Query 044732
Match_columns 250
No_of_seqs 172 out of 1093
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 06:11:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044732.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044732hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0101 TruA Pseudouridylate s 100.0 2.2E-53 4.7E-58 370.5 21.5 187 1-242 61-247 (266)
2 PRK12434 tRNA pseudouridine sy 100.0 2.3E-53 5E-58 369.1 21.0 184 1-239 62-245 (245)
3 PRK14588 tRNA pseudouridine sy 100.0 1.6E-52 3.4E-57 368.5 21.7 189 1-241 61-249 (272)
4 PRK14586 tRNA pseudouridine sy 100.0 6.9E-52 1.5E-56 359.9 21.1 184 1-239 61-245 (245)
5 PRK00021 truA tRNA pseudouridi 100.0 1.7E-51 3.7E-56 357.7 21.0 184 1-239 61-244 (244)
6 cd02570 PseudoU_synth_EcTruA P 100.0 6.4E-51 1.4E-55 353.2 21.1 184 1-239 56-239 (239)
7 TIGR00071 hisT_truA pseudourid 100.0 1E-49 2.3E-54 342.8 19.7 168 1-234 60-227 (227)
8 cd02569 PseudoU_synth_ScPus3 P 100.0 3E-49 6.4E-54 345.0 20.0 176 1-239 61-256 (256)
9 cd02866 PseudoU_synth_TruA_Arc 100.0 3.3E-49 7E-54 338.2 18.6 162 1-239 60-221 (221)
10 cd00497 PseudoU_synth_TruA_lik 100.0 4.9E-49 1.1E-53 337.8 19.5 166 1-239 58-224 (224)
11 PRK14589 tRNA pseudouridine sy 100.0 1.7E-48 3.7E-53 341.2 19.5 164 1-241 64-227 (265)
12 cd02568 PseudoU_synth_PUS1_PUS 100.0 1.9E-47 4.2E-52 332.5 17.9 175 1-239 66-245 (245)
13 PRK14587 tRNA pseudouridine sy 100.0 6.9E-46 1.5E-50 322.6 19.2 153 17-241 61-214 (256)
14 PLN03078 Putative tRNA pseudou 100.0 4.5E-41 9.8E-46 311.9 19.7 200 1-243 142-422 (513)
15 KOG2553 Pseudouridylate syntha 100.0 4.7E-38 1E-42 282.4 17.0 221 1-243 105-332 (416)
16 KOG4393 Predicted pseudouridyl 100.0 3E-34 6.5E-39 243.4 13.8 193 1-241 67-278 (295)
17 KOG2554 Pseudouridylate syntha 100.0 2.7E-34 5.9E-39 252.7 13.2 160 14-239 158-320 (425)
18 PF01416 PseudoU_synth_1: tRNA 99.9 3.2E-26 7E-31 174.1 -6.0 102 121-240 1-105 (105)
19 PF10105 DUF2344: Uncharacteri 95.2 0.053 1.1E-06 45.4 6.1 53 3-57 65-117 (187)
20 COG5011 Uncharacterized protei 79.7 1.5 3.3E-05 36.9 2.5 53 3-56 66-119 (228)
21 PF09153 DUF1938: Domain of un 64.4 6.3 0.00014 28.5 2.3 29 172-200 22-50 (86)
22 PF07782 DC_STAMP: DC-STAMP-li 40.4 29 0.00063 28.8 3.0 30 173-202 95-124 (191)
23 TIGR01213 conserved hypothetic 39.3 2.5E+02 0.0055 26.3 9.1 48 10-57 236-285 (388)
24 PF11688 DUF3285: Protein of u 37.3 17 0.00036 22.9 0.8 7 187-193 12-18 (45)
25 PF01416 PseudoU_synth_1: tRNA 34.5 12 0.00027 27.4 -0.1 34 11-45 68-105 (105)
26 PF05137 PilN: Fimbrial assemb 23.5 90 0.002 21.2 2.8 23 16-38 2-24 (78)
27 PF13438 DUF4113: Domain of un 22.7 88 0.0019 20.3 2.4 40 13-52 4-43 (52)
28 PF06972 DUF1296: Protein of u 22.6 1.7E+02 0.0037 19.8 3.7 28 190-218 4-31 (60)
29 KOG2318 Uncharacterized conser 22.0 82 0.0018 31.0 2.9 31 10-40 186-216 (650)
30 PF14069 SpoVIF: Stage VI spor 21.0 1.9E+02 0.0042 20.6 4.0 29 189-217 31-59 (79)
No 1
>COG0101 TruA Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.2e-53 Score=370.53 Aligned_cols=187 Identities=27% Similarity=0.382 Sum_probs=162.1
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
|+|||+ +.+..++.|..+||+.||+||+|+++++||++|||||+|++|+|+|+|++.. .++ ||...
T Consensus 61 v~hfd~-~~~~~~~~~~~~lN~~Lp~dI~V~~~~~v~~~FhaRfsa~~R~Y~Y~i~~~~--~~~------~~~~~----- 126 (266)
T COG0101 61 VVHFDT-PADRPLEKLVRALNALLPPDIRVLDVAEVPDDFHARFSAKSRTYRYIIYNAP--LRP------PFLAN----- 126 (266)
T ss_pred EEEEEc-CCcccHHHHHHHHHhcCCCCcEEEEEEECCCCCCCcccccceEEEEEEcCcc--CCC------hhhhc-----
Confidence 799999 6677799999999999999999999999999999999999999999999877 432 22232
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
++|+.+.++|+++|++|++.|+||| ||+|||+.. ...+++.|+|++++..
T Consensus 127 ------------------------~~~~~~~~ld~~~m~~aa~~l~G~H-DF~sF~~~~----~~~~s~vRti~~~~v~- 176 (266)
T COG0101 127 ------------------------YVWHVPYPLDLDAMREAAKLLLGTH-DFTSFRKAG----CQSKSPVRTIYRIDVS- 176 (266)
T ss_pred ------------------------ccccccCcCCHHHHHHHHHHccccc-cchhhccCC----CccCCCeEEEEEEEEE-
Confidence 4678888999999999999999999 999999852 2223456666655432
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecCC
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGYT 240 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~ 240 (250)
..++++.|+|+|+||||||||+|||+|++||+|+++++++.++|++++|..++|+|||+||||++|.|+
T Consensus 177 -----------~~~~~i~i~i~g~sFL~~mVR~iVg~l~~vg~g~~~~~~i~~ll~~~~r~~~~~~Apa~GL~L~~v~Y~ 245 (266)
T COG0101 177 -----------RDGDLIVIDISGNSFLWHMVRNIVGALLLVGRGKRPVEWIKELLEAKDRKLAGPTAPAEGLYLVRVDYP 245 (266)
T ss_pred -----------ecCCEEEEEEEeChhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhccCcccCCCCCCCCccEEEeeccC
Confidence 224688999999999999999999999999999999999999999999989999999999999999997
Q ss_pred CC
Q 044732 241 NF 242 (250)
Q Consensus 241 ~~ 242 (250)
+.
T Consensus 246 ~~ 247 (266)
T COG0101 246 ED 247 (266)
T ss_pred Cc
Confidence 63
No 2
>PRK12434 tRNA pseudouridine synthase A; Reviewed
Probab=100.00 E-value=2.3e-53 Score=369.13 Aligned_cols=184 Identities=22% Similarity=0.341 Sum_probs=160.1
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
|+||++ +..++++.+..+||+.||+||+|+++.+|+++|||||+|++|+|+|+|+++. .++ ||..+
T Consensus 62 v~~f~~-~~~~~~~~l~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~--~~~------~f~~~----- 127 (245)
T PRK12434 62 VANFQT-DEKLSEDKIKKYLNEYLPNDIVVTNVEEVDERFHARYNVKSKTYLYKIWNEK--FHN------VFMRK----- 127 (245)
T ss_pred EEEEEc-CCCCCHHHHHHHHHccCCCCeEEEEEEECCCCcccccCCCcEEEEEEEccCC--CCC------hhhCC-----
Confidence 689999 6789999999999999999999999999999999999999999999999876 432 23333
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
++|+...++|+++|++||+.|+|+| ||++||+. +.+.+++.|+|.++...
