Query 013712
Match_columns 437
No_of_seqs 217 out of 627
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 06:38:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013712.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013712hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2591 c-Mpl binding protein, 100.0 5.8E-43 1.3E-47 363.3 7.8 159 168-349 91-254 (684)
2 cd08037 LARP_1 La RNA-binding 100.0 1.4E-30 3.1E-35 211.2 5.7 72 175-246 2-73 (73)
3 cd08038 LARP_2 La RNA-binding 100.0 2.2E-30 4.8E-35 210.1 6.0 73 174-246 1-73 (73)
4 cd08036 LARP_5 La RNA-binding 100.0 1.4E-30 3.1E-35 211.9 4.5 72 175-246 2-75 (75)
5 cd08035 LARP_4 La RNA-binding 100.0 3.2E-30 6.8E-35 210.1 5.6 73 174-246 1-75 (75)
6 cd08034 LARP_1_2 La RNA-bindin 100.0 8E-30 1.7E-34 206.7 6.0 73 174-246 1-73 (73)
7 cd08032 LARP_7 La RNA-binding 100.0 9.2E-29 2E-33 204.5 7.1 76 171-246 3-82 (82)
8 cd08031 LARP_4_5_like La RNA-b 99.9 1.9E-28 4.1E-33 199.6 6.0 71 175-245 2-74 (75)
9 cd08033 LARP_6 La RNA-binding 99.9 2.2E-28 4.7E-33 200.1 6.2 72 175-246 2-77 (77)
10 smart00715 LA Domain in the RN 99.9 2.8E-28 6.1E-33 200.5 6.5 76 172-247 2-80 (80)
11 cd08028 LARP_3 La RNA-binding 99.9 8.2E-28 1.8E-32 198.8 6.8 76 171-246 2-82 (82)
12 cd08029 LA_like_fungal La-moti 99.9 2.7E-27 6E-32 193.1 5.8 71 175-246 2-76 (76)
13 cd07323 LAM LA motif RNA-bindi 99.9 7.7E-27 1.7E-31 189.6 6.0 72 175-246 2-75 (75)
14 cd08030 LA_like_plant La-motif 99.9 9.2E-27 2E-31 195.6 5.4 73 174-246 2-90 (90)
15 PF05383 La: La domain; Inter 99.9 4.9E-24 1.1E-28 167.2 4.2 58 177-234 1-61 (61)
16 KOG1855 Predicted RNA-binding 99.9 3.4E-22 7.4E-27 204.4 6.9 102 170-275 137-242 (484)
17 KOG4213 RNA-binding protein La 99.5 6E-15 1.3E-19 138.0 4.3 76 171-246 11-92 (205)
18 KOG2590 RNA-binding protein LA 99.5 5.2E-14 1.1E-18 146.5 7.7 81 173-258 300-381 (448)
19 COG5193 LHP1 La protein, small 99.4 1.4E-13 3E-18 140.9 1.8 87 173-259 270-380 (438)
20 COG5193 LHP1 La protein, small 98.6 1.4E-08 3.1E-13 104.7 0.7 72 177-248 75-160 (438)
21 KOG2590 RNA-binding protein LA 97.9 5.2E-05 1.1E-09 80.1 10.6 250 172-435 96-378 (448)
22 PF01885 PTS_2-RNA: RNA 2'-pho 91.8 0.25 5.4E-06 46.8 4.7 52 199-250 26-84 (186)
23 PRK00819 RNA 2'-phosphotransfe 91.3 0.35 7.5E-06 45.9 5.1 54 199-252 27-82 (179)
24 PF09421 FRQ: Frequency clock 90.2 2.9 6.3E-05 48.7 12.0 48 201-248 474-524 (989)
25 KOG2278 RNA:NAD 2'-phosphotran 83.0 1.1 2.3E-05 43.3 3.0 41 196-236 25-65 (207)
26 COG1859 KptA RNA:NAD 2'-phosph 69.3 6.8 0.00015 38.5 4.4 54 199-252 53-108 (211)
27 PTZ00315 2'-phosphotransferase 61.8 11 0.00024 41.9 4.8 74 174-252 378-460 (582)
28 KOG1924 RhoA GTPase effector D 61.7 28 0.00062 40.5 7.9 17 203-220 677-693 (1102)
29 KOG3973 Uncharacterized conser 58.3 30 0.00066 36.8 6.9 27 57-84 357-383 (465)
30 PF05918 API5: Apoptosis inhib 55.9 3.8 8.2E-05 45.3 0.0 26 57-82 517-542 (556)
31 KOG1924 RhoA GTPase effector D 46.7 75 0.0016 37.3 8.1 11 123-133 565-575 (1102)
32 KOG2236 Uncharacterized conser 38.6 1.9E+02 0.0041 31.9 9.3 21 54-80 368-388 (483)
No 1
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=100.00 E-value=5.8e-43 Score=363.26 Aligned_cols=159 Identities=26% Similarity=0.354 Sum_probs=147.5
Q ss_pred cchHHHHHHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCCEEeeC
Q 013712 168 PETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRRR 247 (437)
Q Consensus 168 ~e~~~L~~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~dKVRRR 247 (437)
+...+|++.|++|||||||.+||..|.||+++||+|.||||.+||+|++|++||+|++||+|+||.|+.||||++..|.|
T Consensus 91 Pls~~~kq~lk~qlEy~fSreNlssD~YL~sQMDSDqyVPI~tva~~~~i~klttDvdLI~Evlresp~VqvDekgekVr 170 (684)
T KOG2591|consen 91 PLSRDLKQLLKKQLEYYFSRENLSSDRYLISQMDSDQYVPINTVANFPEIMKLTTDVDLIVEVLRESPNVQVDEKGEKVR 170 (684)
T ss_pred ccchhHHHHHHHHHHHhhccccccchhhhhhhcccccccchhhhccchhhhhhccchHHHHHHHhcCCCceeccCccccc
Confidence 34459999999999999999999999999999999999999999999999999999999999999999999996533333
Q ss_pred CCCCccccccccccCCCCccCcccccccccccccCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcccccCCCCCc
Q 013712 248 DEWSKWIPASVEQTMSSTAQTSQSQSAENPVDSIGNGDINKDNKREMPKENVGFSSNTGNLMENVPPSFDSVEIEPDNGE 327 (437)
Q Consensus 248 ~~w~kwv~~~~e~~~~s~t~t~~~~~ve~~~~~~~n~~~~~~n~~~~~~~~~~f~~n~~~~~~~~~~~~~t~~~~~Da~~ 327 (437)
-..++||++++| +++++++|.|+.+|+ ++||| +.++|||++||+ ||||||+|+|||+
T Consensus 171 p~~kRcIvilRE--------Ipettp~e~Vk~lf~-----~encP--k~iscefa~N~n--------WyITfesd~DAQq 227 (684)
T KOG2591|consen 171 PNHKRCIVILRE--------IPETTPIEVVKALFK-----GENCP--KVISCEFAHNDN--------WYITFESDTDAQQ 227 (684)
T ss_pred cCcceeEEEEee--------cCCCChHHHHHHHhc-----cCCCC--CceeeeeeecCc--------eEEEeecchhHHH
Confidence 478999999998 789999999999999 66999 999999999999 9999999999999
Q ss_pred c-----cccccccCCCCcccccCCCCC
Q 013712 328 E-----HCDEFLLLDDGKPAFSAENGD 349 (437)
Q Consensus 328 ~-----~~~~~~~~~~~~~~~~~~~~~ 349 (437)
| |+|||||||+||||||+.+..
