Query psy8555
Match_columns 127
No_of_seqs 149 out of 161
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 21:51:55 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8555.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8555hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04190 DUF410: Protein of un 99.8 4.2E-20 9E-25 149.1 3.3 76 49-125 127-208 (260)
2 KOG3024|consensus 99.7 3.9E-17 8.4E-22 135.7 7.2 79 46-125 159-250 (312)
3 PF04190 DUF410: Protein of un 99.6 7.9E-17 1.7E-21 130.1 2.0 54 2-55 206-260 (260)
4 KOG3024|consensus 99.5 4.3E-15 9.4E-20 123.6 4.6 56 1-57 247-302 (312)
5 PF14938 SNAP: Soluble NSF att 80.0 5.3 0.00011 32.1 5.7 93 23-124 154-250 (282)
6 PF13174 TPR_6: Tetratricopept 68.4 10 0.00023 19.7 3.3 26 70-96 7-32 (33)
7 TIGR02795 tol_pal_ybgF tol-pal 62.8 39 0.00085 21.9 6.5 82 11-96 23-108 (119)
8 PRK10370 formate-dependent nit 57.1 57 0.0012 25.0 6.8 85 7-96 56-142 (198)
9 smart00667 LisH Lissencephaly 56.7 19 0.00042 18.9 3.0 24 66-89 5-28 (34)
10 TIGR02552 LcrH_SycD type III s 53.9 52 0.0011 22.3 5.5 80 10-95 37-116 (135)
11 PRK09462 fur ferric uptake reg 45.6 56 0.0012 23.9 4.9 32 68-99 19-52 (148)
12 PF13428 TPR_14: Tetratricopep 44.5 24 0.00052 20.4 2.3 23 74-96 11-33 (44)
13 cd07153 Fur_like Ferric uptake 40.7 84 0.0018 21.4 4.9 31 69-99 4-35 (116)
14 TIGR02521 type_IV_pilW type IV 40.6 1.3E+02 0.0027 21.1 6.3 19 75-93 180-198 (234)
15 PF08914 Myb_DNA-bind_2: Rap1 40.2 18 0.00039 23.8 1.4 38 57-95 4-41 (65)
16 PLN03088 SGT1, suppressor of 39.4 1.2E+02 0.0026 25.4 6.5 85 6-96 18-102 (356)
17 PF01465 GRIP: GRIP domain; I 37.6 58 0.0013 19.9 3.3 27 61-87 2-28 (46)
18 PF14003 YlbE: YlbE-like prote 36.6 20 0.00044 24.1 1.2 41 16-56 17-63 (65)
19 COG0735 Fur Fe2+/Zn2+ uptake r 35.6 1E+02 0.0022 22.8 5.0 31 69-99 24-55 (145)
20 PRK10803 tol-pal system protei 35.2 1.6E+02 0.0035 23.9 6.5 80 12-97 165-250 (263)
21 TIGR00990 3a0801s09 mitochondr 32.3 1.8E+02 0.004 25.7 6.8 26 11-36 352-377 (615)
22 PF15116 CD52: CAMPATH-1 antig 31.0 24 0.00052 22.1 0.7 33 37-78 11-44 (44)
23 TIGR01562 FdhE formate dehydro 30.9 78 0.0017 26.8 4.0 51 16-73 93-143 (305)
24 PF13432 TPR_16: Tetratricopep 30.1 1.1E+02 0.0024 18.2 3.7 28 9-36 16-43 (65)
25 TIGR02552 LcrH_SycD type III s 29.9 1.8E+02 0.0038 19.6 5.4 79 11-95 4-82 (135)
26 COG2956 Predicted N-acetylgluc 29.7 2E+02 0.0044 25.4 6.4 84 8-98 232-316 (389)
27 PF13414 TPR_11: TPR repeat; P 27.6 80 0.0017 19.0 2.8 33 6-38 19-51 (69)
28 TIGR00990 3a0801s09 mitochondr 26.6 2.4E+02 0.0052 24.9 6.6 22 75-96 478-499 (615)
29 cd00189 TPR Tetratricopeptide 26.5 1.3E+02 0.0028 17.0 5.8 79 11-95 21-99 (100)
30 PF05843 Suf: Suppressor of fo 25.6 1.7E+02 0.0037 23.5 5.1 60 49-117 23-82 (280)
31 PRK11639 zinc uptake transcrip 25.4 2.2E+02 0.0048 21.5 5.4 32 68-99 28-60 (169)
32 PRK11788 tetratricopeptide rep 24.4 2.9E+02 0.0064 22.0 6.2 21 75-95 260-280 (389)
33 PF14559 TPR_19: Tetratricopep 23.8 97 0.0021 18.5 2.6 23 74-96 35-57 (68)
34 KOG3761|consensus 23.0 35 0.00076 30.5 0.6 18 59-78 323-340 (591)
35 PRK13019 clpS ATP-dependent Cl 22.5 1E+02 0.0022 21.7 2.8 30 64-93 34-63 (94)
36 PF13431 TPR_17: Tetratricopep 22.3 71 0.0015 17.8 1.6 25 13-37 2-26 (34)
37 PHA00684 hypothetical protein 21.2 38 0.00082 25.6 0.4 27 71-97 49-75 (128)
38 PF12005 DUF3499: Protein of u 21.1 65 0.0014 24.2 1.6 18 56-73 68-85 (123)
39 COG3484 Predicted proteasome-t 21.1 95 0.0021 25.7 2.7 32 48-80 29-68 (255)
40 PF01756 ACOX: Acyl-CoA oxidas 20.9 3E+02 0.0066 20.6 5.4 63 19-89 73-135 (187)
No 1
>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function.; PDB: 3LKU_E 2WPV_G.
Probab=99.79 E-value=4.2e-20 Score=149.15 Aligned_cols=76 Identities=34% Similarity=0.494 Sum_probs=63.7
Q ss_pred hhHHHhhcCCCCchhHHHHHHHHHHHHhhcCcccHHHHHHHHHhh----CCCCCC--CCCCCCcchHHHHHHHHHhhccc
Q psy8555 49 LFGTEYDLNLSIDIDLNGSWTVVLQYLCLQNKVTANQTFENYTTR----HPNIQT--RGPPYYLPLLNFIWFLLKVIETY 122 (127)
Q Consensus 49 m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~n~~~A~~~f~~y~~~----hp~i~~--~~~p~~~PLLnF~~fLl~tie~~ 122 (127)
++-.|+.+|+++|.|+ |||||||||||++|.++|+.+|++|+++ ||+++. .++|+..|||||+|||+.|||++
T Consensus 127 ll~~~~~~~~~~e~dl-fi~RaVL~yL~l~n~~~A~~~~~~f~~~~~~~~p~~~~~~~~~~~~~PllnF~~lLl~t~e~~ 205 (260)
T PF04190_consen 127 LLEEWSTKGYPSEADL-FIARAVLQYLCLGNLRDANELFDTFTSKLIESHPKLENSDIEYPPSYPLLNFLQLLLLTCERD 205 (260)
T ss_dssp HHHHHHHHTSS--HHH-HHHHHHHHHHHTTBHHHHHHHHHHHHHHHHHH---EEEEEEEEESS-HHHHHHHHHHHHHHHT
T ss_pred HHHHHHHhcCCcchhH-HHHHHHHHHHHhcCHHHHHHHHHHHHHHHhccCcchhccccCCCCCCchHHHHHHHHHHHhcC
Confidence 5668999999999999 9999999999999999999999999999 998876 46788999999999999999998
Q ss_pred ccc
Q psy8555 123 TVT 125 (127)
Q Consensus 123 ~l~ 125 (127)
+..