T Consensus 128 ------------------------~~~~~~~~ld~~~m~~a~~~~~G~H-DF~~F~~~----~~~~~~~~R~I~~~~v~- 177 (245)
T PRK12434 128 ------------------------YSMHVNEKLDVKAMKEAAKYLVGSH-DFTSFTNA----KSKKKSTVREIYSIDIM- 177 (245)
T ss_pred ------------------------eEEEeCCCCCHHHHHHHHHHccCCc-CHHhhcCC----CCCCCCCEEEEEEEEEE-
Confidence 3566778899999999999999999 99999974 22334566777665432
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecC
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGY 239 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y 239 (250)
++.+++.|+|+|+||||||||+|||+|++||+|++++++|.++|++++|...+++|||+||||++|.|
T Consensus 178 -----------~~~~~~~i~i~g~~FL~~mVR~mvg~ll~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y 245 (245)
T PRK12434 178 -----------EEDGFVQIRVSGNGFLHNMVRIIVGALIEVGLGQLKAEDIKQILEAKDRNQANCTAPASGLYLENVEY 245 (245)
T ss_pred -----------EeCCEEEEEEEecHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcCCcccCCCccCCCCCEEeEeEC
Confidence 22358999999999999999999999999999999999999999999988889999999999999998
No 3
>PRK14588 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=1.6e-52 Score=368.53 Aligned_cols=189 Identities=25% Similarity=0.350 Sum_probs=162.7
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
||||++ +..++++.+..+||+.||+||+|+++++|+++|||||+|++|+|+|+|+++. .++ ||..+
T Consensus 61 v~~f~~-~~~~~~~~l~~~LN~~LP~dI~V~~v~~v~~~FhaR~~a~~R~Y~Y~i~~~~--~~~------p~~~~----- 126 (272)
T PRK14588 61 VAHVQT-DTRHSLATIWRGLNAHLPEDIGVQNAWEAPPDFHARFSAIQREYRYVIDCAP--APS------PQLRH----- 126 (272)
T ss_pred EEEEEc-CCCCCHHHHHHHHHhcCCCCeEEEEEEECCCCcCcccCCCcEEEEEEEcCCC--CCC------hhhcC-----
Confidence 689999 6788999999999999999999999999999999999999999999998776 433 23333
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
++|+.+.++|+++|++||+.|+||| ||++||+. .+.+++.|+|.++....
T Consensus 127 ------------------------~~~~~~~~lDi~~m~~a~~~f~G~H-DF~~F~~~-----~~~~~~vRtI~~~~~~~ 176 (272)
T PRK14588 127 ------------------------QVLHYAGTLDVAAMDAALKLLIGTH-DFAAFTTA-----PQEGSTVRTCYWARCTD 176 (272)
T ss_pred ------------------------ceEecCCCCCHHHHHHHHHHccCCc-chHhhcCC-----CCCCCCeEEEEEEEEEE
Confidence 3566778899999999999999999 99999974 12345778887765432
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecCC
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGYT 240 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~ 240 (250)
.. . .+.+++.|+|+|+||||||||+|||+|++||+|++++++|.++|++++|..++++|||+||||++|.|+
T Consensus 177 ~~-------~-~~~~~i~~~i~g~~FL~~mVR~mVg~ll~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~ 248 (272)
T PRK14588 177 TE-------W-FGRPLLAIEVAANAFLQHMVRNIVGTLLLVGRGRMTVDQFGAVLASRDRRLAGPTAPAHGLYLTAVRYP 248 (272)
T ss_pred cc-------c-CCCCEEEEEEEEchhHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhcCCcccCCCCCCCCCcEEeeEecC
Confidence 10 1 133689999999999999999999999999999999999999999999988999999999999999997
Q ss_pred C
Q 044732 241 N 241 (250)
Q Consensus 241 ~ 241 (250)
+
T Consensus 249 ~ 249 (272)
T PRK14588 249 P 249 (272)
T ss_pred c
Confidence 5
No 4
>PRK14586 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=6.9e-52 Score=359.89 Aligned_cols=184 Identities=26% Similarity=0.402 Sum_probs=157.7
Q ss_pred CeEEecCCCC-CChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhccccc
Q 044732 1 MIILDTWRKD-VKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTS 79 (250)
Q Consensus 1 ~~~f~~~~~~-~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~ 79 (250)
|+||++ +.. ++++.|..+||+.||+||+|+++.+|+++|||||+|++|+|+|+|+.+. .++ ||..+
T Consensus 61 v~~f~~-~~~~~~~~~l~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~--~~~------~f~~~---- 127 (245)
T PRK14586 61 VIAFNC-PNDRMTEEDIKNAMNANLPDDIYVKKVFEVPKNFHPRFDAKKRIYHYFILTSK--EKN------VFLRK---- 127 (245)
T ss_pred EEEEEe-cCCcCCHHHHHHHHHccCCCCeEEEEEEECCCCcCcccCCCcEEEEEEEecCC--CCC------hhhCC----
Confidence 689999 555 8999999999999999999999999999999999999999999998766 332 33343
Q ss_pred cccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeee
Q 044732 80 NNVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARAT 159 (250)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~ 159 (250)
++|+.+.++|+++|++||+.|+||| ||++| +. +.+.+++.|+|+++...
T Consensus 128 -------------------------~~~~~~~~ld~~~m~~a~~~l~G~H-DF~~F-~~----~~~~~~~vR~I~~~~~~ 176 (245)
T PRK14586 128 -------------------------YVWWFPYELDLEAMRKAAKYLEGEH-DFTSF-KT----GSDERNPVRTIYRIRIL 176 (245)
T ss_pred -------------------------ceEEeCCCCCHHHHHHHHHHccCcc-hHHhh-cC----CCCCCCCcEEEEEEEEE
Confidence 3566677899999999999999999 99999 42 22334567777665431
Q ss_pred ccccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecC
Q 044732 160 EAILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGY 239 (250)
Q Consensus 160 vr~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y 239 (250)
....+++.|+|+|+||||||||+|||+|++||+|++++++|.++|++++|..++++|||+||||++|.|
T Consensus 177 -----------~~~~~~i~~~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~v~f 245 (245)
T PRK14586 177 -----------RLKKDLILIRVEGRSFLRRMVRNIVGALVKVGLGQWEPEKIKEVLEARDRSKAAGTAPAHGLYLYKVLF 245 (245)
T ss_pred -----------EccCCEEEEEEEechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcCCcccCCCccCCCCCEEeEeEC
Confidence 112358999999999999999999999999999999999999999999998889999999999999986
No 5
>PRK00021 truA tRNA pseudouridine synthase A; Validated
Probab=100.00 E-value=1.7e-51 Score=357.70 Aligned_cols=184 Identities=29% Similarity=0.395 Sum_probs=159.5
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
|+||++ +..++++.+..+||+.||+||+|+++.+||++|||||+|++|+|+|+|+.+. .++ ||..+
T Consensus 61 vv~~~~-~~~~~~~~~~~~lN~~Lp~dI~V~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~--~~~------~~~~~----- 126 (244)
T PRK00021 61 VAHFDT-PAPRPPEKWRRALNALLPDDIAVLWAEEVPDDFHARFSAKARRYRYRIYNRP--ARP------PFLRG----- 126 (244)
T ss_pred EEEEEe-CCCCCHHHHHHHHHhcCCCCEEEEEeEecCCCcCcCcCCCceEEEEEEecCC--CCC------hhhCC-----
Confidence 689999 6789999999999999999999999999999999999999999999999876 332 22333
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
++|+....+|+++|++|++.|+||| ||+|||+. +.+.+++.|+|.++...
T Consensus 127 ------------------------~~~~~~~~ld~~~m~~a~~~~~G~H-dF~~F~~~----~~~~~~~~R~I~~~~v~- 176 (244)
T PRK00021 127 ------------------------YVWHYPYPLDVDAMNEAAQYLLGEH-DFTSFRAS----GCQSKSPVRTIYEADVT- 176 (244)
T ss_pred ------------------------cEEEeCCCCcHHHHHHHHHHhcCce-eeeeeeCC----CCCCCCCeEEEEEEEEE-
Confidence 3566777899999999999999999 99999863 23345567777665432
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecC
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGY 239 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y 239 (250)
++.+++.|+|+|+||||||||+|||+|+++|+|++++++|+++|+++++...+++|||+||+|++|.|
T Consensus 177 -----------~~~~~~~i~i~g~sFL~~qVR~mvg~l~~vg~g~~~~~~i~~~L~~~~~~~~~~~APa~GL~L~~v~Y 244 (244)
T PRK00021 177 -----------REGDFIVFDISANGFLHNMVRNIVGTLLEVGKGKRPPEDIKELLEAKDRTLAGPTAPAEGLYLVEVDY 244 (244)
T ss_pred -----------EcCCEEEEEEEEchhHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhcCCcccCCCccCCCCCEEeeeEC
Confidence 22368999999999999999999999999999999999999999998887789999999999999998
No 6
>cd02570 PseudoU_synth_EcTruA PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E. coli TruA makes psi38/39 and/or 40 in tRNA. psi38 and psi39 in tRNAs are highly phylogenetically conserved. P. aeruginosa truA is required for induction of type III secretory genes and may act through modifying tRNAs critical for the expression of type III genes or their regulators.
