Query psy15889
Match_columns 92
No_of_seqs 114 out of 1120
Neff 6.6
Searched_HMMs 46136
Date Sat Aug 17 00:11:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15889.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15889hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0485|consensus 99.4 4.2E-13 9.1E-18 97.0 4.8 34 1-34 133-171 (268)
2 KOG0489|consensus 99.4 5.2E-14 1.1E-18 103.4 -0.8 30 1-30 188-222 (261)
3 KOG0484|consensus 99.3 1.1E-12 2.4E-17 85.5 4.3 35 2-36 47-86 (125)
4 KOG0488|consensus 99.3 3.2E-13 6.8E-18 101.6 0.8 32 1-32 201-237 (309)
5 KOG0842|consensus 99.3 7E-13 1.5E-17 99.6 1.4 30 1-30 182-216 (307)
6 KOG0486|consensus 99.2 7.2E-12 1.6E-16 94.3 4.4 72 2-82 142-221 (351)
7 KOG0850|consensus 99.2 1.8E-12 3.9E-17 93.9 1.1 29 1-29 151-184 (245)
8 KOG0487|consensus 99.2 2.7E-12 5.8E-17 96.4 0.9 29 1-29 264-297 (308)
9 KOG0848|consensus 99.2 2.2E-11 4.7E-16 90.2 4.1 30 2-31 229-263 (317)
10 KOG0492|consensus 99.2 1.8E-11 3.8E-16 88.0 2.5 37 1-37 173-214 (246)
11 KOG0843|consensus 99.1 1.7E-11 3.6E-16 86.3 1.3 29 1-29 131-164 (197)
12 KOG2251|consensus 98.9 5.1E-10 1.1E-14 80.8 3.2 29 1-29 66-99 (228)
13 KOG0847|consensus 98.9 2.1E-10 4.6E-15 83.3 0.3 32 1-32 196-232 (288)
14 KOG0494|consensus 98.9 2.9E-10 6.4E-15 84.2 0.8 28 2-29 171-203 (332)
15 KOG0844|consensus 98.9 5.3E-10 1.1E-14 84.4 1.2 28 1-28 210-242 (408)
16 KOG0491|consensus 98.8 1.1E-09 2.3E-14 76.5 1.8 29 1-29 129-162 (194)
17 KOG0483|consensus 98.8 4.5E-10 9.7E-15 80.1 -0.5 27 2-28 80-111 (198)
18 KOG4577|consensus 98.7 3.9E-09 8.5E-14 79.3 0.6 29 1-29 196-229 (383)
19 KOG0493|consensus 98.4 3.5E-08 7.5E-13 73.4 0.0 27 1-27 275-306 (342)
20 KOG0490|consensus 98.4 5.9E-08 1.3E-12 68.4 0.8 26 2-27 90-120 (235)
21 PF00046 Homeobox: Homeobox do 98.3 9.1E-08 2E-12 54.6 -1.2 23 2-24 30-57 (57)
22 COG5576 Homeodomain-containing 98.2 4.4E-07 9.6E-12 62.6 0.8 31 2-32 81-116 (156)
23 cd00086 homeodomain Homeodomai 97.8 2.9E-06 6.4E-11 48.1 -1.2 23 2-24 30-57 (59)
24 smart00389 HOX Homeodomain. DN 97.7 3.4E-06 7.3E-11 47.6 -1.9 22 2-23 30-56 (56)
25 KOG0849|consensus 97.6 1.4E-05 3E-10 61.3 -0.4 27 2-28 206-237 (354)
26 TIGR01565 homeo_ZF_HD homeobox 97.3 5.8E-05 1.3E-09 44.3 0.2 19 1-19 34-57 (58)
27 KOG3802|consensus 97.0 0.00016 3.4E-09 56.3 -0.5 24 4-27 326-354 (398)
28 KOG0775|consensus 95.7 0.003 6.5E-08 47.4 0.3 22 2-23 206-232 (304)
29 KOG0774|consensus 94.6 0.12 2.5E-06 39.0 5.7 27 2-28 221-252 (334)
30 KOG0490|consensus 94.5 0.016 3.5E-07 40.6 1.1 26 2-27 183-213 (235)
31 KOG1168|consensus 94.2 0.024 5.3E-07 43.2 1.4 19 9-27 351-369 (385)
32 PF05920 Homeobox_KN: Homeobox 93.1 0.0098 2.1E-07 32.2 -1.7 20 2-21 16-40 (40)
33 KOG1146|consensus 67.4 1.9 4.2E-05 38.6 0.2 19 9-27 945-963 (1406)
34 KOG4752|consensus 58.9 18 0.00038 17.5 2.6 12 19-30 2-13 (26)
35 KOG3755|consensus 44.5 6.7 0.00015 32.9 -0.2 19 9-27 741-759 (769)
36 KOG3623|consensus 27.6 16 0.00035 31.6 -0.6 19 9-27 598-616 (1007)
37 PF08452 DNAP_B_exo_N: DNA pol 25.7 19 0.0004 17.0 -0.3 8 13-20 7-14 (22)
38 KOG0773|consensus 24.9 22 0.00049 26.7 -0.2 24 4-27 274-302 (342)
39 PF05162 Ribosomal_L41: Riboso 22.5 70 0.0015 15.5 1.3 10 19-28 2-11 (25)
40 PTZ00352 60S ribosomal protein 22.1 61 0.0013 23.6 1.6 19 9-27 18-37 (212)
41 PHA03273 envelope glycoprotein 20.7 29 0.00064 28.2 -0.3 14 9-23 121-134 (486)
No 1
>KOG0485|consensus
Probab=99.39 E-value=4.2e-13 Score=96.96 Aligned_cols=34 Identities=32% Similarity=0.670 Sum_probs=29.0
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNAMNAAA 34 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~~~~~~ 34 (92)
+|..||++ +||||||||||.||||+.....+...