T Consensus 206 ~~~ 208 (260)
T PF04190_consen 206 NLP 208 (260)
T ss_dssp -HH
T ss_pred cHH
Confidence 753
No 2
>KOG3024|consensus
Probab=99.69 E-value=3.9e-17 Score=135.70 Aligned_cols=79 Identities=32% Similarity=0.507 Sum_probs=73.6
Q ss_pred hhh-hhHHHhhcCCCCchhHHHHHHHHHHHHhhcCcccHHHHHHHHHh------------hCCCCCCCCCCCCcchHHHH
Q psy8555 46 AGG-LFGTEYDLNLSIDIDLNGSWTVVLQYLCLQNKVTANQTFENYTT------------RHPNIQTRGPPYYLPLLNFI 112 (127)
Q Consensus 46 ~~~-m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~n~~~A~~~f~~y~~------------~hp~i~~~~~p~~~PLLnF~ 112 (127)
++. |+..+|.++..+|.|+ |++||||||||++|...|..+|++|++ .|++...+++|+.+|||||+
T Consensus 159 ~a~~ll~y~~~r~f~~e~d~-f~~~aVlq~L~len~~~A~~s~t~yt~~f~~k~~p~~e~~~~~~~k~~~~~~~pllNFl 237 (312)
T KOG3024|consen 159 FAYMLLEYSMSRGFKSEPDV-FYVQAVLQYLCLENDSSAARSFTTYTSMFNMKDFPMDEIKHKAGTKNPFPFEYPLLNFL 237 (312)
T ss_pred HHHHHHHHHhhcccccCchH-HHHHHHHHHHhhcchHHHHHHHHHHHHhhccccccchhhcccccccCCCccccchHHHH
Confidence 555 6678999999999999 999999999999999999999999999 99988877899999999999
Q ss_pred HHHHHhhcccccc
Q psy8555 113 WFLLKVIETYTVT 125 (127)
Q Consensus 113 ~fLl~tie~~~l~ 125 (127)
||||.||++++++
T Consensus 238 ~~Ll~t~~~k~~~ 250 (312)
T KOG3024|consen 238 HFLLETIQRKDLP 250 (312)
T ss_pred HHHHHHHhccccH
Confidence 9999999999875
No 3
>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function.; PDB: 3LKU_E 2WPV_G.
Probab=99.63 E-value=7.9e-17 Score=130.12 Aligned_cols=54 Identities=39% Similarity=0.907 Sum_probs=30.4
Q ss_pred CchHHHHHHHHhhhhccCCccHHHHHHHHHHHhcCCCCCCCCC-chhhhhHHHhh
Q psy8555 2 KLVAFNTLCQQYQTSIKRDPAYSDYLNKIGHIFFGIQPARPAA-PAGGLFGTEYD 55 (127)
Q Consensus 2 ~~~lFr~L~~~Y~~sl~rd~~~~~~L~~IGe~yFgI~~pr~~n-p~~~m~g~~~~ 55 (127)
..++|+.||++|+++|+|||+|.++||+||++||||++|++.| +|++|||++|+
T Consensus 206 ~~~~F~~L~~~Y~~~L~rd~~~~~~L~~IG~~yFgi~~~~~~~~~l~~mm~~lfg 260 (260)
T PF04190_consen 206 NLPLFKKLCEKYKPSLKRDPSFKEYLDKIGQLYFGIQPPQQQNGMLGDMMSGLFG 260 (260)
T ss_dssp -HHHHHHHHHHTHH---HHHHTHHHHHHHHHHHH---S-----------------
T ss_pred cHHHHHHHHHHhCccccccHHHHHHHHHHHHHHCCCCCCCCCCchHHHHHHhhcC
Confidence 4789999999999999999999999999999999999987554 78999999874
No 4
>KOG3024|consensus
Probab=99.54 E-value=4.3e-15 Score=123.58 Aligned_cols=56 Identities=45% Similarity=0.853 Sum_probs=50.9
Q ss_pred CCchHHHHHHHHhhhhccCCccHHHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcC
Q psy8555 1 GKLVAFNTLCQQYQTSIKRDPAYSDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLN 57 (127)
Q Consensus 1 ~~~~lFr~L~~~Y~~sl~rd~~~~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~ 57 (127)
+..++|++||++|++||+||+.|++||++|||+||||+|+++.+ +|||||++|+..
T Consensus 247 k~~~~f~~L~~~Y~~slkrd~~~~~~L~~IgelyFgi~~~~~~s-lgglfgdlfsg~ 302 (312)
T KOG3024|consen 247 KDLPLFLMLRVKYQPSLKRDQAYNEYLDRIGELYFGIRPKQPLS-LGGLFGDLFSGL 302 (312)
T ss_pred cccHHHHHHHHHccchhhhhHHHHHHHHHHHHHHcCCCCCcccc-HhhHHHHHhccC
Confidence 45799999999999999999999999999999999999998654 889999988754
No 5
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=80.00 E-value=5.3 Score=32.05 Aligned_cols=93 Identities=17% Similarity=0.206 Sum_probs=59.6
Q ss_pred HHHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCCch---hH-HHHHHHHHHHHhhcCcccHHHHHHHHHhhCCCCC
Q psy8555 23 YSDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSIDI---DL-NGSWTVVLQYLCLQNKVTANQTFENYTTRHPNIQ 98 (127)
Q Consensus 23 ~~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~E~---Dl-~~IaqAVLQ~Lcl~n~~~A~~~f~~y~~~hp~i~ 98 (127)
-.+.+.++|.++.....-.+ -..++...-..+..... .. ...-.|||=+||.++...|...+++|+...|+..