Probab=100.00 E-value=6.4e-51 Score=353.19 Aligned_cols=184 Identities=29% Similarity=0.388 Sum_probs=158.9
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
|+||++ +..++++.++.+||+.||+||+|+++.+|+++|||||+|++|+|+|+|+.+. .++ ||..+
T Consensus 56 vv~~~~-~~~~~~~~~~~~lN~~Lp~dI~v~~i~~v~~~F~aR~~a~~R~Y~Y~i~~~~--~~~------~~~~~----- 121 (239)
T cd02570 56 VAHFDT-PSEIPLEKLIKALNSLLPPDIRVLSAEEVPDDFHARFSAKSRTYRYRILNRP--VPS------PFLRR----- 121 (239)
T ss_pred EEEEEE-CCCCCHHHHHHHHHccCCCCEEEEEEEECCCCcCcccCCCceEEEEEEccCC--CCC------hhhCC-----
Confidence 689999 6788999999999999999999999999999999999999999999999875 322 23333
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
++|+...++|+++|++||+.|+|+| ||+|||+.. ...+++.|+|.++...
T Consensus 122 ------------------------~~~~~~~~~d~~~m~~a~~~f~G~H-dF~~F~~~~----~~~~~~~R~I~~~~v~- 171 (239)
T cd02570 122 ------------------------YVWHVPRPLDIEAMQEAAKLLLGTH-DFSSFRAAG----CQSKSTVRTIYRADVY- 171 (239)
T ss_pred ------------------------eEEEeCCCCCHHHHHHHHHHccCCc-chhhhCCCC----CCCCCCeEEEEEEEEE-
Confidence 3556677899999999999999999 999999742 2234566777665432
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecC
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGY 239 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y 239 (250)
++.+++.|+|+|+||||||||+|||+|+++|+|++++++|+++|+++++...+++|||+||||++|.|
T Consensus 172 -----------~~~~~~~i~i~g~sFL~~qVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~~~~~~~APa~GL~L~~v~Y 239 (239)
T cd02570 172 -----------REGDLIVFEIRANGFLYHMVRNIVGTLLEVGRGKLSPEDIKEILEAKDRTAAGPTAPAHGLYLVKVEY 239 (239)
T ss_pred -----------EeCCEEEEEEEEcHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhcCCcccCCCCcCCCCCEEeeeEC
Confidence 23368999999999999999999999999999999999999999998887779999999999999998
No 7
>TIGR00071 hisT_truA pseudouridylate synthase I. universal so far, single copy in all prokaryotes, 3 in yeast. Trusted cutoff for orthology is about 100 based on 1 match only in complete prokaryote with length 200.
Probab=100.00 E-value=1e-49 Score=342.75 Aligned_cols=168 Identities=26% Similarity=0.413 Sum_probs=146.9
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
|+||++ +..++++.|..+||+.||+||+|+++++|+++|||||+|++|+|+|+|+.+.
T Consensus 60 v~~f~~-~~~~~~~~~~~~lN~~Lp~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~--------------------- 117 (227)
T TIGR00071 60 VISFDT-PKEIPDNKLNAKLNALLPPDIRVKALAPVNDNFHARFSASKRHYRYILYNHR--------------------- 117 (227)
T ss_pred EEEEEe-cCCCCHHHHHHHHHccCCCCEEEEEEEeCCCCcCCCCCCCcEEEEEEEccCc---------------------
Confidence 689999 6789999999999999999999999999999999999999999999998432
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
+...++|+++|++|++.|+||| ||++||+. +.+.+++.|+|.++..
T Consensus 118 ---------------------------~~~~~ld~~~m~~a~~~~~G~H-DF~~F~~~----~~~~~~~~R~i~~~~v-- 163 (227)
T TIGR00071 118 ---------------------------HYYSPLDLEKMRAAAKQLLGKH-DFSNFSKA----KSKSRSPIRTISDIKV-- 163 (227)
T ss_pred ---------------------------ccCCCCCHHHHHHHHHHccCcc-cHHHhcCC----CCCCCCCeEEEEEEEE--
Confidence 0123589999999999999999 99999974 2233456666665443
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeee
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCL 234 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L 234 (250)
.++.+++.|+|+|+||||||||+|||+|++||+|++++++|+++|++++|..++++|||+||||
T Consensus 164 ----------~~~~~~~~i~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L 227 (227)
T TIGR00071 164 ----------SESGEYIIFDIIGNSFLWHMVRKIVGALVLVGRGKLPPEWVAKLLDAKKRNLAPTTAPANGLYL 227 (227)
T ss_pred ----------EEcCCEEEEEEEecHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhcCCcccCCCCCCCCCCcC
Confidence 2344689999999999999999999999999999999999999999998888899999999998
No 8
>cd02569 PseudoU_synth_ScPus3 PseudoU_synth_ScPus3-like: Pseudouridine synthase, Saccharomyces cerevisiae Pus3 like. This group consists of eukaryotic pseudouridine synthases similar to S. cerevisiae Pus3p, mouse Pus3p and, human PUS2. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Mouse Pus3p has been shown to makes psi38 and, possibly also psi 39, in tRNAs. Psi38 and psi39 are highly conserved in tRNAs from eubacteria, archea and eukarya.
Probab=100.00 E-value=3e-49 Score=344.98 Aligned_cols=176 Identities=23% Similarity=0.333 Sum_probs=147.0
Q ss_pred CeEEecCCCCCChh------------------HHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCC
Q 044732 1 MIILDTWRKDVKPS------------------DIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGEN 62 (250)
Q Consensus 1 ~~~f~~~~~~~~~~------------------~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~ 62 (250)
|+||++ .+.++++ .+..+||+.||+||+|+++++|+++|||||+|++|+|+|+|+.+
T Consensus 61 v~~f~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~---- 135 (256)
T cd02569 61 VISLDV-RSNLKPEDGLDPSTDVKSTADEEELPYCKILNRVLPPDIRILAWAPVPPDFSARFSCVSRTYRYFFPKG---- 135 (256)
T ss_pred EEEEEe-cCCCCccccccccccccccccchHHHHHHHHHhhCCCCcEEEEEEECCCCcCCCccCCceEEEEEecCC----
Confidence 689999 5556554 68999999999999999999999999999999999999999632
Q ss_pred CccccchhhhhhccccccccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhcccccccccccccccccc
Q 044732 63 REQSIDSEVEVENFHTSNNVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKAS 142 (250)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~ 142 (250)
++|+++|++||+.|+||| ||++||+...
T Consensus 136 -------------------------------------------------~ldi~~m~~a~~~f~G~H-DF~~F~~~~~-- 163 (256)
T cd02569 136 -------------------------------------------------DLDIELMRKAAKLLLGEH-DFRNFCKMDV-- 163 (256)
T ss_pred -------------------------------------------------CCCHHHHHHHHHHhhCCc-chHHHhccCc--
Confidence 278999999999999999 9999997421
Q ss_pred ccCCCCceeEEEeeeeeccccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCC
Q 044732 143 RNIGPPTECFIYHARATEAILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRA 222 (250)
Q Consensus 143 ~~~~~~~~r~i~~~~~~vr~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~ 222 (250)
..+.+++.|+|.++...... ....+.+++.|+|+|+||||||||+|||+|++||+|++++++|+++|++++|..
T Consensus 164 ~~~~~~~~RtI~~~~v~~~~------~~~~~~~~~~~~i~g~~FL~~mVR~mvg~ll~vg~G~~~~~~i~~~L~~~~r~~ 237 (256)
T cd02569 164 ANQVTNYVRRVLSAEVEPVD------QHPDGDGLYYFEVRGSAFLWHQVRCMMAVLFLIGQGLEPPSVISQLLDVEKNPR 237 (256)
T ss_pred ccCCCCCceEEEEEEEEEcc------CCCCCCcEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCccccC
Confidence 11234566777665542100 000123689999999999999999999999999999999999999999998887
Q ss_pred CCC--CCCCCCeeeeeecC
Q 044732 223 TAP--PAPPEGLCLVDVGY 239 (250)
Q Consensus 223 ~~~--~APa~GL~L~~V~Y 239 (250)
+++ +|||+||+|++|.|
T Consensus 238 ~~~~~~Ap~~GL~L~~v~~ 256 (256)
T cd02569 238 KPQYTMASEVPLVLYDCGF 256 (256)
T ss_pred CCCcCcCCCCCcEEEEeeC
Confidence 777 99999999999987
No 9
>cd02866 PseudoU_synth_TruA_Archea PseudoU_synth_archea: Pseudouridine synthase,. This group consists of archealpseudouridine synthases.Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. This group of proteins make Psedouridine in tRNAs.
Probab=100.00 E-value=3.3e-49 Score=338.17 Aligned_cols=162 Identities=29% Similarity=0.486 Sum_probs=142.0
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
|+||++ +..+ +..+||+.||+||+|+++.+||++||||++|++|+|+|+|+..