T Consensus 133 eRa~LA~sLqLTETQVKIWFQNRRnKwKRq~aad~ea~s 171 (268)
T KOG0485|consen 133 ERAGLAASLQLTETQVKIWFQNRRNKWKRQYAADLEAAS 171 (268)
T ss_pred HHhHHHHhhhhhhhhhhhhhhhhhHHHHHHHhhhhhhhh
Confidence 57778888 99999999999999999988776543
No 2
>KOG0489|consensus
Probab=99.37 E-value=5.2e-14 Score=103.42 Aligned_cols=30 Identities=30% Similarity=0.665 Sum_probs=26.5
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNAM 30 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~~ 30 (92)
+|.|||.. +|||||||||||||||.++...
T Consensus 188 RRiEiA~~L~LtErQIKIWFQNRRMK~Kk~~k~~~ 222 (261)
T KOG0489|consen 188 RRIEIAHALNLTERQIKIWFQNRRMKWKKENKAKS 222 (261)
T ss_pred HHHHHHhhcchhHHHHHHHHHHHHHHHHHhhcccc
Confidence 57888887 9999999999999999888663
No 3
>KOG0484|consensus
Probab=99.34 E-value=1.1e-12 Score=85.49 Aligned_cols=35 Identities=57% Similarity=0.832 Sum_probs=30.6
Q ss_pred hhhhhhh-----cccccccccchhHHHHHHHHHHHHHHHh
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRKRERNAMNAAAAA 36 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~~~~~~~~ 36 (92)
|||||.+ ++|||||||||+|.|||++.....+...
T Consensus 47 REEiA~kidLTEARVQVWFQNRRAKfRKQEr~a~~~~~~~ 86 (125)
T KOG0484|consen 47 REEIALKIDLTEARVQVWFQNRRAKFRKQERAAIAKMAAK 86 (125)
T ss_pred HHHHHHhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHhhhh
Confidence 8999999 9999999999999999999876655543
No 4
>KOG0488|consensus
Probab=99.32 E-value=3.2e-13 Score=101.58 Aligned_cols=32 Identities=28% Similarity=0.577 Sum_probs=28.5
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNAMNA 32 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~~~~ 32 (92)
+|.+||.+ +|||+|||||||||||+...+.+.
T Consensus 201 DR~~LA~~LgLTdaQVKtWfQNRRtKWKrq~a~g~~~ 237 (309)
T KOG0488|consen 201 DRIELAASLGLTDAQVKTWFQNRRTKWKRQTAEGGEL 237 (309)
T ss_pred HHHHHHHHcCCchhhHHHHHhhhhHHHHHHHHhhhcc
Confidence 58999999 999999999999999999876544
No 5
>KOG0842|consensus
Probab=99.29 E-value=7e-13 Score=99.56 Aligned_cols=30 Identities=30% Similarity=0.597 Sum_probs=27.6
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNAM 30 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~~ 30 (92)
|||+||.. |||||||||||.|.||+++.+.
