCCC
Q 040244 194 GTRPEGR 200 (381)
Q Consensus 194 G~r~~g~ 200 (381)
|...|||
T Consensus 300 gLmsPgm 306 (641)
T KOG3915|consen 300 GLMSPGM 306 (641)
T ss_pred cccCCCC
Confidence 3333443
No 17
>COG3354 FlaG Putative archaeal flagellar protein G [Cell motility and secretion]
Probab=40.24 E-value=2.5e+02 Score=26.32 Aligned_cols=40 Identities=10% Similarity=0.140 Sum_probs=30.4
Q ss_pred eEEEEeeecccccCCCCCeeEEEECCeeee-----cCCCCCceeE
Q 040244 217 HTLVIAANRVMHWDDNVDALSIRLNGEAVD-----IPTGGDAEWK 256 (381)
Q Consensus 217 H~l~i~A~k~a~Wd~~vD~l~vt~dGe~v~-----ip~~~~a~W~ 256 (381)
..|||--+.-..--.+.+.++|-+||+-+. .-...++.|+
T Consensus 72 ~t~yiKNtG~~~~~fd~~sitVliDG~iv~~a~~~~~~~~gs~i~ 116 (154)
T COG3354 72 YTFYIKNTGSDSIAFDNTSITVLIDGNIVTPAYVTFTSVNGSSIR 116 (154)
T ss_pred EEEEEecCCCcccccCCCeEEEEEcCcEeccceEEEEecCCCeeE
Confidence 568888887777778889999999996443 2345677886
No 18
>KOG1446 consensus Histone H3 (Lys4) methyltransferase complex and RNA cleavage factor II complex, subunit SWD2 [RNA processing and modification; Chromatin structure and dynamics; Posttranslational modification, protein turnover, chaperones]
Probab=39.55 E-value=45 Score=34.08 Aligned_cols=84 Identities=21% Similarity=0.317 Sum_probs=52.5
Q ss_pred EeeecccccCCCCCeeEEEECCeeeecCCCCCc-eeEeCCCCCCeEEEEecCCCeEEEEECCeEEEEEEEee------Cc
Q 040244 221 IAANRVMHWDDNVDALSIRLNGEAVDIPTGGDA-EWKTNADERQVLVERTDDTNNVRVKVAGLVELHIKVSP------IG 293 (381)
Q Consensus 221 i~A~k~a~Wd~~vD~l~vt~dGe~v~ip~~~~a-~W~s~~~~~~l~V~Rt~~~N~V~V~l~g~~~I~~~VVP------it 293 (381)
|.-...++|. +|+++=||+-|-|-+..+- .|-.+ -.-.+.=+++...|. +.+-++|.-+| .+
T Consensus 182 i~~~~~~ew~----~l~FS~dGK~iLlsT~~s~~~~lDA-f~G~~~~tfs~~~~~------~~~~~~a~ftPds~Fvl~g 250 (311)
T KOG1446|consen 182 ITDNDEAEWT----DLEFSPDGKSILLSTNASFIYLLDA-FDGTVKSTFSGYPNA------GNLPLSATFTPDSKFVLSG 250 (311)
T ss_pred cCCCCcccee----eeEEcCCCCEEEEEeCCCcEEEEEc-cCCcEeeeEeeccCC------CCcceeEEECCCCcEEEEe
Confidence 3334455554 5888888888888654443 34332 222344455555555 34446666666 37
Q ss_pred cccCcccccCCCCcccccceecceeeecCCc
Q 040244 294 KEENKVHNYQLPDDDAFAHLETQFKFTNLSD 324 (381)
Q Consensus 294 ~eDsriHnYgv~~dD~faHLdl~FKF~~LTd 324 (381)
..|++||-| ||+.++++..+..
T Consensus 251 s~dg~i~vw---------~~~tg~~v~~~~~ 272 (311)
T KOG1446|consen 251 SDDGTIHVW---------NLETGKKVAVLRG 272 (311)
T ss_pred cCCCcEEEE---------EcCCCcEeeEecC
Confidence 888999999 6788899887754
No 19
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=36.22 E-value=55 Score=31.65 Aligned_cols=18 Identities=17% Similarity=0.080 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 040244 8 ILVAFFVFLMGTEAVLAA 25 (381)
Q Consensus 8 ~lva~~~ll~~~~~~~~~ 25 (381)
||+||.+||+++.+++--
T Consensus 18 iaI~IV~lLIiiva~~lf 35 (217)
T PF07423_consen 18 IAIGIVSLLIIIVAYQLF 35 (217)
T ss_pred HHHHHHHHHHHHHhhhhe
Confidence 356666666666665553
No 20
>PF06394 Pepsin-I3: Pepsin inhibitor-3-like repeated domain; InterPro: IPR010480 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The members of this group of proteins belong to MEROPS inhibitor family I33, clan IR; the nematode aspartyl protease inhibitors or Aspins. They are restricted to parasitic nematode species. Structural features common to the nematode Aspins include the presence of a signal peptide sequence and the conservation of all four cysteine residues in the mature protein. The Y[V.A]RDLT sequence motif has been suggested as being of crucial functional importance in several filarial nematode inhibitors [], this sequence is not conserved in Tco-API-1 from Trichostrongylus colubriformis (Black scour worm) and it has been demonstrated that Tco-API-1, is not an Aspin as it does not inhibit porcine pepsin []. Related inhibitors from Onchocerca volvulus, Ov33 [] and Ascaris suum (Pig roundworm), PI-3 [] inhibit the in vitro activity of aspartyl proteases such as pepsin and cathepsin E (MEROPS peptidase family A1). Aspin may facilitate the safe passage of the eggs of Ascaris through the host stomach without digestion by pepsin [, ]. The other parasitic nematodes known to express homologous proteins do not pass through the stomach of their hosts []. Several proteins in the family are potent allergens in mammals. The three-dimensional structures of pepsin inhibitor-3 (PI-3) from A. suum and of the complex between PI-3 and porcine pepsin at 1. 75 A and 2.45 A resolution, respectively, have revealed the mechanism of aspartic protease inhibition. PI-3 has a new fold consisting of two identical domains, each comprising an antiparallel beta-sheet flanked by an alpha-helix. In the enzyme-inhibitor complex, the N-terminal beta-strand of PI-3 pairs with one strand of the 'active site flap' (residues 70-82) of pepsin, thus forming an eight-stranded beta-sheet that spans the two proteins. PI-3 has a novel mode of inhibition, using its N-terminal residues to occupy and therefore block the first three binding pockets in pepsin for substrate residues C-terminal to the scissile bond (S1'-S3') [].; PDB: 1F32_A 1F34_B.