T Consensus 60 v~~f~~-~~~~----~~~~lN~~LP~dI~v~~~~~v~~~F~ar~~a~~r~Y~Y~i~~~---------------------- 112 (221)
T cd02866 60 VVAFET-EKEL----TPPAINNALPKDIRVWAWAKVPEDFHPRRDARRRYYRYYLGAE---------------------- 112 (221)
T ss_pred EEEEEe-CcHH----HHHHHHhhCCCCEEEEEEEEeCCCCCCCccCCeEEEEEEECCC----------------------
Confidence 689999 4333 8999999999999999999999999999999999999999632
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
++|+++|++||+.|+|+| ||++||+.. . .++.|+|.++...
T Consensus 113 -------------------------------~ld~~~m~~a~~~~~G~H-DF~~F~~~~----~--~~~~R~I~~~~~~- 153 (221)
T cd02866 113 -------------------------------DYDVEAMAEAAKKLIGTH-DFSNFSKRD----G--RDPVRTIERIEIR- 153 (221)
T ss_pred -------------------------------cCCHHHHHHHHHHhcCCc-CHHHhhCCC----C--CCCcEEEEEEEEE-
Confidence 268999999999999999 999999741 1 2456766655432
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecC
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGY 239 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y 239 (250)
++.+++.|+|+|+||||||||+|||+|++||+|++++++|+++|+++++...+++|||+||||++|.|
T Consensus 154 -----------~~~~~~~~~i~g~~FL~~mVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~~~~~~~APa~GL~L~~v~Y 221 (221)
T cd02866 154 -----------ENGEFLVIDVVGESFLWNMVRRIVGALSLVGKGKRENEWVDKLLDGEFRKKDGVPAPPEGLILVDVKY 221 (221)
T ss_pred -----------EcCCEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCCCcccCCCCCCCCCcEEEEeeC
Confidence 23468999999999999999999999999999999999999999999887778899999999999998
No 10
>cd00497 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudouridine synthase, TruA family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruA, Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus3p Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae PUS1 catalyzes the formation of psi34 and psi36 in the intron containing tRNAIle, psi35 in the intron containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Psi44 in U2 snRNA and, psi38 and psi39 in tRNAs are highly ph
Probab=100.00 E-value=4.9e-49 Score=337.85 Aligned_cols=166 Identities=28% Similarity=0.412 Sum_probs=143.6
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
|+||++ +..++ .+..+||+.||+||+|+++++|+++||||++|++|+|+|+|+.+
T Consensus 58 v~~~~~-~~~~~--~~~~~lN~~Lp~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~---------------------- 112 (224)
T cd00497 58 VVSLET-RSKLK--PYPDILNGLLPKDIRVLAWAPVPEDFHARFSCVSRTYRYYFPGG---------------------- 112 (224)
T ss_pred EEEEEE-CCCcH--HHHHHHHhhCCCCcEEEEEEEeCCCCCCCcccCeEEEEEEECCC----------------------
Confidence 689999 55544 89999999999999999999999999999999999999999632
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
++|+++|++||+.|+||| ||+|||+.. ...+++.|+|.++...
T Consensus 113 -------------------------------~~d~~~m~~a~~~f~G~H-DF~~F~~~~----~~~~~~~RtI~~~~v~- 155 (224)
T cd00497 113 -------------------------------DLDIEAMREAAKLLLGTH-DFRNFCKKD----GRKKNPVRTIISAEVE- 155 (224)
T ss_pred -------------------------------CcCHHHHHHHHHHccCcc-cHHHhcCCC----CCCCCCeEEEEEEEEE-
Confidence 268999999999999999 999999742 2224566776655432
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCC-CCCCCCeeeeeecC
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAP-PAPPEGLCLVDVGY 239 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~-~APa~GL~L~~V~Y 239 (250)
+..+++.|+|+|+||||||||+|||+|++||+|++++++|.++|+++++...++ +|||+||||++|.|
T Consensus 156 -----------~~~~~~~i~i~g~sFL~~mVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~~~~~~~~APa~GL~L~~V~Y 224 (224)
T cd00497 156 -----------EVDDFYVFEVKGKSFLWHQVRRIVAALFLVGQGLEPPSIISRLLDEEKRPSKPQYPAPPEPLVLWDCKY 224 (224)
T ss_pred -----------ecCCEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcCCcccCCCCcCCCCCcEEeeeeC
Confidence 223689999999999999999999999999999999999999999988776544 99999999999998
No 11
>PRK14589 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=1.7e-48 Score=341.20 Aligned_cols=164 Identities=27% Similarity=0.434 Sum_probs=143.8
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
|+||++ +. ++.+..+||+.||+||+|+++.+|+++|||||+|++|+|+|+|+..
T Consensus 64 v~~f~~-~~---~~~~~~~lN~~LP~dI~V~~~~~v~~~FhAR~~a~~R~Y~Y~i~~~---------------------- 117 (265)
T PRK14589 64 VLAFST-HK---PERAVEALNGQLPPDIWCTGWAEVPESFHPRYDAISRTYRYYFSRP---------------------- 117 (265)
T ss_pred EEEEEe-CC---hHHHHHHHHhhCCCCeEEEEEEEcCCCCCcccCCceeEEEEEEecC----------------------
Confidence 689999 43 7889999999999999999999999999999999999999999521
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
++|+++|++||+.|+||| ||+|||+. . .+++.|+|.++...
T Consensus 118 -------------------------------~lD~~~m~~a~~~f~G~H-DF~~F~~~----~--~~~~vRtI~~i~v~- 158 (265)
T PRK14589 118 -------------------------------PSDINAMRDAAGEFIGTH-DFSCFARV----E--GKSPVRTILRIRVF- 158 (265)
T ss_pred -------------------------------ccHHHHHHHHHHHccCCc-cHHHHhcc----C--CCCCeEEEEEEEEE-
Confidence 268999999999999999 99999974 1 34566777665432
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecCC
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGYT 240 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~ 240 (250)
.+.+++.|+|+|+||||||||+|||+|++||+|++++++|+++|+++++. .+++|||+||||++|.|+
T Consensus 159 -----------~~~~~~~~~i~G~~FL~~mVR~mVG~ll~vg~G~~~~~~i~~~L~~~~r~-~~~~APa~GL~L~~V~Y~ 226 (265)
T PRK14589 159 -----------SDGGFPVFEVTAQSFLWHMVRCMAGALLQIGEGEMEPDDIERLLSGPCKR-KVKPAPAEGLVLWDVDCG 226 (265)
T ss_pred -----------EeCCEEEEEEEechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCcCCC-CCCccCCCCcEEeeeecC
Confidence 22368899999999999999999999999999999999999999998875 478999999999999997
Q ss_pred C
Q 044732 241 N 241 (250)
Q Consensus 241 ~ 241 (250)
.
T Consensus 227 ~ 227 (265)
T PRK14589 227 L 227 (265)
T ss_pred C
Confidence 4
No 12
>cd02568 PseudoU_synth_PUS1_PUS2 PseudoU_synth_PUS1_PUS2: Pseudouridine synthase, PUS1/ PUS2 like. This group consists of eukaryotic pseudouridine synthases similar to Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus2p, Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae Pus1p catalyzes the formation of psi34 and psi36 in the intron-containing tRNAIle, psi35 in the intron-containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes are psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. Mouse Pus1p makes psi27/28 in pre- tRNASer , tRNAVal and tRNAIle, psi 34/36 in tRNAIle and, psi 32 and potentially 67 in tRNAVal. Psi44 in U
Probab=100.00 E-value=1.9e-47 Score=332.48 Aligned_cols=175 Identities=23% Similarity=0.360 Sum_probs=146.4
Q ss_pred CeEEecCCCCCC-----hhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhc
Q 044732 1 MIILDTWRKDVK-----PSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVEN 75 (250)
Q Consensus 1 ~~~f~~~~~~~~-----~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ 75 (250)
|+||++ +..++ ++++..+||+.||+||+|+++.+|+++|||||+|++|+|+|+|+...
