Query 039019
Match_columns 292
No_of_seqs 202 out of 1314
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 05:32:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039019.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039019hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02748 tRNA dimethylallyltra 100.0 1.7E-54 3.7E-59 427.9 21.8 252 5-269 201-461 (468)
2 PLN02165 adenylate isopentenyl 100.0 1.7E-34 3.6E-39 275.0 17.1 152 19-201 172-334 (334)
3 KOG1384 tRNA delta(2)-isopente 100.0 1.2E-32 2.7E-37 259.4 10.9 200 16-260 132-347 (348)
4 PF01715 IPPT: IPP transferase 100.0 3E-31 6.4E-36 244.7 11.9 118 4-170 133-252 (253)
5 TIGR00174 miaA tRNA isopenteny 100.0 2.6E-30 5.7E-35 242.4 12.3 119 5-172 166-286 (287)
6 PRK00091 miaA tRNA delta(2)-is 100.0 8.5E-30 1.8E-34 241.0 13.9 119 5-172 171-290 (307)
7 PRK14729 miaA tRNA delta(2)-is 100.0 1.2E-29 2.6E-34 239.2 12.5 119 5-172 170-289 (300)
8 COG0324 MiaA tRNA delta(2)-iso 99.9 2E-27 4.4E-32 224.2 13.4 121 4-173 169-292 (308)
9 PLN02840 tRNA dimethylallyltra 99.9 8.7E-27 1.9E-31 228.0 13.6 115 18-172 229-346 (421)
10 PF12171 zf-C2H2_jaz: Zinc-fin 98.3 3.5E-07 7.5E-12 56.5 1.5 27 226-253 1-27 (27)
11 smart00451 ZnF_U1 U1-like zinc 98.2 9.5E-07 2.1E-11 57.1 2.7 32 226-258 3-34 (35)
12 PF12874 zf-met: Zinc-finger o 97.8 1.2E-05 2.6E-10 48.2 2.4 25 227-252 1-25 (25)
13 PF06220 zf-U1: U1 zinc finger 96.2 0.0038 8.2E-08 41.9 2.3 33 225-258 2-36 (38)
14 KOG0717 Molecular chaperone (D 95.4 0.014 3.1E-07 58.3 3.6 39 227-266 293-331 (508)
15 KOG3408 U1-like Zn-finger-cont 95.3 0.0093 2E-07 49.8 1.6 36 224-260 55-90 (129)
16 smart00586 ZnF_DBF Zinc finger 95.0 0.013 2.8E-07 41.6 1.5 31 224-258 3-33 (49)
17 KOG4727 U1-like Zn-finger prot 94.2 0.03 6.4E-07 49.4 2.2 34 224-258 73-106 (193)
18 PF07535 zf-DBF: DBF zinc fing 94.1 0.035 7.6E-07 39.3 2.0 29 225-257 4-32 (49)
19 PF01745 IPT: Isopentenyl tran 94.0 0.46 1E-05 43.8 9.6 105 18-156 113-224 (233)
20 KOG0227 Splicing factor 3a, su 93.5 0.037 8E-07 49.7 1.5 55 225-281 52-106 (222)
21 KOG3032 Uncharacterized conser 92.6 0.1 2.2E-06 48.2 3.1 34 225-260 34-67 (264)
22 PF11931 DUF3449: Domain of un 91.4 0.057 1.2E-06 48.7 0.0 50 225-274 100-160 (196)
23 PF00096 zf-C2H2: Zinc finger, 91.0 0.19 4.2E-06 29.0 2.0 22 227-249 1-22 (23)
24 COG5112 UFD2 U1-like Zn-finger 90.6 0.14 2.9E-06 42.1 1.4 37 225-262 54-90 (126)
25 COG5188 PRP9 Splicing factor 3 88.8 0.19 4.1E-06 49.1 1.2 37 224-261 236-272 (470)
26 KOG2785 C2H2-type Zn-finger pr 87.9 0.23 5E-06 48.8 1.2 47 224-271 66-113 (390)
27 PF13912 zf-C2H2_6: C2H2-type 87.4 0.48 1E-05 28.4 2.0 24 226-250 1-24 (27)
28 PF13894 zf-C2H2_4: C2H2-type 86.9 0.56 1.2E-05 26.5 2.0 22 227-249 1-22 (24)
29 COG5246 PRP11 Splicing factor 78.7 0.95 2.1E-05 40.6 1.0 34 225-259 52-85 (222)
30 PF12756 zf-C2H2_2: C2H2 type 77.8 1.1 2.4E-05 34.1 1.1 31 226-257 50-80 (100)
31 KOG3454 U1 snRNP-specific prot 77.3 2.2 4.9E-05 37.5 2.9 32 226-258 3-36 (165)
32 smart00355 ZnF_C2H2 zinc finge 77.0 2.1 4.6E-05 24.2 1.9 21 227-248 1-21 (26)
33 PTZ00448 hypothetical protein; 75.8 2.3 4.9E-05 41.9 2.8 36 226-262 314-349 (373)