Probab=35.81 E-value=18 Score=29.90 Aligned_cols=31 Identities=29% Similarity=0.511 Sum_probs=23.9
Q ss_pred ccCCceEEEeecCCCceEEeecCCceeeeEEeeeCCCCCCCCcee
Q 040244 162 GGDGVMFYFHGAKGGNFAIVSDDNLQINAHFIGTRPEGRTRDYTW 206 (381)
Q Consensus 162 GGDG~~FYFHGkkd~dFciVSD~~LhINAHFIG~r~~g~~RDfTW 206 (381)
+.|-++|+|-| |+|.|.-|-||.+|| ||.||
T Consensus 12 ~~~t~~~~~~G------C~V~~nklyvng~~~--------R~Lt~ 42 (76)
T PF06394_consen 12 INDTTQYGFDG------CVVQNNKLYVNGKYA--------RDLTP 42 (76)
T ss_dssp -TT-EEEEETT------EEEETTEEEETTCEE--------EE--H
T ss_pred cccceeEeeee------eEEECCEEEECCEee--------ccCCH
Confidence 45677899977 999999999999999 66666
No 21
>cd05479 RP_DDI RP_DDI; retropepsin-like domain of DNA damage inducible protein. The family represents the retropepsin-like domain of DNA damage inducible protein. DNA damage inducible protein has a retropepsin-like domain and an amino-terminal ubiquitin-like domain and/or a UBA (ubiquitin-associated) domain. This CD represents the retropepsin-like domain of DDI.
Probab=32.95 E-value=97 Score=26.24 Aligned_cols=33 Identities=15% Similarity=0.206 Sum_probs=19.4
Q ss_pred eeEEEECCeeeecC--CCCCceeEeCCCCCCeEEE
Q 040244 235 ALSIRLNGEAVDIP--TGGDAEWKTNADERQVLVE 267 (381)
Q Consensus 235 ~l~vt~dGe~v~ip--~~~~a~W~s~~~~~~l~V~ 267 (381)
.+.+++||.++..= +|....+-|......+.+.
T Consensus 18 ~v~~~Ing~~~~~LvDTGAs~s~Is~~~a~~lgl~ 52 (124)
T cd05479 18 YINVEINGVPVKAFVDSGAQMTIMSKACAEKCGLM 52 (124)
T ss_pred EEEEEECCEEEEEEEeCCCceEEeCHHHHHHcCCc
Confidence 34678999998854 5555556654333334443
No 22
>PRK08944 motB flagellar motor protein MotB; Reviewed
Probab=32.69 E-value=27 Score=34.71 Aligned_cols=14 Identities=36% Similarity=0.797 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHH
Q 040244 8 ILVAFFVFLMGTEA 21 (381)
Q Consensus 8 ~lva~~~ll~~~~~ 21 (381)
+|.||||||++++.
T Consensus 27 LLm~FFVlL~S~S~ 40 (302)
T PRK08944 27 LLMCFFVLLLSFSE 40 (302)
T ss_pred HHHHHHHHHHHHhh
Confidence 38999999999875
No 23
>PF05984 Cytomega_UL20A: Cytomegalovirus UL20A protein; InterPro: IPR009245 This family consists of several Cytomegalovirus UL20A proteins. UL20A is thought to be a glycoprotein [].
Probab=32.56 E-value=1.1e+02 Score=26.49 Aligned_cols=15 Identities=40% Similarity=0.264 Sum_probs=9.2
Q ss_pred CCCCcchHHHHHHHHH
Q 040244 1 MASRKSYILVAFFVFL 16 (381)
Q Consensus 1 m~~rk~~~lva~~~ll 16 (381)
|+||-|+ |--|+|-|
T Consensus 1 MaRRlwi-LslLAVtL 15 (100)
T PF05984_consen 1 MARRLWI-LSLLAVTL 15 (100)
T ss_pred CchhhHH-HHHHHHHH
Confidence 8888887 44444433
No 24
>COG2013 Uncharacterized conserved protein [Function unknown]
Probab=32.36 E-value=3.1e+02 Score=26.60 Aligned_cols=76 Identities=16% Similarity=0.239 Sum_probs=50.4
Q ss_pred EEeecCCceeeeEEeeeCCCCCCC-CceeEEEEEEeecCeEEEEeeecccccCCCCCeeEEEEC-CeeeecCCCCCceeE
Q 040244 179 AIVSDDNLQINAHFIGTRPEGRTR-DYTWVQALAVMFDTHTLVIAANRVMHWDDNVDALSIRLN-GEAVDIPTGGDAEWK 256 (381)
Q Consensus 179 ciVSD~~LhINAHFIG~r~~g~~R-DfTWIQALGI~F~~H~l~i~A~k~a~Wd~~vD~l~vt~d-Ge~v~ip~~~~a~W~ 256 (381)
-|.+|.+++|.+||.+.. ..... -+.|++.-| .=.++|.+. .+-.+++++ ||++.+.++...-|+
T Consensus 107 FLA~~~~v~~~~~~~~~~-~~~~geGlf~~kl~G----~G~v~l~s~--------G~~~~~~l~~ge~~~VD~~~~VA~~ 173 (227)
T COG2013 107 FLAAEGGVDYGVEFQGGL-GLFGGEGLFLLKLEG----TGTVFLSSY--------GDPVEVELDPGETVTVDPGHVVAFS 173 (227)
T ss_pred EEEecCCceEEEEECccc-ceecCCceEEEEEEe----eeEEEEECC--------CCeEEEEcCCCceEEEcCCcEEEEc
Confidence 367889999999998753 11111 144433222 335667776 888999999 679999888888898
Q ss_pred eCCCCCCeEEEEec
Q 040244 257 TNADERQVLVERTD 270 (381)
Q Consensus 257 s~~~~~~l~V~Rt~ 270 (381)
.. =+.+|+|..
T Consensus 174 ~~---l~~~v~~~~ 184 (227)
T COG2013 174 DS---LDYSVEKVG 184 (227)
T ss_pred CC---ccEEEEEcc
Confidence 53 245666543
No 25
>cd05483 retropepsin_like_bacteria Bacterial aspartate proteases, retropepsin-like protease family. This family of bacteria aspartate proteases is a subfamily of retropepsin-like protease family, which includes enzymes from retrovirus and retrotransposons. While fungal and mammalian pepsin-like aspartate proteases are bilobal proteins with structurally related N- and C-termini, this family of bacteria aspartate proteases is half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate proteases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.