T Consensus 154 a~~~~~~~A~l~~~l~~y~~---A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~ 230 (282)
T PF14938_consen 154 AAECLLKAADLYARLGRYEE---AIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFA 230 (282)
T ss_dssp HHHHHHHHHHHHHHTT-HHH---HHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTST
T ss_pred HHHHHHHHHHHHHHhCCHHH---HHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCC
Confidence 34666677777666553322 23444444444322211 11 1345678888999999999999999999998776
Q ss_pred CCCCCCCcchHHHHHHHHHhhccccc
Q psy8555 99 TRGPPYYLPLLNFIWFLLKVIETYTV 124 (127)
Q Consensus 99 ~~~~p~~~PLLnF~~fLl~tie~~~l 124 (127)
. +.=-.|+.=|+.+++.+.+
T Consensus 231 ~------s~E~~~~~~l~~A~~~~D~ 250 (282)
T PF14938_consen 231 S------SREYKFLEDLLEAYEEGDV 250 (282)
T ss_dssp T------SHHHHHHHHHHHHHHTT-C
T ss_pred C------cHHHHHHHHHHHHHHhCCH
Confidence 6 5667788889999987653
No 6
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=68.40 E-value=10 Score=19.70 Aligned_cols=26 Identities=23% Similarity=0.261 Sum_probs=21.4
Q ss_pred HHHHHHhhcCcccHHHHHHHHHhhCCC
Q psy8555 70 VVLQYLCLQNKVTANQTFENYTTRHPN 96 (127)
Q Consensus 70 AVLQ~Lcl~n~~~A~~~f~~y~~~hp~ 96 (127)
|..++ -+++...|...|+++.+++|+
T Consensus 7 a~~~~-~~g~~~~A~~~~~~~~~~~P~ 32 (33)
T PF13174_consen 7 ARCYY-KLGDYDEAIEYFQRLIKRYPD 32 (33)
T ss_dssp HHHHH-HHCHHHHHHHHHHHHHHHSTT
T ss_pred HHHHH-HccCHHHHHHHHHHHHHHCcC
Confidence 44443 489999999999999999985
No 7
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=62.80 E-value=39 Score=21.86 Aligned_cols=82 Identities=16% Similarity=0.142 Sum_probs=51.3
Q ss_pred HHhhhhccCCccH---HHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCC-chhHHHHHHHHHHHHhhcCcccHHHH
Q psy8555 11 QQYQTSIKRDPAY---SDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSI-DIDLNGSWTVVLQYLCLQNKVTANQT 86 (127)
Q Consensus 11 ~~Y~~sl~rd~~~---~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~-E~Dl~~IaqAVLQ~Lcl~n~~~A~~~ 86 (127)
+.|...++.+|.. .+..-.+|.+|+....... -..++..+....-.+ ..+. .......-+..+++...|...
T Consensus 23 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---A~~~~~~~~~~~p~~~~~~~-~~~~~~~~~~~~~~~~~A~~~ 98 (119)
T TIGR02795 23 QAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYAD---AAKAFLAVVKKYPKSPKAPD-ALLKLGMSLQELGDKEKAKAT 98 (119)
T ss_pred HHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHH---HHHHHHHHHHHCCCCCcccH-HHHHHHHHHHHhCChHHHHHH
Confidence 4445555444433 4566678999998887643 235566555543222 1222 333333445678999999999
Q ss_pred HHHHHhhCCC
Q psy8555 87 FENYTTRHPN 96 (127)
Q Consensus 87 f~~y~~~hp~ 96 (127)
+++..+.+|.
T Consensus 99 ~~~~~~~~p~ 108 (119)
T TIGR02795 99 LQQVIKRYPG 108 (119)
T ss_pred HHHHHHHCcC
Confidence 9999998874
No 8
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=57.08 E-value=57 Score=24.98 Aligned_cols=85 Identities=13% Similarity=0.120 Sum_probs=58.9
Q ss_pred HHHHHHhhhhccCCccHHHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCCchhHHHHHHHHHHHHhhcC--cccHH
Q psy8555 7 NTLCQQYQTSIKRDPAYSDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSIDIDLNGSWTVVLQYLCLQN--KVTAN 84 (127)
Q Consensus 7 r~L~~~Y~~sl~rd~~~~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~n--~~~A~ 84 (127)
..+...|+..++.+|...+..-.+|..|........ --..+....+. .|...++ ...-|...+...++ ...|.
T Consensus 56 ~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~~~---A~~a~~~Al~l-~P~~~~~-~~~lA~aL~~~~g~~~~~~A~ 130 (198)
T PRK10370 56 EAQLQALQDKIRANPQNSEQWALLGEYYLWRNDYDN---ALLAYRQALQL-RGENAEL-YAALATVLYYQAGQHMTPQTR 130 (198)
T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHH---HHHHHHHHHHh-CCCCHHH-HHHHHHHHHHhcCCCCcHHHH
Confidence 456678889999999999999999999987665543 12344444443 3666777 66666544455555 47888
Q ss_pred HHHHHHHhhCCC
Q psy8555 85 QTFENYTTRHPN 96 (127)
Q Consensus 85 ~~f~~y~~~hp~ 96 (127)
.++++..+.+|+
T Consensus 131 ~~l~~al~~dP~ 142 (198)
T PRK10370 131 EMIDKALALDAN 142 (198)
T ss_pred HHHHHHHHhCCC
Confidence 888888887763
No 9
>smart00667 LisH Lissencephaly type-1-like homology motif. Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.
Probab=56.69 E-value=19 Score=18.93 Aligned_cols=24 Identities=17% Similarity=0.252 Sum_probs=18.5
Q ss_pred HHHHHHHHHHhhcCcccHHHHHHH
Q psy8555 66 GSWTVVLQYLCLQNKVTANQTFEN 89 (127)
Q Consensus 66 ~IaqAVLQ~Lcl~n~~~A~~~f~~ 89 (127)
-+.+.|+|||.-.....+...|.+
T Consensus 5 ~l~~lI~~yL~~~g~~~ta~~l~~ 28 (34)
T smart00667 5 ELNRLILEYLLRNGYEETAETLQK 28 (34)
T ss_pred HHHHHHHHHHHHcCHHHHHHHHHH
Confidence 357799999998888777766654
No 10
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=53.86 E-value=52 Score=22.29 Aligned_cols=80 Identities=14% Similarity=-0.020 Sum_probs=53.6
Q ss_pred HHHhhhhccCCccHHHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCCchhHHHHHHHHHHHHhhcCcccHHHHHHH
Q psy8555 10 CQQYQTSIKRDPAYSDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSIDIDLNGSWTVVLQYLCLQNKVTANQTFEN 89 (127)
Q Consensus 10 ~~~Y~~sl~rd~~~~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~n~~~A~~~f~~ 89 (127)
.+.++..+..+|...+....+|+.|+......+ .-..+....+. .|...+. ....|++. .-.++...|...|.+
T Consensus 37 ~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~---A~~~~~~~~~~-~p~~~~~-~~~la~~~-~~~g~~~~A~~~~~~ 110 (135)
T TIGR02552 37 LKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEE---AIDAYALAAAL-DPDDPRP-YFHAAECL-LALGEPESALKALDL 110 (135)
T ss_pred HHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhc-CCCChHH-HHHHHHHH-HHcCCHHHHHHHHHH
Confidence 355666666777777888888888887755433 12344443333 3556666 66666644 567889999999999
Q ss_pred HHhhCC
Q psy8555 90 YTTRHP 95 (127)
Q Consensus 90 y~~~hp 95 (127)
..+.+|
T Consensus 111 al~~~p 116 (135)
T TIGR02552 111 AIEICG 116 (135)
T ss_pred HHHhcc
Confidence 988776
No 11
>PRK09462 fur ferric uptake regulator; Provisional
Probab=45.57 E-value=56 Score=23.85 Aligned_cols=32 Identities=16% Similarity=0.172 Sum_probs=27.2
Q ss_pred HHHHHHHHhhc--CcccHHHHHHHHHhhCCCCCC
Q psy8555 68 WTVVLQYLCLQ--NKVTANQTFENYTTRHPNIQT 99 (127)
Q Consensus 68 aqAVLQ~Lcl~--n~~~A~~~f~~y~~~hp~i~~ 99 (127)
=++||++|... ...+|..+++...++.|+++.
