Query 009377
Match_columns 536
No_of_seqs 138 out of 165
Neff 5.0
Searched_HMMs 46136
Date Thu Mar 28 12:22:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009377.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009377hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07899 Frigida: Frigida-like 100.0 3.2E-90 6.9E-95 702.2 30.7 277 107-395 8-288 (290)
2 PF07035 Mic1: Colon cancer-as 94.8 0.12 2.5E-06 49.9 8.1 79 237-319 45-128 (167)
3 KOG1923 Rac1 GTPase effector F 82.5 9.6 0.00021 44.6 10.7 21 412-432 276-296 (830)
4 KOG0921 Dosage compensation co 80.6 2.5 5.4E-05 50.3 5.4 38 350-387 1097-1137(1282)
5 KOG1999 RNA polymerase II tran 78.3 13 0.00027 44.7 10.1 31 457-487 848-879 (1024)
6 TIGR01837 PHA_granule_1 poly(h 78.1 8.3 0.00018 35.1 7.0 85 281-389 22-115 (118)
7 KOG0921 Dosage compensation co 74.1 51 0.0011 39.9 13.4 34 348-385 1091-1125(1282)
8 COG3416 Uncharacterized protei 65.9 33 0.00071 34.7 8.4 14 316-329 7-20 (233)
9 PRK14963 DNA polymerase III su 64.7 2.5E+02 0.0054 31.8 18.1 21 368-388 356-376 (504)
10 PRK14950 DNA polymerase III su 54.4 3.8E+02 0.0083 30.7 17.0 82 232-330 214-295 (585)
11 KOG0994 Extracellular matrix g 51.6 6.1E+02 0.013 32.2 22.9 147 234-392 1471-1634(1758)
12 PRK06771 hypothetical protein; 49.3 23 0.00049 31.4 3.7 38 268-305 37-77 (93)
13 PF09849 DUF2076: Uncharacteri 47.3 68 0.0015 33.1 7.4 17 372-388 57-73 (247)
14 KOG2236 Uncharacterized conser 46.4 1.8E+02 0.0039 32.7 10.8 21 369-389 320-340 (483)
15 COG3937 Uncharacterized conser 45.8 86 0.0019 28.6 6.9 79 280-388 23-101 (108)
16 PF10046 BLOC1_2: Biogenesis o 45.3 1.1E+02 0.0023 26.9 7.4 55 5-59 40-97 (99)
17 KOG4246 Predicted DNA-binding 43.3 27 0.00059 41.5 4.2 42 482-523 23-68 (1194)
18 PRK14952 DNA polymerase III su 42.8 5.9E+02 0.013 29.5 15.3 31 233-263 213-243 (584)
19 PTZ00473 Plasmodium Vir superf 40.5 52 0.0011 36.2 5.6 12 178-189 57-68 (420)
20 KOG2005 26S proteasome regulat 40.4 7.2E+02 0.016 29.7 18.3 73 254-326 268-346 (878)
21 KOG3875 Peroxisomal biogenesis 39.3 1.1E+02 0.0024 32.8 7.6 26 498-524 74-102 (362)
22 PF14726 RTTN_N: Rotatin, an a 37.2 1.1E+02 0.0024 27.2 6.2 46 235-280 28-73 (98)
23 smart00502 BBC B-Box C-termina 36.3 1.6E+02 0.0036 25.2 7.2 54 7-60 14-68 (127)
24 KOG0260 RNA polymerase II, lar 35.9 3.7E+02 0.0081 33.9 11.9 31 51-81 1037-1067(1605)
25 KOG1924 RhoA GTPase effector D 35.7 2E+02 0.0043 34.6 9.4 21 14-34 157-177 (1102)
26 KOG2377 Uncharacterized conser 34.6 38 0.00082 38.1 3.5 40 284-327 575-614 (657)
27 KOG0162 Myosin class I heavy c 34.3 2.7E+02 0.0058 33.4 10.1 14 495-508 1015-1028(1106)
28 PRK05563 DNA polymerase III su 31.3 8.4E+02 0.018 27.9 17.4 66 231-298 212-279 (559)
29 PF06705 SF-assemblin: SF-asse 30.5 4.6E+02 0.01 26.4 10.4 54 110-166 180-235 (247)
30 PF04124 Dor1: Dor1-like famil 29.6 73 0.0016 33.7 4.6 51 282-332 108-159 (338)
31 PHA02086 hypothetical protein 29.2 65 0.0014 27.6 3.2 37 257-294 39-82 (88)
32 KOG4246 Predicted DNA-binding 29.0 76 0.0016 38.0 4.8 34 503-536 92-138 (1194)
33 PF07139 DUF1387: Protein of u 28.7 1.9E+02 0.0041 30.8 7.3 123 12-165 162-285 (302)
34 KOG0162 Myosin class I heavy c 28.6 91 0.002 37.0 5.3 17 210-226 689-710 (1106)
35 cd07597 BAR_SNX8 The Bin/Amphi 28.4 2.3E+02 0.005 28.7 7.8 113 275-387 33-162 (246)
36 PF08427 DUF1741: Domain of un 28.2 3.1E+02 0.0066 28.2 8.5 122 154-307 9-138 (237)
37 PF06825 HSBP1: Heat shock fac 25.8 1.4E+02 0.0031 24.0 4.4 33 32-64 11-43 (54)
38 PF12825 DUF3818: Domain of un 24.8 5.3E+02 0.011 27.9 10.0 77 155-243 126-212 (341)
39 KOG2044 5'-3' exonuclease HKE1 23.8 6.7E+02 0.015 30.4 11.0 16 281-296 676-691 (931)
40 KOG1924 RhoA GTPase effector D 23.7 1.4E+02 0.003 35.8 5.6 13 452-464 609-621 (1102)
41 KOG0260 RNA polymerase II, lar 23.5 6.8E+02 0.015 31.8 11.2 11 349-359 1339-1349(1605)
42 PF08711 Med26: TFIIS helical 23.1 83 0.0018 24.1 2.7 20 207-226 33-52 (53)
43 PRK08311 putative RNA polymera 23.1 2.5E+02 0.0054 28.5 6.8 79 233-325 131-232 (237)
44 PRK08451 DNA polymerase III su 22.5 4.6E+02 0.01 30.1 9.4 37 346-388 318-354 (535)
45 PF05750 Rubella_Capsid: Rubel 22.1 3.1E+02 0.0067 27.5 6.9 9 372-380 9-17 (300)
46 PF08946 Osmo_CC: Osmosensory 21.4 85 0.0018 24.5 2.3 23 36-62 10-32 (46)
47 TIGR00443 hisZ_biosyn_reg ATP 20.9 8.4E+02 0.018 25.3 10.4 66 234-308 127-193 (314)
48 PF12925 APP_E2: E2 domain of 20.9 2.2E+02 0.0047 28.5 5.7 50 8-57 24-85 (193)
49 PHA01750 hypothetical protein 20.7 2.2E+02 0.0048 24.0 4.7 40 342-389 35-74 (75)
50 PTZ00473 Plasmodium Vir superf 20.3 1.3E+02 0.0028 33.2 4.3 18 319-336 173-190 (420)
No 1
>PF07899 Frigida: Frigida-like protein; InterPro: IPR012474 This family is composed of plant proteins that are similar to FRIGIDA protein expressed by Arabidopsis thaliana (Mouse-ear cress) (Q9FDW0 from SWISSPROT). This protein is probably nuclear and is required for the regulation of flowering time in the late-flowering phenotype. It is known to increase RNA levels of flowering locus C. Allelic variation at the FRIGIDA locus is a major determinant of natural variation in flowering time [].
Probab=100.00 E-value=3.2e-90 Score=702.22 Aligned_cols=277 Identities=44% Similarity=0.681 Sum_probs=265.5
Q ss_pred ccCchHHHHHHhhcCChHHHHHHHHhhccchhhHHHHHHHHHHhCCCchHHHHHHHhhhhhhccc---cccccchhhHhH
Q 009377 107 FADLSDTLKSLCRRMDSSGLLKFIISKRKESVSLRTEISRAIWEAVDPSRLVLDAVEEFLAQKRE---KVGVTDKRWACG 183 (536)
Q Consensus 107 ~~~~~~~L~~LCe~MDs~GL~kfv~~~~ke~~~lr~Evp~ALr~ApDPAkLVLdai~~F~~~~~~---k~~l~d~r~aCv 183 (536)
...++++|+.||++||++||++||++|+||+.+||+|||+||++|||||+||||||++||+++.+ +.++.+.||+||
T Consensus 8 ~~~~~~~L~~lC~~MD~~gL~~fv~~~~k~~~~lr~Ev~~AL~~A~DPAkLVLdai~~f~~~~~~~~~~~~~~~~r~~ci 87 (290)
T PF07899_consen 8 EVKPRPELKSLCEKMDGKGLRKFVSENRKELASLREEVPAALRCAPDPAKLVLDAIEGFYPPGSKNKKDSKLVDVRRACI 87 (290)
T ss_pred CcchHHHHHHHHHHCCHHHHHHHHHHhhhhHHHHHHHHHHHHHcCCChHHHHHHHHHcccCCccccccCcchhhHHHHHH
Confidence 33578999999999999999999999999999999999999999999999999999999998753 346788999999
Q ss_pred HHHHHhcccCCCCCCCcccCCCCCCHhHHHHHHHHHHHHHHhc-cCCCCCcHHHHHHHHHHHHhCCCCCCChHHHHHHHH
Q 009377 184 LLVQAIFPEGSGNNGKKAAVGPVHARKVVERAAGVVERWKEDF-RDSELGPAEAVMFLQMVFGFGLSSRFDQDFLRKLVM 262 (536)
Q Consensus 184 lLLE~L~~~~~~~~~~~~~~~P~is~~vkeeAk~lA~~WK~ki-~~~~~~~leA~gFLqlLa~FGI~seFd~dEL~~Lv~ 262 (536)
+|||+|++ .+|.++++||++|++||.+||++| +.++.+++|||||||||++|||+++||.|||++||.