Probab=31.70 E-value=63 Score=24.44 Aligned_cols=22 Identities=23% Similarity=0.448 Sum_probs=14.6
Q ss_pred eEEEECCeeeecC--CCCCceeEe
Q 040244 236 LSIRLNGEAVDIP--TGGDAEWKT 257 (381)
Q Consensus 236 l~vt~dGe~v~ip--~~~~a~W~s 257 (381)
+.+++||.++.+= ++....|-+
T Consensus 5 v~v~i~~~~~~~llDTGa~~s~i~ 28 (96)
T cd05483 5 VPVTINGQPVRFLLDTGASTTVIS 28 (96)
T ss_pred EEEEECCEEEEEEEECCCCcEEcC
Confidence 5788899988855 444445554
No 26
>PF09087 Cyc-maltodext_N: Cyclomaltodextrinase, N-terminal; InterPro: IPR015171 This domain is found at the N terminus of cyclomaltodextrinase. The domain assumes a beta-sandwich structure composed of the eight antiparallel beta-strands. A ten residue linker is also present at the C-terminal end, which connects the N-terminal domain to a distal domain in the protein. This domain participates in oligomerisation of the protein, wherein the N-terminal domain of one subunit contacts the active centre of the other subunit, and is also required for binding of cyclodextrin to substrate []. ; PDB: 3EDK_B 3EDD_A 3EDJ_B 3EDE_A 1H3G_B 3EDF_B.
Probab=29.61 E-value=63 Score=27.24 Aligned_cols=39 Identities=26% Similarity=0.280 Sum_probs=24.3
Q ss_pred CeeEEEECCeeeecCCCCCceeEeCCCCCCeE---EEEecCCCeEEEEE
Q 040244 234 DALSIRLNGEAVDIPTGGDAEWKTNADERQVL---VERTDDTNNVRVKV 279 (381)
Q Consensus 234 D~l~vt~dGe~v~ip~~~~a~W~s~~~~~~l~---V~Rt~~~N~V~V~l 279 (381)
..|+|-+=|+.|.- ++++.. .|+|+ |+|+++.|++.|.|
T Consensus 14 ~~LQLmvyG~nI~~-----~~v~i~--~~gV~i~~v~~~~npNYLFv~L 55 (88)
T PF09087_consen 14 PELQLMVYGKNIAS-----AEVSIS--YPGVTIKKVVKTDNPNYLFVYL 55 (88)
T ss_dssp -EEEEEEESTTGGG-----SEEEE---BTTEEEEEEEE-SSTTEEEEEE
T ss_pred CcEEEEEecCCccc-----CEEEEe--CCCeEEEEEEecCCCCEEEEEE
Confidence 34666666665542 455542 25555 58999999999998
No 27
>COG3111 Periplasmic protein with OB-fold [Function unknown]
Probab=29.14 E-value=97 Score=28.18 Aligned_cols=23 Identities=22% Similarity=0.336 Sum_probs=11.4
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCC
Q 040244 7 YILVAFFVFLMGTEAVLAANNGNNS 31 (381)
Q Consensus 7 ~~lva~~~ll~~~~~~~~~g~g~~~ 31 (381)
.+++|++.|.+.. ++|.+|||..
T Consensus 4 ~~ia~~~~L~s~~--alA~~qggf~ 26 (128)
T COG3111 4 QAIAALIALVSTP--ALAADQGGFK 26 (128)
T ss_pred HHHHHHHHHhhhH--HHhhhhcccc
Confidence 3455555555444 4454454444
No 28
>PF13677 MotB_plug: Membrane MotB of proton-channel complex MotA/MotB
Probab=28.89 E-value=45 Score=25.66 Aligned_cols=15 Identities=47% Similarity=0.899 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHH
Q 040244 8 ILVAFFVFLMGTEAV 22 (381)
Q Consensus 8 ~lva~~~ll~~~~~~ 22 (381)
+|.+|||+|.+++..
T Consensus 27 LLl~fFVlL~s~s~~ 41 (58)
T PF13677_consen 27 LLLAFFVLLFSMSSV 41 (58)
T ss_pred HHHHHHHHHHHHHhC
Confidence 388999999998763
No 29
>smart00159 PTX Pentraxin / C-reactive protein / pentaxin family. This family form a doscoid pentameric structure. Human serum amyloid P demonstrates calcium-mediated ligand-binding.
Probab=28.64 E-value=4.6e+02 Score=24.03 Aligned_cols=107 Identities=14% Similarity=0.273 Sum_probs=63.2
Q ss_pred ccCCceEEEeecCCCceEEeecCCc-eeeeEEeee--CCCCCCCCceeEEEEEEeec--CeEEEEeeecccccCCCCCee
Q 040244 162 GGDGVMFYFHGAKGGNFAIVSDDNL-QINAHFIGT--RPEGRTRDYTWVQALAVMFD--THTLVIAANRVMHWDDNVDAL 236 (381)
Q Consensus 162 GGDG~~FYFHGkkd~dFciVSD~~L-hINAHFIG~--r~~g~~RDfTWIQALGI~F~--~H~l~i~A~k~a~Wd~~vD~l 236 (381)
..++.+|.|--+.+.+|.-+...-. .+++=-|-. |.....++.| .++..-. +-.|.+-. ...-++
T Consensus 3 ~~~~~~~~fp~~s~~~yv~l~~~~~~~l~~fTvc~W~k~~~~~~~~~---ifSy~~~~~~ne~~~~~-------~~~~~~ 72 (206)
T smart00159 3 DLTGKVFVFPKESDTSYVKLKPELPKPLQAFTVCLWFYSDLSPRGYS---LFSYATKGQDNELLLYK-------EKQGEY 72 (206)
T ss_pred CcCCcEEECCCCCCCCeEEEccCCCCChhHEEEEEEEEecCCCCceE---EEEEeCCCCCCeEEEEE-------cCCcEE
Confidence 3578899999999999999866522 122211211 1111112222 1111111 12222221 123478
Q ss_pred EEEECCeeeecCC-CCCceeEeCCCCCCeEEEEecCCCeEEEEECCeEE
Q 040244 237 SIRLNGEAVDIPT-GGDAEWKTNADERQVLVERTDDTNNVRVKVAGLVE 284 (381)
Q Consensus 237 ~vt~dGe~v~ip~-~~~a~W~s~~~~~~l~V~Rt~~~N~V~V~l~g~~~ 284 (381)
.|.++|+.+..+. -...+|+. |.|+....+..+.|=+.|...