T Consensus 19 R~~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~ 52 (148)
T PRK09462 19 RLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGL 52 (148)
T ss_pred HHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCH
Confidence 36899999853 588999999999999998876
No 12
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=44.54 E-value=24 Score=20.36 Aligned_cols=23 Identities=17% Similarity=0.216 Sum_probs=20.7
Q ss_pred HHhhcCcccHHHHHHHHHhhCCC
Q psy8555 74 YLCLQNKVTANQTFENYTTRHPN 96 (127)
Q Consensus 74 ~Lcl~n~~~A~~~f~~y~~~hp~ 96 (127)
|..+|+...|..+|.+..+.+|.
T Consensus 11 ~~~~G~~~~A~~~~~~~l~~~P~ 33 (44)
T PF13428_consen 11 YRRLGQPDEAERLLRRALALDPD 33 (44)
T ss_pred HHHcCCHHHHHHHHHHHHHHCcC
Confidence 57799999999999999999883
No 13
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=40.68 E-value=84 Score=21.43 Aligned_cols=31 Identities=23% Similarity=0.406 Sum_probs=25.9
Q ss_pred HHHHHHHhhc-CcccHHHHHHHHHhhCCCCCC
Q psy8555 69 TVVLQYLCLQ-NKVTANQTFENYTTRHPNIQT 99 (127)
Q Consensus 69 qAVLQ~Lcl~-n~~~A~~~f~~y~~~hp~i~~ 99 (127)
++||++|... ..-+|..+++...++.|+++.
T Consensus 4 ~~Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~ 35 (116)
T cd07153 4 LAILEVLLESDGHLTAEEIYERLRKKGPSISL 35 (116)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHHHhcCCCCCH
Confidence 5788988764 468999999999999887766
No 14
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=40.60 E-value=1.3e+02 Score=21.10 Aligned_cols=19 Identities=16% Similarity=0.113 Sum_probs=10.9
Q ss_pred HhhcCcccHHHHHHHHHhh
Q psy8555 75 LCLQNKVTANQTFENYTTR 93 (127)
Q Consensus 75 Lcl~n~~~A~~~f~~y~~~ 93 (127)
...++...|...++++.+.
T Consensus 180 ~~~~~~~~A~~~~~~~~~~ 198 (234)
T TIGR02521 180 YLRGQYKDARAYLERYQQT 198 (234)
T ss_pred HHcCCHHHHHHHHHHHHHh
Confidence 3455556666666665554
No 15
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=40.25 E-value=18 Score=23.84 Aligned_cols=38 Identities=16% Similarity=0.224 Sum_probs=27.8
Q ss_pred CCCCchhHHHHHHHHHHHHhhcCcccHHHHHHHHHhhCC
Q psy8555 57 NLSIDIDLNGSWTVVLQYLCLQNKVTANQTFENYTTRHP 95 (127)
Q Consensus 57 ~~~~E~Dl~~IaqAVLQ~Lcl~n~~~A~~~f~~y~~~hp 95 (127)
.|..|+|- +|+.-|..+=..+....-|.++.++.+++|
T Consensus 4 ~fT~edD~-~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~ 41 (65)
T PF08914_consen 4 PFTEEDDA-ALLDYVKENERQGGSVSGNKIWKELEEKHP 41 (65)
T ss_dssp ---HHHHH-HHHHHHHHT--STTTTTSSHHHHHHHHS-S
T ss_pred CCCHHHHH-HHHHHHHHhccCCCCCchHHHHHHHHHHcC
Confidence 35678898 999999887777766778999999999987
No 16
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=39.36 E-value=1.2e+02 Score=25.39 Aligned_cols=85 Identities=14% Similarity=0.063 Sum_probs=61.5
Q ss_pred HHHHHHHhhhhccCCccHHHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCCchhHHHHHHHHHHHHhhcCcccHHH
Q psy8555 6 FNTLCQQYQTSIKRDPAYSDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSIDIDLNGSWTVVLQYLCLQNKVTANQ 85 (127)
Q Consensus 6 Fr~L~~~Y~~sl~rd~~~~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~n~~~A~~ 85 (127)
|....+.|...|+.+|....++-..|..|........+ -..+...... .|..... ....+++. ..+++...|..
T Consensus 18 ~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eA---l~~~~~Al~l-~P~~~~a-~~~lg~~~-~~lg~~~eA~~ 91 (356)
T PLN03088 18 FALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEA---VADANKAIEL-DPSLAKA-YLRKGTAC-MKLEEYQTAKA 91 (356)
T ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH---HHHHHHHHHh-CcCCHHH-HHHHHHHH-HHhCCHHHHHH
Confidence 44556889999999999999999999999987655321 2233333333 4666666 66666555 57899999999
Q ss_pred HHHHHHhhCCC
Q psy8555 86 TFENYTTRHPN 96 (127)
Q Consensus 86 ~f~~y~~~hp~ 96 (127)
.|.+..+..|.
T Consensus 92 ~~~~al~l~P~ 102 (356)
T PLN03088 92 ALEKGASLAPG 102 (356)
T ss_pred HHHHHHHhCCC
Confidence 99999887763
No 17
>PF01465 GRIP: GRIP domain; InterPro: IPR000237 The GRIP (golgin-97, RanBP2alpha,Imh1p and p230/golgin-245) domain [, , ] is found in many large coiled-coil proteins. It has been shown to be sufficient for targeting to the Golgi []. The GRIP domain contains a completely conserved tyrosine residue.; GO: 0005515 protein binding, 0000042 protein targeting to Golgi; PDB: 1R4A_H 1UPT_B.