T Consensus 88 lLLE~L~~-----------~~~~is~~vke~A~~lA~~WK~~l~~~~~~~~lea~gFL~lla~fgi~s~Fd~del~~Lv~ 156 (290)
T PF07899_consen 88 LLLEQLMR-----------ISPEISPEVKEEAKKLAEEWKSKLDGVNNENSLEALGFLQLLAAFGIVSEFDEDELLKLVV 156 (290)
T ss_pred HHHHHHhh-----------cCCCCCHHHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHcCCccccCHHHHHHHHH
Confidence 99999985 456899999999999999999999 778889999999999999999999999999999999
Q ss_pred hhhchhhHHHHHHHcCCCcchHHHHHHHHhcCcchHHHHHHHHhcCCCCCCChHHHHHHHHHhHHhhHHHhhcCCCCchh
Q 009377 263 DYASRRDMARLAACLGFGEKMEDIIAELVKSGKEIEAVYFASESGLTEKFPPVSLLKSHLRNSKKNSTSILKNGNHSNSA 342 (536)
Q Consensus 263 ~va~rrqa~eL~~sLGL~~KmpdiI~~LI~kGk~IeAV~fi~aF~L~dkFpPvpLLKsyl~~aKk~~~~i~k~g~~s~~a 342 (536)
.|++|+|+++||++|||++||||||++||++||||+||+|||+|||+||||||||||+||+++|++++.++++++++ .+
T Consensus 157 ~va~~~~a~~L~~sLgl~~k~~d~V~~LI~~g~~ieAv~fi~~f~L~dkfpPv~lLk~yl~~~k~~~~~~~~~~~~~-~a 235 (290)
T PF07899_consen 157 SVARRKQAPELCRSLGLSDKMPDIVEKLIKKGKQIEAVRFIYAFGLVDKFPPVPLLKSYLEDSKKAAKRIRKKGNSS-EA 235 (290)
T ss_pred HhcchHhhHHHHHHcCchhhhHHHHHHHHHCCCccchHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHhcCCCh-HH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999887 99
Q ss_pred hhhhhHHHHHHHHHHHHHHhhcccccccChhHHHHHHHHHHHHhhhhhccccC
Q 009377 343 TEESNNLELNSIKAIIKCVEDHKLESAFSVDNLRKRATQLEKVKVERKKSSAA 395 (536)
Q Consensus 343 ~~ea~~kEl~aLkaViKcIEehKLEs~~p~~~L~kRI~qLEK~KaerKr~~~~ 395 (536)
+++|++||+++||+|||||||||||++||+++|+|||.||||+|++|||++++
T Consensus 236 ~~ea~~kel~aL~~vikcIee~kLes~~~~~~l~kri~~Lek~~~~~kr~~~~ 288 (290)
T PF07899_consen 236 QNEANEKELAALKSVIKCIEEHKLESEFPLEPLQKRIEQLEKQKADRKRAAEA 288 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccccChHHHHHHHHHHHHHHHHHhhcccc
Confidence 99999999999999999999999999999999999999999999999999764
No 2
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=94.84 E-value=0.12 Score=49.92 Aligned_cols=79 Identities=19% Similarity=0.269 Sum_probs=57.7
Q ss_pred HHHHHHHHHhCCCCCCChHHHHHHHHhhhc-----hhhHHHHHHHcCCCcchHHHHHHHHhcCcchHHHHHHHHhcCCCC
Q 009377 237 VMFLQMVFGFGLSSRFDQDFLRKLVMDYAS-----RRDMARLAACLGFGEKMEDIIAELVKSGKEIEAVYFASESGLTEK 311 (536)
Q Consensus 237 ~gFLqlLa~FGI~seFd~dEL~~Lv~~va~-----rrqa~eL~~sLGL~~KmpdiI~~LI~kGk~IeAV~fi~aF~L~dk 311 (536)
...|+.+..|++.. |..+|..++..... +.-+.+.++.||..+ ..||+.|+.+|+.++|++||...+-++.
T Consensus 45 ~~~L~qllq~~Vi~--DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~~~~--~~iievLL~~g~vl~ALr~ar~~~~~~~ 120 (167)
T PF07035_consen 45 FSQLHQLLQYHVIP--DSKPLACQLLSLGNQYPPAYQLGLDMLKRLGTAY--EEIIEVLLSKGQVLEALRYARQYHKVDS 120 (167)
T ss_pred HHHHHHHHhhcccC--CcHHHHHHHHHhHccChHHHHHHHHHHHHhhhhH--HHHHHHHHhCCCHHHHHHHHHHcCCccc
Confidence 35667777777765 45666666655533 455666666666543 2477899999999999999999999999
Q ss_pred CCChHHHH
Q 009377 312 FPPVSLLK 319 (536)
Q Consensus 312 FpPvpLLK 319 (536)
.||.-+|.
T Consensus 121 ~~~~~fLe 128 (167)
T PF07035_consen 121 VPARKFLE 128 (167)
T ss_pred CCHHHHHH
Confidence 99876654
No 3
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=82.49 E-value=9.6 Score=44.58 Aligned_cols=21 Identities=29% Similarity=0.321 Sum_probs=13.6
Q ss_pred CCCCCCCCCcccccccccccc
Q 009377 412 RGSGPPAFRPAKAAKFSNSSQ 432 (536)
Q Consensus 412 r~~~~~~~~pa~~~~~~~~~~ 432 (536)
++||+++.+||+.+-...+..
T Consensus 276 ~~S~s~ppppap~p~~~~~~a 296 (830)
T KOG1923|consen 276 PGSGSGPPPPAPLPHTAQSDA 296 (830)
T ss_pred CCCCCCCCCCCCCCCcccccC
Confidence 367777777777766555444
No 4
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=80.60 E-value=2.5 Score=50.28 Aligned_cols=38 Identities=13% Similarity=0.152 Sum_probs=21.9
Q ss_pred HHHHHHHHHHH--Hhhcccccc-cChhHHHHHHHHHHHHhh
Q 009377 350 ELNSIKAIIKC--VEDHKLESA-FSVDNLRKRATQLEKVKV 387 (536)
Q Consensus 350 El~aLkaViKc--IEehKLEs~-~p~~~L~kRI~qLEK~Ka 387 (536)
-|.+||+.++- +|-.|--+. --+|+...|+.++=++-.
T Consensus 1097 cItgLr~AmEaLvvev~knPaiIsqLdpvnarllnmiRdIs 1137 (1282)
T KOG0921|consen 1097 CITGLRPAMEALVVEVCKNPAIISQLDPVNARLLNMIRDIS 1137 (1282)
T ss_pred HHhhhHHHHHHHHHHHhcChhHhhccCchhHHHHHHHHHhc
Confidence 36667776653 344443322 225677788887776644
No 5
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=78.25 E-value=13 Score=44.67 Aligned_cols=31 Identities=19% Similarity=0.171 Sum_probs=19.8
Q ss_pred CCCCCccCCCCC-CccccccCCCCCCCCCCCC
Q 009377 457 YPSQSVYEGPST-AHYASTYGVPHTQSLAAIP 487 (536)
Q Consensus 457 ~~~q~~y~~~~~-~~~~~~~~~~~~~~~~~~~ 487 (536)
.++|+.|.-+-+ +.|+++|+.+-+-||+..|
T Consensus 848 ~~~~~~~~~~g~~~~~gsa~~~~~~~sps~sp 879 (1024)
T KOG1999|consen 848 TGGGGAPAWPGTPNGNGSAWGPSGQNSPSPSP 879 (1024)
T ss_pred CCCCCCcCCCCCCCCCccccccccCCCCCCCC
Confidence 666677766655 5888888843344566533
No 6
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=78.13 E-value=8.3 Score=35.09 Aligned_cols=85 Identities=16% Similarity=0.176 Sum_probs=53.9
Q ss_pred cchHHHHHHHHhcCcchHHHHHHHHhcCCCCCCChHHHHHHHHHhHHhhHHHhhcCCCCc---------hhhhhhhHHHH
Q 009377 281 EKMEDIIAELVKSGKEIEAVYFASESGLTEKFPPVSLLKSHLRNSKKNSTSILKNGNHSN---------SATEESNNLEL 351 (536)
Q Consensus 281 ~KmpdiI~~LI~kGk~IeAV~fi~aF~L~dkFpPvpLLKsyl~~aKk~~~~i~k~g~~s~---------~a~~ea~~kEl 351 (536)
++...+++.||++|...+ +++|+.+..+..+.+... .+...-++-|-
T Consensus 22 ek~~k~~~~LVkkGe~~~------------------------ee~k~~~~e~~~~~~e~~~~~~~~~~~~~~~~~~~le~ 77 (118)
T TIGR01837 22 EEGSKFFNRLVKEGELAE------------------------KRGQKRFDESVDAAREEVKTALEQTRDQVQRNWDKLEK 77 (118)
T ss_pred HHHHHHHHHHHHhccccH------------------------HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhHHHHHH
Confidence 688999999999999876 333333333322222110 00111112233
Q ss_pred HHHHHHHHHHhhcccccccChhHHHHHHHHHHHHhhhh
Q 009377 352 NSIKAIIKCVEDHKLESAFSVDNLRKRATQLEKVKVER 389 (536)
Q Consensus 352 ~aLkaViKcIEehKLEs~~p~~~L~kRI~qLEK~Kaer 389 (536)
..=..|-+.+....+-+.--++.|++||.+||++-.+-
T Consensus 78 ~~~~~v~~~L~~lg~~tk~ev~~L~~RI~~Le~~l~~l 115 (118)
T TIGR01837 78 AFDERVEQALNRLNIPSREEIEALSAKIEQLAVQVEEL 115 (118)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 44456778888888888888899999999999865543
No 7
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=74.05 E-value=51 Score=39.92 Aligned_cols=34 Identities=21% Similarity=0.222 Sum_probs=20.3
Q ss_pred HHHHHH-HHHHHHHHhhcccccccChhHHHHHHHHHHHH
Q 009377 348 NLELNS-IKAIIKCVEDHKLESAFSVDNLRKRATQLEKV 385 (536)
Q Consensus 348 ~kEl~a-LkaViKcIEehKLEs~~p~~~L~kRI~qLEK~ 385 (536)
+-|.+| +-.+--|+|+-=.|.-..+..| .||+-.