T Consensus 228 Aykylreevk~fqgKpImARIKaintf 254 (684)
T KOG2591|consen 228 AYKYLREEVKTFQGKPIMARIKAINTF 254 (684)
T ss_pred HHHHHHHHHHhhcCcchhhhhhhhhcc
Confidence 9 999999999999999986644
No 2
>cd08037 LARP_1 La RNA-binding domain of La-related protein 1. This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=1.4e-30 Score=211.17 Aligned_cols=72 Identities=44% Similarity=0.787 Sum_probs=70.9
Q ss_pred HHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCCEEee
Q 013712 175 ANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRR 246 (437)
Q Consensus 175 ~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~dKVRR 246 (437)
++|++||||||||+||++|.|||++|++||||||++|++|||||+||.|+++|++||+.|+.|||+++||||
T Consensus 2 ~~I~~QvEyYFSd~NL~~D~fLr~~md~dG~Vpi~~ia~F~rmk~Lt~d~~~I~~Al~~S~~vev~~~~~r~ 73 (73)
T cd08037 2 DYIKRQIEYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKVVEIIDMKIRR 73 (73)
T ss_pred hHHHHHHHHhccHhhhccCHHHHHHhccCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEecchhcC
Confidence 689999999999999999999999999999999999999999999999999999999999999999999996
No 3
>cd08038 LARP_2 La RNA-binding domain of La-related protein 2. This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=2.2e-30 Score=210.10 Aligned_cols=73 Identities=49% Similarity=0.824 Sum_probs=71.3
Q ss_pred HHHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCCEEee
Q 013712 174 KANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRR 246 (437)
Q Consensus 174 ~~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~dKVRR 246 (437)
+++|++||||||||+||++|.|||++|++||||||++|++|||||+|+.|.++|++||+.|+.|||++++|||
T Consensus 1 ~e~I~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~ia~F~rmk~lt~d~~~I~~Al~~S~~ve~~~~~~r~ 73 (73)
T cd08038 1 KEYIKRQIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVDQKIRR 73 (73)
T ss_pred ChHHHhhHHhhcchhhhccCHHHHHHhCCCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEeCCcccC
Confidence 3689999999999999999999999999999999999999999999999999999999999999999999996
No 4
>cd08036 LARP_5 La RNA-binding domain of La-related protein 5. This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=1.4e-30 Score=211.85 Aligned_cols=72 Identities=39% Similarity=0.664 Sum_probs=68.7
Q ss_pred HHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcC--CEEee
Q 013712 175 ANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQG--DKVRR 246 (437)
Q Consensus 175 ~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~--dKVRR 246 (437)
+.|++|||||||++||++|.|||++||+||||||++||+|+|||+||+|+++|++||+.|+.|||++ +|||+
T Consensus 2 e~i~kQvEyYFS~~NL~~D~fLr~~md~~g~Vpi~~ia~F~rik~Lt~D~~lI~~aL~~S~~vevse~g~kVRp 75 (75)
T cd08036 2 ELLKKTLEFCLSRENLASDMYLISQMDSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLPLVQVDEKGEKVRP 75 (75)
T ss_pred hhhhcceeeeechhhccccHHHHHHhccCCCEehHHHhccHHHHHhcCCHHHHHHHHhhCCeEEECCCCCccCc
Confidence 6899999999999999999999999999999999999999999999999999999999999999974 57873
No 5
>cd08035 LARP_4 La RNA-binding domain of La-related protein 4. This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=3.2e-30 Score=210.12 Aligned_cols=73 Identities=42% Similarity=0.719 Sum_probs=69.3
Q ss_pred HHHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcC--CEEee
Q 013712 174 KANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQG--DKVRR 246 (437)
Q Consensus 174 ~~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~--dKVRR 246 (437)
+++|++||||||||+||++|.||+++||+||||||++||+|||||+||.|+++|++||+.|+.|||++ +|||+
T Consensus 1 ~e~i~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpi~~iasF~rik~lt~d~~~I~~AL~~S~~levsedg~kVRp 75 (75)
T cd08035 1 RECLKKQLEFCFSRENLSKDLYLISQMDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSPMVQVDETGEKVRP 75 (75)
T ss_pred ChHHHhhHHhhcCHhhcccCHHHHHhhCcCCCEehHHHhccHHHHHhcCCHHHHHHHHHcCCeEEEcCCCCccCc
Confidence 36899999999999999999999999999999999999999999999999999999999999999975 47874
No 6
>cd08034 LARP_1_2 La RNA-binding domain proteins similar to La-related proteins 1 and 2. This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=8e-30 Score=206.71 Aligned_cols=73 Identities=51% Similarity=0.823 Sum_probs=71.2
Q ss_pred HHHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCCEEee
Q 013712 174 KANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRR 246 (437)
Q Consensus 174 ~~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~dKVRR 246 (437)
+++|++||||||||+||+||.|||++|+++|||||++|++|+|||+|+.|.++|++||+.|+.|||+++|||+
T Consensus 1 ~~~i~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~lev~e~kvR~ 73 (73)
T cd08034 1 KEYIKKQIEYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRVQALTTDVNLILEALKDSTVVELVDEKVRC 73 (73)
T ss_pred ChHHHhhHHhhcCHhhhccCHHHHHHcCCCCCEeHHHHhccHHHHHHcCCHHHHHHHHHcCCeEEEecCeecC
Confidence 3689999999999999999999999999999999999999999999999999999999999999999999996
No 7
>cd08032 LARP_7 La RNA-binding domain of La-related protein 7. LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation.