Probab=37.59 E-value=58 Score=19.88 Aligned_cols=27 Identities=26% Similarity=0.278 Sum_probs=18.0
Q ss_pred chhHHHHHHHHHHHHhhcCcccHHHHH
Q psy8555 61 DIDLNGSWTVVLQYLCLQNKVTANQTF 87 (127)
Q Consensus 61 E~Dl~~IaqAVLQ~Lcl~n~~~A~~~f 87 (127)
++|+.++=.+|+|||+.++......+.
T Consensus 2 ~~~~eYLKNvl~~fl~~~~~~~~~~ll 28 (46)
T PF01465_consen 2 GINLEYLKNVLLQFLESREPSEREQLL 28 (46)
T ss_dssp -HHHHHHHHHHHHHHTTSS---HHHHH
T ss_pred chhHHHHHHHHHHHhcCCchhhHHHHH
Confidence 456778888999999999955444443
No 18
>PF14003 YlbE: YlbE-like protein
Probab=36.61 E-value=20 Score=24.08 Aligned_cols=41 Identities=10% Similarity=0.199 Sum_probs=32.0
Q ss_pred hccCCccHHHHHHHHHHHhcCCCCCCC----CCc--hhhhhHHHhhc
Q psy8555 16 SIKRDPAYSDYLNKIGHIFFGIQPARP----AAP--AGGLFGTEYDL 56 (127)
Q Consensus 16 sl~rd~~~~~~L~~IGe~yFgI~~pr~----~np--~~~m~g~~~~k 56 (127)
-|+|+|.-.+.++.-+.-|||-..|.. +|. |++|+-.+|+.
T Consensus 17 ~LsR~P~~l~~fe~~a~~~y~kT~p~rVek~~n~lqMa~MM~~M~~~ 63 (65)
T PF14003_consen 17 ILSRNPEELEAFEKEAKHFYKKTIPHRVEKFSNQLQMASMMMEMFQA 63 (65)
T ss_pred HHccCHHHHHHHHHHHHHHHhccccHHHHHHHhHHHHHHHHHHHHHh
Confidence 468999999999999999999998842 222 77777776653
No 19
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=35.62 E-value=1e+02 Score=22.81 Aligned_cols=31 Identities=23% Similarity=0.373 Sum_probs=26.4
Q ss_pred HHHHHHHhhc-CcccHHHHHHHHHhhCCCCCC
Q psy8555 69 TVVLQYLCLQ-NKVTANQTFENYTTRHPNIQT 99 (127)
Q Consensus 69 qAVLQ~Lcl~-n~~~A~~~f~~y~~~hp~i~~ 99 (127)
.+||++|... +..+|..++.+..+.-|.++.
T Consensus 24 ~~vl~~L~~~~~~~sAeei~~~l~~~~p~isl 55 (145)
T COG0735 24 LAVLELLLEADGHLSAEELYEELREEGPGISL 55 (145)
T ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCH
Confidence 3788888855 669999999999999998876
No 20
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=35.25 E-value=1.6e+02 Score=23.93 Aligned_cols=80 Identities=13% Similarity=0.155 Sum_probs=47.6
Q ss_pred HhhhhccCCccH---HHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCC---chhHHHHHHHHHHHHhhcCcccHHH
Q psy8555 12 QYQTSIKRDPAY---SDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSI---DIDLNGSWTVVLQYLCLQNKVTANQ 85 (127)
Q Consensus 12 ~Y~~sl~rd~~~---~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~---E~Dl~~IaqAVLQ~Lcl~n~~~A~~ 85 (127)
.|+..+++.|.- ....-.+|+.||.......+ ..-|-.+.++ ||. -.|. +.....-+.-+++...|..
T Consensus 165 af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A---~~~f~~vv~~-yP~s~~~~dA--l~klg~~~~~~g~~~~A~~ 238 (263)
T PRK10803 165 AFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDA---AYYFASVVKN-YPKSPKAADA--MFKVGVIMQDKGDTAKAKA 238 (263)
T ss_pred HHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHH---HHHHHHHHHH-CCCCcchhHH--HHHHHHHHHHcCCHHHHHH
Confidence 344444444433 46778999999987655432 2334444432 332 2232 2222222357899999999
Q ss_pred HHHHHHhhCCCC
Q psy8555 86 TFENYTTRHPNI 97 (127)
Q Consensus 86 ~f~~y~~~hp~i 97 (127)
++++..+.+|.-
T Consensus 239 ~~~~vi~~yP~s 250 (263)
T PRK10803 239 VYQQVIKKYPGT 250 (263)
T ss_pred HHHHHHHHCcCC
Confidence 999999999853
No 21
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=32.27 E-value=1.8e+02 Score=25.67 Aligned_cols=26 Identities=19% Similarity=0.209 Sum_probs=13.1
Q ss_pred HHhhhhccCCccHHHHHHHHHHHhcC
Q psy8555 11 QQYQTSIKRDPAYSDYLNKIGHIFFG 36 (127)
Q Consensus 11 ~~Y~~sl~rd~~~~~~L~~IGe~yFg 36 (127)
+.|...++.+|.+.+..-.+|.+|+.
T Consensus 352 ~~~~kal~l~P~~~~~~~~la~~~~~ 377 (615)
T TIGR00990 352 ADLSKSIELDPRVTQSYIKRASMNLE 377 (615)
T ss_pred HHHHHHHHcCCCcHHHHHHHHHHHHH
Confidence 34444455555555555555555554
No 22
>PF15116 CD52: CAMPATH-1 antigen
Probab=31.00 E-value=24 Score=22.11 Aligned_cols=33 Identities=18% Similarity=0.244 Sum_probs=21.7
Q ss_pred CCCCCCCCc-hhhhhHHHhhcCCCCchhHHHHHHHHHHHHhhc
Q psy8555 37 IQPARPAAP-AGGLFGTEYDLNLSIDIDLNGSWTVVLQYLCLQ 78 (127)
Q Consensus 37 I~~pr~~np-~~~m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~ 78 (127)
-++|+.+.| ++++=|+.+- + |+|.++.|+.|++
T Consensus 11 tk~~ks~apA~s~lggg~~L--------f-FlaNtLi~LF~lS 44 (44)
T PF15116_consen 11 TKKPKSGAPALSSLGGGSFL--------F-FLANTLIQLFYLS 44 (44)
T ss_pred ccCCCCCCccccccCCceEE--------e-ehhhhHhHHhccC
Confidence 346665555 5555555544 3 9999999988864
No 23
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=30.88 E-value=78 Score=26.84 Aligned_cols=51 Identities=16% Similarity=0.180 Sum_probs=35.6
Q ss_pred hccCCccHHHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCCchhHHHHHHHHHH
Q psy8555 16 SIKRDPAYSDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSIDIDLNGSWTVVLQ 73 (127)
Q Consensus 16 sl~rd~~~~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~E~Dl~~IaqAVLQ 73 (127)
++.||+.|.++|+.+=+.. ....+ .+....+..+.+ -+|.++..+|+++|+
T Consensus 93 ~~~~d~~w~~~l~~LL~~l-~~~~~---~~~~~~l~~l~~---~~~~~le~~a~alL~ 143 (305)
T TIGR01562 93 LLVREGAWLPWLDALLAGY-PAPAN---AAAGAALEQLRE---AEEGQLKAMAIALLA 143 (305)
T ss_pred hcccCHHHHHHHHHHHHHh-ccccc---HHHHHHHHHHHh---CCHHHHHHHHHHHhc
Confidence 4678899999999998887 22221 224556666553 578888889999885
No 24
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=30.12 E-value=1.1e+02 Score=18.23 Aligned_cols=28 Identities=18% Similarity=0.478 Sum_probs=15.1
Q ss_pred HHHHhhhhccCCccHHHHHHHHHHHhcC
Q psy8555 9 LCQQYQTSIKRDPAYSDYLNKIGHIFFG 36 (127)
Q Consensus 9 L~~~Y~~sl~rd~~~~~~L~~IGe~yFg 36 (127)
-.+.|...++.+|...+++-.+|.+++.