T Consensus 66 v~~~~~-~~~~~~~~~~~~~~~~~lN~~Lp~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~---------------- 128 (245)
T cd02568 66 VVSLKV-IIDDPEGLGIGEDLVEKLNSHLPEDIRVFGITRVTKSFNARKACDSRTYEYLLPTFA---------------- 128 (245)
T ss_pred EEEEEE-eccccccccchHHHHHHHHccCCCceEEEEEEcCCCCCCcchhhhcceeEEECCccc----------------
Confidence 689999 56676 89999999999999999999999999999999999999999996322
Q ss_pred cccccccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEe
Q 044732 76 FHTSNNVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYH 155 (250)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~ 155 (250)
. +|+++|++|++.|+|+| ||++||+.. ....+++.|+|.+
T Consensus 129 --------------------------------~----~d~~~m~~a~~~~~G~H-dF~~F~~~~---~~~~~~~~R~i~~ 168 (245)
T cd02568 129 --------------------------------L----ETLDRFNEILKLYVGTH-NFHNFTVRK---KFEDPSANRFIIS 168 (245)
T ss_pred --------------------------------H----hHHHHHHHHHHHhhCcc-ccccCcccc---cccCCCceeEEEE
Confidence 0 58999999999999999 999999742 1123456677766
Q ss_pred eeeeccccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeee
Q 044732 156 ARATEAILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLV 235 (250)
Q Consensus 156 ~~~~vr~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~ 235 (250)
+....... ...+.+++.|+|+|+||||||||+|||+|++||+|++++++|+++|+.+ +...+|+|||+||||+
T Consensus 169 ~~~~~~~~------~~~~~~~i~i~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~L~~~-~~~~~~~APa~GL~L~ 241 (245)
T cd02568 169 FYVSEPFV------IEEGLEWVSIEIHGQSFMLHQIRKMIGLAIAIVRGGAPESLIDLSFNKA-KRIIIPLAPGLGLLLE 241 (245)
T ss_pred EEEeccee------ecCCccEEEEEEEechHHHHHHHHHHHHHHHHHcCCCCHHHHHHHhccc-ccccccCCCCcceeEe
Confidence 54321000 0013468999999999999999999999999999999999999999964 4457899999999999
Q ss_pred eecC
Q 044732 236 DVGY 239 (250)
Q Consensus 236 ~V~Y 239 (250)
+|.|
T Consensus 242 ~v~y 245 (245)
T cd02568 242 YPHF 245 (245)
T ss_pred cccC
Confidence 9988
No 13
>PRK14587 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=6.9e-46 Score=322.58 Aligned_cols=153 Identities=24% Similarity=0.388 Sum_probs=131.4
Q ss_pred HHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhccccccccCccCCCcccccccc
Q 044732 17 EDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSNNVGKQSNGCYENIENL 96 (250)
Q Consensus 17 ~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (250)
..+||+.||+||+|+++.+|+++||||+ |++|+|+|+|+..
T Consensus 61 ~~~LN~~LP~dI~V~~~~~V~~~FhaR~-a~~R~Y~Y~i~~~-------------------------------------- 101 (256)
T PRK14587 61 LGYVNSKLPRGVWAWAVAEVPEGFNPRR-AKRRRYLYVAPHW-------------------------------------- 101 (256)
T ss_pred HHHHHhcCCCCeEEEEEEECCCCcCcCc-ccceEEEEEEccC--------------------------------------
Confidence 5799999999999999999999999997 9999999998410
Q ss_pred ccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCC-ceeEEEeeeeeccccCCCcccCCCCce
Q 044732 97 LINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPP-TECFIYHARATEAILPCPVNDHGEGRK 175 (250)
Q Consensus 97 ~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~-~~r~i~~~~~~vr~i~~~~~~~~~~~~ 175 (250)
++|+++|++|++.|+|+| ||++||+.. .+.++ +.|+|.++... ..++
T Consensus 102 ---------------~lDi~~m~~aa~~l~G~H-DF~~F~~~~----~~~~~~~vRtI~~i~v~------------~~~~ 149 (256)
T PRK14587 102 ---------------GEDVEAMREAAELLAGTH-DYSSFIQRR----GEKATPTVTTVYEIGVE------------LRGD 149 (256)
T ss_pred ---------------cchHHHHHHHHHHhcCCc-ChHHhccCC----CCCCCCCEEEEEEEEEE------------EeCC
Confidence 279999999999999999 999999742 22233 56666655432 1235
Q ss_pred EEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecCCC
Q 044732 176 VMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGYTN 241 (250)
Q Consensus 176 ~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~~ 241 (250)
++.|+|+|+||||||||+|||+|++||+|++++++|.++|+.+ +..++++|||+||||++|.|++
T Consensus 150 ~i~i~i~g~sFL~~mVR~mVG~Ll~Vg~G~~~~~~i~~~L~~~-r~~~~~~APa~GL~L~~V~Y~~ 214 (256)
T PRK14587 150 LIYLYFVGRGFRNKMIRKMAWAILAAGRGVLSRRDIAELLERP-RPGAVPSAPAEGLVLLDIEYDV 214 (256)
T ss_pred EEEEEEEechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcC-cccCCCCCCCCCCEEeeeccCc
Confidence 8899999999999999999999999999999999999999954 6678999999999999999974
No 14
>PLN03078 Putative tRNA pseudouridine synthase; Provisional
Probab=100.00 E-value=4.5e-41 Score=311.90 Aligned_cols=200 Identities=20% Similarity=0.260 Sum_probs=144.8
Q ss_pred CeEEecCCCC-----CC--hhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhh
Q 044732 1 MIILDTWRKD-----VK--PSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEV 73 (250)
Q Consensus 1 ~~~f~~~~~~-----~~--~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~ 73 (250)
||||+++ .+ .+ ...|..+||++||+||||+++.+|+++|||||+|++|+|+|+|++......
T Consensus 142 Vvsf~l~-~p~~~~~~d~~~~~L~~~LN~~LP~DIRVl~v~~V~~~FhAR~sc~sRtY~Y~iP~~~~~~k---------- 210 (513)
T PLN03078 142 MISLKME-IPENAWKDDPDGIALAKFINSHLPDNIRVFSILPAQRSFDPRRECDLRKYSYLLPAEVIGIK---------- 210 (513)
T ss_pred EEEEecc-CcchhccccchHHHHHHHHHhcCCCCeEEEEEEECCCCcCCCCCCCceEEEEEEccccccCC----------
Confidence 6899973 21 12 236889999999999999999999999999999999999999997431011
Q ss_pred hccccccccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccC-CC-----
Q 044732 74 ENFHTSNNVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNI-GP----- 147 (250)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~-~~----- 147 (250)
..+.. .+.| .|+++|++|++.|+||| ||||||...+..... ++
T Consensus 211 ~~f~~-------------------------~~~~-----~dI~kMneAl~~fiGtH-DFhNFT~r~~y~~~~~~~~~~~~ 259 (513)
T PLN03078 211 SGFSS-------------------------EEID-----EHISEFNSILNGFEGEH-PFHNYTARSKYRKKLPGKHKQRN 259 (513)
T ss_pred Cccch-------------------------hhhH-----HHHHHHHHHHHhccccc-CcccccCCCccCccccccccccc
Confidence 11110 0111 28999999999999999 999999864321110 00
Q ss_pred -Cce---------------------------------------------------------eEEEee-------eeeccc
Q 044732 148 -PTE---------------------------------------------------------CFIYHA-------RATEAI 162 (250)
Q Consensus 148 -~~~---------------------------------------------------------r~i~~~-------~~~vr~ 162 (250)
... |.+... ....|.
T Consensus 260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~wl~e~d~~d~i~~s~~R~ 339 (513)
T PLN03078 260 GAVSRRAKSSKEMSSSESEENHGEISEEDEEDLSFSSIPSGSSDENEDILKFQSSQVQIRARWLHEPDETDRISASHFRK 339 (513)
T ss_pred cccccccccccccccccccccccccccchhhhhccccccccccccccccccccccchhhhhhhccCCccccccchhheEE
Confidence 000 000000 011223
Q ss_pred cCCCcc---cCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecC
Q 044732 163 LPCPVN---DHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGY 239 (250)
Q Consensus 163 i~~~~~---~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y 239 (250)
|..++. ....|.+++.|+|.|+|||+||||+|||++++|++|.++++.|...|....+ ...|+||+.||+|++|.|
T Consensus 340 I~~~~~~~~~~~~g~~fv~i~I~GqSFmlhQIRKMIG~~~aV~rg~~~~~~i~~~L~~~~r-~~~P~AP~~GL~L~~~~F 418 (513)
T PLN03078 340 IFRCSCGKLEKSLGFDFVELSIWGESFMLHQIRKMVGTAVAVKRELLPRDIIRLSLTKFSR-IVLPLAPSEVLILRGNSF 418 (513)
T ss_pred EEEeecCCccccCCceEEEEEEEehhHHHHHHHHHHHHHHHHHhccCCHHHHHHHhccccc-cccccCCCcceEEEeeec
Confidence 332221 1224678999999999999999999999999999999999999999987655 469999999999999999
Q ss_pred CCCC
Q 044732 240 TNFD 243 (250)
Q Consensus 240 ~~~~ 243 (250)
+.+.