T Consensus 182 ERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~dk~ 216 (307)
T KOG0842|consen 182 EREHLASSLRLTPTQVKIWFQNRRYKTKRQQKDKA 216 (307)
T ss_pred hHHHHHHhcCCCchheeeeeecchhhhhhhhhhhh
Confidence 79999999 9999999999999999988664
No 6
>KOG0486|consensus
Probab=99.24 E-value=7.2e-12 Score=94.26 Aligned_cols=72 Identities=61% Similarity=1.005 Sum_probs=54.2
Q ss_pred hhhhhhh-----cccccccccchhHHHHHHHHHHHHHHHhhhccCCCCCCCCC-CCCCCCCCCCCCCCccccccCCCCCC
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRKRERNAMNAAAAAAVDFKNGFSTQFN-GLMQTFPDTDSLYTSAYSSYNNWASK 75 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~~~~~~~~s~~~~~~~~~~~~ 75 (92)
|||+|.+ .+|+|||.|||+||||.++..+ +..++.+|...+. ++++|+-+ .|......|++|...
T Consensus 142 rEEIavwtNlTE~rvrvwfknrrakwrkrErN~~------ae~~k~~f~~~~~t~~~~P~~~---vy~~~~y~ynnWs~~ 212 (351)
T KOG0486|consen 142 REEIAVWTNLTEARVRVWFKNRRAKWRKRERNQQ------AELAKGGFGPQFLTGLMQPYFD---VYPLNPYSYNNWSAK 212 (351)
T ss_pred hhHHHhhccccchhhhhhcccchhhhhhhhhhHH------HHhhhcCCcccccccccCchhh---hcccCCccccccchh
Confidence 8999999 9999999999999999888664 2256777887776 67777766 555222289999984
Q ss_pred --CCCCCCC
Q psy15889 76 --VPSPLGT 82 (92)
Q Consensus 76 --~p~P~~~ 82 (92)
.++|+++
T Consensus 213 ql~da~l~t 221 (351)
T KOG0486|consen 213 QLNDAPLGT 221 (351)
T ss_pred hcccccccc
Confidence 3556655
No 7
>KOG0850|consensus
Probab=99.24 E-value=1.8e-12 Score=93.92 Aligned_cols=29 Identities=31% Similarity=0.654 Sum_probs=26.5
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNA 29 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~ 29 (92)
||.|||.. +||||||||||.|.||..+.+
T Consensus 151 ERAeLAAsLGLTQTQVKIWFQNrRSK~KKl~k~g 184 (245)
T KOG0850|consen 151 ERAELAASLGLTQTQVKIWFQNRRSKFKKLKKQG 184 (245)
T ss_pred HHHHHHHHhCCchhHhhhhhhhhHHHHHHHHhcC
Confidence 69999999 999999999999999988843
No 8
>KOG0487|consensus
Probab=99.21 E-value=2.7e-12 Score=96.44 Aligned_cols=29 Identities=31% Similarity=0.494 Sum_probs=25.5
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNA 29 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~ 29 (92)
+|-||++. +||||||||||||.||..++.
T Consensus 264 KR~ElSr~lNLTeRQVKIWFQNRRMK~KK~~re~ 297 (308)
T KOG0487|consen 264 KRLELSRTLNLTERQVKIWFQNRRMKEKKVNREN 297 (308)
T ss_pred HHHHHHHhcccchhheeeeehhhhhHHhhhhhhh
Confidence 47788887 999999999999999988754
No 9
>KOG0848|consensus
Probab=99.18 E-value=2.2e-11 Score=90.24 Aligned_cols=30 Identities=37% Similarity=0.550 Sum_probs=26.0
Q ss_pred hhhhhhh-----cccccccccchhHHHHHHHHHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRKRERNAMN 31 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~~~ 31 (92)
+.|||.. +||||||||||+|.||+++.+..
T Consensus 229 KSELA~~LgLsERQVKIWFQNRRAKERK~nKKk~~ 263 (317)
T KOG0848|consen 229 KSELAATLGLSERQVKIWFQNRRAKERKDNKKKRL 263 (317)
T ss_pred hHHHHHhhCccHhhhhHhhhhhhHHHHHHHHHHHH
Confidence 4678777 99999999999999999987753
No 10
>KOG0492|consensus
Probab=99.15 E-value=1.8e-11 Score=88.02 Aligned_cols=37 Identities=27% Similarity=0.448 Sum_probs=30.5
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHHHHHHHHhh
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNAMNAAAAAA 37 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~~~~~~~~~ 37 (92)
+|.|++.. +||||||||||+|.||.++.+.+....+.