T Consensus 73 ~l~i~g~~~~~~~~~~~g~W~h------vc~tw~~~~g~~~lyvnG~~~ 115 (206)
T smart00159 73 SLYIGGKKVQFPVPESDGKWHH------ICTTWESSSGIAELWVDGKPG 115 (206)
T ss_pred EEEEcCeEEEecccccCCceEE------EEEEEECCCCcEEEEECCEEc
Confidence 8999999998873 34458996 889998888888888888764
No 30
>PRK08457 motB flagellar motor protein MotB; Reviewed
Probab=28.47 E-value=36 Score=32.80 Aligned_cols=14 Identities=36% Similarity=0.645 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHH
Q 040244 8 ILVAFFVFLMGTEA 21 (381)
Q Consensus 8 ~lva~~~ll~~~~~ 21 (381)
+|.+|||||++|+.
T Consensus 26 LLL~FFVlL~smS~ 39 (257)
T PRK08457 26 LLLALFIALYAISA 39 (257)
T ss_pred HHHHHHHHHHHHHh
Confidence 38999999999986
No 31
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=28.41 E-value=37 Score=27.30 Aligned_cols=19 Identities=26% Similarity=0.749 Sum_probs=15.2
Q ss_pred CeeEEEECCeeeecCCCCC
Q 040244 234 DALSIRLNGEAVDIPTGGD 252 (381)
Q Consensus 234 D~l~vt~dGe~v~ip~~~~ 252 (381)
+.++|+|||+++..+++..
T Consensus 2 ~~v~i~idG~~v~~~~G~t 20 (82)
T PF13510_consen 2 KMVTITIDGKPVEVPPGET 20 (82)
T ss_dssp EEEEEEETTEEEEEEET-B
T ss_pred CEEEEEECCEEEEEcCCCH
Confidence 4689999999999987543
No 32
>PRK06667 motB flagellar motor protein MotB; Validated
Probab=27.56 E-value=36 Score=32.52 Aligned_cols=14 Identities=43% Similarity=0.850 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHH
Q 040244 8 ILVAFFVFLMGTEA 21 (381)
Q Consensus 8 ~lva~~~ll~~~~~ 21 (381)
+|.||||||++|+.
T Consensus 28 LLL~FFVlL~smS~ 41 (252)
T PRK06667 28 LLLCFFVMLFTTND 41 (252)
T ss_pred HHHHHHHHHHHhhh
Confidence 38999999999985
No 33
>PF05720 Dicty_CAD: Cell-cell adhesion domain; InterPro: IPR008601 This family is based on a group of Dictyostelium discoideum (Slime mould) proteins that are essential in early development []. P16642 from SWISSPROT and P16643 from SWISSPROT are located on the cell surface and mediate cell-cell adhesion.; GO: 0007155 cell adhesion
Probab=26.39 E-value=1e+02 Score=26.15 Aligned_cols=44 Identities=23% Similarity=0.517 Sum_probs=31.8
Q ss_pred EEEeecCeEEEEeeecccccCCCC---CeeEEEECCeeeecCCCCCceeEeC
Q 040244 210 LAVMFDTHTLVIAANRVMHWDDNV---DALSIRLNGEAVDIPTGGDAEWKTN 258 (381)
Q Consensus 210 LGI~F~~H~l~i~A~k~a~Wd~~v---D~l~vt~dGe~v~ip~~~~a~W~s~ 258 (381)
+.|+| +...++- .-|+.+. ..-.|.+||+..+||.+.+..|+..
T Consensus 27 ~~~rf--~~ykteG---plw~~~~F~v~S~kiE~~Gq~ydiPss~~~~~~~~ 73 (82)
T PF05720_consen 27 YFIRF--IQYKTEG---PLWNNNEFKVNSGKIERNGQEYDIPSSRGSSWRDD 73 (82)
T ss_pred eEEEE--EEeEecc---CcccccceEeeeeeEEECCEEeeCCcccCceeecc
Confidence 45666 3344443 2587654 5668999999999999999999853
No 34
>PRK13128 D-aminopeptidase; Reviewed
Probab=26.34 E-value=1.2e+02 Score=32.42 Aligned_cols=72 Identities=19% Similarity=0.210 Sum_probs=39.0
Q ss_pred eEEEEecCCCeEEEEECCeEEEEEEEeeCcccc--CcccccCCCCcccccceecceeeecCCccccccccee--ecCCCc
Q 040244 264 VLVERTDDTNNVRVKVAGLVELHIKVSPIGKEE--NKVHNYQLPDDDAFAHLETQFKFTNLSDLVEGVLGKT--YRPYYV 339 (381)
Q Consensus 264 l~V~Rt~~~N~V~V~l~g~~~I~~~VVPit~eD--sriHnYgv~~dD~faHLdl~FKF~~LTd~V~GVLGQT--YRpdyv 339 (381)
++++|.++.=.++..-+++......+.++.+.| +|.|.=.+ =|||.+.-.=-.|.-..||+||+- ||=.|+
T Consensus 393 ~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-----~~~~~~~~~~~~~~~~~~g~~g~~~~~~~~~~ 467 (518)
T PRK13128 393 TTLRRDGDMIHLARKDENLTLAMHRLKGEARQDIAGRYRSDEL-----EADLLIVSEGGAIYGAFEGFLGKSDMYPLYAA 467 (518)
T ss_pred eEEEecCCeEEEeecCCCceeEEEecCCccchhhcceeeehhc-----cceEEEEecCCEEEEEEeeeccCCCccccccc
Confidence 455555433333333334444445556666556 55565433 244444444445566789999986 665555
Q ss_pred c
Q 040244 340 S 340 (381)
Q Consensus 340 n 340 (381)
-
T Consensus 468 ~ 468 (518)
T PRK13128 468 G 468 (518)
T ss_pred c
Confidence 3
No 35
>PRK10340 ebgA cryptic beta-D-galactosidase subunit alpha; Reviewed
Probab=24.31 E-value=1.6e+02 Score=34.02 Aligned_cols=122 Identities=16% Similarity=0.184 Sum_probs=70.8
Q ss_pred ceEEeecCCceeeeEEeeeCCCCCCCCcee-EEEEEEeec--------------CeEEEE---eeecccccCCCCCeeEE
Q 040244 177 NFAIVSDDNLQINAHFIGTRPEGRTRDYTW-VQALAVMFD--------------THTLVI---AANRVMHWDDNVDALSI 238 (381)
Q Consensus 177 dFciVSD~~LhINAHFIG~r~~g~~RDfTW-IQALGI~F~--------------~H~l~i---~A~k~a~Wd~~vD~l~v 238 (381)
.|.|-.|-.+.|+++|.... +... +=-||++|. -|.=|. .+.....|..+||.+-+
T Consensus 825 ~y~i~~~G~i~v~~~~~~~~------~~p~~lPRiG~~~~lp~~~~~v~wyGrGP~EnY~DRk~sa~~G~y~~~V~~~~~ 898 (1021)
T PRK10340 825 IYRIAADGQVNVALSGERYG------DYPHMIPCIGFTMGINGEYDQVAYYGRGPGENYADSQQANLIDIYRSTVDAMFE 898 (1021)
T ss_pred EEEEcCCCEEEEEEEEEECC------CCCccccceEEEEEcCccccccEEECCCCCCCchhhhhhcceeeecCcHHHhcC
Confidence 46777888999999986432 2222 345677662 122222 23445567777777654
Q ss_pred EECCeeeecCCCCCceeEeCCCCCCeEEEEecCCCeEEEEECCeEEEEEEEeeCcccc--CcccccCCCCcc-cccceec
Q 040244 239 RLNGEAVDIPTGGDAEWKTNADERQVLVERTDDTNNVRVKVAGLVELHIKVSPIGKEE--NKVHNYQLPDDD-AFAHLET 315 (381)
Q Consensus 239 t~dGe~v~ip~~~~a~W~s~~~~~~l~V~Rt~~~N~V~V~l~g~~~I~~~VVPit~eD--sriHnYgv~~dD-~faHLdl 315 (381)
-| ..|.+.|.+..- .-|+++ .+...++.|+-... +..+|-|-+.|| ..-|.|+|+.+| ...|||.