T Consensus 16 A~~~~~~~l~~~P~~~~a~~~lg~~~~~ 43 (65)
T PF13432_consen 16 AIAAFEQALKQDPDNPEAWYLLGRILYQ 43 (65)
T ss_dssp HHHHHHHHHCCSTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence 3445555555555555555555555553
No 25
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=29.88 E-value=1.8e+02 Score=19.58 Aligned_cols=79 Identities=9% Similarity=-0.022 Sum_probs=53.7
Q ss_pred HHhhhhccCCccHHHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCCchhHHHHHHHHHHHHhhcCcccHHHHHHHH
Q psy8555 11 QQYQTSIKRDPAYSDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSIDIDLNGSWTVVLQYLCLQNKVTANQTFENY 90 (127)
Q Consensus 11 ~~Y~~sl~rd~~~~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~n~~~A~~~f~~y 90 (127)
+.|+..++.+|.-...+-..|..|+....... --.++-..... .|...+. .. .....+..+++...|...++..
T Consensus 4 ~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~---A~~~~~~~~~~-~p~~~~~-~~-~la~~~~~~~~~~~A~~~~~~~ 77 (135)
T TIGR02552 4 ATLKDLLGLDSEQLEQIYALAYNLYQQGRYDE---ALKLFQLLAAY-DPYNSRY-WL-GLAACCQMLKEYEEAIDAYALA 77 (135)
T ss_pred hhHHHHHcCChhhHHHHHHHHHHHHHcccHHH---HHHHHHHHHHh-CCCcHHH-HH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 45777888888888888999999997765432 12344433332 4666665 43 3344456778999999999998
Q ss_pred HhhCC
Q psy8555 91 TTRHP 95 (127)
Q Consensus 91 ~~~hp 95 (127)
.+.+|
T Consensus 78 ~~~~p 82 (135)
T TIGR02552 78 AALDP 82 (135)
T ss_pred HhcCC
Confidence 88664
No 26
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=29.69 E-value=2e+02 Score=25.43 Aligned_cols=84 Identities=11% Similarity=0.182 Sum_probs=64.2
Q ss_pred HHHHHhhhhccCCccHH-HHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCCchhHHHHHHHHHHHHhhcCcccHHHH
Q psy8555 8 TLCQQYQTSIKRDPAYS-DYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSIDIDLNGSWTVVLQYLCLQNKVTANQT 86 (127)
Q Consensus 8 ~L~~~Y~~sl~rd~~~~-~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~n~~~A~~~ 86 (127)
.-.+.|..-++-||.|. +.|+.+-+-|=-+..|.. ...++.+.|......|..+ .+++-+++ ..-...|...
T Consensus 232 ~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~---~~~fL~~~~~~~~g~~~~l-~l~~lie~---~~G~~~Aq~~ 304 (389)
T COG2956 232 KAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAE---GLNFLRRAMETNTGADAEL-MLADLIEL---QEGIDAAQAY 304 (389)
T ss_pred HHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHH---HHHHHHHHHHccCCccHHH-HHHHHHHH---hhChHHHHHH
Confidence 34566777777888876 788888888987777643 4667888999988889999 88888877 3445677888
Q ss_pred HHHHHhhCCCCC
Q psy8555 87 FENYTTRHPNIQ 98 (127)
Q Consensus 87 f~~y~~~hp~i~ 98 (127)
..+-.++||+..
T Consensus 305 l~~Ql~r~Pt~~ 316 (389)
T COG2956 305 LTRQLRRKPTMR 316 (389)
T ss_pred HHHHHhhCCcHH
Confidence 888888888653
No 27
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=27.60 E-value=80 Score=19.01 Aligned_cols=33 Identities=12% Similarity=0.408 Sum_probs=25.3
Q ss_pred HHHHHHHhhhhccCCccHHHHHHHHHHHhcCCC
Q psy8555 6 FNTLCQQYQTSIKRDPAYSDYLNKIGHIFFGIQ 38 (127)
Q Consensus 6 Fr~L~~~Y~~sl~rd~~~~~~L~~IGe~yFgI~ 38 (127)
|..-.+.|...|+.||.....+-.+|..|+...
T Consensus 19 ~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~ 51 (69)
T PF13414_consen 19 YEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLG 51 (69)
T ss_dssp HHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhC
Confidence 344457788888888888888888888888765
No 28
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=26.64 E-value=2.4e+02 Score=24.95 Aligned_cols=22 Identities=14% Similarity=0.027 Sum_probs=13.7
Q ss_pred HhhcCcccHHHHHHHHHhhCCC
Q psy8555 75 LCLQNKVTANQTFENYTTRHPN 96 (127)
Q Consensus 75 Lcl~n~~~A~~~f~~y~~~hp~ 96 (127)
+.+|+...|...|+...+..|.
T Consensus 478 ~~~g~~~~A~~~~~~Al~l~p~ 499 (615)
T TIGR00990 478 LDQNKFDEAIEKFDTAIELEKE 499 (615)
T ss_pred HHccCHHHHHHHHHHHHhcCCc
Confidence 4566666666666666665544
No 29
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=26.53 E-value=1.3e+02 Score=16.96 Aligned_cols=79 Identities=15% Similarity=0.266 Sum_probs=45.9
Q ss_pred HHhhhhccCCccHHHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCCchhHHHHHHHHHHHHhhcCcccHHHHHHHH
Q psy8555 11 QQYQTSIKRDPAYSDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSIDIDLNGSWTVVLQYLCLQNKVTANQTFENY 90 (127)
Q Consensus 11 ~~Y~~sl~rd~~~~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~n~~~A~~~f~~y 90 (127)
+.+...++..|......-.+|.+|........+ -..+....+.. +...+. .......++-.++...|...+.+.
T Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a---~~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~~~~~a~~~~~~~ 94 (100)
T cd00189 21 EYYEKALELDPDNADAYYNLAAAYYKLGKYEEA---LEDYEKALELD-PDNAKA--YYNLGLAYYKLGKYEEALEAYEKA 94 (100)
T ss_pred HHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhCC-CcchhH--HHHHHHHHHHHHhHHHHHHHHHHH
Confidence 445555555565557777888888877554332 23444444432 333333 223333446678888888888887
Q ss_pred HhhCC
Q psy8555 91 TTRHP 95 (127)
Q Consensus 91 ~~~hp 95 (127)
.+.+|
T Consensus 95 ~~~~~ 99 (100)
T cd00189 95 LELDP 99 (100)
T ss_pred HccCC
Confidence 76554
No 30
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=25.58 E-value=1.7e+02 Score=23.52 Aligned_cols=60 Identities=18% Similarity=0.278 Sum_probs=43.5
Q ss_pred hhHHHhhcCCCCchhHHHHHHHHHHHHhhcCcccHHHHHHHHHhhCCCCCCCCCCCCcchHHHHHHHHH
Q psy8555 49 LFGTEYDLNLSIDIDLNGSWTVVLQYLCLQNKVTANQTFENYTTRHPNIQTRGPPYYLPLLNFIWFLLK 117 (127)
Q Consensus 49 m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~n~~~A~~~f~~y~~~hp~i~~~~~p~~~PLLnF~~fLl~ 117 (127)
.|.... +....-.++ +++-|-+-+-|.++.+.|..+|+.-.+..|.-. .=++.++.||+.
T Consensus 23 vF~~a~-~~~~~~~~v-y~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~-------~~~~~Y~~~l~~ 82 (280)
T PF05843_consen 23 VFKRAR-KDKRCTYHV-YVAYALMEYYCNKDPKRARKIFERGLKKFPSDP-------DFWLEYLDFLIK 82 (280)
T ss_dssp HHHHHH-CCCCS-THH-HHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-H-------HHHHHHHHHHHH
T ss_pred HHHHHH-cCCCCCHHH-HHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCH-------HHHHHHHHHHHH
Confidence 555554 334455789 999999999999999999999999999776322 236777777764
No 31
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=25.35 E-value=2.2e+02 Score=21.47 Aligned_cols=32 Identities=16% Similarity=0.276 Sum_probs=25.2
Q ss_pred HHHHHHHHhh-cCcccHHHHHHHHHhhCCCCCC
Q psy8555 68 WTVVLQYLCL-QNKVTANQTFENYTTRHPNIQT 99 (127)
Q Consensus 68 aqAVLQ~Lcl-~n~~~A~~~f~~y~~~hp~i~~ 99 (127)
-++||++|-. .+..+|..+++...++.|+++.
T Consensus 28 R~~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~ 60 (169)
T PRK11639 28 RLEVLRLMSLQPGAISAYDLLDLLREAEPQAKP 60 (169)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHHhhCCCCCc
Confidence 3577777754 4578999999999999888776
No 32
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=24.36 E-value=2.9e+02 Score=22.03 Aligned_cols=21 Identities=10% Similarity=0.116 Sum_probs=11.9
Q ss_pred HhhcCcccHHHHHHHHHhhCC
Q psy8555 75 LCLQNKVTANQTFENYTTRHP 95 (127)
Q Consensus 75 Lcl~n~~~A~~~f~~y~~~hp 95 (127)
...++...|...+.+..+.+|
T Consensus 260 ~~~g~~~~A~~~l~~~~~~~p 280 (389)
T PRK11788 260 QALGDEAEGLEFLRRALEEYP 280 (389)
T ss_pred HHcCCHHHHHHHHHHHHHhCC
Confidence 445566666666666555443
No 33
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=23.77 E-value=97 Score=18.48 Aligned_cols=23 Identities=22% Similarity=0.322 Sum_probs=16.9
Q ss_pred HHhhcCcccHHHHHHHHHhhCCC
Q psy8555 74 YLCLQNKVTANQTFENYTTRHPN 96 (127)
Q Consensus 74 ~Lcl~n~~~A~~~f~~y~~~hp~ 96 (127)
++..|+...|..++.++.+.+|+
T Consensus 35 ~~~~g~~~~A~~~l~~~~~~~~~ 57 (68)
T PF14559_consen 35 YLKQGQYDEAEELLERLLKQDPD 57 (68)
T ss_dssp HHHTT-HHHHHHHHHCCHGGGTT
T ss_pred HHHcCCHHHHHHHHHHHHHHCcC
Confidence 46678888888888888887763
No 34
>KOG3761|consensus
Probab=23.04 E-value=35 Score=30.53 Aligned_cols=18 Identities=33% Similarity=0.691 Sum_probs=15.8
Q ss_pred CCchhHHHHHHHHHHHHhhc
Q psy8555 59 SIDIDLNGSWTVVLQYLCLQ 78 (127)
Q Consensus 59 ~~E~Dl~~IaqAVLQ~Lcl~ 78 (127)
|+|.|| |.--|+||||-+
T Consensus 323 ~d~~dm--ilpiv~qyl~p~ 340 (591)
T KOG3761|consen 323 PDEADM--ILPIVFQYLCPR 340 (591)
T ss_pred ccccce--ehhHHHHhhchH
Confidence 889999 788999999954
No 35
>PRK13019 clpS ATP-dependent Clp protease adaptor; Reviewed
Probab=22.49 E-value=1e+02 Score=21.69 Aligned_cols=30 Identities=7% Similarity=-0.073 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHhhcCcccHHHHHHHHHhh
Q psy8555 64 LNGSWTVVLQYLCLQNKVTANQTFENYTTR 93 (127)
Q Consensus 64 l~~IaqAVLQ~Lcl~n~~~A~~~f~~y~~~ 93 (127)
+.||++.||+..+..+...|..++-+...+
T Consensus 34 ~dfVi~~vl~~vf~~s~~~A~~iml~vH~~ 63 (94)
T PRK13019 34 FEHVVNCLLKAIPGMSEDRAWRLMITAHKE 63 (94)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHhcC
Confidence 458999999999999999999999887654
No 36
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=22.27 E-value=71 Score=17.76 Aligned_cols=25 Identities=16% Similarity=0.543 Sum_probs=21.2
Q ss_pred hhhhccCCccHHHHHHHHHHHhcCC
Q psy8555 13 YQTSIKRDPAYSDYLNKIGHIFFGI 37 (127)
Q Consensus 13 Y~~sl~rd~~~~~~L~~IGe~yFgI 37 (127)
|+..|+-+|...++.-..|..|...