Probab=99.95 E-value=9.2e-29 Score=204.51 Aligned_cols=76 Identities=36% Similarity=0.679 Sum_probs=72.4
Q ss_pred HHHHHHHHhhhhhhcCCCCcCcchHHHHhhc--cCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCC--EEee
Q 013712 171 LALKANIVKQIEYYFSDENLQNDHYLISLMD--AQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGD--KVRR 246 (437)
Q Consensus 171 ~~L~~~I~kQIEYYFSdeNL~kD~FLR~~MD--sdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~d--KVRR 246 (437)
.+|.++|++||||||||+||++|.||+++|+ +||||||++|++|||||+||.|+++|++||+.|+.|||++| +|||
T Consensus 3 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VRR 82 (82)
T cd08032 3 KQLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNSSVVELNLEGTRIRR 82 (82)
T ss_pred HHHHHHHHHHHHhhcchhhcccCHHHHHHhcCCCCCCEeHHHHhcchHHHHHcCCHHHHHHHHhcCCEEEEcCCCCccCC
Confidence 5799999999999999999999999999996 79999999999999999999999999999999999999865 7876
No 8
>cd08031 LARP_4_5_like La RNA-binding domain of proteins similar to La-related proteins 4 and 5. This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.95 E-value=1.9e-28 Score=199.56 Aligned_cols=71 Identities=46% Similarity=0.819 Sum_probs=68.3
Q ss_pred HHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCC--EEe
Q 013712 175 ANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGD--KVR 245 (437)
Q Consensus 175 ~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~d--KVR 245 (437)
++|++||||||||+||++|.||+++|++||||||++|++|+|||+||.|.++|++||+.|+.|||++| +||
T Consensus 2 ~~i~~QvEfYFSd~NL~~D~fL~~~m~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VR 74 (75)
T cd08031 2 ELLKRQLEYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPNVQVDEKGEKVR 74 (75)
T ss_pred hHHHHHHHHHcCHhhhccCHHHHHHhCCCCCEEHHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCccC
Confidence 68999999999999999999999999999999999999999999999999999999999999999965 666
No 9
>cd08033 LARP_6 La RNA-binding domain of La-related protein 6. This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.95 E-value=2.2e-28 Score=200.13 Aligned_cols=72 Identities=49% Similarity=0.812 Sum_probs=68.8
Q ss_pred HHHHhhhhhhcCCCCcCcchHHHHhh--ccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCC--EEee
Q 013712 175 ANIVKQIEYYFSDENLQNDHYLISLM--DAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGD--KVRR 246 (437)
Q Consensus 175 ~~I~kQIEYYFSdeNL~kD~FLR~~M--DsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~d--KVRR 246 (437)
++|++||||||||+||++|.|||++| ++||||||++|++|+|||+|+.|.++|++||+.|..|||++| +|||
T Consensus 2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~l~~d~~~I~~Al~~S~~lev~~d~~~VRR 77 (77)
T cd08033 2 QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRSSKLVVSEDGKKVRR 77 (77)
T ss_pred hHHHhHHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhcchHHHHHcCCHHHHHHHHHhCCeEEEcCCCCccCC
Confidence 68999999999999999999999999 789999999999999999999999999999999999999865 7876
No 10
>smart00715 LA Domain in the RNA-binding Lupus La protein; unknown function.
Probab=99.95 E-value=2.8e-28 Score=200.45 Aligned_cols=76 Identities=55% Similarity=0.887 Sum_probs=72.4
Q ss_pred HHHHHHHhhhhhhcCCCCcCcchHHHHhhcc-CCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCC--EEeeC
Q 013712 172 ALKANIVKQIEYYFSDENLQNDHYLISLMDA-QGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGD--KVRRR 247 (437)
Q Consensus 172 ~L~~~I~kQIEYYFSdeNL~kD~FLR~~MDs-dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~d--KVRRR 247 (437)
++.++|++||||||||+||++|.|||++|+. +|||||++|++|+|||+|+.|.++|++||+.|..|||++| +|||+
T Consensus 2 ~~~~~i~~QvEfYFSd~NL~~D~fLr~~~~~~~g~Vpl~~i~~F~r~k~l~~d~~~i~~Al~~S~~lel~~d~~~VRR~ 80 (80)
T smart00715 2 ELKQKIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVEALRSSPKLEVSEDGLKVRRR 80 (80)
T ss_pred hHHHHHHHHHHHHcCHhhhhhCHHHHHHhccCCCCEEhHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCeeCcC
Confidence 6889999999999999999999999999987 9999999999999999999999999999999999999865 78874
No 11
>cd08028 LARP_3 La RNA-binding domain of La-related protein 3. This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B).