34 KOG2636 Splicing factor 3a, su 75.4 2.2 4.7E-05 43.0 2.6 54 225-278 400-464 (497)
35 PF03194 LUC7: LUC7 N_terminus 74.2 2.8 6E-05 39.2 2.9 47 225-271 189-237 (254)
36 KOG0150 Spliceosomal protein F 71.1 3.5 7.5E-05 39.7 2.8 33 225-259 9-43 (336)
37 KOG2384 Major histocompatibili 70.4 1.2 2.6E-05 40.5 -0.4 34 223-258 81-114 (223)
38 PF04988 AKAP95: A-kinase anch 70.0 3.5 7.6E-05 36.2 2.4 32 227-259 1-32 (165)
39 PRK11545 gntK gluconate kinase 67.7 5.8 0.00013 33.9 3.3 24 20-43 89-112 (163)
40 COG5188 PRP9 Splicing factor 3 60.3 4.5 9.8E-05 39.8 1.3 54 225-278 373-437 (470)
41 PRK09825 idnK D-gluconate kina 60.1 8.3 0.00018 33.5 2.9 23 21-43 98-120 (176)
42 KOG2785 C2H2-type Zn-finger pr 59.6 7.6 0.00016 38.5 2.7 35 225-260 2-36 (390)
43 TIGR02322 phosphon_PhnN phosph 52.2 14 0.00031 31.3 3.0 21 22-42 111-131 (179)
44 PF14968 CCDC84: Coiled coil p 50.7 6.5 0.00014 38.4 0.7 32 228-263 1-32 (336)
45 PF04959 ARS2: Arsenite-resist 46.1 25 0.00054 32.2 3.7 37 225-263 76-112 (214)
46 COG5067 DBF4 Protein kinase es 44.5 8.7 0.00019 38.3 0.5 28 225-256 421-448 (468)
47 PF13913 zf-C2HC_2: zinc-finge 40.2 27 0.00059 20.9 2.1 20 227-248 3-22 (25)
48 PF06397 Desulfoferrod_N: Desu 38.5 15 0.00032 24.5 0.7 12 225-236 5-16 (36)
49 cd00227 CPT Chloramphenicol (C 37.4 36 0.00078 29.0 3.2 25 21-45 110-134 (175)
50 PHA00616 hypothetical protein 37.3 16 0.00035 25.3 0.8 23 226-249 1-23 (44)
51 PHA02768 hypothetical protein; 36.5 25 0.00054 25.5 1.7 23 226-249 5-27 (55)
52 cd02021 GntK Gluconate kinase 36.2 43 0.00093 27.4 3.4 23 20-42 96-118 (150)
53 TIGR01313 therm_gnt_kin carboh 35.6 42 0.00091 27.9 3.3 23 21-43 93-115 (163)
54 PF01712 dNK: Deoxynucleoside 34.0 33 0.00072 28.8 2.4 29 22-51 68-96 (146)
55 KOG4722 Zn-finger protein [Gen 32.7 24 0.00053 35.7 1.5 35 225-260 492-526 (672)
56 KOG0796 Spliceosome subunit [R 31.4 37 0.0008 33.0 2.4 45 225-269 185-231 (319)
57 PRK10078 ribose 1,5-bisphospho 30.3 59 0.0013 28.0 3.4 21 22-42 111-131 (186)
58 KOG3347 Predicted nucleotide k 30.1 46 0.001 29.5 2.6 37 7-43 76-114 (176)
59 PF09237 GAGA: GAGA factor; I 29.9 42 0.0009 24.3 1.9 26 224-250 22-47 (54)
60 PRK13808 adenylate kinase; Pro 29.3 29 0.00063 33.8 1.4 25 22-46 107-131 (333)
61 cd01673 dNK Deoxyribonucleosid 29.1 78 0.0017 27.1 4.0 25 22-46 125-149 (193)
62 COG1936 Predicted nucleotide k 27.5 54 0.0012 29.4 2.7 20 23-42 84-103 (180)
63 PF12013 DUF3505: Protein of u 27.3 52 0.0011 26.2 2.3 29 224-254 9-37 (109)
64 KOG3792 Transcription factor N 25.9 27 0.00059 37.4 0.6 29 225-254 192-220 (816)
65 COG4049 Uncharacterized protei 25.9 63 0.0014 23.8 2.3 28 220-248 11-38 (65)
66 PF13238 AAA_18: AAA domain; P 25.7 40 0.00086 26.2 1.4 18 26-43 96-113 (129)
67 PRK05541 adenylylsulfate kinas 25.5 65 0.0014 27.3 2.8 20 23-42 103-122 (176)
68 PF07931 CPT: Chloramphenicol 23.5 1E+02 0.0022 27.2 3.6 26 20-45 108-133 (174)
69 cd00464 SK Shikimate kinase (S 23.5 54 0.0012 26.6 1.8 21 22-42 92-112 (154)
70 PRK00625 shikimate kinase; Pro 23.5 62 0.0013 28.2 2.3 21 22-42 96-116 (173)