T Consensus 1091 shEaAAcItgLr~AmEaLvvev~knPaiI----sqLdpv 1125 (1282)
T KOG0921|consen 1091 SHEAAACITGLRPAMEALVVEVCKNPAII----SQLDPV 1125 (1282)
T ss_pred cHHHHHHHhhhHHHHHHHHHHHhcChhHh----hccCch
Confidence 355555 4455558888888866655543 555543
No 8
>COG3416 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=65.88 E-value=33 Score=34.65 Aligned_cols=14 Identities=29% Similarity=0.370 Sum_probs=11.0
Q ss_pred HHHHHHHHHhHHhh
Q 009377 316 SLLKSHLRNSKKNS 329 (536)
Q Consensus 316 pLLKsyl~~aKk~~ 329 (536)
-||+.++...|++.
T Consensus 7 qlle~lf~rlk~a~ 20 (233)
T COG3416 7 QLLENLFHRLKKAE 20 (233)
T ss_pred HHHHHHHHHHhhcc
Confidence 47888888888864
No 9
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.73 E-value=2.5e+02 Score=31.75 Aligned_cols=21 Identities=29% Similarity=0.262 Sum_probs=17.3
Q ss_pred cccChhHHHHHHHHHHHHhhh
Q 009377 368 SAFSVDNLRKRATQLEKVKVE 388 (536)
Q Consensus 368 s~~p~~~L~kRI~qLEK~Kae 388 (536)
.+-+.+.|-+||..|||..++
T Consensus 356 ~~~~~~~~~~r~~~le~~~~~ 376 (504)
T PRK14963 356 PAPAPADLTQRLNRLEKEVRS 376 (504)
T ss_pred cCCCHHHHHHHHHHHHHHhcc
Confidence 555678999999999997765
No 10
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.39 E-value=3.8e+02 Score=30.65 Aligned_cols=82 Identities=7% Similarity=-0.012 Sum_probs=47.2
Q ss_pred CcHHHHHHHHHHHHhCCCCCCChHHHHHHHHhhhchhhHHHHHHHcCCCcchHHHHHHHHhcCcchHHHHHHHHhcCCCC
Q 009377 232 GPAEAVMFLQMVFGFGLSSRFDQDFLRKLVMDYASRRDMARLAACLGFGEKMEDIIAELVKSGKEIEAVYFASESGLTEK 311 (536)
Q Consensus 232 ~~leA~gFLqlLa~FGI~seFd~dEL~~Lv~~va~rrqa~eL~~sLGL~~KmpdiI~~LI~kGk~IeAV~fi~aF~L~dk 311 (536)
+..+++..|+-++.|+ ....+.+++..++.... .. .+-++|+.+.+ |..-.|++++..+ +.++
T Consensus 214 dlr~al~~LekL~~y~-~~~It~e~V~~ll~~s~-~~-------------~vf~Lidal~~-~d~~~al~~l~~L-~~~g 276 (585)
T PRK14950 214 SMRDAENLLQQLATTY-GGEISLSQVQSLLGISG-DE-------------EVKALAEALLA-KDLKAALRTLNAV-AADG 276 (585)
T ss_pred CHHHHHHHHHHHHHhc-CCCCCHHHHHHHhcCCC-HH-------------HHHHHHHHHHc-CCHHHHHHHHHHH-HHcC
Confidence 3467788888888886 34566666666554432 22 23344444432 4555555555554 2344
Q ss_pred CCChHHHHHHHHHhHHhhH
Q 009377 312 FPPVSLLKSHLRNSKKNST 330 (536)
Q Consensus 312 FpPvpLLKsyl~~aKk~~~ 330 (536)
..|+.||...++..+....
T Consensus 277 ~~~~~il~~L~~~lR~Ll~ 295 (585)
T PRK14950 277 ADLRQFTRDLVEYLRQVML 295 (585)
T ss_pred CCHHHHHHHHHHHHHHHHH
Confidence 5677777766666666643
No 11
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=51.57 E-value=6.1e+02 Score=32.16 Aligned_cols=147 Identities=18% Similarity=0.170 Sum_probs=68.8
Q ss_pred HHHHHHHHHHHHhCCCCCCChHHHHHHHHhhhchhhHHHHHHHcCCC----cchHHHHHHHHhcCcchHHHHHHHHhcCC
Q 009377 234 AEAVMFLQMVFGFGLSSRFDQDFLRKLVMDYASRRDMARLAACLGFG----EKMEDIIAELVKSGKEIEAVYFASESGLT 309 (536)
Q Consensus 234 leA~gFLqlLa~FGI~seFd~dEL~~Lv~~va~rrqa~eL~~sLGL~----~KmpdiI~~LI~kGk~IeAV~fi~aF~L~ 309 (536)
-|..-+++-|--|=-...-|.|.|..+.-. .|...|-+. ..+.+-|++-+.+=..||||=- ++-+=
T Consensus 1471 ~el~~Li~~v~~Flt~~~adp~si~~vA~~--------vL~l~lp~tpeqi~~L~~~I~e~v~sL~nVd~IL~-~T~~d- 1540 (1758)
T KOG0994|consen 1471 RELRNLIQQVRDFLTQPDADPDSIEEVAEE--------VLALELPLTPEQIQQLTGEIQERVASLPNVDAILS-RTKGD- 1540 (1758)
T ss_pred HHHHHHHHHHHHHhcCCCCCHHHHHHHHHH--------HHhccCCCCHHHHHHHHHHHHHHHHhcccHHHHHH-hhhhh-
Confidence 344555555555555555566666543221 133333332 2334556666677777887721 11110
Q ss_pred CCCCChHHHHHHHHHhHHhhHHHhhcCCCCchhhhhhhHHHHHHHHHHHHH-------------HhhcccccccChhHHH
Q 009377 310 EKFPPVSLLKSHLRNSKKNSTSILKNGNHSNSATEESNNLELNSIKAIIKC-------------VEDHKLESAFSVDNLR 376 (536)
Q Consensus 310 dkFpPvpLLKsyl~~aKk~~~~i~k~g~~s~~a~~ea~~kEl~aLkaViKc-------------IEehKLEs~~p~~~L~ 376 (536)
..-+.-|.+--+.+++-+..+.+..+.-.+++.+|..-+..|=.++-.. |++-.--.|-++.+--
T Consensus 1541 --i~ra~~L~s~A~~a~~~A~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~ 1618 (1758)
T KOG0994|consen 1541 --IARAENLQSEAERARSRAEDVKGQAEDVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLATSAT 1618 (1758)
T ss_pred --HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1112223333444444444433333322344444444333333332222 2222222344455677
Q ss_pred HHHHHHHHHhhhhhcc
Q 009377 377 KRATQLEKVKVERKKS 392 (536)
Q Consensus 377 kRI~qLEK~KaerKr~ 392 (536)
+||.+||+.+.+-|+.
T Consensus 1619 q~~~eL~~~~e~lk~~ 1634 (1758)
T KOG0994|consen 1619 QQLGELETRMEELKHK 1634 (1758)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 8888888887776664
No 12
>PRK06771 hypothetical protein; Provisional
Probab=49.32 E-value=23 Score=31.41 Aligned_cols=38 Identities=16% Similarity=0.339 Sum_probs=31.5
Q ss_pred hhHHHHHHHcCCCcc---hHHHHHHHHhcCcchHHHHHHHH
Q 009377 268 RDMARLAACLGFGEK---MEDIIAELVKSGKEIEAVYFASE 305 (536)
Q Consensus 268 rqa~eL~~sLGL~~K---mpdiI~~LI~kGk~IeAV~fi~a 305 (536)
...-.++.-+|+.+- +++=|..|+..||.|+||+..++
T Consensus 37 ~~L~~I~~~~Gi~~~~~~~~~e~~~Li~~Gkki~AIK~~Re 77 (93)
T PRK06771 37 DRLQLITKEMGIVDREPPVNKELRQLMEEGQTVTAVKRVRE 77 (93)
T ss_pred HHHHHHHHHcCCCCCcccccHHHHHHHHcCCchHHHHHHHH
Confidence 344567888999766 67788999999999999999876
No 13
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=47.32 E-value=68 Score=33.05 Aligned_cols=17 Identities=18% Similarity=0.243 Sum_probs=13.9
Q ss_pred hhHHHHHHHHHHHHhhh
Q 009377 372 VDNLRKRATQLEKVKVE 388 (536)
Q Consensus 372 ~~~L~kRI~qLEK~Kae 388 (536)
|+.++.||.+||.+-..