T Consensus 899 pY-----i~PQEnGnr~dv----rw~~l~-~~~g~gl~v~~~~~--~~fsa~~ys~~~L~~a~H~~eL~~~~~~~l~iD~ 966 (1021)
T PRK10340 899 NY-----PFPQNNGNRQHV----RWTALT-NRHGNGLLVVPQRP--INFSAWHYTQENIHAAQHTNELQKSDYITLNLDH 966 (1021)
T ss_pred CC-----CCccCCCCccce----EEEEEE-CCCCCEEEEEeCCC--cEEEccCCCHHHHHhCcCHhhCCCCCCEEEEEcc
Confidence 44 578776664221 112332 12344566654343 577888888887 556999997554 4556654
Q ss_pred c
Q 040244 316 Q 316 (381)
Q Consensus 316 ~ 316 (381)
.
T Consensus 967 ~ 967 (1021)
T PRK10340 967 Q 967 (1021)
T ss_pred c
Confidence 3
No 36
>PRK06742 flagellar motor protein MotS; Reviewed
Probab=24.20 E-value=47 Score=31.44 Aligned_cols=14 Identities=43% Similarity=0.880 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHH
Q 040244 8 ILVAFFVFLMGTEA 21 (381)
Q Consensus 8 ~lva~~~ll~~~~~ 21 (381)
+|.+|||||++|+.
T Consensus 22 LLL~FFVlL~s~S~ 35 (225)
T PRK06742 22 LLLTFFVLLVATSK 35 (225)
T ss_pred HHHHHHHHHHHHhh
Confidence 38999999999985
No 37
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=23.80 E-value=1.1e+02 Score=26.05 Aligned_cols=25 Identities=24% Similarity=0.462 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCCC
Q 040244 8 ILVAFFVFLMGTEAVLAANNGNNSN 32 (381)
Q Consensus 8 ~lva~~~ll~~~~~~~~~g~g~~~~ 32 (381)
|||+|.+.+|++-.-|-..+|+++.
T Consensus 30 ILivLVIIiLlImlfqsSS~~~~s~ 54 (85)
T PF10717_consen 30 ILIVLVIIILLIMLFQSSSNGNSSS 54 (85)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCCC
Confidence 5777777777776666655554443
No 38
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=22.94 E-value=76 Score=23.82 Aligned_cols=16 Identities=44% Similarity=0.924 Sum_probs=13.5
Q ss_pred eEEEECCeeeecCCCC
Q 040244 236 LSIRLNGEAVDIPTGG 251 (381)
Q Consensus 236 l~vt~dGe~v~ip~~~ 251 (381)
++|++||+++.+|++.
T Consensus 1 m~i~vNG~~~~~~~~~ 16 (66)
T PRK05659 1 MNIQLNGEPRELPDGE 16 (66)
T ss_pred CEEEECCeEEEcCCCC
Confidence 4799999999998753
No 39
>PF00394 Cu-oxidase: Multicopper oxidase; InterPro: IPR001117 Copper is one of the most prevalent transition metals in living organisms and its biological function is intimately related to its redox properties. Since free copper is toxic, even at very low concentrations, its homeostasis in living organisms is tightly controlled by subtle molecular mechanisms. In eukaryotes, before being transported inside the cell via the high-affinity copper transporters of the CTR family, the copper (II) ion is reduced to copper (I). In blue copper proteins such as cupredoxin, the copper (I) ion form is stabilised by a constrained His2Cys coordination environment. Multicopper oxidases oxidise their substrate by accepting electrons at a mononuclear copper centre and transferring them to a trinuclear copper centre; dioxygen binds to the trinuclear centre and, following the transfer of four electrons, is reduced to two molecules of water []. There are three spectroscopically different copper centres found in multicopper oxidases: type 1 (or blue), type 2 (or normal) and type 3 (or coupled binuclear) [, ]. Multicopper oxidases consist of 2, 3 or 6 of these homologous domains, which also share homology to the cupredoxins azurin and plastocyanin. Structurally, these domains consist of a cupredoxin-like fold, a beta-sandwich consisting of 7 strands in 2 beta-sheets, arranged in a Greek-key beta-barrel []. Multicopper oxidases include: Ceruloplasmin (1.16.3.1 from EC) (ferroxidase), a 6-domain enzyme found in the serum of mammals and birds that oxidizes different inorganic and organic substances; exhibits internal sequence homology that appears to have evolved from the triplication of a Cu-binding domain similar to that of laccase and ascorbate oxidase. Laccase (1.10.3.2 from EC) (urishiol oxidase), a 3-domain enzyme found in fungi and plants, which oxidizes different phenols and diamines. CueO is a laccase found in Escherichia coli that is involved in copper-resistance []. Ascorbate oxidase (1.10.3.3 from EC), a 3-domain enzyme found in higher plants. Nitrite reductase (1.7.2.1 from EC), a 2-domain enzyme containing type-1 and type-2 copper centres [, ]. In addition to the above enzymes there are a number of other proteins that are similar to the multi-copper oxidases in terms of structure and sequence, some of which have lost the ability to bind copper. These include: copper resistance protein A (copA) from a plasmid in Pseudomonas syringae; domain A of (non-copper binding) blood coagulation factors V (Fa V) and VIII (Fa VIII) []; yeast FET3 required for ferrous iron uptake []; yeast hypothetical protein YFL041w; and the fission yeast homologue SpAC1F7.08. This entry represents multicopper oxidase type 1 (blue) domains. These domains are also present in proteins that have lost the ability to bind copper.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1RZP_A 2AVF_D 1NIA_A 1KCB_A 2NRD_A 1NIB_A 2BW4_A 1RZQ_C 2BWD_A 2BWI_A ....