T Consensus 419 ~~yn 422 (513)
T PLN03078 419 SVRK 422 (513)
T ss_pred cccc
Confidence 8653
No 15
>KOG2553 consensus Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.7e-38 Score=282.37 Aligned_cols=221 Identities=19% Similarity=0.285 Sum_probs=156.4
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchh-------hhh
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSE-------VEV 73 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~-------~~~ 73 (250)
||+..+ .++...++..||..||++||||++.+|+++|++|..|.+|+|+|.||+..+..+.|...-. -+.
T Consensus 105 viSlK~---~~~~~~lv~~lN~~Lp~~IRv~~v~r~~k~F~pr~~CdsR~YeYllPtfal~~p~~~~~~~~~~~~~~e~~ 181 (416)
T KOG2553|consen 105 VISLKL---ELDDPELVEKLNEILPEQIRVWGVKRVTKSFNPRKQCDSRTYEYLLPTFALAPPKPSSLLEVDIQYDKEFE 181 (416)
T ss_pred eeEEEE---eeCcHHHHHHHhhhCCcceEEEEEEecCCCCCccccccceeEEEecceeeecCCCCccHHHhhhhhhhhhh
Confidence 344554 3455889999999999999999999999999999999999999999998854443320000 000
Q ss_pred hccccccccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEE
Q 044732 74 ENFHTSNNVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFI 153 (250)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i 153 (250)
..++.. +... +.+.-+..|- . -..-..-.+-+++.++++++.++||| ||||||... ....++..|+|
T Consensus 182 ~~f~~~--~~~~---~~~~~s~~~~-~---~~~~yr~s~~~l~~~~~~ls~Y~Gth-nFHNfT~~~---~~~dpss~R~I 248 (416)
T KOG2553|consen 182 KEFWNT--YPLS---AKERLSGQDR-K---TESGYRLSEEKLEVFNTILSKYVGTH-NFHNFTTGK---DFTDPSSNRFI 248 (416)
T ss_pred hhhccc--cchh---hhhhhccccc-c---cccceeeCHHHHHHHHHHHHHhhccc-ccceecccC---CCCCcccccee
Confidence 111100 0000 0000000000 0 00001123346789999999999999 999999852 23456788999
Q ss_pred EeeeeeccccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCee
Q 044732 154 YHARATEAILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLC 233 (250)
Q Consensus 154 ~~~~~~vr~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~ 233 (250)
.++... +...++ .+|.+||.+.|+|+|||.||||+|||.+|.|.++.++.+.|+..+++. ....+|.||+.||+
T Consensus 249 ~s~~~~--~pfv~~---~~~~e~V~i~i~GQSFMLHQIRKMVglav~i~R~~~p~~~i~~af~~~-~ri~IP~AP~~gLl 322 (416)
T KOG2553|consen 249 KSFTVS--EPFVIN---DEGVEFVKIKIHGQSFMLHQIRKMVGLAVLIVRSGAPASTIQRAFNKE-HKINIPKAPGEGLL 322 (416)
T ss_pred eEEEec--Ccceec---cCCceEEEEEEEcchhHHHHHHHHHHHHHHHHhcCCCHHHHHHhhCCC-ccccccCCCcceEE
Confidence 876432 221110 257799999999999999999999999999999999999999999844 45679999999999
Q ss_pred eeeecCCCCC
Q 044732 234 LVDVGYTNFD 243 (250)
Q Consensus 234 L~~V~Y~~~~ 243 (250)
|.++.|+.++
T Consensus 323 L~~~~F~~yn 332 (416)
T KOG2553|consen 323 LEEPHFESYN 332 (416)
T ss_pred eecccccccc
Confidence 9999998654
No 16
>KOG4393 consensus Predicted pseudouridylate synthase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3e-34 Score=243.35 Aligned_cols=193 Identities=24% Similarity=0.282 Sum_probs=151.8
Q ss_pred CeEEecC-CCCCChhHHHHHHHhhC---CCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcc
Q 044732 1 MIILDTW-RKDVKPSDIEDAINSAA---PGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENF 76 (250)
Q Consensus 1 ~~~f~~~-~~~~~~~~l~~~lN~~L---P~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~ 76 (250)
++|++++ .+-........++|..| |.||+|+++..||.+|||||+|.+|+|.|+|.++. .+.+ .+
T Consensus 67 aa~~~vpr~sg~~~~~~~~a~nt~l~~k~gdirV~dv~~Vps~FhaR~sassRtY~YRla~g~--d~l~---------~f 135 (295)
T KOG4393|consen 67 AAHYIVPRFSGSQQQAKDRAVNTVLQRKDGDIRVIDVRCVPSNFHARYSASSRTYFYRLASGS--DPLS---------IF 135 (295)
T ss_pred eEEEEeecccCCcHHHHHHHHhccccCCCCceEEEEeeecCcchhheecccceeEEEEeecCC--CccC---------hh
Confidence 4788884 22366778888999988 34999999999999999999999999999999865 3221 22
Q ss_pred ccccccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEee
Q 044732 77 HTSNNVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHA 156 (250)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~ 156 (250)
.. .++|+.+..|+.-+|++|+++|+|+| ||.+|++.. +....+.
T Consensus 136 ER-------------------------d~cW~lp~~lna~kmqeaa~lf~G~h-dfsaf~~at----s~~y~P~------ 179 (295)
T KOG4393|consen 136 ER-------------------------DRCWHLPEELNARKMQEAAPLFEGSH-DFSAFTEAT----STVYFPS------ 179 (295)
T ss_pred hh-------------------------cccccCCcccCHHHHHhhhhhhccch-hhhhhhcCC----CCCCCCc------
Confidence 11 25888899999999999999999999 999998853 1111222
Q ss_pred eeeccccCCCcc-----------cCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCc----C
Q 044732 157 RATEAILPCPVN-----------DHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCR----R 221 (250)
Q Consensus 157 ~~~vr~i~~~~~-----------~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r----~ 221 (250)
.|.|.++...+ .-..-.+++.++++++||||.|||+|++.||.+|.+.++..++..+|+.+++ +
T Consensus 180 -~t~rr~sv~~~g~~~a~~~~~~~e~~~~~~~nve~e~~gflyrQvRrm~a~LV~~g~~al~~~qv~~iLe~~~~~~l~k 258 (295)
T KOG4393|consen 180 -ITERRLSVLNNGDPLACSNQPETEGVTTNVGNVEGETEGFLYRQVRRMRAYLVTAGSRALLYHQVLYILEVRDIVGLLK 258 (295)
T ss_pred -ccceeeeecccCCccccccCCccccceeeeEEEEEEecchHHHHHHhhheeeeeecccccchhhhhhhhhccchhhhhh
Confidence 22233332210 0011236889999999999999999999999999999999999999999987 3
Q ss_pred CCCCCCCCCCeeeeeecCCC
Q 044732 222 ATAPPAPPEGLCLVDVGYTN 241 (250)
Q Consensus 222 ~~~~~APa~GL~L~~V~Y~~ 241 (250)
..++.|||+||+|..|.|.+
T Consensus 259 ~~~~vapphglfL~sv~Y~n 278 (295)
T KOG4393|consen 259 CVGTVAPPHGLFLSSVEYVN 278 (295)
T ss_pred ccCCCCCCccceeeeEEech
Confidence 56899999999999999986
No 17
>KOG2554 consensus Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.7e-34 Score=252.70 Aligned_cols=160 Identities=21% Similarity=0.281 Sum_probs=129.3
Q ss_pred hHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhccccccccCccCCCccccc
Q 044732 14 SDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSNNVGKQSNGCYENI 93 (250)
Q Consensus 14 ~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (250)
-.....||+.||+||||.++..||++|+|||+|..|+|+|+++-+
T Consensus 158 i~Y~~mLN~vLP~dIRi~awapvp~~FsARFsC~~RtYrY~F~k~----------------------------------- 202 (425)
T KOG2554|consen 158 IPYVHMLNRVLPPDIRIVAWAPVPPTFSARFSCVQRTYRYYFPKK----------------------------------- 202 (425)
T ss_pred ccHHHHHhccCCCcceEEEEecCCCCccceeehhhceeeEeccCC-----------------------------------
Confidence 346789999999999999999999999999999999999999722
Q ss_pred cccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeeccccCCCccc-CCC
Q 044732 94 ENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATEAILPCPVND-HGE 172 (250)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~vr~i~~~~~~-~~~ 172 (250)
+|||++|++||..|+|+| ||+|||+.+. .+...+. +|+|.+..+. +.+
T Consensus 203 ------------------dLdI~~M~kAA~l~vGe~-DFrNFCK~D~--~n~vtny----------~Rti~s~kV~~~~~ 251 (425)
T KOG2554|consen 203 ------------------DLDIDRMSKAASLLVGEH-DFRNFCKIDV--SNGVTNY----------ERTILSAKVEDVGQ 251 (425)
T ss_pred ------------------CcCHHHHHHHHHHHhcch-hhhhhhhhcc--hhhhHHH----------HhhhheeeEEEcCC
Confidence 389999999999999999 9999998632 1111223 3444443221 222
Q ss_pred CceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcC--CCCCCCCCCCeeeeeecC
Q 044732 173 GRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRR--ATAPPAPPEGLCLVDVGY 239 (250)
Q Consensus 173 ~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~--~~~~~APa~GL~L~~V~Y 239 (250)
..+++.|+|.|++|||||||+||+.|..||+|...|+-|.++|+-+... ....+|-...|.|.++.|
T Consensus 252 ~~~my~ldi~g~AFLwHqVRcimaiL~liGq~~E~p~lI~dLldIek~P~kPqY~mA~~~PL~LydC~f 320 (425)
T KOG2554|consen 252 TPGMYYLDIQGSAFLWHQVRCIMAILFLIGQGLEQPSLISDLLDIEKNPQKPQYTMASDYPLELYDCDF 320 (425)
T ss_pred CCceEEEEeechhhHHHHHHHHHHHHHHhccccCCchHHHHHHhcccCCCCceeeeccCCceEEEecCC
Confidence 3348999999999999999999999999999999999999999866432 234467778899999999
No 18
>PF01416 PseudoU_synth_1: tRNA pseudouridine synthase; InterPro: IPR020097 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. This entry represents pseudouridine synthase I (TruA). TruA from Escherichia coli modifies positions uracil-38, U-39 and/or U-40 in tRNA [, ]. TruA contains one atom of zinc essential for its native conformation and tRNA recognition and has a strictly conserved aspartic acid that is likely to be involved in catalysis []. These enzymes are dimeric proteins that contain two positively charged, RNA-binding clefts along their surface. Each cleft contains a highly conserved aspartic acid located at its centre. The structural domains have a topological similarity to those of other RNA-binding proteins, though the mode of interaction with tRNA appears to be unique. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1VS3_B 2NR0_B 2NQP_D 1DJ0_A 2NRE_A.