Probab=99.94 E-value=8.2e-28 Score=198.79 Aligned_cols=76 Identities=41% Similarity=0.755 Sum_probs=71.7
Q ss_pred HHHHHHHHhhhhhhcCCCCcCcchHHHHhhc-cCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCC--ceEEcCC--EEe
Q 013712 171 LALKANIVKQIEYYFSDENLQNDHYLISLMD-AQGWVPIAIIADFKRVKRMSTDLPFILDALQNSS--TVEAQGD--KVR 245 (437)
Q Consensus 171 ~~L~~~I~kQIEYYFSdeNL~kD~FLR~~MD-sdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~--~LEV~~d--KVR 245 (437)
++|..+|++||||||||+||++|.|||++|+ +||||||++|++|+|||+|+.|.++|++||+.|+ .|||++| +||
T Consensus 2 ~~l~~~I~~QvEfYFSd~NL~~D~fLr~~m~~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~~~lev~~d~~~VR 81 (82)
T cd08028 2 DDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSKSGLIEVSEDKTKIR 81 (82)
T ss_pred hHHHHHHHHHHHhhcCHhhhccCHHHHHHHhccCCCEEhHHHhCChhHHHhcCCHHHHHHHHHhCCCCEEEEcCCCCccC
Confidence 3689999999999999999999999999997 6999999999999999999999999999999999 9999866 677
Q ss_pred e
Q 013712 246 R 246 (437)
Q Consensus 246 R 246 (437)
|
T Consensus 82 R 82 (82)
T cd08028 82 R 82 (82)
T ss_pred C
Confidence 5
No 12
>cd08029 LA_like_fungal La-motif domain of fungal proteins similar to the La autoantigen. This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.94 E-value=2.7e-27 Score=193.08 Aligned_cols=71 Identities=45% Similarity=0.800 Sum_probs=67.1
Q ss_pred HHHHhhhhhhcCCCCcCcchHHHHhh--ccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCC--EEee
Q 013712 175 ANIVKQIEYYFSDENLQNDHYLISLM--DAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGD--KVRR 246 (437)
Q Consensus 175 ~~I~kQIEYYFSdeNL~kD~FLR~~M--DsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~d--KVRR 246 (437)
++|++||||||||+||++|.|||++| ++||||||++|++|+|||+|+.+ ++|++||+.|+.|||++| +|||
T Consensus 2 ~~I~~QvEfYFSd~NL~~D~fLr~~~~~~~~G~Vpl~~i~~F~rmk~l~~~-~~i~~Al~~S~~lev~~d~~~VRR 76 (76)
T cd08029 2 EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQPL-EAVVEALRESELLEVSEDGENVRR 76 (76)
T ss_pred hHHHhhHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhCchHHHHcCCH-HHHHHHHHhCCeEEEeCCCCcccC
Confidence 58999999999999999999999999 69999999999999999999976 999999999999999865 7886
No 13
>cd07323 LAM LA motif RNA-binding domain. This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.93 E-value=7.7e-27 Score=189.57 Aligned_cols=72 Identities=58% Similarity=0.999 Sum_probs=69.0
Q ss_pred HHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCC--EEee
Q 013712 175 ANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGD--KVRR 246 (437)
Q Consensus 175 ~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~d--KVRR 246 (437)
++|++||||||||+||++|.||+++|+++|||||++|++|+|||+|+.|.++|++||+.|..|||+++ +|||
T Consensus 2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~g~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~s~~lel~~~~~~Vrr 75 (75)
T cd07323 2 EKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRDSSVVEVSEDGTKVRR 75 (75)
T ss_pred hHHHhhhHhccCHhhhCcCHHHHHhcCCCCCEEHHHHhCchHHHHHcCCHHHHHHHHHhCCeEEEeCCCCccCC
Confidence 67999999999999999999999999999999999999999999999999999999999999999965 6775
No 14
>cd08030 LA_like_plant La-motif domain of plant proteins similar to the La autoantigen. This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.93 E-value=9.2e-27 Score=195.65 Aligned_cols=73 Identities=34% Similarity=0.681 Sum_probs=67.9
Q ss_pred HHHHHhhhhhhcCCCCcCcchHHHHhh--ccCCcEehhhhhcchhhhhcCC------------CHHHHHHHHhcCCceEE
Q 013712 174 KANIVKQIEYYFSDENLQNDHYLISLM--DAQGWVPIAIIADFKRVKRMST------------DLPFILDALQNSSTVEA 239 (437)
Q Consensus 174 ~~~I~kQIEYYFSdeNL~kD~FLR~~M--DsdG~VPIslIasFnRVK~LT~------------D~~lI~eALr~S~~LEV 239 (437)
+++|++||||||||+||++|.||+++| ++||||||++|++|||||+|+. ++++|++||+.|+.|||
T Consensus 2 ~~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~V~i~~i~~F~rmk~l~~~~~~~~~~~~~~~~~~I~~ALk~S~~lev 81 (90)
T cd08030 2 KEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPEDTLKAVAEALRTSTLLKV 81 (90)
T ss_pred hHHHHHHHHcccchhhcccCHHHHHHhccCCCCCEehHHHhcChHHHHHhhcccccccccchhHHHHHHHHHccCCEEEE
Confidence 689999999999999999999999999 7899999999999999999985 37899999999999999
Q ss_pred cCC--EEee
Q 013712 240 QGD--KVRR 246 (437)
Q Consensus 240 ~~d--KVRR 246 (437)
++| +|||
T Consensus 82 seD~~~VRR 90 (90)
T cd08030 82 SEDGKRVGR 90 (90)
T ss_pred cCCCCccCC
Confidence 976 5765
No 15
>PF05383 La: La domain; InterPro: IPR006630 Human Ro ribonucleoproteins (RNPs) are composed of one of the four small Y RNAs and at least two proteins, Ro60 and La. The La protein is a 47 kDa polypeptide that frequently acts as an autoantigen in systemic lupus erythematosus and Sjogren's syndrome []. In the nucleus, La acts as a RNA polymerase III (RNAP III) transcription factor, while in the cytoplasm, La acts as a translation factor []. In the nucleus, La binds to the 3'UTR of nascent RNAP III transcripts to assist in folding and maturation []. In the cytoplasm, La recognises specific classes of mRNAs that contain a 5'-terminal oligopyrimidine (5'TOP) motif known to control protein synthesis []. The specific recognition is mediated by the N-terminal domain of La, which comprises a La motif and a RNA recognition motif (RRM). The La motif adopts an alpha/beta fold that comprises a winged-helix motif []. Homologous La domain-containing proteins have been identified in a wide range of organisms except Archaea, bacteria and viruses [].; PDB: 1S29_A 1YTY_B 2VOO_B 1S7A_A 2VOP_A 2VON_B 1ZH5_B 2VOD_A 2CQK_A.