Probab=22.92 E-value=3.3e+02 Score=23.73 Aligned_cols=51 Identities=24% Similarity=0.303 Sum_probs=27.4
Q ss_pred EEEeecCeEEEEeeecccccCCCCCeeEEEECCeeeecCCCCCceeEeCCCCCCeEEEEecCCCeEEEEE---CCeEEEE
Q 040244 210 LAVMFDTHTLVIAANRVMHWDDNVDALSIRLNGEAVDIPTGGDAEWKTNADERQVLVERTDDTNNVRVKV---AGLVELH 286 (381)
Q Consensus 210 LGI~F~~H~l~i~A~k~a~Wd~~vD~l~vt~dGe~v~ip~~~~a~W~s~~~~~~l~V~Rt~~~N~V~V~l---~g~~~I~ 286 (381)
+-+.+++|+|+|=|. ||.+|. |.....-+-+++ +|.+ |.|+. .|.+.|.
T Consensus 83 ~~~~i~gh~~~Via~----------------DG~~v~-p~~~~~l~l~~G-------~R~d----vlv~~~~~~g~y~i~ 134 (159)
T PF00394_consen 83 FNFSIDGHPMTVIAA----------------DGVPVE-PYKVDTLVLAPG-------QRYD----VLVTADQPPGNYWIR 134 (159)
T ss_dssp EEEEETTBCEEEEEE----------------TTEEEE-EEEESBEEE-TT-------EEEE----EEEEECSCSSEEEEE
T ss_pred EEEEeeccceeEeee----------------cccccc-ccccceEEeeCC-------eEEE----EEEEeCCCCCeEEEE
Confidence 334557888777554 888877 543333333322 3332 44444 3677777
Q ss_pred EE
Q 040244 287 IK 288 (381)
Q Consensus 287 ~~ 288 (381)
+.
T Consensus 135 ~~ 136 (159)
T PF00394_consen 135 AS 136 (159)
T ss_dssp EE
T ss_pred Ee
Confidence 66
No 40
>PRK15172 putative aldose-1-epimerase; Provisional
Probab=22.69 E-value=6e+02 Score=24.71 Aligned_cols=77 Identities=16% Similarity=0.314 Sum_probs=46.7
Q ss_pred ccccCCCCCeeEEEECCeeeecCCCC------------CceeEeCC-CCCCeEEEEecCCC---------eEEEEEC--C
Q 040244 226 VMHWDDNVDALSIRLNGEAVDIPTGG------------DAEWKTNA-DERQVLVERTDDTN---------NVRVKVA--G 281 (381)
Q Consensus 226 ~a~Wd~~vD~l~vt~dGe~v~ip~~~------------~a~W~s~~-~~~~l~V~Rt~~~N---------~V~V~l~--g 281 (381)
..-|-.-+..-+++|||+...||..+ ...|+-.. .+..++++...... .|+.+|. +
T Consensus 59 L~P~anRI~~g~f~~~G~~y~L~~N~~~~~~~lHG~~~~~~W~v~~~~~~~v~l~~~~~~~~gyP~~~~~~v~y~L~~~~ 138 (300)
T PRK15172 59 LIPWPNRIANGCYRYQGQEYQLPINEHVSKAAIHGLLAWRDWQISELTATSVTLTAFLPPSYGYPFMLASQVIYSLDAAT 138 (300)
T ss_pred ecccCCeecCCEEEECCEEEECCCCCCCCCcccCCCccCceEEEEEecCCEEEEEEEcCCCCCCCEEEEEEEEEEEccCC
Confidence 44455556666788888888887432 22476311 12345554443221 3667775 4
Q ss_pred eEEEEEEEeeCccccCcc----ccc
Q 040244 282 LVELHIKVSPIGKEENKV----HNY 302 (381)
Q Consensus 282 ~~~I~~~VVPit~eDsri----HnY 302 (381)
.++|+..|+-..+++-.+ |-|
T Consensus 139 ~L~i~~~~~n~~~~~~P~~~g~HpY 163 (300)
T PRK15172 139 GLSVEIASQNIGDVPAPYGVGIHPY 163 (300)
T ss_pred eEEEEEEEEECCCCceeeEEecCce
Confidence 789999998877777665 888
No 41
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=22.64 E-value=74 Score=23.72 Aligned_cols=15 Identities=33% Similarity=0.826 Sum_probs=13.1
Q ss_pred eEEEECCeeeecCCC
Q 040244 236 LSIRLNGEAVDIPTG 250 (381)
Q Consensus 236 l~vt~dGe~v~ip~~ 250 (381)
++|++||+++.+|++
T Consensus 1 m~i~vNg~~~~~~~~ 15 (65)
T PRK06944 1 MDIQLNQQTLSLPDG 15 (65)
T ss_pred CEEEECCEEEECCCC
Confidence 479999999999875
No 42
>PF00054 Laminin_G_1: Laminin G domain; InterPro: IPR012679 Laminins are large heterotrimeric glycoproteins involved in basement membrane function []. The laminin globular (G) domain can be found in one to several copies in various laminin family members, which includes a large number of extracellular proteins. The C terminus of laminin alpha chain contains a tandem repeat of five laminin G domains, which are critical for heparin-binding and cell attachment activity []. Laminin alpha4 is distributed in a variety of tissues including peripheral nerves, dorsal root ganglion, skeletal muscle and capillaries; in the neuromuscular junction, it is required for synaptic specialisation []. The structure of the laminin-G domain has been predicted to resemble that of pentraxin []. Laminin G domains can vary in their function, and a variety of binding functions has been ascribed to different LamG modules. For example, the laminin alpha1 and alpha2 chains each has five C-teminal laminin G domains, where only domains LG4 and LG5 contain binding sites for heparin, sulphatides and the cell surface receptor dystroglycan []. Laminin G-containing proteins appear to have a wide variety of roles in cell adhesion, signalling, migration, assembly and differentiation. This entry represents one subtype of laminin G domains, which is sometimes found in association with thrombospondin-type laminin G domains (IPR012680 from INTERPRO).; PDB: 1OKQ_A 1DYK_A 2C5D_A 1H30_A 1LHW_A 1KDK_A 1LHU_A 1KDM_A 1LHO_A 1D2S_A ....