T Consensus 173 EraefSsSL~LTeTqVKIWFQNRRAKaKRlQeae~Ek~kmaa 214 (246)
T KOG0492|consen 173 ERAEFSSSLELTETQVKIWFQNRRAKAKRLQEAELEKLKMAA 214 (246)
T ss_pred HHHhhhhhhhhhhhheehhhhhhhHHHHHHHHHHHHHhhhhh
Confidence 46676665 99999999999999999998887766543
No 11
>KOG0843|consensus
Probab=99.12 E-value=1.7e-11 Score=86.31 Aligned_cols=29 Identities=31% Similarity=0.610 Sum_probs=26.1
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNA 29 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~ 29 (92)
+|++||+. +||||||||||+|.||.....
T Consensus 131 eR~~LA~~L~LsetQVkvWFQNRRtk~kr~~~e~ 164 (197)
T KOG0843|consen 131 ERKQLAQSLSLSETQVKVWFQNRRTKHKRMQQED 164 (197)
T ss_pred HHHHHHHHcCCChhHhhhhhhhhhHHHHHHHHHh
Confidence 58999998 999999999999999977654
No 12
>KOG2251|consensus
Probab=98.95 E-value=5.1e-10 Score=80.78 Aligned_cols=29 Identities=55% Similarity=0.867 Sum_probs=26.5
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNA 29 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~ 29 (92)
.|||||.+ .||||||.|||+|||++++..
T Consensus 66 ~rEelAlklnLpeSrVqVWFKNRRAK~r~qq~qq 99 (228)
T KOG2251|consen 66 MREELALKLNLPESRVQVWFKNRRAKCRRQQQQQ 99 (228)
T ss_pred HHHHHHHHhCCchhhhhhhhccccchhhHhhhhh
Confidence 48999999 999999999999999998864
No 13
>KOG0847|consensus
Probab=98.92 E-value=2.1e-10 Score=83.27 Aligned_cols=32 Identities=41% Similarity=0.747 Sum_probs=26.8
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNAMNA 32 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~~~~ 32 (92)
+|.+||.. .+|+|||||||+||||+...++.+
T Consensus 196 ~ra~lA~~lgmteSqvkVWFQNRRTKWRKkhAaEmas 232 (288)
T KOG0847|consen 196 DRAQLAQELNMTESQVKVWFQNRRTKWRKKHAAEMAS 232 (288)
T ss_pred hHHHhhccccccHHHHHHHHhcchhhhhhhhccchhh
Confidence 46777777 899999999999999988776544
No 14
>KOG0494|consensus
Probab=98.91 E-value=2.9e-10 Score=84.15 Aligned_cols=28 Identities=54% Similarity=0.930 Sum_probs=24.1
Q ss_pred hhhhhhh-----cccccccccchhHHHHHHHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRKRERNA 29 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~ 29 (92)
||-||.+ -||+|||||||+||||.++.-
T Consensus 171 re~la~ktelpEDRIqVWfQNRRAKWRk~Ek~w 203 (332)
T KOG0494|consen 171 REMLADKTELPEDRIQVWFQNRRAKWRKTEKRW 203 (332)
T ss_pred HHHHhhhccCchhhhhHHhhhhhHHhhhhhhhc
Confidence 5667777 799999999999999998864
No 15
>KOG0844|consensus
Probab=98.88 E-value=5.3e-10 Score=84.41 Aligned_cols=28 Identities=29% Similarity=0.449 Sum_probs=24.9
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERN 28 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~ 28 (92)
+|+|||.. +.|||||||||||.|||+-.
T Consensus 210 rRcELAAaLNLPEtTIKVWFQNRRMKDKRQRla 242 (408)
T KOG0844|consen 210 RRCELAAALNLPETTIKVWFQNRRMKDKRQRLA 242 (408)
T ss_pred hhhhHHHhhCCCcceeehhhhhchhhhhhhhhh
Confidence 58999888 99999999999999997653
No 16
>KOG0491|consensus
Probab=98.85 E-value=1.1e-09 Score=76.47 Aligned_cols=29 Identities=38% Similarity=0.641 Sum_probs=25.0
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNA 29 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~ 29 (92)
+|.|||.. +|||.||||||||.||+.+..
T Consensus 129 e~~ELan~L~LS~~QVKTWFQNrRMK~Kk~~r~~ 162 (194)
T KOG0491|consen 129 ERQELANALSLSETQVKTWFQNRRMKHKKQQRNN 162 (194)
T ss_pred HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhcc
Confidence 36788776 999999999999999988854
No 17
>KOG0483|consensus
Probab=98.83 E-value=4.5e-10 Score=80.11 Aligned_cols=27 Identities=37% Similarity=0.783 Sum_probs=22.8
Q ss_pred hhhhhhh-----cccccccccchhHHHHHHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRKRERN 28 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr~~~~ 28 (92)
+..||.. +||.|||||||||||.++..