T Consensus 57 L~~a~~ri~eLe~ql~q 73 (247)
T PF09849_consen 57 LKQAQARIQELEAQLQQ 73 (247)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 57899999999997544
No 14
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=46.39 E-value=1.8e+02 Score=32.69 Aligned_cols=21 Identities=33% Similarity=0.428 Sum_probs=9.6
Q ss_pred ccChhHHHHHHHHHHHHhhhh
Q 009377 369 AFSVDNLRKRATQLEKVKVER 389 (536)
Q Consensus 369 ~~p~~~L~kRI~qLEK~Kaer 389 (536)
+|.=+.-++.-.|+.|++..|
T Consensus 320 dfSDDEkEaeak~~kKQrk~r 340 (483)
T KOG2236|consen 320 DFSDDEKEAEAKQMKKQRKRR 340 (483)
T ss_pred ccchHHHHHHHHHHHHHhhcc
Confidence 454344444445555544333
No 15
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=45.76 E-value=86 Score=28.56 Aligned_cols=79 Identities=22% Similarity=0.293 Sum_probs=48.4
Q ss_pred CcchHHHHHHHHhcCcchHHHHHHHHhcCCCCCCChHHHHHHHHHhHHhhHHHhhcCCCCchhhhhhhHHHHHHHHHHHH
Q 009377 280 GEKMEDIIAELVKSGKEIEAVYFASESGLTEKFPPVSLLKSHLRNSKKNSTSILKNGNHSNSATEESNNLELNSIKAIIK 359 (536)
Q Consensus 280 ~~KmpdiI~~LI~kGk~IeAV~fi~aF~L~dkFpPvpLLKsyl~~aKk~~~~i~k~g~~s~~a~~ea~~kEl~aLkaViK 359 (536)
.+|+.++|+.|+++|+-- .. ==|.|++|..+-++ .++.+..+|.-.-++-
T Consensus 23 ~ek~~klvDelVkkGeln----------~e-------Eak~~vddl~~q~k----------~~~~e~e~K~~r~i~~--- 72 (108)
T COG3937 23 AEKVQKLVDELVKKGELN----------AE-------EAKRFVDDLLRQAK----------EAQGELEEKIPRKIEE--- 72 (108)
T ss_pred HHHHHHHHHHHHHcCCCC----------HH-------HHHHHHHHHHHHHH----------HHhhhHHHhhhHHHHH---
Confidence 478999999999999731 11 12444555444433 2344555554444443
Q ss_pred HHhhcccccccChhHHHHHHHHHHHHhhh
Q 009377 360 CVEDHKLESAFSVDNLRKRATQLEKVKVE 388 (536)
Q Consensus 360 cIEehKLEs~~p~~~L~kRI~qLEK~Kae 388 (536)
.++++.+--.-+.+.|..||..||++-++
T Consensus 73 ml~~~~~~r~~~~~~l~~rvd~Lerqv~~ 101 (108)
T COG3937 73 MLSDLEVARQSEMDELTERVDALERQVAD 101 (108)
T ss_pred HHhhccccccchHHHHHHHHHHHHHHHHH
Confidence 34666666666678888888888876443
No 16
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=45.26 E-value=1.1e+02 Score=26.93 Aligned_cols=55 Identities=29% Similarity=0.367 Sum_probs=32.1
Q ss_pred hhhhhhHHHHHHHHHHHHHHHhHHHHhhHHHHHHhHHHHHHH---HHHHHHHHhhhhh
Q 009377 5 VSIKTDRVEKFFEDLKAQKTILSSCMQLFKSLTSHFTSLEDS---LSQKFKSLDSKFL 59 (536)
Q Consensus 5 ~~~~~e~l~kaF~eLqs~~s~l~s~t~~W~eL~~HF~sLe~s---L~~r~e~L~~k~~ 59 (536)
|......+.+...+|+..-..|.+...+-.+|++.-+.||+. |+..+.+|++|++
T Consensus 40 ~~~~~~~l~~~~~~l~~k~~~l~~~l~~Id~Ie~~V~~LE~~v~~LD~ysk~LE~k~k 97 (99)
T PF10046_consen 40 MKDIAAGLEKNLEDLNQKYEELQPYLQQIDQIEEQVTELEQTVYELDEYSKELESKFK 97 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344445566666666666666666555666666677777765 3344444444444
No 17
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=43.34 E-value=27 Score=41.47 Aligned_cols=42 Identities=31% Similarity=0.365 Sum_probs=26.9
Q ss_pred CCCCCCCCCccC---CCCCcCCCCcccCccCCCCCC-CCCCccCCC
Q 009377 482 SLAAIPQQHYSL---PADNMGSAGFRASSSYTGQTG-SYGAYDYSS 523 (536)
Q Consensus 482 ~~~~~~~~~y~~---~~d~~~~~~~~~~~sy~~~~~-~y~~y~~~~ 523 (536)
+|++++.+|=++ |.-+-+--..+|-|.|+.|+| |||+-..++
T Consensus 23 ~paalg~~~Psl~Gas~~~~~g~~~l~~a~~~tq~~~~y~~t~~~~ 68 (1194)
T KOG4246|consen 23 SPAALGSRHPSLTGASQETDIGRSHLSTAAYGTQYGSVYGSTSLSS 68 (1194)
T ss_pred CCcCccCCCccccCCCccccccchhhhhccccccccccccccchhh
Confidence 466666655333 333333335668888999999 999876654
No 18
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=42.84 E-value=5.9e+02 Score=29.48 Aligned_cols=31 Identities=10% Similarity=0.102 Sum_probs=19.7
Q ss_pred cHHHHHHHHHHHHhCCCCCCChHHHHHHHHh
Q 009377 233 PAEAVMFLQMVFGFGLSSRFDQDFLRKLVMD 263 (536)
Q Consensus 233 ~leA~gFLqlLa~FGI~seFd~dEL~~Lv~~ 263 (536)
.-+++..|+-+++|+-....+.+.+..++..
T Consensus 213 lR~aln~Ldql~~~~~~~~It~~~v~~llg~ 243 (584)
T PRK14952 213 PRDTLSVLDQLLAGAADTHVTYQRALGLLGA 243 (584)
T ss_pred HHHHHHHHHHHHhccCCCCcCHHHHHHHHCC
Confidence 4568888888888864445555555555433
No 19
>PTZ00473 Plasmodium Vir superfamily; Provisional
Probab=40.55 E-value=52 Score=36.15 Aligned_cols=12 Identities=8% Similarity=0.227 Sum_probs=7.4
Q ss_pred hhhHhHHHHHHh
Q 009377 178 KRWACGLLVQAI 189 (536)
Q Consensus 178 ~r~aCvlLLE~L 189 (536)
.+|.|+-|.--|
T Consensus 57 ~k~~C~kffs~l 68 (420)
T PTZ00473 57 NKENCIKFFSIL 68 (420)
T ss_pred hHHHHHHHHHHH
Confidence 567787765433
No 20
>KOG2005 consensus 26S proteasome regulatory complex, subunit RPN1/PSMD2 [Posttranslational modification, protein turnover, chaperones]
Probab=40.40 E-value=7.2e+02 Score=29.75 Aligned_cols=73 Identities=23% Similarity=0.377 Sum_probs=54.9
Q ss_pred hHHHHHHHHhhhc---hhhHHHHHHHcCCCcchH--HHHHHHHhcCcchHHH-HHHHHhcCCCCCCChHHHHHHHHHhH
Q 009377 254 QDFLRKLVMDYAS---RRDMARLAACLGFGEKME--DIIAELVKSGKEIEAV-YFASESGLTEKFPPVSLLKSHLRNSK 326 (536)
Q Consensus 254 ~dEL~~Lv~~va~---rrqa~eL~~sLGL~~Kmp--diI~~LI~kGk~IeAV-~fi~aF~L~dkFpPvpLLKsyl~~aK 326 (536)
.+++...|..... +||+.=+...-|+.-.+. +=++..++||+--|-. .++.+.++.+-=-|-.|+|+|+.|+|
T Consensus 268 ~~~v~~vf~s~~D~~~kKQ~~ymLaR~~i~~e~~~~e~l~di~sN~~Lse~f~~LarELeimepk~pedIyK~hl~~~r 346 (878)
T KOG2005|consen 268 MKEVKEVFTSCTDPLLKKQMAYMLARHGIYFELSEDEELQDILSNGKLSEHFLYLARELEIMEPKVPEDIYKSHLEDSR 346 (878)
T ss_pred HHHHHHHHHhccCHHHHHHHHHHHHhcCCceecCcCHHHHHHHccccHHHHHHHHHHHhcccCCCChHHHHHHHHhccc
Confidence 3445555544433 588887777777765553 6678888888877764 46889999999999999999999998
No 21
>KOG3875 consensus Peroxisomal biogenesis protein peroxin [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.34 E-value=1.1e+02 Score=32.76 Aligned_cols=26 Identities=31% Similarity=0.650 Sum_probs=11.9
Q ss_pred cCCC-CcccCccCCCCCC-CCCCcc-CCCC
Q 009377 498 MGSA-GFRASSSYTGQTG-SYGAYD-YSSA 524 (536)
Q Consensus 498 ~~~~-~~~~~~sy~~~~~-~y~~y~-~~~~ 524 (536)
+|+| ++|| |-|+|.-| .||..- ||-+
T Consensus 74 ~G~Gyg~YG-gGygg~fGgGyN~~~~~g~n 102 (362)
T KOG3875|consen 74 YGSGYGPYG-GGYGGGFGGGYNRFGPYGTN 102 (362)
T ss_pred cCCCCCCcC-CCcCcccCcccccccccccC
Confidence 3444 4444 34543333 455554 5555
No 22
>PF14726 RTTN_N: Rotatin, an armadillo repeat protein, centriole functioning
Probab=37.17 E-value=1.1e+02 Score=27.20 Aligned_cols=46 Identities=13% Similarity=0.117 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHhCCCCCCChHHHHHHHHhhhchhhHHHHHHHcCCC
Q 009377 235 EAVMFLQMVFGFGLSSRFDQDFLRKLVMDYASRRDMARLAACLGFG 280 (536)
Q Consensus 235 eA~gFLqlLa~FGI~seFd~dEL~~Lv~~va~rrqa~eL~~sLGL~ 280 (536)
+..=|.+|+--||..+....++++.|+..+..+.-+..+.+.+|-.