Probab=22.36 E-value=4.7e+02 Score=21.94 Aligned_cols=45 Identities=29% Similarity=0.399 Sum_probs=28.8
Q ss_pred CCeeEEEECC--eeeec--C-CCCCceeEeCCCCCCeEEEEecCCCeEEEEECCeEEE
Q 040244 233 VDALSIRLNG--EAVDI--P-TGGDAEWKTNADERQVLVERTDDTNNVRVKVAGLVEL 285 (381)
Q Consensus 233 vD~l~vt~dG--e~v~i--p-~~~~a~W~s~~~~~~l~V~Rt~~~N~V~V~l~g~~~I 285 (381)
.-+|++.||. .++.+ + .-..-+|+. |+++|+. ..+.++|++...+
T Consensus 28 ~G~l~~~~~~G~~~~~~~~~~~i~dg~wh~------v~~~r~~--~~~~L~Vd~~~~~ 77 (131)
T PF00054_consen 28 DGRLEFRYNLGSGPASLRSPQKINDGKWHT------VSVSRNG--RNGSLSVDGEEVV 77 (131)
T ss_dssp TTEEEEEEESSSEEEEEEESSETTSSSEEE------EEEEEET--TEEEEEETTSEEE
T ss_pred CCEEEEEEeCCCccceecCCCccCCCcceE------EEEEEcC--cEEEEEECCccce
Confidence 4455566552 22322 2 123448996 9999985 8999999887763
No 43
>PRK10053 hypothetical protein; Provisional
Probab=22.21 E-value=1.1e+02 Score=27.57 Aligned_cols=11 Identities=27% Similarity=0.389 Sum_probs=5.4
Q ss_pred HHHHHHhccCC
Q 040244 19 TEAVLAANNGN 29 (381)
Q Consensus 19 ~~~~~~~g~g~ 29 (381)
.++++|+.+||
T Consensus 14 s~~~~A~~~gG 24 (130)
T PRK10053 14 MPYALADDQGG 24 (130)
T ss_pred HHHHHHHhcCC
Confidence 45555544443
No 44
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=21.83 E-value=68 Score=37.31 Aligned_cols=42 Identities=29% Similarity=0.529 Sum_probs=0.0
Q ss_pred CCCCCC-CCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCC
Q 040244 37 NDGNGN-KGDDNGNGHNGKGNGNANKGDDSRKGNKDKGNGKGN 78 (381)
Q Consensus 37 g~g~gn-~~~~~g~~~~~~~~~~~~~~~~~~k~~~~k~~~~~~ 78 (381)
++|+|+ .|+....+.+.|+.+++++|+++.+.-+.|++.+++
T Consensus 897 s~g~~~~~~~~~~~~~e~kk~g~~kkKd~kkrkr~~k~~~~e~ 939 (1018)
T KOG2002|consen 897 SGGGGRKRGDDSDSDGERKKGGKRKKKDKKKRKRKPKKDSKEK 939 (1018)
T ss_pred cCCCCCCCCCcCcccchhhccCccccccccccccCCcchhhhc
No 45
>PRK09525 lacZ beta-D-galactosidase; Reviewed
Probab=21.81 E-value=1.6e+02 Score=34.05 Aligned_cols=116 Identities=12% Similarity=0.250 Sum_probs=67.8
Q ss_pred CceEEeecCCceeeeEEeeeCCCCCCCCceeEEEEEEeec-----CeEEEEe------------eecccccCCCCCeeEE
Q 040244 176 GNFAIVSDDNLQINAHFIGTRPEGRTRDYTWVQALAVMFD-----THTLVIA------------ANRVMHWDDNVDALSI 238 (381)
Q Consensus 176 ~dFciVSD~~LhINAHFIG~r~~g~~RDfTWIQALGI~F~-----~H~l~i~------------A~k~a~Wd~~vD~l~v 238 (381)
-.|.|-.|-.+.|+++|.... +...+=-||++|. ++-=+.| +.....|..+||.+-+
T Consensus 858 ~~y~i~~~G~i~v~~~~~~~~------~~p~lPRiG~~~~lp~~~~~v~wyGrGP~EnY~Drk~~a~~G~y~~~V~~~~~ 931 (1027)
T PRK09525 858 KTYRIDGQGEMTIDVDVEVAS------DLPPPARIGLTCQLAQVAERVSWLGLGPHENYPDRLLAACFGRWDLPLSDMHT 931 (1027)
T ss_pred EEEEEeCCCEEEEEEEEEeCC------CCCCCceEEEEEECCccccccEEECCCCCCChhhhhhcCcEeEECCcHHHhCC
Confidence 457777888888888887432 1233455777763 1111222 3345566666766644
Q ss_pred EECCeeeecCCCCCceeEeCCCCCCeEEEEecCCCeEEEEECCeEEEEEEEeeCcccc--CcccccCCCCcc-cccceec
Q 040244 239 RLNGEAVDIPTGGDAEWKTNADERQVLVERTDDTNNVRVKVAGLVELHIKVSPIGKEE--NKVHNYQLPDDD-AFAHLET 315 (381)
Q Consensus 239 t~dGe~v~ip~~~~a~W~s~~~~~~l~V~Rt~~~N~V~V~l~g~~~I~~~VVPit~eD--sriHnYgv~~dD-~faHLdl 315 (381)
|-..|.+.|.+..- .-|++. ++.|+ + .+..+|-|-|.|| ..-|.|.|+.+| ...|||.
T Consensus 932 -----pYv~PQEnGnr~dv----rw~~l~------~l~v~--~--~~~fsa~~yt~~~L~~a~H~~eL~~~~~~~l~iD~ 992 (1027)
T PRK09525 932 -----PYIFPSENGLRCGT----RELNYG------RHQIR--G--DFHFNISRYSQQQLMETSHRHLLQAEEGTWLNIDG 992 (1027)
T ss_pred -----CCCCccCCCCccce----EEEEEc------CeEEE--e--eeeEEecCCCHHHHHhCcCHhhCCCCCCEEEEECc
Confidence 33677766664321 123331 23333 2 3788999999888 666999996554 4666654
Q ss_pred c
Q 040244 316 Q 316 (381)
Q Consensus 316 ~ 316 (381)
.