Probab=99.90 E-value=3.2e-26 Score=174.14 Aligned_cols=102 Identities=25% Similarity=0.378 Sum_probs=79.1
Q ss_pred HHHhccccccccccccccccccccCCCCceeEEEeeeeeccccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHH
Q 044732 121 LLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATEAILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVR 200 (250)
Q Consensus 121 a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~vr~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~ 200 (250)
|++.|+|+| ||++|++.. ...+++.| +|..+. +..+.+++. +|+|+|||+||||+|||++++
T Consensus 1 A~~~~~G~H-dF~~f~~~~----~~~~~~~r----------~i~~~~--~~~~~~~~~-~i~g~~Fl~~~vR~~vg~~~~ 62 (105)
T PF01416_consen 1 AAKLYVGTH-DFSGFQKQK----TVEKNTIR----------TIFSID--IIEEGDVVV-EIHGNSFLRHQVRIMVGTLLR 62 (105)
T ss_dssp -CCEETCEE-ECCGCSSCS-----HHHHHCC----------CEEEEE--CCCCCCEEE-EEEESS--TTHHHHHHCCCCH
T ss_pred CcceeEecC-CCcCCEECC----cccccHHH----------HHHHHh--hhcCCCEEE-EEEecccccccchhhhHHHHH
Confidence 578899999 999999851 11122334 444432 234456888 999999999999999999999
Q ss_pred HHhCCCCHHHHHHHHHccCcCCCCC---CCCCCCeeeeeecCC
Q 044732 201 EAAAGADEDALLKLMDATCRRATAP---PAPPEGLCLVDVGYT 240 (250)
Q Consensus 201 vg~g~~~~~~i~~~L~~~~r~~~~~---~APa~GL~L~~V~Y~ 240 (250)
+++|..+++++.++|++..+....+ +|||+||+|.+|.||
T Consensus 63 ~~~G~~~~~~i~~~L~~~~~~~~~~ri~~ap~~gL~L~~v~y~ 105 (105)
T PF01416_consen 63 TGRGVHSLEQIAELLNSKLRPKAPPRILTAPAVGLYLFHVRYD 105 (105)
T ss_dssp HHTTSCEEECCCCCHHHHSCTTS-TEEEEEEECCECCEECCTT
T ss_pred HhcCCCCHHHHHHHHhccCccccCCCcceeeCCCCCceEeeCc
Confidence 9999999999999999998766666 999999999999996
No 19
>PF10105 DUF2344: Uncharacterized protein conserved in bacteria (DUF2344); InterPro: IPR018768 This domain, found in various hypothetical bacterial proteins and Radical Sam domain proteins, has no known function.
Probab=95.23 E-value=0.053 Score=45.43 Aligned_cols=53 Identities=15% Similarity=0.305 Sum_probs=41.1
Q ss_pred EEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeec
Q 044732 3 ILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPL 57 (250)
Q Consensus 3 ~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~ 57 (250)
-+.+ ..+++++.+.+.||+.||++|+|.++..++....+= .+.-..+.|.+..
T Consensus 65 di~l-~~~~~~~~~~~rLn~~lP~Gl~i~~~~~i~~~~~sl-~~~i~~~~Y~i~~ 117 (187)
T PF10105_consen 65 DIEL-EEDIDPEEVLERLNAVLPEGLRILEAEEIPPKAPSL-MALINAAEYRITL 117 (187)
T ss_pred EEEE-ecCCCHHHHHHHHHHhCCCCCEEEEEEEccCCCcch-hhhcceEEEEEEe
Confidence 3445 568999999999999999999999999998554432 3445667888864
No 20
>COG5011 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.72 E-value=1.5 Score=36.88 Aligned_cols=53 Identities=15% Similarity=0.272 Sum_probs=38.5
Q ss_pred EEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCC-CCcccccCCceeEEEEee
Q 044732 3 ILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSR-VFHPNFSAKWRRYLYIFP 56 (250)
Q Consensus 3 ~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~-~FhAR~~a~~R~Y~Y~i~ 56 (250)
-|++ ....+++++++.||+.||+|+-+.+++.++. +-++-.--..-+|...+.
T Consensus 66 d~eL-~e~v~~dk~~etl~~~lp~Dl~~~~v~~iD~ksps~nqvl~~arY~i~vi 119 (228)
T COG5011 66 DFEL-TEEVSEDKFKETLNKALPNDLPAYDVEKIDKKSPSSNQVLEAARYFIKVI 119 (228)
T ss_pred EEEe-eeecCcHHHHHHHHHhCCCCcchhheeeecCCCccHHHHHHhhcEEEEEE
Confidence 4555 5678999999999999999999999999976 333333333345555554
No 21
>PF09153 DUF1938: Domain of unknown function (DUF1938); InterPro: IPR015236 This domain, which is predominantly found in the archaeal protein O6-alkylguanine-DNA alkyltransferase, adopts a secondary structure consisting of a three stranded antiparallel beta-sheet and three alpha helices. The exact function has not, as yet, been defined, though it has been postulated that this domain may confer thermostability to the protein []. ; GO: 0005737 cytoplasm; PDB: 1MGT_A.
Probab=64.42 E-value=6.3 Score=28.46 Aligned_cols=29 Identities=24% Similarity=0.340 Sum_probs=24.0
Q ss_pred CCceEEEEEEEcchHHHHhHHHHHHHHHH
Q 044732 172 EGRKVMCVELVANRFLRKMVRVLVATLVR 200 (250)
Q Consensus 172 ~~~~~i~~~i~G~sFL~~qVR~mVG~lv~ 200 (250)
+.-+-+.|.+-|..||.++|+.+++.|-.
T Consensus 22 ~kIqGItfslDg~efl~eri~~L~~~L~k 50 (86)
T PF09153_consen 22 EKIQGITFSLDGEEFLRERISRLIEFLKK 50 (86)
T ss_dssp SSEEEEEEESSHHHHHH-HHHHHHHHHHH
T ss_pred CceeeEEEEeccHHHHHHHHHHHHHHHHh
Confidence 34467899999999999999999999864
No 22
>PF07782 DC_STAMP: DC-STAMP-like protein; InterPro: IPR012858 This group of sequences is similar to a region of the dendritic cell-specific transmembrane protein (DC-STAMP, Q9H295 from SWISSPROT). This is thought to be a novel receptor protein that shares no identity with other multimembrane-spanning proteins []. It is thought to have seven putative transmembrane regions [], two of which are found in the region featured in this family. DC-STAMP is also described as having potential N-linked glycosylation sites and a potential phosphorylation site for PKC [], but these are not conserved. ; GO: 0016021 integral to membrane
Probab=40.40 E-value=29 Score=28.81 Aligned_cols=30 Identities=13% Similarity=0.327 Sum_probs=24.5
Q ss_pred CceEEEEEEEcchHHHHhHHHHHHHHHHHH
Q 044732 173 GRKVMCVELVANRFLRKMVRVLVATLVREA 202 (250)
Q Consensus 173 ~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg 202 (250)
+...+.++|.|+||+..++|.+++..-...