T Consensus 28 ~~~Ll~~LleWFnf~~~~~~~~VL~Ll~~L~~~~~a~~~l~~iG~~ 73 (98)
T PF14726_consen 28 ERLLLKQLLEWFNFPPVPMKEEVLALLLRLLKSPYAAQILRDIGAV 73 (98)
T ss_pred HHHHHHHHHHHhCCCCCccHHHHHHHHHHHHhCcHHHHHHHHccHH
Confidence 4567899999999999999999999999999999999999999943
No 23
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=36.26 E-value=1.6e+02 Score=25.24 Aligned_cols=54 Identities=15% Similarity=0.215 Sum_probs=38.0
Q ss_pred hhhhHHHHHHHHHHHHHHHh-HHHHhhHHHHHHhHHHHHHHHHHHHHHHhhhhhh
Q 009377 7 IKTDRVEKFFEDLKAQKTIL-SSCMQLFKSLTSHFTSLEDSLSQKFKSLDSKFLS 60 (536)
Q Consensus 7 ~~~e~l~kaF~eLqs~~s~l-~s~t~~W~eL~~HF~sLe~sL~~r~e~L~~k~~~ 60 (536)
.+.+.+..+...|+.....+ .++...+.++..+|..|.+.|..+=+.|-.++..
T Consensus 14 ~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~ 68 (127)
T smart00502 14 KKAAELEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQLLEDLEE 68 (127)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455666777776655544 4566678899999999999998887777555543
No 24
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=35.92 E-value=3.7e+02 Score=33.89 Aligned_cols=31 Identities=13% Similarity=0.426 Sum_probs=20.5
Q ss_pred HHHHhhhhhhcccchhhhhhhhhhcccCCCc
Q 009377 51 FKSLDSKFLSLDSTSAQTLDSLSHRENSIPD 81 (536)
Q Consensus 51 ~e~L~~k~~~~e~~~~~t~~~L~~re~si~~ 81 (536)
..+.++++++.+....+....|..|..-+|+
T Consensus 1037 ~~~Ie~~f~qa~a~pgemvg~lAaqsvgePa 1067 (1605)
T KOG0260|consen 1037 LGEIEARFLQAEASPGEMVGALAAQSVGEPA 1067 (1605)
T ss_pred hhhhhhheeeeecCccchHhHHHHHHhCCch
Confidence 4555666777777777777777776655554
No 25
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=35.66 E-value=2e+02 Score=34.60 Aligned_cols=21 Identities=24% Similarity=0.240 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHhHHHHhhHH
Q 009377 14 KFFEDLKAQKTILSSCMQLFK 34 (536)
Q Consensus 14 kaF~eLqs~~s~l~s~t~~W~ 34 (536)
+-+.=|++.+..|.+-..+|-
T Consensus 157 ~l~~CleslRVsL~~npVSwv 177 (1102)
T KOG1924|consen 157 KLLECLESLRVSLTSNPVSWV 177 (1102)
T ss_pred cHHHHHHHHhhhhcCCccHHH
Confidence 344446666666666555664
No 26
>KOG2377 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.65 E-value=38 Score=38.10 Aligned_cols=40 Identities=25% Similarity=0.453 Sum_probs=31.3
Q ss_pred HHHHHHHHhcCcchHHHHHHHHhcCCCCCCChHHHHHHHHHhHH
Q 009377 284 EDIIAELVKSGKEIEAVYFASESGLTEKFPPVSLLKSHLRNSKK 327 (536)
Q Consensus 284 pdiI~~LI~kGk~IeAV~fi~aF~L~dkFpPvpLLKsyl~~aKk 327 (536)
-|+|+.|+.+|++|+|+|||.--+=.|+-+- +.||+-|++
T Consensus 575 ~~iIevll~~G~vl~ALR~A~~~~g~~~V~a----rkFLEAA~~ 614 (657)
T KOG2377|consen 575 DEIIEVLLSKGQVLAALRFARGIGGHDNVSA----RKFLEAAKQ 614 (657)
T ss_pred HHHHHHHHcCchHHHHHHHHhhccCcccccH----HHHHHHHhc
Confidence 5899999999999999999996666666654 445655554
No 27
>KOG0162 consensus Myosin class I heavy chain [Cytoskeleton]
Probab=34.32 E-value=2.7e+02 Score=33.41 Aligned_cols=14 Identities=21% Similarity=0.342 Sum_probs=6.2
Q ss_pred CCCcCCCCcccCcc
Q 009377 495 ADNMGSAGFRASSS 508 (536)
Q Consensus 495 ~d~~~~~~~~~~~s 508 (536)
+-++++++...++|
T Consensus 1015 ~~~~~~~~~~~~~s 1028 (1106)
T KOG0162|consen 1015 VPDAGASGNGRKPS 1028 (1106)
T ss_pred cCcccCcccccCCC
Confidence 34455554433333
No 28
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=31.26 E-value=8.4e+02 Score=27.87 Aligned_cols=66 Identities=20% Similarity=0.259 Sum_probs=46.5
Q ss_pred CCcHHHHHHHHHHHHhCCCCCCChHHHHHHHHhhhchhhHHHHHHHcCC--CcchHHHHHHHHhcCcchH
Q 009377 231 LGPAEAVMFLQMVFGFGLSSRFDQDFLRKLVMDYASRRDMARLAACLGF--GEKMEDIIAELVKSGKEIE 298 (536)
Q Consensus 231 ~~~leA~gFLqlLa~FGI~seFd~dEL~~Lv~~va~rrqa~eL~~sLGL--~~KmpdiI~~LI~kGk~Ie 298 (536)
.+..+|+.+|+-+..|| ....+.+++.+++..+ ......+|+.+++- ..++-++++.|++.|+.+.
T Consensus 212 G~~R~al~~Ldq~~~~~-~~~It~~~V~~vlg~~-~~~~i~~l~~al~~~d~~~al~~l~~l~~~g~d~~ 279 (559)
T PRK05563 212 GGMRDALSILDQAISFG-DGKVTYEDALEVTGSV-SQEALDDLVDAIVEGDVAKALKILEELLDEGKDPN 279 (559)
T ss_pred CCHHHHHHHHHHHHHhc-cCCCCHHHHHHHhCCC-CHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCHH
Confidence 34578889998888998 5667888887765443 45556677777654 3456677888888887653
No 29
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=30.55 E-value=4.6e+02 Score=26.40 Aligned_cols=54 Identities=15% Similarity=0.295 Sum_probs=32.3
Q ss_pred chHHHHHHhh--cCChHHHHHHHHhhccchhhHHHHHHHHHHhCCCchHHHHHHHhhhh
Q 009377 110 LSDTLKSLCR--RMDSSGLLKFIISKRKESVSLRTEISRAIWEAVDPSRLVLDAVEEFL 166 (536)
Q Consensus 110 ~~~~L~~LCe--~MDs~GL~kfv~~~~ke~~~lr~Evp~ALr~ApDPAkLVLdai~~F~ 166 (536)
+..+|..+|. .=+-.+|+.|+.+ |+..|+..|-..-..=-+---.+++||..|.
T Consensus 180 l~~~le~~~~~~~~~~e~f~~~v~~---Ei~~lk~~l~~e~~~R~~~Dd~Iv~aln~yt 235 (247)
T PF06705_consen 180 LRSELEEVKRRREKGDEQFQNFVLE---EIAALKNALALESQEREQSDDDIVQALNHYT 235 (247)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHH---HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 4566777764 2234556666655 5667777666555555555566777776664
No 30
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=29.59 E-value=73 Score=33.71 Aligned_cols=51 Identities=18% Similarity=0.372 Sum_probs=43.2
Q ss_pred chHHHHHHHHhcCcchHHHHHH-HHhcCCCCCCChHHHHHHHHHhHHhhHHH
Q 009377 282 KMEDIIAELVKSGKEIEAVYFA-SESGLTEKFPPVSLLKSHLRNSKKNSTSI 332 (536)
Q Consensus 282 KmpdiI~~LI~kGk~IeAV~fi-~aF~L~dkFpPvpLLKsyl~~aKk~~~~i 332 (536)
.+|.+++.+|.+|.|=||+.|. |.=-|..+||-+|+.++-..+.....+..
T Consensus 108 ElP~Lm~~ci~~g~y~eALel~~~~~~L~~~~~~~~lv~~i~~ev~~~~~~m 159 (338)
T PF04124_consen 108 ELPQLMDTCIRNGNYSEALELSAHVRRLQSRFPNIPLVKSIAQEVEAALQQM 159 (338)
T ss_pred hhHHHHHHHHhcccHhhHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHH
Confidence 4688888999999999999985 45579999999999999998887766543
No 31
>PHA02086 hypothetical protein
Probab=29.19 E-value=65 Score=27.57 Aligned_cols=37 Identities=35% Similarity=0.542 Sum_probs=27.7
Q ss_pred HHHHHHhhhchhhHHHHHHHcCCCc-------chHHHHHHHHhcC
Q 009377 257 LRKLVMDYASRRDMARLAACLGFGE-------KMEDIIAELVKSG 294 (536)
Q Consensus 257 L~~Lv~~va~rrqa~eL~~sLGL~~-------KmpdiI~~LI~kG 294 (536)
|-+|-..+|.||.+-.||. +|+++ .+|.||++||.+=
T Consensus 39 ~~~~~~g~asr~~~g~lc~-~g~vheanl~g~~~~~ii~~m~~~m 82 (88)
T PHA02086 39 LERLRIGQASRRDMGVLCA-SGIVHEANLFGANIPNVIDEMIEKM 82 (88)
T ss_pred HHHHHHhhhhHHHHHHHHH-hhhhhhhhhcccchhHHHHHHHHHH
Confidence 4455566788999998875 67765 5799999998763
No 32
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=29.04 E-value=76 Score=38.00 Aligned_cols=34 Identities=41% Similarity=0.380 Sum_probs=21.1
Q ss_pred cccCccCCCCCC-CCCC-----c-cCCCCCCCC------CCCCCCCC
Q 009377 503 FRASSSYTGQTG-SYGA-----Y-DYSSAPVSS------YQSSSYTH 536 (536)
Q Consensus 503 ~~~~~sy~~~~~-~y~~-----y-~~~~~~pp~------y~~~~~~~ 536 (536)
+..+|+|....- -||. | +-=||.-|+ ||+++|||
T Consensus 92 ~~~~~~~~~Pqq~l~~Q~~~~l~s~~ls~~qP~~q~q~s~qs~~~~q 138 (1194)
T KOG4246|consen 92 KFASGSYLSPQQHLYGQKTDDLYSDKLSGYQPVDQRQYSEQSSSYLQ 138 (1194)
T ss_pred hhhhccccCchhhccCCcccccccccccCCCchhhhhhcccCcchhh
Confidence 667888864321 3554 2 334666776 78889986
No 33
>PF07139 DUF1387: Protein of unknown function (DUF1387); InterPro: IPR009816 This family represents a conserved region approximately 300 residues long within a number of hypothetical proteins of unknown function that seem to be restricted to mammals.