Probab=99.89 E-value=4.9e-24 Score=167.19 Aligned_cols=58 Identities=55% Similarity=0.986 Sum_probs=53.4
Q ss_pred HHhhhhhhcCCCCcCcchHHHHhhcc--CCcEehhhhhcchhhhhcC-CCHHHHHHHHhcC
Q 013712 177 IVKQIEYYFSDENLQNDHYLISLMDA--QGWVPIAIIADFKRVKRMS-TDLPFILDALQNS 234 (437)
Q Consensus 177 I~kQIEYYFSdeNL~kD~FLR~~MDs--dG~VPIslIasFnRVK~LT-~D~~lI~eALr~S 234 (437)
|++||||||||+||++|.||+++|+. ||||||++|++|+|||+|+ .|+++|++||+.|
T Consensus 1 I~~QvEfYFSd~NL~~D~fL~~~~~~~~~g~Vpi~~i~~F~r~k~l~~~~~~~I~~al~~S 61 (61)
T PF05383_consen 1 IKKQVEFYFSDENLPRDKFLRSQMDSNPDGWVPISTILSFNRMKALTNTDIELIVDALRDS 61 (61)
T ss_dssp HHHHHHHHTSHHHHCC-HHHHHHHCTTTTTBEEHHHHTTSHHHHHH--S-HHHHHHHHHTS
T ss_pred ChhHHHHhcCHHHhCcCHHHHHHHHhcCCCcEeHHHHHchHHHHHHhcCCHHHHHHHHHcC
Confidence 78999999999999999999999986 9999999999999999999 8999999999987
No 16
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=99.86 E-value=3.4e-22 Score=204.37 Aligned_cols=102 Identities=37% Similarity=0.654 Sum_probs=92.5
Q ss_pred hHHHHHHHHhhhhhhcCCCCcCcchHHHHhh--ccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCC--EEe
Q 013712 170 TLALKANIVKQIEYYFSDENLQNDHYLISLM--DAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGD--KVR 245 (437)
Q Consensus 170 ~~~L~~~I~kQIEYYFSdeNL~kD~FLR~~M--DsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~d--KVR 245 (437)
.++|..+|.+||||||||+||.+|.||.++| +.+|||||++|++|||||+||.|+.+|..|||.|..|+|++| |||
T Consensus 137 sedl~~kIv~QVEyyFSDenL~~d~fLlkhvrrnkeGyVpv~~vaSFKKvK~LTrd~~~va~ALr~S~kL~vseDgkKVr 216 (484)
T KOG1855|consen 137 SEDLAAKIVDQVEYYFSDENLLKDAFLLKHVRRNKEGYVPVKLVASFKKVKALTRDWKLVADALRKSSKLEVSEDGKKVR 216 (484)
T ss_pred cHHHHHHHHHHhheeeccccccchHHHHHHHhcCCCCceeeehhhhHHHHHHHhhhhHHHHHHHhhcceEEEccCCceee
Confidence 4689999999999999999999999999999 699999999999999999999999999999999999999865 899
Q ss_pred eCCCCCccccccccccCCCCccCccccccc
Q 013712 246 RRDEWSKWIPASVEQTMSSTAQTSQSQSAE 275 (437)
Q Consensus 246 RR~~w~kwv~~~~e~~~~s~t~t~~~~~ve 275 (437)
|-.++..+- +...+|+|.+.++.+.+
T Consensus 217 RisPlp~~~----~eel~srtivaenLP~D 242 (484)
T KOG1855|consen 217 RISPLPEFD----EEELPSRTIVAENLPLD 242 (484)
T ss_pred ecCCCCCcc----ccccccceEEEecCCcc
Confidence 988765553 34568999999988876
No 17
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=99.52 E-value=6e-15 Score=138.02 Aligned_cols=76 Identities=43% Similarity=0.782 Sum_probs=70.0
Q ss_pred HHHHHHHHhhhhhhcCCCCcCcchHHHHhh--ccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCC--ceEEcCCE--E
Q 013712 171 LALKANIVKQIEYYFSDENLQNDHYLISLM--DAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSS--TVEAQGDK--V 244 (437)
Q Consensus 171 ~~L~~~I~kQIEYYFSdeNL~kD~FLR~~M--DsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~--~LEV~~dK--V 244 (437)
+.|.++|+.||||||.|-||.+|.|||.++ ..+|||||.+++.|+|+.+|++|.+.|++||+.|. ++++++|+ +
T Consensus 11 a~lE~kii~qleyy~Gd~nl~rdkfl~eqi~k~~~gwvpi~i~i~FnRla~lttD~~~Iv~al~ksk~~l~eisedk~k~ 90 (205)
T KOG4213|consen 11 AALEAKIIHQLEYYFGDLNLPRDKFLREQIHKLDDGWVPIEIMIKFNRLASLTTDFNVIVEALSKSKAELMEISEDKTKI 90 (205)
T ss_pred hHHHHhhhhhhhhhhcccCchHHHHHHHHhhhhccCCccchhhhhhhhhhhccccHHHHHHHHhhCHHhhhhhhhchhhh
Confidence 578889999999999999999999999999 48999999999999999999999999999999875 78999875 5
Q ss_pred ee
Q 013712 245 RR 246 (437)
Q Consensus 245 RR 246 (437)
||
T Consensus 91 rr 92 (205)
T KOG4213|consen 91 RR 92 (205)
T ss_pred hc
Confidence 55
No 18
>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]
Probab=99.48 E-value=5.2e-14 Score=146.54 Aligned_cols=81 Identities=44% Similarity=0.726 Sum_probs=73.8
Q ss_pred HHHHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCCEEee-CCCCC
Q 013712 173 LKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRR-RDEWS 251 (437)
Q Consensus 173 L~~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~dKVRR-R~~w~ 251 (437)
..+.|.+|||||||.|||++|.||++ +||+|.||++|+||+.|+.|+++|++||+.+..||+..+-+|| +..|.
T Consensus 300 ~~~~~~~~ie~~FSeE~~~~d~~n~~-----k~~~l~~ia~F~r~ad~s~d~nli~~alr~s~ive~~~d~~~r~~~~~g 374 (448)
T KOG2590|consen 300 VIAFIQEPIEFYFSEENLQRDRFNRE-----KFVPLRVIAKFKRVADLSSDINLILAALRNSLIVEETGDLERRGGDRWG 374 (448)
T ss_pred cccccccccccccchHHHhhhhhhhc-----ccchhhhhhhhhhhhhcccCHHHHHHHHhhhhhhhccchhhhccccccc
Confidence 45778999999999999999999987 5667999999999999999999999999999999999998888 88899
Q ss_pred ccccccc
Q 013712 252 KWIPASV 258 (437)
Q Consensus 252 kwv~~~~ 258 (437)
.|+....
T Consensus 375 ~~~~ra~ 381 (448)
T KOG2590|consen 375 NHVSRAK 381 (448)
T ss_pred ceecccc
Confidence 9986554
No 19
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=99.37 E-value=1.4e-13 Score=140.88 Aligned_cols=87 Identities=34% Similarity=0.609 Sum_probs=72.9
Q ss_pred HHHHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcC-----------------C
Q 013712 173 LKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNS-----------------S 235 (437)
Q Consensus 173 L~~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S-----------------~ 235 (437)
....++.|||||||.+||+.|.|||++|+.+||||+++|..|.|.+.+..|.++|+.|||.+ .
T Consensus 270 sI~a~k~QiEyYFseenl~~d~~lrkk~~kaGf~plsfi~kf~Rn~Sf~gd~nLilaa~ke~v~n~a~~~~~~~~~~~~d 349 (438)
T COG5193 270 SIMAKKEQIEYYFSEENLKSDEFLRKKFKKAGFIPLSFIGKFYRNLSFGGDKNLILAAMKEVVQNKATNHLEIALGSIED 349 (438)
T ss_pred ehhhHHhhhHhhhhHHhhhhhhHHHhhhhhcccccHhhhhhhhhccccCCchhhhHHHHHHHhhhhhhhhhhhhhhccch
Confidence 34556679999999999999999999999999999999999999999999999999999987 1
Q ss_pred c--eEEc----CC-EEeeCCCCCcccccccc
Q 013712 236 T--VEAQ----GD-KVRRRDEWSKWIPASVE 259 (437)
Q Consensus 236 ~--LEV~----~d-KVRRR~~w~kwv~~~~e 259 (437)
. .+.+ ++ .++|+..|..|++..-.