T Consensus 80 K~~LAk~LgL~pRQVavWFQNRRARwK~kqlE 111 (198)
T KOG0483|consen 80 KKKLAKELGLQPRQVAVWFQNRRARWKTKQLE 111 (198)
T ss_pred HHHHHHhhCCChhHHHHHHhhccccccchhhh
Confidence 4567777 99999999999999987654
No 18
>KOG4577|consensus
Probab=98.69 E-value=3.9e-09 Score=79.26 Aligned_cols=29 Identities=38% Similarity=0.611 Sum_probs=25.7
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRERNA 29 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~ 29 (92)
+||+|+.+ +.|||||||||||.||.++..
T Consensus 196 VREQLsseTGLDMRVVQVWFQNRRAKEKRLKKDA 229 (383)
T KOG4577|consen 196 VREQLSSETGLDMRVVQVWFQNRRAKEKRLKKDA 229 (383)
T ss_pred HHHHhhhccCcceeehhhhhhhhhHHHHhhhhhc
Confidence 48999988 899999999999999987753
No 19
>KOG0493|consensus
Probab=98.45 E-value=3.5e-08 Score=73.36 Aligned_cols=27 Identities=30% Similarity=0.570 Sum_probs=23.5
Q ss_pred Chhhhhhh-----cccccccccchhHHHHHHH
Q psy15889 1 MGELMALW-----LRVRVWFKNRRAKWRKRER 27 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRRaK~rr~~~ 27 (92)
+|.+||.+ .||||||||.|+|.||...
T Consensus 275 RRQ~La~ELgLNEsQIKIWFQNKRAKiKKsTg 306 (342)
T KOG0493|consen 275 RRQELAQELGLNESQIKIWFQNKRAKIKKSTG 306 (342)
T ss_pred HHHHHHHHhCcCHHHhhHHhhhhhhhhhhccC
Confidence 47788888 9999999999999998554
No 20
>KOG0490|consensus
Probab=98.43 E-value=5.9e-08 Score=68.36 Aligned_cols=26 Identities=65% Similarity=0.993 Sum_probs=23.6
Q ss_pred hhhhhhh-----cccccccccchhHHHHHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRKRER 27 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr~~~ 27 (92)
|++||.. .+|+|||||||+||+++++
T Consensus 90 r~~la~~~~~~e~rVqvwFqnrrak~r~~~~ 120 (235)
T KOG0490|consen 90 RECLALLLTGDEFRVQVWFQNRRAKDRKEER 120 (235)
T ss_pred HHHHhhcCCCCeeeeehhhhhhcHhhhhhhc
Confidence 6788877 9999999999999999886
No 21
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=98.26 E-value=9.1e-08 Score=54.63 Aligned_cols=23 Identities=43% Similarity=0.608 Sum_probs=20.3
Q ss_pred hhhhhhh-----cccccccccchhHHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRK 24 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr 24 (92)
+++||.. .+|++||+|||.|+||
T Consensus 30 ~~~la~~l~l~~~~V~~WF~nrR~k~kk 57 (57)
T PF00046_consen 30 REELAKELGLTERQVKNWFQNRRRKEKK 57 (57)
T ss_dssp HHHHHHHHTSSHHHHHHHHHHHHHHHHH
T ss_pred cccccccccccccccccCHHHhHHHhCc
Confidence 5678877 9999999999999986
No 22
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=98.19 E-value=4.4e-07 Score=62.64 Aligned_cols=31 Identities=29% Similarity=0.575 Sum_probs=25.4
Q ss_pred hhhhhhh-----cccccccccchhHHHHHHHHHHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRKRERNAMNA 32 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr~~~~~~~~ 32 (92)
|.+|+.. .-|||||||||+|.|+....+...