Probab=28.72 E-value=1.9e+02 Score=30.84 Aligned_cols=123 Identities=19% Similarity=0.322 Sum_probs=68.0
Q ss_pred HHHHHHHHHHHHHHh-HHHHhhHHHHHHhHHHHHHHHHHHHHHHhhhhhhcccchhhhhhhhhhcccCCCchhhhhhhhh
Q 009377 12 VEKFFEDLKAQKTIL-SSCMQLFKSLTSHFTSLEDSLSQKFKSLDSKFLSLDSTSAQTLDSLSHRENSIPDRHNAAFRLI 90 (536)
Q Consensus 12 l~kaF~eLqs~~s~l-~s~t~~W~eL~~HF~sLe~sL~~r~e~L~~k~~~~e~~~~~t~~~L~~re~si~~~e~~a~~~l 90 (536)
||+--.-|.+++.+| .-|...-+.+..-|..|+.-|..|--.| ..+++....+..++|..|..-. +.|
T Consensus 162 LqRctvSL~RYr~~lkee~d~S~k~ik~~F~~l~~cL~dREvaL---l~EmdkVK~EAmeiL~aRqkkA--------eeL 230 (302)
T PF07139_consen 162 LQRCTVSLTRYRVVLKEEMDSSIKKIKQTFAELQSCLMDREVAL---LAEMDKVKAEAMEILDARQKKA--------EEL 230 (302)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH--------HHH
Confidence 344444444455554 3455567888888888888888776655 3444445557778887763211 112
Q ss_pred hhhhhhhhhccCCCCCccCchHHHHHHhhcCChHHHHHHHHhhccchhhHHHHHHHHHHhCCCchHHHHHHHhhh
Q 009377 91 HDHRDSALADFLKPPKFADLSDTLKSLCRRMDSSGLLKFIISKRKESVSLRTEISRAIWEAVDPSRLVLDAVEEF 165 (536)
Q Consensus 91 ~e~~~aAva~~~~~~~~~~~~~~L~~LCe~MDs~GL~kfv~~~~ke~~~lr~Evp~ALr~ApDPAkLVLdai~~F 165 (536)
.-+.|-|+... ..+|..|= .-+.-||.++. .-+||-.|.|..=|+-.| ++.|..|
T Consensus 231 krltd~A~~Ms---------E~Ql~ELR-----adIK~fvs~rk-----~de~lg~~~rf~~d~~~l-~~~i~~~ 285 (302)
T PF07139_consen 231 KRLTDRASQMS---------EEQLAELR-----ADIKHFVSERK-----YDEELGRAARFTCDPEQL-KKSIMSF 285 (302)
T ss_pred HHHHHHHhhcC---------HHHHHHHH-----HHHHHHhhhhh-----hHHHHhHhhhcccCHHHH-HHHHHhc
Confidence 22233222211 11222221 12345666654 457899999988888665 3445544
No 34
>KOG0162 consensus Myosin class I heavy chain [Cytoskeleton]
Probab=28.60 E-value=91 Score=37.03 Aligned_cols=17 Identities=24% Similarity=0.491 Sum_probs=11.7
Q ss_pred hHHHH-----HHHHHHHHHHhc
Q 009377 210 KVVER-----AAGVVERWKEDF 226 (536)
Q Consensus 210 ~vkee-----Ak~lA~~WK~ki 226 (536)
++||+ |+.|-..|+.-+
T Consensus 689 emRer~~d~~A~~IQkAWRrfv 710 (1106)
T KOG0162|consen 689 EMRERKWDGMARRIQKAWRRFV 710 (1106)
T ss_pred HHHHHHhhHHHHHHHHHHHHHH
Confidence 45555 788888888643
No 35
>cd07597 BAR_SNX8 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 8. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX8 and the yeast counterpart Mvp1p are involved in sorting and delivery of late-Golgi proteins, such as carboxypeptidase Y, to vacuoles. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=28.45 E-value=2.3e+02 Score=28.74 Aligned_cols=113 Identities=16% Similarity=0.080 Sum_probs=70.6
Q ss_pred HHcCCCcchHHHHHHHHhcCcchHHHHH--HHHhcCCCCCC----Ch-------HHHHHHHHHhHHhhHHH----hhcCC
Q 009377 275 ACLGFGEKMEDIIAELVKSGKEIEAVYF--ASESGLTEKFP----PV-------SLLKSHLRNSKKNSTSI----LKNGN 337 (536)
Q Consensus 275 ~sLGL~~KmpdiI~~LI~kGk~IeAV~f--i~aF~L~dkFp----Pv-------pLLKsyl~~aKk~~~~i----~k~g~ 337 (536)
+.+....+|.++++.|+++.+++-+-.. +.+++.....+ |+ +.|+.-+...-+-.... ...+.
T Consensus 33 ~l~~~~~~l~~l~er~~kR~~~~A~d~~~f~~~l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~s~~~~~~s~~~~~~a~ 112 (246)
T cd07597 33 RLLESWTKLRVLAERYEKRSQQQAADRAEFARLLNSLGELTARLYPWAGDSDTWGDINEGLSSLSKHFQLLSDLSEDEAR 112 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCccCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455567899999999999999877654 44444433333 33 78887776665333321 11111
Q ss_pred CCchhhhhhhHHHHHHHHHHHHHHhhcccccccChhHHHHHHHHHHHHhh
Q 009377 338 HSNSATEESNNLELNSIKAIIKCVEDHKLESAFSVDNLRKRATQLEKVKV 387 (536)
Q Consensus 338 ~s~~a~~ea~~kEl~aLkaViKcIEehKLEs~~p~~~L~kRI~qLEK~Ka 387 (536)
.-.....|--...+..|.|+-...+.|+--+--....|.+||...++...
T Consensus 113 ~~~~~vlE~Lk~~~d~l~S~r~lf~R~~k~~~~~i~~l~~ri~~~~~kl~ 162 (246)
T cd07597 113 AEEDGVLEKLKLQLDLLVSLRDLFERHEKLSLNNIQRLLKRIELNKKKLE 162 (246)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHH
Confidence 11122333444666777777788888887666677789999988766433
No 36
>PF08427 DUF1741: Domain of unknown function (DUF1741); InterPro: IPR013636 This is a eukaryotic domain of unknown function.
Probab=28.17 E-value=3.1e+02 Score=28.20 Aligned_cols=122 Identities=20% Similarity=0.237 Sum_probs=70.7
Q ss_pred chHHHHHHHhhhhhhcccc-ccccchhhHhHHHHHHhcccCCCCCCCcccCCCCCCHhHHHHHHHHHHHHHHhccCCCCC
Q 009377 154 PSRLVLDAVEEFLAQKREK-VGVTDKRWACGLLVQAIFPEGSGNNGKKAAVGPVHARKVVERAAGVVERWKEDFRDSELG 232 (536)
Q Consensus 154 PAkLVLdai~~F~~~~~~k-~~l~d~r~aCvlLLE~L~~~~~~~~~~~~~~~P~is~~vkeeAk~lA~~WK~ki~~~~~~ 232 (536)
+|..|||++-.|...+-.+ .++ +.=.-|+-++..++--. -+.+-+ +..+|++--.
T Consensus 9 la~~iLD~~i~~i~~NL~k~l~v-~lY~~~l~ii~Rll~y~-----------------~~~~~R-L~Y~W~eLW~----- 64 (237)
T PF08427_consen 9 LATAILDLMIEFIRHNLRKRLDV-DLYSLCLGIIHRLLCYL-----------------KRSRIR-LEYHWSELWR----- 64 (237)
T ss_pred hHHHHHHHHHHHHHHHhcccCCH-HHHHHHHHHHHHHHHHH-----------------HhcCcc-ccccHHHHHH-----
Confidence 5889999999998877543 222 22334777766553111 122222 6788988331
Q ss_pred cHHHHHHHHHHHHhC--CCCCCChHHHHHHHHhhhchhhHHHHHHHcCC-----CcchHHHHHHHHhcCcchHHHHHHHH
Q 009377 233 PAEAVMFLQMVFGFG--LSSRFDQDFLRKLVMDYASRRDMARLAACLGF-----GEKMEDIIAELVKSGKEIEAVYFASE 305 (536)
Q Consensus 233 ~leA~gFLqlLa~FG--I~seFd~dEL~~Lv~~va~rrqa~eL~~sLGL-----~~KmpdiI~~LI~kGk~IeAV~fi~a 305 (536)
.-++||.||++|. +....+...|+..++.+ ..+|-+-|= ..-.-|++=+||..|+-|+-++-++.