T Consensus 993 ~ 993 (1027)
T PRK09525 993 F 993 (1027)
T ss_pred c
Confidence 3
No 46
>PF11954 DUF3471: Domain of unknown function (DUF3471); InterPro: IPR021860 This entry represents the C-terminal domain of a family of peptidases which belong to MEROPS peptidase family S12, clan SE. The structure of the Pyrococcus abyssi Pab87 peptidase has been determined at 2.2 A resolution []. Pab87 is a self-compartmentalizing proteases that orchestrates protein turnover through an original architecture characterised by a central catalytic chamber.
Probab=21.43 E-value=4e+02 Score=21.28 Aligned_cols=47 Identities=15% Similarity=0.275 Sum_probs=28.4
Q ss_pred eEEEEeeecccccCCCCCeeEEEECCee-eecCCCCCceeEeCCCCCCeEEEEecC
Q 040244 217 HTLVIAANRVMHWDDNVDALSIRLNGEA-VDIPTGGDAEWKTNADERQVLVERTDD 271 (381)
Q Consensus 217 H~l~i~A~k~a~Wd~~vD~l~vt~dGe~-v~ip~~~~a~W~s~~~~~~l~V~Rt~~ 271 (381)
-.|.|... .++|.+++.|.+ +.|-.-...+|........++-+|.++
T Consensus 28 ~~~~V~~~--------~~~L~~~~~~~~~~~L~~~~~d~F~~~~~~~~i~F~~d~~ 75 (100)
T PF11954_consen 28 GTITVTVE--------DGRLYLQFTGQPMFELFPYSEDTFFFKWSDAQITFERDAD 75 (100)
T ss_pred cEEEEEEE--------CCEEEEEECCCCcEEEEEeeCCEEEEEecCCEEEEEECCC
Confidence 45666665 788999999988 555444455555432233455566543
No 47
>PF13464 DUF4115: Domain of unknown function (DUF4115)
Probab=21.37 E-value=90 Score=24.38 Aligned_cols=18 Identities=28% Similarity=0.503 Sum_probs=15.1
Q ss_pred CCeeEEEECCeeeecCCC
Q 040244 233 VDALSIRLNGEAVDIPTG 250 (381)
Q Consensus 233 vD~l~vt~dGe~v~ip~~ 250 (381)
...++|++||+++.++..
T Consensus 47 a~~v~v~~nG~~~~~~~~ 64 (77)
T PF13464_consen 47 AGAVEVTVNGKPVDLLGP 64 (77)
T ss_pred CCcEEEEECCEECCCCCC
Confidence 567899999999999643
No 48
>PF06439 DUF1080: Domain of Unknown Function (DUF1080); InterPro: IPR010496 This is a family of proteins of unknown function.; PDB: 3IMM_B 3NMB_A 3S5Q_A 3OSD_A 3HBK_A 3H3L_A 3U1X_A.
Probab=20.96 E-value=1.4e+02 Score=25.64 Aligned_cols=24 Identities=21% Similarity=0.309 Sum_probs=19.7
Q ss_pred CeEEEEeeecccccCCCCCeeEEEECCeeeec
Q 040244 216 THTLVIAANRVMHWDDNVDALSIRLNGEAVDI 247 (381)
Q Consensus 216 ~H~l~i~A~k~a~Wd~~vD~l~vt~dGe~v~i 247 (381)
=|++.|.+. .+++++.+||++|.-
T Consensus 129 W~~~~I~~~--------g~~i~v~vnG~~v~~ 152 (185)
T PF06439_consen 129 WNTVRIVVK--------GNRITVWVNGKPVAD 152 (185)
T ss_dssp EEEEEEEEE--------TTEEEEEETTEEEEE
T ss_pred eEEEEEEEE--------CCEEEEEECCEEEEE
Confidence 478888888 888999999997753
No 49
>COG3823 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]
Probab=20.55 E-value=2.4e+02 Score=28.24 Aligned_cols=96 Identities=19% Similarity=0.296 Sum_probs=51.4
Q ss_pred EEeecCeEEEEeee-cccccCC-----CCCeeEEEECCeeeecCCC----CCc----eeEeCCCCCCeEEEEecCCCeEE
Q 040244 211 AVMFDTHTLVIAAN-RVMHWDD-----NVDALSIRLNGEAVDIPTG----GDA----EWKTNADERQVLVERTDDTNNVR 276 (381)
Q Consensus 211 GI~F~~H~l~i~A~-k~a~Wd~-----~vD~l~vt~dGe~v~ip~~----~~a----~W~s~~~~~~l~V~Rt~~~N~V~ 276 (381)
|+..|+.+|.++.- .+-.|.| ..+.+.||+||.||..-.+ .+. .|++. .|-|.+..++=+
T Consensus 135 gLt~d~~~LimsdGsatL~frdP~tfa~~~~v~VT~~g~pv~~LNELE~VdG~lyANVw~t~------~I~rI~p~sGrV 208 (262)
T COG3823 135 GLTSDDKNLIMSDGSATLQFRDPKTFAELDTVQVTDDGVPVSKLNELEWVDGELYANVWQTT------RIARIDPDSGRV 208 (262)
T ss_pred eeecCCcceEeeCCceEEEecCHHHhhhcceEEEEECCeecccccceeeeccEEEEeeeeec------ceEEEcCCCCcE
Confidence 34444556665432 2444544 4588999999999985322 121 57763 577777666655
Q ss_pred EEECCeEEEEEEEeeCccccCcccccCCCCcccccceecceeee
Q 040244 277 VKVAGLVELHIKVSPIGKEENKVHNYQLPDDDAFAHLETQFKFT 320 (381)
Q Consensus 277 V~l~g~~~I~~~VVPit~eDsriHnYgv~~dD~faHLdl~FKF~ 320 (381)
|..-++-.+.-++-+.+..|+-... .||+.-+=+|+
T Consensus 209 ~~widlS~L~~~~~~~~~~~nvlNG--------IA~~~~~~r~~ 244 (262)
T COG3823 209 VAWIDLSGLLKELNLDKSNDNVLNG--------IAHDPQQDRFL 244 (262)
T ss_pred EEEEEccCCchhcCccccccccccc--------eeecCcCCeEE
Confidence 5443333333333333333332222 37776665554
No 50
>PRK07734 motB flagellar motor protein MotB; Reviewed
Probab=20.17 E-value=64 Score=30.96 Aligned_cols=14 Identities=29% Similarity=0.714 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHH
Q 040244 8 ILVAFFVFLMGTEA 21 (381)
Q Consensus 8 ~lva~~~ll~~~~~ 21 (381)
+|.|||+||.+|+.
T Consensus 29 lLlaFFvlL~s~s~ 42 (259)
T PRK07734 29 LLLALFIVLFAMSS 42 (259)
T ss_pred HHHHHHHHHHHHhh
Confidence 38899999999885
Done!