T Consensus 81 r~~L~~~lnm~~ksVqIWFQNkR~~~k~~~~~~~~~ 116 (156)
T COG5576 81 RIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSGKVEQ 116 (156)
T ss_pred HHHHHHhcCCChhhhhhhhchHHHHHHHhcccchhc
Confidence 5677777 789999999999999988765443
No 23
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=97.76 E-value=2.9e-06 Score=48.05 Aligned_cols=23 Identities=43% Similarity=0.773 Sum_probs=19.7
Q ss_pred hhhhhhh-----cccccccccchhHHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRK 24 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr 24 (92)
+++||.. .+|+.||+|||.+.++
T Consensus 30 ~~~la~~~~l~~~qV~~WF~nrR~~~~~ 57 (59)
T cd00086 30 REELAKELGLTERQVKIWFQNRRAKLKR 57 (59)
T ss_pred HHHHHHHHCcCHHHHHHHHHHHHHHHhc
Confidence 4667777 9999999999999876
No 24
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=97.67 E-value=3.4e-06 Score=47.56 Aligned_cols=22 Identities=55% Similarity=1.022 Sum_probs=18.0
Q ss_pred hhhhhhh-----cccccccccchhHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWR 23 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~r 23 (92)
+++||.. .+|++||+|||.+.+
T Consensus 30 ~~~la~~~~l~~~qV~~WF~nrR~~~~ 56 (56)
T smart00389 30 REELAAKLGLSERQVKVWFQNRRAKWK 56 (56)
T ss_pred HHHHHHHHCcCHHHHHHhHHHHhhccC
Confidence 4667777 899999999998753
No 25
>KOG0849|consensus
Probab=97.57 E-value=1.4e-05 Score=61.34 Aligned_cols=27 Identities=56% Similarity=1.020 Sum_probs=24.6
Q ss_pred hhhhhhh-----cccccccccchhHHHHHHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRKRERN 28 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr~~~~ 28 (92)
||+||.+ .+|+|||+|||+||+|+...
T Consensus 206 Re~La~~i~l~e~riqvwf~nrra~~rr~~~~ 237 (354)
T KOG0849|consen 206 RETLAKETGLPEPRVQVWFQNRRAKWRRQHRD 237 (354)
T ss_pred HHHHhhhccCCchHHHHHHhhhhhhhhhcccc
Confidence 7889988 99999999999999998853
No 26
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=97.31 E-value=5.8e-05 Score=44.27 Aligned_cols=19 Identities=16% Similarity=0.223 Sum_probs=15.9
Q ss_pred Chhhhhhh-----cccccccccch
Q psy15889 1 MGELMALW-----LRVRVWFKNRR 19 (92)
Q Consensus 1 ~R~eLA~~-----~qVkiWFQNRR 19 (92)
+|++||.. .+|||||||-+
T Consensus 34 ~r~~la~~lgl~~~vvKVWfqN~k 57 (58)
T TIGR01565 34 EVREFCEEIGVTRKVFKVWMHNNK 57 (58)
T ss_pred HHHHHHHHhCCCHHHeeeecccCC
Confidence 37788888 89999999964
No 27
>KOG3802|consensus
Probab=96.95 E-value=0.00016 Score=56.30 Aligned_cols=24 Identities=42% Similarity=0.500 Sum_probs=19.8
Q ss_pred hhhhh-----cccccccccchhHHHHHHH
Q psy15889 4 LMALW-----LRVRVWFKNRRAKWRKRER 27 (92)
Q Consensus 4 eLA~~-----~qVkiWFQNRRaK~rr~~~ 27 (92)
+||.+ ..|+|||-|||.|.||...
T Consensus 326 ~iA~~L~leKEVVRVWFCNRRQkeKR~~~ 354 (398)
T KOG3802|consen 326 HIAESLQLEKEVVRVWFCNRRQKEKRITP 354 (398)
T ss_pred HHHHHhccccceEEEEeeccccccccCCC
Confidence 45555 8899999999999998665
No 28
>KOG0775|consensus
Probab=95.75 E-value=0.003 Score=47.43 Aligned_cols=22 Identities=41% Similarity=0.548 Sum_probs=18.8
Q ss_pred hhhhhhh-----cccccccccchhHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWR 23 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~r 23 (92)
+.|||.. +||-.||.|||.+.|
T Consensus 206 KReLA~aTgLt~tQVsNWFKNRRQRDR 232 (304)
T KOG0775|consen 206 KRELAEATGLTITQVSNWFKNRRQRDR 232 (304)
T ss_pred HHHHHHHhCCchhhhhhhhhhhhhhhh
Confidence 4578888 888889999999977
No 29
>KOG0774|consensus
Probab=94.61 E-value=0.12 Score=39.03 Aligned_cols=27 Identities=30% Similarity=0.517 Sum_probs=22.5
Q ss_pred hhhhhhh-----cccccccccchhHHHHHHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRKRERN 28 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr~~~~ 28 (92)
++|||.+ +||--||.|.|.+.+|....