T Consensus 350 ~~~~~~k~~sp~~~~f~rkk~wSewl~e~~~ 380 (438)
T COG5193 350 AQKNEAKDFSPGKKYFIRKKEWSEWLMESNF 380 (438)
T ss_pred hhhccccccCcchhhhhhhhhhhhhhccccc
Confidence 1 1111 12 47889999999987553
No 20
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=98.56 E-value=1.4e-08 Score=104.66 Aligned_cols=72 Identities=35% Similarity=0.657 Sum_probs=64.8
Q ss_pred HHhhhhhhcC-----CCCcCcchHHHHhh----ccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcC---CceEEc--CC
Q 013712 177 IVKQIEYYFS-----DENLQNDHYLISLM----DAQGWVPIAIIADFKRVKRMSTDLPFILDALQNS---STVEAQ--GD 242 (437)
Q Consensus 177 I~kQIEYYFS-----deNL~kD~FLR~~M----DsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S---~~LEV~--~d 242 (437)
+.+|+||||| |.|+.+|+||+..- ..+|||||.++++|+|||.++..++.|..|++.| .+++++ +.
T Consensus 75 ~l~qvE~~fS~s~~~d~n~~~dk~~ktta~Kn~~~~kwVpIkt~~tfn~~k~~gs~~~~v~~a~rks~~~rv~e~Sssgs 154 (438)
T COG5193 75 TLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRMKNSGSPVSAVSGALRKSLDARVLEVSSSGS 154 (438)
T ss_pred cccceeEEeeccccccccccchhhhccccccccCCCCceeeeeeeeeccccccCCchhhhhhhhhcCcccceeeeccccc
Confidence 8899999999 99999999999975 2599999999999999999999999999999999 788987 44
Q ss_pred EEeeCC
Q 013712 243 KVRRRD 248 (437)
Q Consensus 243 KVRRR~ 248 (437)
++||++
T Consensus 155 n~~r~~ 160 (438)
T COG5193 155 NKNRTE 160 (438)
T ss_pred cccccc
Confidence 666654
No 21
>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]
Probab=97.94 E-value=5.2e-05 Score=80.11 Aligned_cols=250 Identities=12% Similarity=0.055 Sum_probs=145.6
Q ss_pred HHHHHHHh--hhhhhcCCCCcCcchHHHHhhccCC---cEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCCEEee
Q 013712 172 ALKANIVK--QIEYYFSDENLQNDHYLISLMDAQG---WVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRR 246 (437)
Q Consensus 172 ~L~~~I~k--QIEYYFSdeNL~kD~FLR~~MDsdG---~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~dKVRR 246 (437)
.|.+.+.. +++|||+..++.+|.+++..|+..| +.+++.+..+.++..++++...++.+++.|...+....+.|+
T Consensus 96 ~l~e~~~~~k~~s~~~~~~~~~~~~~~~~k~~~t~~~~~~~~S~~~~s~~~~~~s~n~~~~~~~~~~sa~~~~~~~~~~~ 175 (448)
T KOG2590|consen 96 PLKEYSKSDKKKSWPASKPFTPRDSFKGSKPTNTGNGTFLPISKISSSGPVSGGSANNSNIRGPLKGSASSNPVPNNSRA 175 (448)
T ss_pred cccccccccccccCcccCCCCccccccCCCccccCCCccCCCccccccccccCcccccccccCcCCCCCcCCcCcccccc
Confidence 45555554 9999999999999999999999888 999999999999999999999999999999889989999999
Q ss_pred CCCCCccccccccccCCCCccCcccccccccccccCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcccccCCCCC
Q 013712 247 RDEWSKWIPASVEQTMSSTAQTSQSQSAENPVDSIGNGDINKDNKREMPKENVGFSSNTGNLMENVPPSFDSVEIEPDNG 326 (437)
Q Consensus 247 R~~w~kwv~~~~e~~~~s~t~t~~~~~ve~~~~~~~n~~~~~~n~~~~~~~~~~f~~n~~~~~~~~~~~~~t~~~~~Da~ 326 (437)
+..-++|...+- .....+. ++..+..++... .++.-....+..+-.=.++.+ . .++.=.++.+.-++.
T Consensus 176 ~~~~qr~~~~~~-~~~~~~~-~d~~~~t~~~n~------~~~~~~~~~~~~n~~~~~~~~---s-s~~q~~k~~~~~~~~ 243 (448)
T KOG2590|consen 176 KPLNQRWPDSSP-SSGGVRD-GDFKQLTNNPNS------VPGQRGQNQHHDNSSQNPHHN---S-SGFQRVKNMNGNSNH 243 (448)
T ss_pred ccccccCCCCCC-CCcCccc-cchhhhhcCcCC------CCccccccccccccCcCCCCC---C-CCccchhhcccCccc
Confidence 999999985443 2222222 344444443211 111111111111111111111 0 000000111111111
Q ss_pred -cc-ccc---ccccCCCCcccccC------------CCCCCcccccc-----cccccccCCCccccCcccccccccccee
Q 013712 327 -EE-HCD---EFLLLDDGKPAFSA------------ENGDSRTSLSE-----SDMKFSNLGTNHNISSEDLSQRTESARF 384 (437)
Q Consensus 327 -~~-~~~---~~~~~~~~~~~~~~------------~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 384 (437)
+. -.. ...+|+...-+.|. ..-. ..++.. .-+-.......--+-|+...+.+.-..+
T Consensus 244 ~q~~~G~~~~~~~l~~~~~~~~k~~~~~~~~~~~~~~~p~-~~~~~~~~~s~~pi~~~~~~~~~~ie~~FSeE~~~~d~~ 322 (448)
T KOG2590|consen 244 YQYSRGFSNSLPDLGNQNRNRVKNSSYRPAPQKSQSGEPI-QPGDKNQIPSVQPIGNVIAFIQEPIEFYFSEENLQRDRF 322 (448)
T ss_pred cccCCCcCCccccccCcccccccccccccchhhcCCCCcc-ccCccccCCCcccccccccccccccccccchHHHhhhhh
Confidence 11 000 22233333333322 1000 000000 0000011222333556667777777777
Q ss_pred cccC------CccccccchhhhhhhhcccccccccccchhhhhhhhhcccccccCcC
Q 013712 385 GDYG------TQGLERSSTVAVQNLIELSNDFANTFMLDEELEIEQKTMKKDDLSAH 435 (437)
Q Consensus 385 ~~~~------~~~~~~~~~~~~~~~~~~s~df~~tfmldeele~e~~~~~~~~~s~~ 435 (437)
+..+ ++++...+++.. |+..+..|+.+++++||+++||++--++.+.+..