T Consensus 65 --aLlsLl~Fl~~~~~~l~~~~~i~~L~~~vv~l------~n~~is~GDtFLPsp~~yDdL~YelVr~~~v~~~~~~~~~ 136 (237)
T PF08427_consen 65 --ALLSLLRFLTTYESDLKDSPDIFQLAEQVVNL------FNFFISYGDTFLPSPASYDDLFYELVRSGQVFDKFRDMYL 136 (237)
T ss_pred --HHHHHHHHHHhchhhhhcccChHHHHHHHHHH------HHHHHHhccccCCChHHHHhHHHHhHhchHHHHHHHHHHh
Confidence 1358999999987 34446666666655443 223333221 13345677777777777665554444
Q ss_pred hc
Q 009377 306 SG 307 (536)
Q Consensus 306 F~ 307 (536)
..
T Consensus 137 ~~ 138 (237)
T PF08427_consen 137 RS 138 (237)
T ss_pred hc
Confidence 33
No 37
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=25.84 E-value=1.4e+02 Score=23.96 Aligned_cols=33 Identities=15% Similarity=0.467 Sum_probs=28.8
Q ss_pred hHHHHHHhHHHHHHHHHHHHHHHhhhhhhcccc
Q 009377 32 LFKSLTSHFTSLEDSLSQKFKSLDSKFLSLDST 64 (536)
Q Consensus 32 ~W~eL~~HF~sLe~sL~~r~e~L~~k~~~~e~~ 64 (536)
...+++++|..+...|-.|.++...+.-.+|.+
T Consensus 11 lL~qmq~kFq~mS~~I~~riDeM~~RIDdLE~s 43 (54)
T PF06825_consen 11 LLQQMQDKFQTMSDQILGRIDEMSSRIDDLEKS 43 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence 578999999999999999999998888877753
No 38
>PF12825 DUF3818: Domain of unknown function in PX-proteins (DUF3818); InterPro: IPR024554 The function of this domain is not known, but it is almost always found C-terminal to a PX-domain (IPR001683 from INTERPRO).
Probab=24.83 E-value=5.3e+02 Score=27.86 Aligned_cols=77 Identities=13% Similarity=0.230 Sum_probs=46.5
Q ss_pred hHHHHHHHhhhhhhcccccc------ccchhhHhHHHHHHhcccCCCCCCCcccCCCCCCHhHHHHHHHHHHHHHHhccC
Q 009377 155 SRLVLDAVEEFLAQKREKVG------VTDKRWACGLLVQAIFPEGSGNNGKKAAVGPVHARKVVERAAGVVERWKEDFRD 228 (536)
Q Consensus 155 AkLVLdai~~F~~~~~~k~~------l~d~r~aCvlLLE~L~~~~~~~~~~~~~~~P~is~~vkeeAk~lA~~WK~ki~~ 228 (536)
..-++++|..|.-....... .....-.++.+|+.- ...|.+++...++-...-..|+.-...
T Consensus 126 ~~~~~~~ik~~v~~~~~~~~~ir~~s~~~~~~iv~~IL~~~------------~~~p~L~~~~~~~v~~sy~~~~~~~~~ 193 (341)
T PF12825_consen 126 SPEMCEKIKAFVYAPREEKDEIREESEEENEDIVVAILRSS------------DIEPKLSPEQLQRVLESYKAWKNAVES 193 (341)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCchHHHHhCC------------CCCCCCCHHHHHHHHHHHHHHHHhhhc
Confidence 88999999999543221100 000001234444321 245789999999999999999997733
Q ss_pred ----CCCCcHHHHHHHHHH
Q 009377 229 ----SELGPAEAVMFLQMV 243 (536)
Q Consensus 229 ----~~~~~leA~gFLqlL 243 (536)
......+++-|.++-
T Consensus 194 ~~~~~~~~~~~a~lf~~lk 212 (341)
T PF12825_consen 194 VPDDDGEENEDAWLFSDLK 212 (341)
T ss_pred cccCCCccchhhHHHHHHH
Confidence 233456777777654
No 39
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=23.80 E-value=6.7e+02 Score=30.41 Aligned_cols=16 Identities=19% Similarity=0.279 Sum_probs=12.4
Q ss_pred cchHHHHHHHHhcCcc
Q 009377 281 EKMEDIIAELVKSGKE 296 (536)
Q Consensus 281 ~KmpdiI~~LI~kGk~ 296 (536)
+.+-++|..|-.+.++
T Consensus 676 hp~~e~i~~lysk~k~ 691 (931)
T KOG2044|consen 676 HPLFEFILQLYSKKKK 691 (931)
T ss_pred CchHHHHHHHHHhhcc
Confidence 4566788888888876
No 40
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=23.67 E-value=1.4e+02 Score=35.77 Aligned_cols=13 Identities=31% Similarity=0.710 Sum_probs=6.2
Q ss_pred CCCCCCCCCCccC
Q 009377 452 SGPYGYPSQSVYE 464 (536)
Q Consensus 452 ~~~y~~~~q~~y~ 464 (536)
+-||+|+.--+|+
T Consensus 609 vlP~gLkpKK~~k 621 (1102)
T KOG1924|consen 609 VLPFGLKPKKVYK 621 (1102)
T ss_pred cCCCCCCccccCC
Confidence 3345555444444
No 41
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=23.50 E-value=6.8e+02 Score=31.80 Aligned_cols=11 Identities=9% Similarity=0.160 Sum_probs=4.5
Q ss_pred HHHHHHHHHHH
Q 009377 349 LELNSIKAIIK 359 (536)
Q Consensus 349 kEl~aLkaViK 359 (536)
+-++.|..|+-
T Consensus 1339 rhlaLl~dvmT 1349 (1605)
T KOG0260|consen 1339 RHLALLCDVMT 1349 (1605)
T ss_pred HHHHHHHHHHh
Confidence 33444444433
No 42
>PF08711 Med26: TFIIS helical bundle-like domain; InterPro: IPR017923 Transcription factor IIS (TFIIS) is a transcription elongation factor that increases the overall transcription rate of RNA polymerase II by reactivating transcription elongation complexes that have arrested transcription. The three structural domains of TFIIS are conserved from yeast to human. The 80 or so N-terminal residues form a protein interaction domain containing a conserved motif, which has been called the LW motif because of the invariant leucine and tryptophan residues it contains. Although the N-terminal domain is not needed for transcriptional activity, a similar sequence has been identified in other transcription factors and proteins that are predominantly nuclear localized [, ]: MED26 (also known as CRSP70 and ARC70), a subunit of the Mediator complex, which is required for the activity of the enhancer-binding protein Sp1. Elongin A, a subunit of a transcription elongation factor previously known as SIII. It increases the rate of transcription by suppressing transient pausing of the elongation complex. PPP1R10, a nuclear regulatory subunit of protein phosphatase 1 that was previously known as p99, FB19 or PNUTS. PIBP, a small hypothetical protein that could be a phosphoinositide binding protein. IWS1, which is thought to function in both transcription initiation and elongation. The TFIIS N-terminal domain is a compact four-helix bundle. The hydrophobic core residues of helices 2, 3, and 4 are well conserved among TFIIS domains, although helix 1 is less conserved []. ; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent, 0005634 nucleus; PDB: 1EO0_A 3OAK_A 3NFQ_B 3O8Z_A 1WJT_A 2XPL_A 2XPO_A 2XPP_A 2XPN_A.
Probab=23.11 E-value=83 Score=24.13 Aligned_cols=20 Identities=15% Similarity=0.411 Sum_probs=17.2
Q ss_pred CCHhHHHHHHHHHHHHHHhc
Q 009377 207 HARKVVERAAGVVERWKEDF 226 (536)
Q Consensus 207 is~~vkeeAk~lA~~WK~ki 226 (536)
-++++++.|+.|-..||..+
T Consensus 33 ~~~~i~~~A~~Li~~Wk~~v 52 (53)
T PF08711_consen 33 ENPEIRKLAKELIKKWKRIV 52 (53)
T ss_dssp S-HHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHhHhc
Confidence 47899999999999999865
No 43
>PRK08311 putative RNA polymerase sigma factor SigI; Reviewed
Probab=23.06 E-value=2.5e+02 Score=28.49 Aligned_cols=79 Identities=23% Similarity=0.243 Sum_probs=54.8
Q ss_pred cHHHHHHHHHHHHhCCCCCCChHHHHHHHHhhhchhhHHHHHHHcCC-CcchHHHHHHHH--------------------
Q 009377 233 PAEAVMFLQMVFGFGLSSRFDQDFLRKLVMDYASRRDMARLAACLGF-GEKMEDIIAELV-------------------- 291 (536)
Q Consensus 233 ~leA~gFLqlLa~FGI~seFd~dEL~~Lv~~va~rrqa~eL~~sLGL-~~KmpdiI~~LI-------------------- 291 (536)
..|..-|-..|.-|||. +-+||.....|+.+-++|..+.. .-.=|++.+.|.
T Consensus 131 ~~ei~~~~~~L~~~gi~-------~~dL~~~sPkh~d~r~~~i~ia~~~~~~~~l~~~l~~kk~LP~k~l~~~~~v~rkt 203 (237)
T PRK08311 131 REEIEEFKKELKEFGIT-------FEDLVKESPKHRDTRENAIKIAKTIAENEELLEKLKRKKKLPLKELEKRVKVSRKT 203 (237)
T ss_pred HHHHHHHHHHHHHcCCc-------HHHHhhcCCCCHHHHHHHHHHHHHHHcCHHHHHHHHHhCCCCHHHHHHHcCCCHHH
Confidence 46788999999999996 66778888888777776654433 122233433333
Q ss_pred --hcCcchHHHHHHHHhcCCCCCCChHHHHHHHHHh
Q 009377 292 --KSGKEIEAVYFASESGLTEKFPPVSLLKSHLRNS 325 (536)
Q Consensus 292 --~kGk~IeAV~fi~aF~L~dkFpPvpLLKsyl~~a 325 (536)
.+.|+|-||-+|+ ....+.||.||+..