T Consensus 221 K~eLAkqCnItvsQvsnwfgnkrIrykK~~~k 252 (334)
T KOG0774|consen 221 KEELAKQCNITVSQVSNWFGNKRIRYKKNMGK 252 (334)
T ss_pred HHHHHHHcCceehhhccccccceeehhhhhhh
Confidence 5789998 78888999999999986543
No 30
>KOG0490|consensus
Probab=94.53 E-value=0.016 Score=40.57 Aligned_cols=26 Identities=50% Similarity=0.745 Sum_probs=21.0
Q ss_pred hhhhhhh-----cccccccccchhHHHHHHH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAKWRKRER 27 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK~rr~~~ 27 (92)
+++|+.. ..|+|||||+|++.++...
T Consensus 183 ~~~l~~~~~~~~~~~q~~~~~~~~~~~~~~~ 213 (235)
T KOG0490|consen 183 REQLAEETGLSERVIQVWFQNRRAKLRKHKR 213 (235)
T ss_pred HHHHHHhcCCChhhhhhhcccHHHHHHhhcc
Confidence 4566665 7889999999999998655
No 31
>KOG1168|consensus
Probab=94.16 E-value=0.024 Score=43.19 Aligned_cols=19 Identities=47% Similarity=0.786 Sum_probs=16.8
Q ss_pred cccccccccchhHHHHHHH
Q psy15889 9 LRVRVWFKNRRAKWRKRER 27 (92)
Q Consensus 9 ~qVkiWFQNRRaK~rr~~~ 27 (92)
..|+|||.|.|.|.||...
T Consensus 351 NVVRVWFCNQRQKQKRm~~ 369 (385)
T KOG1168|consen 351 NVVRVWFCNQRQKQKRMKR 369 (385)
T ss_pred ceEEEEeeccHHHHHHhhh
Confidence 8899999999999988554
No 32
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=93.14 E-value=0.0098 Score=32.20 Aligned_cols=20 Identities=30% Similarity=0.489 Sum_probs=16.1
Q ss_pred hhhhhhh-----cccccccccchhH
Q psy15889 2 GELMALW-----LRVRVWFKNRRAK 21 (92)
Q Consensus 2 R~eLA~~-----~qVkiWFQNRRaK 21 (92)
+++||.. .||..||-|.|.+
T Consensus 16 k~~L~~~tgls~~Qi~~WF~NaRrR 40 (40)
T PF05920_consen 16 KEELAKQTGLSRKQISNWFINARRR 40 (40)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHHHHHHhHcc
Confidence 5678777 8999999998854
No 33
>KOG1146|consensus
Probab=67.37 E-value=1.9 Score=38.60 Aligned_cols=19 Identities=42% Similarity=0.719 Sum_probs=17.2
Q ss_pred cccccccccchhHHHHHHH
Q psy15889 9 LRVRVWFKNRRAKWRKRER 27 (92)
Q Consensus 9 ~qVkiWFQNRRaK~rr~~~ 27 (92)
+.|+|||||-|+|.|+...
T Consensus 945 ~~i~vw~qna~~~s~k~~~ 963 (1406)
T KOG1146|consen 945 RVIQVWFQNARAKSKKAKL 963 (1406)
T ss_pred chhHHhhhhhhhhhhhhhh
Confidence 7899999999999998766
No 34
>KOG4752|consensus
Probab=58.85 E-value=18 Score=17.50 Aligned_cols=12 Identities=50% Similarity=1.008 Sum_probs=7.6
Q ss_pred hhHHHHHHHHHH
Q psy15889 19 RAKWRKRERNAM 30 (92)
Q Consensus 19 RaK~rr~~~~~~ 30 (92)
|+|||+......
T Consensus 2 r~kwrkkrmrrl 13 (26)
T KOG4752|consen 2 RAKWRKKRMRRL 13 (26)
T ss_pred chHHHHHHHHHH
Confidence 678887665443
No 35
>KOG3755|consensus
Probab=44.50 E-value=6.7 Score=32.91 Aligned_cols=19 Identities=32% Similarity=0.604 Sum_probs=16.2
Q ss_pred cccccccccchhHHHHHHH
Q psy15889 9 LRVRVWFKNRRAKWRKRER 27 (92)
Q Consensus 9 ~qVkiWFQNRRaK~rr~~~ 27 (92)
..|+.||.|||++.++.+.