T Consensus 323 n~~k~~~l~~ia~F~r~ad~s~-d~nli~~alr~s~ive~~~d~~~r~~~~~g~~~~ 378 (448)
T KOG2590|consen 323 NREKFVPLRVIAKFKRVADLSS-DINLILAALRNSLIVEETGDLERRGGDRWGNHVS 378 (448)
T ss_pred hhcccchhhhhhhhhhhhhccc-CHHHHHHHHhhhhhhhccchhhhcccccccceec
Confidence 7755 666666666654 8888999999999999999999995555554443
No 22
>PF01885 PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA family; InterPro: IPR002745 The final step of tRNA splicing in Saccharomyces cerevisiae (Baker's yeast) requires 2'-phosphotransferase (Tpt1) to transfer the 2'-phosphate from ligated tRNA to NAD, producing mature tRNA and ADP ribose-1' '-2' '-cyclic phosphate. Yeast and Mus musculus (Mouse) Tpt1 protein and bacterial KptA protein can catalyze the conversion of the generated intermediate to both product and the original substrate, these enzymes likely use the same reaction mechanism. Step 1 of this reaction is strikingly similar to the ADP-ribosylation of proteins catalyzed by a number of bacterial toxins. KptA, a functional Tpt1 protein homologue from Escherichia coli is strikingly similar to yeast Tpt1 in its kinetic parameters, although E. coli is not known to have a 2'-phosphorylated RNA substrate [,].; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 1WFX_A.
Probab=91.76 E-value=0.25 Score=46.83 Aligned_cols=52 Identities=21% Similarity=0.359 Sum_probs=35.5
Q ss_pred hhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCc--eEEc-----CCEEeeCCCC
Q 013712 199 LMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSST--VEAQ-----GDKVRRRDEW 250 (437)
Q Consensus 199 ~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~--LEV~-----~dKVRRR~~w 250 (437)
.||++|||+|.-|+...+.+.+..+.+.|.+++++++. .|+. +.+||.+...
T Consensus 26 ~~d~~G~v~v~dLL~~~~~~~~~~t~~~i~~vV~~~~K~Rfel~~~~~~~~~IRA~qGH 84 (186)
T PF01885_consen 26 VMDPDGWVSVDDLLRALRFKGLWVTEEDIREVVETDDKQRFELRYEDPGGWRIRANQGH 84 (186)
T ss_dssp ---TT--EEHHHHHHHHHHT-TT--HHHHHHHHHH-SS--EEEE-----TTEEEESS--
T ss_pred ccCCCCCEeHHHHHHHHHHcCCCCCHHHHHHHHhhCCCCCeeEEcccccCceEEECCCC
Confidence 37899999999999999999888789999999998764 6666 6789987643
No 23
>PRK00819 RNA 2'-phosphotransferase; Reviewed
Probab=91.29 E-value=0.35 Score=45.92 Aligned_cols=54 Identities=20% Similarity=0.364 Sum_probs=42.3
Q ss_pred hhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCc--eEEcCCEEeeCCCCCc
Q 013712 199 LMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSST--VEAQGDKVRRRDEWSK 252 (437)
Q Consensus 199 ~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~--LEV~~dKVRRR~~w~k 252 (437)
.||++|||+|..|+...+.+....+.+.|.+++++.+. .|+++++||.++...-
T Consensus 27 ~ld~~G~v~v~~Ll~~~~~~~~~~t~~~l~~vV~~d~K~Rf~l~~~~IRA~qGHSi 82 (179)
T PRK00819 27 TLDEEGWVDIDALIEALAKAYKWVTRELLEAVVESDDKGRFEISGDRIRARQGHSV 82 (179)
T ss_pred ccCCCCCEEHHHHHHHHHHccCCCCHHHHHHHHHcCCCcceEecCceEEeccCcCC
Confidence 47899999999999877654333577899999998875 6677889999876543
No 24
>PF09421 FRQ: Frequency clock protein; InterPro: IPR018554 The frequency clock protein, is the central component of the frq-based circadian negative feedback loop, regulates various aspects of the circadian clock in Neurospora crassa []. This protein has been shown to interact with itself via a coiled-coil [].
Probab=90.24 E-value=2.9 Score=48.75 Aligned_cols=48 Identities=25% Similarity=0.574 Sum_probs=43.1
Q ss_pred ccCCcEehhhhhcchhhhhcCCCHHHHHHHHh-cCCceEEc--CCEEeeCC
Q 013712 201 DAQGWVPIAIIADFKRVKRMSTDLPFILDALQ-NSSTVEAQ--GDKVRRRD 248 (437)
Q Consensus 201 DsdG~VPIslIasFnRVK~LT~D~~lI~eALr-~S~~LEV~--~dKVRRR~ 248 (437)
|.+|||-|.||++.-.+--|..+.+.|+.||. .|+.+||+ |-|||=|.
T Consensus 474 DaeGWVYLNLL~NmAQLHiiNVTPdFVRsAV~E~StKfQLSpDGrKIRWRG 524 (989)
T PF09421_consen 474 DAEGWVYLNLLCNMAQLHIINVTPDFVRSAVSEKSTKFQLSPDGRKIRWRG 524 (989)
T ss_pred ccccceehHHHHHHHHHHhhccCHHHHHHHHHhcccceeeCCCCCeeeecC
Confidence 78999999999999999999999999999997 58999997 55999664
No 25
>KOG2278 consensus RNA:NAD 2'-phosphotransferase TPT1 [Translation, ribosomal structure and biogenesis]
Probab=83.01 E-value=1.1 Score=43.28 Aligned_cols=41 Identities=15% Similarity=0.291 Sum_probs=35.5
Q ss_pred HHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCc
Q 013712 196 LISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSST 236 (437)
Q Consensus 196 LR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~ 236 (437)
++=+|+.||||||..|++.++.+...-.+++|.++++.-..