T Consensus 204 ier~rkyIia~~li~-------~~~~~~l~~y~~~~ 232 (237)
T PRK08311 204 LERNRKYIIAVAIIL-------AGDYPYLKEYIRGE 232 (237)
T ss_pred HHhhhHHHHHHHHHH-------cCCcHHHHHHHhhh
Confidence 3457888998887 34557899999874
No 44
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=22.50 E-value=4.6e+02 Score=30.05 Aligned_cols=37 Identities=14% Similarity=0.162 Sum_probs=27.9
Q ss_pred hhHHHHHHHHHHHHHHhhcccccccChhHHHHHHHHHHHHhhh
Q 009377 346 SNNLELNSIKAIIKCVEDHKLESAFSVDNLRKRATQLEKVKVE 388 (536)
Q Consensus 346 a~~kEl~aLkaViKcIEehKLEs~~p~~~L~kRI~qLEK~Kae 388 (536)
..+.++...-.++|.++.+ ++.+|..+|.+||+....
T Consensus 318 g~~~~i~l~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~ 354 (535)
T PRK08451 318 GADDGFVLLLMLFKMKEAL------KLKEIDDAIEELEQEKTT 354 (535)
T ss_pred CCCcHHHHHHHHHHHHHhc------CcccHHHHHHHHHhhccc
Confidence 3447788888889988854 566899999999975443
No 45
>PF05750 Rubella_Capsid: Rubella capsid protein; InterPro: IPR008819 Rubella virus is an enveloped positive-strand RNA virus of the family Togaviridae. Virions are composed of three structural proteins: a capsid and two membrane-spanning glycoproteins, E2 and E1. During virus assembly, the capsid interacts with genomic RNA to form nucleocapsids. It has been discovered that capsid phosphorylation serves to negatively regulate binding of viral genomic RNA. This may delay the initiation of nucleocapsid assembly until sufficient amounts of virus glycoproteins accumulate at the budding site and/or prevent non-specific binding to cellular RNA when levels of genomic RNA are low. It follows that at a late stage in replication, the capsid may undergo dephosphorylation before nucleocapsid assembly occurs []. This family is found together with IPR008820 from INTERPRO and IPR008821 from INTERPRO.; GO: 0016021 integral to membrane, 0019013 viral nucleocapsid
Probab=22.09 E-value=3.1e+02 Score=27.45 Aligned_cols=9 Identities=22% Similarity=0.494 Sum_probs=5.2
Q ss_pred hhHHHHHHH
Q 009377 372 VDNLRKRAT 380 (536)
Q Consensus 372 ~~~L~kRI~ 380 (536)
.++|+|-++
T Consensus 9 medlqkale 17 (300)
T PF05750_consen 9 MEDLQKALE 17 (300)
T ss_pred HHHHHHHHH
Confidence 466766554
No 46
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=21.37 E-value=85 Score=24.46 Aligned_cols=23 Identities=22% Similarity=0.638 Sum_probs=10.9
Q ss_pred HHHhHHHHHHHHHHHHHHHhhhhhhcc
Q 009377 36 LTSHFTSLEDSLSQKFKSLDSKFLSLD 62 (536)
Q Consensus 36 L~~HF~sLe~sL~~r~e~L~~k~~~~e 62 (536)
|++|++.||+.+ +.++.+..+++
T Consensus 10 Lqe~~d~IEqki----edid~qIaeLe 32 (46)
T PF08946_consen 10 LQEHYDNIEQKI----EDIDEQIAELE 32 (46)
T ss_dssp -----THHHHHH----HHHHHHHHHHH
T ss_pred HHHHHHhHHHhH----HHHHHHHHHHH
Confidence 678999998865 34455554444
No 47
>TIGR00443 hisZ_biosyn_reg ATP phosphoribosyltransferase, regulatory subunit. Apparant second copies of histidyl-tRNA synthetase, found in Bacillus subtilis, Synechocystis sp., Aquifex aeolicus, and others, are in fact a regulatory subunit of ATP phosphoribosyltransferase, and usually encoded by a gene adjacent to that encoding the catalytic subunit.
Probab=20.94 E-value=8.4e+02 Score=25.33 Aligned_cols=66 Identities=17% Similarity=0.279 Sum_probs=41.9
Q ss_pred HHHH-HHHHHHHHhCCCCCCChHHHHHHHHhhhchhhHHHHHHHcCCCcchHHHHHHHHhcCcchHHHHHHHHhcC
Q 009377 234 AEAV-MFLQMVFGFGLSSRFDQDFLRKLVMDYASRRDMARLAACLGFGEKMEDIIAELVKSGKEIEAVYFASESGL 308 (536)
Q Consensus 234 leA~-gFLqlLa~FGI~seFd~dEL~~Lv~~va~rrqa~eL~~sLGL~~KmpdiI~~LI~kGk~IeAV~fi~aF~L 308 (536)
.|++ ...+.+..+|+. ++...++++.-...++..+|+.+...+.|-.++.+......-.++...+|
T Consensus 127 aEvi~l~~~~l~~lg~~---------~~~i~l~~~~il~~il~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~l 193 (314)
T TIGR00443 127 AEVIALLIEALKALGLK---------DFKIELGHVGLVRALLEEAGLPEEAREALREALARKDLVALEELLAELGL 193 (314)
T ss_pred HHHHHHHHHHHHHcCCC---------CeEEEeCcHHHHHHHHHHcCCCHHHHHHHHHHHHhcCHHHHHHHHHhcCC
Confidence 3444 344566666652 23455677777788888889887777777777777776664444444443
No 48
>PF12925 APP_E2: E2 domain of amyloid precursor protein; InterPro: IPR024329 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. The E2 domain is the largest of the conserved domains in the amyloidogenic glycoproteins. The structure of E2 consists of two coiled-coil sub-structures connected through a continuous helix, and bears an unexpected resemblance to the spectrin family of protein structures. E2 can reversibly dimerise in solution, and the dimerisation occurs along the longest dimension of the molecule in an antiparallel orientation, which enables the N-terminal substructure of one monomer to pack against the C-terminal substructure of a second monomer. The high degree of conservation of residues at the putative dimer interface suggests that the E2 dimer observed in the crystal could be physiologically relevant. Heparin sulphate proteoglycans, the putative ligands for the precursor present in extracellular matrix, bind to E2 at a conserved and positively charged site near the dimer interface [].; PDB: 3K6B_A 3K66_A 1TKN_A 3NYL_A 3NYJ_A 3UMH_A 3UMK_A 3UMI_A 3QMK_B 3PMR_B ....
Probab=20.85 E-value=2.2e+02 Score=28.52 Aligned_cols=50 Identities=14% Similarity=0.330 Sum_probs=32.5
Q ss_pred hhhHHHHHHHHHHH-HHHHhHHHHhhHHHHHHhHHHH-----------HHHHHHHHHHHhhh
Q 009377 8 KTDRVEKFFEDLKA-QKTILSSCMQLFKSLTSHFTSL-----------EDSLSQKFKSLDSK 57 (536)
Q Consensus 8 ~~e~l~kaF~eLqs-~~s~l~s~t~~W~eL~~HF~sL-----------e~sL~~r~e~L~~k 57 (536)
+.++.++|=..|+. |+-=+.--...|+|+++++..| .+.|.+||+..-..
T Consensus 24 Eh~~f~~Ak~rLe~~hr~r~~~VmkeW~eaE~~~~~l~~~DPk~Ae~~k~~m~~rFQ~~v~a 85 (193)
T PF12925_consen 24 EHQRFKEAKERLEEKHRERMTKVMKEWSEAEERYKELPKADPKKAEQFKKEMTQRFQKTVQA 85 (193)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 44556666666654 3333444446899999999876 56677777765433
No 49
>PHA01750 hypothetical protein
Probab=20.71 E-value=2.2e+02 Score=23.99 Aligned_cols=40 Identities=25% Similarity=0.473 Sum_probs=25.9
Q ss_pred hhhhhhHHHHHHHHHHHHHHhhcccccccChhHHHHHHHHHHHHhhhh
Q 009377 342 ATEESNNLELNSIKAIIKCVEDHKLESAFSVDNLRKRATQLEKVKVER 389 (536)
Q Consensus 342 a~~ea~~kEl~aLkaViKcIEehKLEs~~p~~~L~kRI~qLEK~Kaer 389 (536)
|.+|...+||.-|+.-|.-+. .-.|.|+++|.++.| |-||
T Consensus 35 AvkeIV~~ELdNL~~ei~~~k-------ikqDnl~~qv~eik~-k~dk 74 (75)
T PHA01750 35 AVKEIVNSELDNLKTEIEELK-------IKQDELSRQVEEIKR-KLDK 74 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-------HhHHHHHHHHHHHHH-hhcc
Confidence 455666788888876665444 334668888888844 5444
No 50
>PTZ00473 Plasmodium Vir superfamily; Provisional
Probab=20.32 E-value=1.3e+02 Score=33.18 Aligned_cols=18 Identities=11% Similarity=0.023 Sum_probs=9.4
Q ss_pred HHHHHHhHHhhHHHhhcC
Q 009377 319 KSHLRNSKKNSTSILKNG 336 (536)
Q Consensus 319 Ksyl~~aKk~~~~i~k~g 336 (536)
+..|+--|+.-..+|...
T Consensus 173 n~CidIYrk~i~~~Cs~~ 190 (420)
T PTZ00473 173 NDCLDIYRKYKDEKCSGN 190 (420)
T ss_pred HHHHHHHHHHHHhhcCCc
Confidence 445555555554555554
Done!