T Consensus 741 kn~~~~fk~~~ee~~~~k~ 759 (769)
T KOG3755|consen 741 KNVQFWFKVRREEEKRLKM 759 (769)
T ss_pred cchHHHHHHHHHHHhhhhc
Confidence 6788999999999888554
No 36
>KOG3623|consensus
Probab=27.56 E-value=16 Score=31.56 Aligned_cols=19 Identities=32% Similarity=0.569 Sum_probs=16.3
Q ss_pred cccccccccchhHHHHHHH
Q psy15889 9 LRVRVWFKNRRAKWRKRER 27 (92)
Q Consensus 9 ~qVkiWFQNRRaK~rr~~~ 27 (92)
.-||+||++++++..+-++
T Consensus 598 ~vvk~wfE~~~a~e~sv~r 616 (1007)
T KOG3623|consen 598 AVVKAWFEDEEAEEMSVER 616 (1007)
T ss_pred HHHHHHHHhhhhhhhhhcc
Confidence 7899999999999877664
No 37
>PF08452 DNAP_B_exo_N: DNA polymerase family B exonuclease domain, N-terminal; InterPro: IPR013660 This domain is found in viral DNA polymerases to the N terminus of DNA polymerase family B exonuclease domains (IPR006133 from INTERPRO). ; GO: 0003887 DNA-directed DNA polymerase activity
Probab=25.67 E-value=19 Score=16.99 Aligned_cols=8 Identities=38% Similarity=1.032 Sum_probs=6.3
Q ss_pred cccccchh
Q psy15889 13 VWFKNRRA 20 (92)
Q Consensus 13 iWFQNRRa 20 (92)
.||.||+.
T Consensus 7 NWFE~~ge 14 (22)
T PF08452_consen 7 NWFESRGE 14 (22)
T ss_pred ehhhhCCc
Confidence 59999874
No 38
>KOG0773|consensus
Probab=24.93 E-value=22 Score=26.68 Aligned_cols=24 Identities=29% Similarity=0.401 Sum_probs=17.1
Q ss_pred hhhhh-----cccccccccchhHHHHHHH
Q psy15889 4 LMALW-----LRVRVWFKNRRAKWRKRER 27 (92)
Q Consensus 4 eLA~~-----~qVkiWFQNRRaK~rr~~~ 27 (92)
.||.+ -||..||-|.|-+..+--.
T Consensus 274 ~La~~TGLs~~Qv~NWFINaR~R~w~p~~ 302 (342)
T KOG0773|consen 274 MLAKQTGLSRPQVSNWFINARVRLWKPMI 302 (342)
T ss_pred ccchhcCCCcccCCchhhhcccccCCchH
Confidence 35555 7788999999877655443
No 39
>PF05162 Ribosomal_L41: Ribosomal protein L41; InterPro: IPR007836 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. L41 associates with the ribonucleoprotein particles of the 60S subunit late in the ribosomal maturation process. L41 is encoded by the smallest known open reading frame and in yeast is composed of only 24 amino acids, 17 of which are arginine or lysine.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_q 3IZR_q.
Probab=22.50 E-value=70 Score=15.45 Aligned_cols=10 Identities=50% Similarity=1.069 Sum_probs=4.6
Q ss_pred hhHHHHHHHH
Q psy15889 19 RAKWRKRERN 28 (92)
Q Consensus 19 RaK~rr~~~~ 28 (92)
|+||++....
T Consensus 2 r~kw~kkR~r 11 (25)
T PF05162_consen 2 RAKWKKKRMR 11 (25)
T ss_dssp --SHHHHHHH
T ss_pred chHHHHHHHH
Confidence 4566665543
No 40
>PTZ00352 60S ribosomal protein L13; Provisional
Probab=22.13 E-value=61 Score=23.62 Aligned_cols=19 Identities=32% Similarity=0.622 Sum_probs=12.1
Q ss_pred ccccccc-ccchhHHHHHHH
Q psy15889 9 LRVRVWF-KNRRAKWRKRER 27 (92)
Q Consensus 9 ~qVkiWF-QNRRaK~rr~~~ 27 (92)
..|++|| |.-|-+-|++.+
T Consensus 18 ~~VktwFnQp~rK~rRR~aR 37 (212)
T PTZ00352 18 RFVKTWYNQPGRKKRRRLAR 37 (212)
T ss_pred hhcccccCchHHHHHHHHHH
Confidence 6899999 444555444444
No 41
>PHA03273 envelope glycoprotein C; Provisional
Probab=20.72 E-value=29 Score=28.15 Aligned_cols=14 Identities=14% Similarity=0.631 Sum_probs=10.4
Q ss_pred cccccccccchhHHH
Q psy15889 9 LRVRVWFKNRRAKWR 23 (92)
Q Consensus 9 ~qVkiWFQNRRaK~r 23 (92)
.|++|||| ||.+.+
T Consensus 121 ~RLeiWf~-~r~rf~ 134 (486)
T PHA03273 121 YRLEIYLN-QRTPFS 134 (486)
T ss_pred eEEEEEEc-cccccc
Confidence 67999998 666543
Done!