T Consensus 25 ~~L~m~~dGfvpv~~lL~lnq~r~~~~t~ddi~riVk~ndK 65 (207)
T KOG2278|consen 25 LRLNMRGDGFVPVEDLLNLNQFRGANHTIDDIRRIVKRNDK 65 (207)
T ss_pred hcccccCCCceEHHHHhccchhcccCCcHHHHHHHHhcccc
Confidence 34467899999999999999999999889999999987653
No 26
>COG1859 KptA RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]
Probab=69.34 E-value=6.8 Score=38.51 Aligned_cols=54 Identities=20% Similarity=0.271 Sum_probs=42.1
Q ss_pred hhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCc--eEEcCCEEeeCCCCCc
Q 013712 199 LMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSST--VEAQGDKVRRRDEWSK 252 (437)
Q Consensus 199 ~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~--LEV~~dKVRRR~~w~k 252 (437)
+||++||+.|+-|+.--|-+----|.++|..+++.++. .++.+.+||.+..|.-
T Consensus 53 ~lD~~Gwa~i~~l~~~~~k~~~~~~~~~l~~iV~~d~K~Rf~l~~~~IRA~yGHSi 108 (211)
T COG1859 53 RLDEEGWADIDELLEGLRKAGRWLTRELLLAVVATDDKGRFELKEGKIRARYGHSI 108 (211)
T ss_pred eeccccchhHHHHHHHHHhhccCCCHHHHHHHHhcCCCceeEecccceeeccCcce
Confidence 36899999998887765554233467788888888775 7888999999999983
No 27
>PTZ00315 2'-phosphotransferase; Provisional
Probab=61.81 E-value=11 Score=41.94 Aligned_cols=74 Identities=11% Similarity=0.103 Sum_probs=50.6
Q ss_pred HHHHHhhhhhhcCCCCcCcchHHHH-hhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCc--eEEc-----C-CEE
Q 013712 174 KANIVKQIEYYFSDENLQNDHYLIS-LMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSST--VEAQ-----G-DKV 244 (437)
Q Consensus 174 ~~~I~kQIEYYFSdeNL~kD~FLR~-~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~--LEV~-----~-dKV 244 (437)
..+|-|-|-|-+- ...==.. .||++|||.|..|+.-.+.+....+.+.|.+++++++. .++. + .+|
T Consensus 378 ~~~lSK~LS~lLR-----H~pe~~GL~ld~~Gwv~vd~LL~~~~~~~~~~t~e~i~~VV~~ndK~RF~l~~~~~~~~~~I 452 (582)
T PTZ00315 378 LVTYSKFMSRLLR-----HKADQWRVPITSNGYVLLDDILRQPPMRNDPVSVQDVARVVRDSDKQRFKLAYGAADGRLYI 452 (582)
T ss_pred HHHHHHHHHHHHc-----CCHhhcCCCcCCCCCEEHHHHHHHHHhcCCCCCHHHHHHHHHcCCCCceEEeccCCCCceEE
Confidence 4567777766322 1110001 36899999999999988887666688999999998875 5564 1 258
Q ss_pred eeCCCCCc
Q 013712 245 RRRDEWSK 252 (437)
Q Consensus 245 RRR~~w~k 252 (437)
|.+..+.-
T Consensus 453 RA~QGHSi 460 (582)
T PTZ00315 453 RANQGHSI 460 (582)
T ss_pred EeccCccc
Confidence 88776653
No 28
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=61.67 E-value=28 Score=40.46 Aligned_cols=17 Identities=24% Similarity=0.133 Sum_probs=7.5
Q ss_pred CCcEehhhhhcchhhhhc
Q 013712 203 QGWVPIAIIADFKRVKRM 220 (437)
Q Consensus 203 dG~VPIslIasFnRVK~L 220 (437)
+|-|.=+++ .-|+++.|
T Consensus 677 e~~eekkt~-~kKk~kel 693 (1102)
T KOG1924|consen 677 EGGEEKKTG-TKKKVKEL 693 (1102)
T ss_pred cccccccch-hhhhhhhh
Confidence 444444444 33444443
No 29
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=58.29 E-value=30 Score=36.84 Aligned_cols=27 Identities=19% Similarity=0.185 Sum_probs=17.7
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 013712 57 PPRGDPNASVANFPNRRPNTQEPGGHMN 84 (437)
Q Consensus 57 ~prGd~~~~~~n~g~~R~~~qgRGgH~N 84 (437)
..||-....++.+|++|+| .||||-.+
T Consensus 357 g~Rgg~Gg~~gGrGgGRGg-gG~GGGgg 383 (465)
T KOG3973|consen 357 GSRGGSGGNWGGRGGGRGG-GGRGGGGG 383 (465)
T ss_pred CCCCCCCCCCCCCCCCCCC-CCCCCCCC
Confidence 4477666667778888874 56665443
No 30
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=55.88 E-value=3.8 Score=45.28 Aligned_cols=26 Identities=23% Similarity=0.337 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCC
Q 013712 57 PPRGDPNASVANFPNRRPNTQEPGGH 82 (437)
Q Consensus 57 ~prGd~~~~~~n~g~~R~~~qgRGgH 82 (437)
+|||.+.++.++.+++|||.||||++
T Consensus 517 ~p~~k~ss~~~~~~~~~g~gr~rg~~ 542 (556)
T PF05918_consen 517 PPSGKYSSNGGNSGRGRGGGRGRGRR 542 (556)
T ss_dssp --------------------------
T ss_pred CCCCCCcCCCCCCCCCCCCCCCCCCC
Confidence 67899888888866667777777744
No 31
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=46.66 E-value=75 Score=37.26 Aligned_cols=11 Identities=36% Similarity=0.516 Sum_probs=4.3
Q ss_pred CCCCCCCCCCC
Q 013712 123 GYMVGPGFPGA 133 (437)
Q Consensus 123 ~~m~~p~~p~~ 133 (437)
|-++||.-|.|
T Consensus 565 g~aG~PPpPpp 575 (1102)
T KOG1924|consen 565 GIAGGPPPPPP 575 (1102)
T ss_pred cccCCCCccCC
Confidence 34444433333
No 32
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.55 E-value=1.9e+02 Score=31.91 Aligned_cols=21 Identities=19% Similarity=0.170 Sum_probs=11.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 013712 54 QPPPPRGDPNASVANFPNRRPNTQEPG 80 (437)
Q Consensus 54 ~p~~prGd~~~~~~n~g~~R~~~qgRG 80 (437)
+| ++||.+ +|+.+||--|.|-
T Consensus 368 ~p-~~~~y~-----~r~~~~gf~rp~s 388 (483)
T KOG2236|consen 368 QP-APQMYR-----GRDQNRGFKRPRS 388 (483)
T ss_pred CC-cccccC-----CcccccCCCCccc
Confidence 44 666664 2444455555555
Done!