T Consensus 95 ~~~~~~v~v~G~g~~a~llr~~~~~f~~~~ 124 (191)
T PF07782_consen 95 GPHDVNVKVKGTGFIADLLRSIIEAFNPSY 124 (191)
T ss_pred CCCceEEEEEecchHHHHHHHHHHhcCccc
Confidence 446789999999999999999997655433
No 23
>TIGR01213 conserved hypothetical protein TIGR01213. Members of this family show twilight-zone similarity to several predicted RNA pseudouridine synthases. All trusted members of this family are archaeal. Several eukaryotic homologs lack N-terminal homology including two CXXC motifs.
Probab=39.34 E-value=2.5e+02 Score=26.30 Aligned_cols=48 Identities=17% Similarity=0.257 Sum_probs=33.2
Q ss_pred CCChhHHHHHHHhhCCCCeEEEEEEecCCCCcc--cccCCceeEEEEeec
Q 044732 10 DVKPSDIEDAINSAAPGKIRVISVSQVSRVFHP--NFSAKWRRYLYIFPL 57 (250)
Q Consensus 10 ~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhA--R~~a~~R~Y~Y~i~~ 57 (250)
..+++.+...+|+.....|.|.+...++..=-. +.....|+|+=.+..
T Consensus 236 ~~dl~~le~~IN~~~~g~V~v~~L~~~~~~~v~~ik~~~~~K~Y~alV~~ 285 (388)
T TIGR01213 236 KIDLDPLEEEINTSGKGKVEVEGLKFATREEVEEVKEEKHRKVYRALVEV 285 (388)
T ss_pred CCCHHHHHHHHhhccCCCEEEEEeEEEcHHHHHHHhccCCceEEEEEEEE
Confidence 467888999999999999999999877652111 112235777766653
No 24
>PF11688 DUF3285: Protein of unknown function (DUF3285); InterPro: IPR021702 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=37.31 E-value=17 Score=22.92 Aligned_cols=7 Identities=57% Similarity=0.904 Sum_probs=5.1
Q ss_pred HHHhHHH
Q 044732 187 LRKMVRV 193 (250)
Q Consensus 187 L~~qVR~ 193 (250)
|+||||+
T Consensus 12 MRNMVRK 18 (45)
T PF11688_consen 12 MRNMVRK 18 (45)
T ss_pred HHHHHHc
Confidence 6777776
No 25
>PF01416 PseudoU_synth_1: tRNA pseudouridine synthase; InterPro: IPR020097 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. This entry represents pseudouridine synthase I (TruA). TruA from Escherichia coli modifies positions uracil-38, U-39 and/or U-40 in tRNA [, ]. TruA contains one atom of zinc essential for its native conformation and tRNA recognition and has a strictly conserved aspartic acid that is likely to be involved in catalysis []. These enzymes are dimeric proteins that contain two positively charged, RNA-binding clefts along their surface. Each cleft contains a highly conserved aspartic acid located at its centre. The structural domains have a topological similarity to those of other RNA-binding proteins, though the mode of interaction with tRNA appears to be unique. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1VS3_B 2NR0_B 2NQP_D 1DJ0_A 2NRE_A.
Probab=34.52 E-value=12 Score=27.43 Aligned_cols=34 Identities=21% Similarity=0.391 Sum_probs=28.3
Q ss_pred CChhHHHHHHHhhCCC---CeEEEEEEecC-CCCccccc
Q 044732 11 VKPSDIEDAINSAAPG---KIRVISVSQVS-RVFHPNFS 45 (250)
Q Consensus 11 ~~~~~l~~~lN~~LP~---dIrV~~~~~V~-~~FhAR~~ 45 (250)
++++.+...||..+++ + +|+.+..++ -.||++|+
T Consensus 68 ~~~~~i~~~L~~~~~~~~~~-ri~~ap~~gL~L~~v~y~ 105 (105)
T PF01416_consen 68 HSLEQIAELLNSKLRPKAPP-RILTAPAVGLYLFHVRYD 105 (105)
T ss_dssp CEEECCCCCHHHHSCTTS-T-EEEEEEECCECCEECCTT
T ss_pred CCHHHHHHHHhccCccccCC-CcceeeCCCCCceEeeCc
Confidence 4566677779999965 6 999999999 89999985
No 26
>PF05137 PilN: Fimbrial assembly protein (PilN); InterPro: IPR007813 PilN is a plasmid-encoded, lipoprotein which locates to the outer membrane of bacteria and are part of a thin pilus required only for liquid mating [].
Probab=23.55 E-value=90 Score=21.17 Aligned_cols=23 Identities=22% Similarity=0.283 Sum_probs=19.3
Q ss_pred HHHHHHhhCCCCeEEEEEEecCC
Q 044732 16 IEDAINSAAPGKIRVISVSQVSR 38 (250)
Q Consensus 16 l~~~lN~~LP~dIrV~~~~~V~~ 38 (250)
+...|+..+|+++++.++..-..
T Consensus 2 ll~~L~~~~P~~v~l~~l~~~~~ 24 (78)
T PF05137_consen 2 LLDELARALPEGVWLTSLSINGN 24 (78)
T ss_pred hHHHHHhhCCCCEEEEEEEEeCC
Confidence 56789999999999999995444
No 27
>PF13438 DUF4113: Domain of unknown function (DUF4113)
Probab=22.74 E-value=88 Score=20.25 Aligned_cols=40 Identities=18% Similarity=0.051 Sum_probs=31.7
Q ss_pred hhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEE
Q 044732 13 PSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYL 52 (250)
Q Consensus 13 ~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~ 52 (250)
+-...++||+..-.+--..+.+-.+.+++.|..-.|..|.
T Consensus 4 LM~~iD~iN~r~G~~~i~~a~~g~~~~W~mr~~~~Sp~yT 43 (52)
T PF13438_consen 4 LMQAIDAINRRFGRGTIRLASQGFRRSWKMRREMLSPRYT 43 (52)
T ss_pred HHHHHHHHHHhcCCCEEEEeECCCCcchHHHHHhcCCCCc
Confidence 4567899999998876666777778899999888777763
No 28
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=22.60 E-value=1.7e+02 Score=19.77 Aligned_cols=28 Identities=11% Similarity=0.223 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHHHhCCCCHHHHHHHHHcc
Q 044732 190 MVRVLVATLVREAAAGADEDALLKLMDAT 218 (250)
Q Consensus 190 qVR~mVG~lv~vg~g~~~~~~i~~~L~~~ 218 (250)
-+|+||..+-++..+ -+.++|..+|..-
T Consensus 4 ~~rk~VQ~iKEiv~~-hse~eIya~L~ec 31 (60)
T PF06972_consen 4 ASRKTVQSIKEIVGC-HSEEEIYAMLKEC 31 (60)
T ss_pred HHHHHHHHHHHHhcC-CCHHHHHHHHHHh
Confidence 479999999988776 7788888888654
No 29
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.03 E-value=82 Score=30.95 Aligned_cols=31 Identities=29% Similarity=0.263 Sum_probs=27.4
Q ss_pred CCChhHHHHHHHhhCCCCeEEEEEEecCCCC
Q 044732 10 DVKPSDIEDAINSAAPGKIRVISVSQVSRVF 40 (250)
Q Consensus 10 ~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~F 40 (250)
.+.+..|.-.+|++||++=+|++|.--|..|
T Consensus 186 ~v~AkDL~v~~nSFlP~gGsilSV~IYpSeF 216 (650)
T KOG2318|consen 186 RVKAKDLFVLFNSFLPKGGSILSVKIYPSEF 216 (650)
T ss_pred cccHHHHHHHHHhhcCCCCceeEEEechhhh
Confidence 6789999999999999998999988777765
No 30
>PF14069 SpoVIF: Stage VI sporulation protein F
Probab=21.02 E-value=1.9e+02 Score=20.63 Aligned_cols=29 Identities=21% Similarity=0.249 Sum_probs=24.8
Q ss_pred HhHHHHHHHHHHHHhCCCCHHHHHHHHHc
Q 044732 189 KMVRVLVATLVREAAAGADEDALLKLMDA 217 (250)
Q Consensus 189 ~qVR~mVG~lv~vg~g~~~~~~i~~~L~~ 217 (250)
.+||.+|..+-.++.-..+.+..+++.+.
T Consensus 31 ~~vR~lIk~vs~~an~~Vs~~~ed~IV~~ 59 (79)
T PF14069_consen 31 KKVRQLIKQVSQIANKPVSKEQEDQIVQA 59 (79)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence 58999999999999999999877777665
Done!