T Consensus 2 y~kAie~~P~n~~a~~nla~~~~~~ 26 (34)
T PF13431_consen 2 YKKAIELNPNNAEAYNNLANLYLNQ 26 (34)
T ss_pred hHHHHHHCCCCHHHHHHHHHHHHHC
Confidence 6778888999999999999988754
No 37
>PHA00684 hypothetical protein
Probab=21.19 E-value=38 Score=25.63 Aligned_cols=27 Identities=33% Similarity=0.524 Sum_probs=23.5
Q ss_pred HHHHHhhcCcccHHHHHHHHHhhCCCC
Q psy8555 71 VLQYLCLQNKVTANQTFENYTTRHPNI 97 (127)
Q Consensus 71 VLQ~Lcl~n~~~A~~~f~~y~~~hp~i 97 (127)
.+|.+.++..+.....|-+|+++||..
T Consensus 49 ~l~~~~l~~I~~~V~~Fi~ya~~hp~~ 75 (128)
T PHA00684 49 VISTLSLPDIGAAVNRFIAYATAHPHL 75 (128)
T ss_pred ccccccHHHHHHHHHHHHHHHHhCCCc
Confidence 456688899999999999999999975
No 38
>PF12005 DUF3499: Protein of unknown function (DUF3499); InterPro: IPR021888 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 125 to 163 amino acids in length.
Probab=21.11 E-value=65 Score=24.18 Aligned_cols=18 Identities=22% Similarity=-0.018 Sum_probs=15.3
Q ss_pred cCCCCchhHHHHHHHHHH
Q psy8555 56 LNLSIDIDLNGSWTVVLQ 73 (127)
Q Consensus 56 k~~~~E~Dl~~IaqAVLQ 73 (127)
--.++|+||.++|.||=+
T Consensus 68 ~~~p~~DDL~ALAeAVRE 85 (123)
T PF12005_consen 68 PPPPDDDDLTALAEAVRE 85 (123)
T ss_pred CCCCChhHHHHHHHHHHh
Confidence 456899999999999966
No 39
>COG3484 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]
Probab=21.10 E-value=95 Score=25.70 Aligned_cols=32 Identities=22% Similarity=0.167 Sum_probs=25.0
Q ss_pred hhhHHHhhcCCCCc--------hhHHHHHHHHHHHHhhcCc
Q psy8555 48 GLFGTEYDLNLSID--------IDLNGSWTVVLQYLCLQNK 80 (127)
Q Consensus 48 ~m~g~~~~k~~~~E--------~Dl~~IaqAVLQ~Lcl~n~ 80 (127)
+.|-.+|.-..||| -.| +|+|||+++|--+-.
T Consensus 29 stfkKl~~~~~pGdRvlvl~taGNL-A~tQaV~~ll~e~~~ 68 (255)
T COG3484 29 STFKKLFVFELPGDRVLVLCTAGNL-AITQAVLHLLDERIQ 68 (255)
T ss_pred HHHHHHhhccCCCceEEEEEecCcc-HHHHHHHHHHHHHhh
Confidence 45667777777877 478 999999999877665
No 40
>PF01756 ACOX: Acyl-CoA oxidase; InterPro: IPR002655 Acyl-CoA oxidase (ACO) acts on CoA derivatives of fatty acids with chain lengths from 8 to 18. It catalyses the first and rate-determining step of the peroxisomal beta-oxidation of fatty acids []. Acyl-CoA oxidase is a homodimer and the polypeptide chain of the subunit is folded into the N-terminal alpha-domain, beta-domain, and C-terminal alpha-domain []. Functional differences between the peroxisomal acyl-CoA oxidases and the mitochondrial acyl-CoA dehydrogenases are attributed to structural differences in the FAD environments []. Experimental data indicate that, in the pumpkin, the expression pattern of ACOX is very similar to that of the glyoxysomal enzyme 3-ketoacyl-CoA thiolase []. In humans, defects in ACOX1 are the cause of pseudoneonatal adrenoleukodystrophy, also known as peroxisomal acyl-CoA oxidase deficiency. Pseudo-NALD is a peroxisomal single-enzyme disorder. Clinical features include mental retardation, leukodystrophy, seizures, mild hepatomegaly and hearing deficit. Pseudo-NALD is characterised by increased plasma levels of very-long chain fatty acids due to a decrease in, or absence of, peroxisome acyl-CoA oxidase activity, despite the peroxisomes being intact and functioning. This entry represents the Acyl-CoA oxidase C-terminal.; GO: 0003997 acyl-CoA oxidase activity, 0006635 fatty acid beta-oxidation, 0055114 oxidation-reduction process, 0005777 peroxisome; PDB: 2FON_A 1IS2_B 2DDH_A 1W07_B.
Probab=20.91 E-value=3e+02 Score=20.63 Aligned_cols=63 Identities=11% Similarity=0.186 Sum_probs=46.7
Q ss_pred CCccHHHHHHHHHHHhcCCCCCCCCCchhhhhHHHhhcCCCCchhHHHHHHHHHHHHhhcCcccHHHHHHH
Q psy8555 19 RDPAYSDYLNKIGHIFFGIQPARPAAPAGGLFGTEYDLNLSIDIDLNGSWTVVLQYLCLQNKVTANQTFEN 89 (127)
Q Consensus 19 rd~~~~~~L~~IGe~yFgI~~pr~~np~~~m~g~~~~k~~~~E~Dl~~IaqAVLQ~Lcl~n~~~A~~~f~~ 89 (127)
.++.-.+.|.++.+.| ++.. ...-.|.+...+|=+-.++..|..+|.+ ||..=.+.|..+-+.
T Consensus 73 ~~~~~~~vL~~L~~Ly-al~~------i~~~~g~fl~~g~ls~~~~~~l~~~i~~-l~~~lrp~av~LVDA 135 (187)
T PF01756_consen 73 ADPEVRQVLRQLCQLY-ALSI------IEENAGDFLEHGYLSPEQIKALRKAIEE-LCAELRPNAVALVDA 135 (187)
T ss_dssp SSTTHHHHHHHHHHHH-HHHH------HHHTHHHHHHTTSS-HHHHHHHHHHHHH-HHHHHGGGHHHHHHT
T ss_pred CChHHHHHHHHHHHHH-hHHH------HHHHHHHHHhCCcCCHHHHHHHHHHHHH-HHHHHHhHHHHHHHh
Confidence 6789999999999999 6553 2335677888888888888778888887 777777777666544
Done!