71 PF14968 CCDC84: Coiled coil p 23.1 1.1E+02 0.0023 30.1 4.1 34 224-259 56-96 (336)
72 TIGR00009 L28 ribosomal protei 22.5 15 0.00034 26.5 -1.4 17 227-243 3-19 (56)
73 PF00497 SBP_bac_3: Bacterial 21.8 2.6E+02 0.0057 23.2 5.9 36 22-57 185-220 (225)
74 PRK13947 shikimate kinase; Pro 21.7 47 0.001 27.7 1.2 37 24-60 96-134 (171)
75 PRK13975 thymidylate kinase; P 21.4 72 0.0016 27.2 2.3 20 23-42 115-134 (196)
76 cd01672 TMPK Thymidine monopho 21.3 83 0.0018 26.4 2.6 21 22-42 126-146 (200)
77 PF13909 zf-H2C2_5: C2H2-type 21.3 89 0.0019 17.8 2.0 21 227-249 1-21 (24)
78 PRK00698 tmk thymidylate kinas 21.2 98 0.0021 26.4 3.1 21 22-42 128-148 (205)
79 TIGR00319 desulf_FeS4 desulfof 20.9 52 0.0011 20.9 1.0 13 225-237 6-18 (34)
80 PF13465 zf-H2C2_2: Zinc-finge 20.8 59 0.0013 19.4 1.1 12 225-237 13-24 (26)
81 PF13671 AAA_33: AAA domain; P 20.7 47 0.001 26.6 0.9 26 20-45 96-121 (143)
82 PRK14527 adenylate kinase; Pro 20.7 78 0.0017 27.3 2.4 20 24-43 114-133 (191)
83 cd00974 DSRD Desulforedoxin (D 20.5 54 0.0012 20.9 1.0 13 225-237 3-15 (34)
84 TIGR01360 aden_kin_iso1 adenyl 20.3 87 0.0019 26.3 2.6 21 22-42 107-127 (188)
85 PF09943 DUF2175: Uncharacteri 20.2 44 0.00096 27.2 0.6 14 226-239 2-15 (101)
No 1
>PLN02748 tRNA dimethylallyltransferase
Probab=100.00 E-value=1.7e-54 Score=427.92 Aligned_cols=252 Identities=61% Similarity=1.008 Sum_probs=203.1
Q ss_pred cCCccccccCCC---------CCCCccEEEEEEeCChHHHHHHHHHHHHHHHHhcHHHHHHHHHhcCCCCCCCccccccH
Q 039019 5 LLHVAGQNWGRV---------DNFRFNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYDIYNANADYTRGLRQAIGV 75 (292)
Q Consensus 5 ~~~~~~~~~~~~---------~~~ry~~l~~wL~~dr~~L~~RLd~RVd~Ml~~GLldEV~~L~~~~~~~~~Gi~qaIGy 75 (292)
.+|++.+.|... +.++|++++|||++|+++|++||++|||.||++||++||+.|++.+.+++.|+||||||
T Consensus 201 ~TG~~~S~~~~~~~~~~~~~~~~~~~~~~~i~l~~~r~~L~~RI~~Rvd~Mle~GlleEv~~l~~~~~~~~~~~~qaIGy 280 (468)
T PLN02748 201 TTGVLPSKLYQGKAAENWGRISNSRFDCCFICVDADTAVLDRYVNQRVDCMIDAGLLDEVYDIYDPGADYTRGLRQAIGV 280 (468)
T ss_pred HHCcCHHHHhhhccccccccccCCCCceEEEEeCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHhcCCCCCcccceeEcH
Confidence 468888876421 24689999999999999999999999999999999999999999876788999999999
Q ss_pred HHHHHHHhcccCCCCCCCCCCCCcccccccccchhhhHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHhh
Q 039019 76 REFEDFLSVYHSVDRDNKTSGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKVLLEEAIDRVKLNTRRLVRCQKRRLN 155 (292)
Q Consensus 76 KEf~~yL~~~~~~~~~~~~~~~~~~~~~s~~~~~k~~~~~~~~~l~~~~~~~~~~~~~eaie~lk~~TRqYAKRQ~~Wir 155 (292)
|||.+||....+..++++ + .+...+++.++..++..+..+.+++++.++++||+.||.+||||||||++||+
T Consensus 281 kE~~~yL~~~~~~~~~g~----~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~eaie~ik~~Tr~yAKRQ~tw~~ 352 (468)
T PLN02748 281 REFEDFLRLYLSRNENGE----L----TSSSNNDKVMKENSRKILNFPHDDKLKILLDEAIDQVKLNTRRLVRRQKRRLH 352 (468)
T ss_pred HHHHHHHHhccccccccc----c----cccccccchhhhhhhccccccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999985433221111 0 01111223455566677777777777779999999999999999999999999
Q ss_pred hhhcccCceeEEecCCCcccccchhhHhhhhhcHHHHHHHHHhccCCCCCCccccCCCCCCCCcccCcccccccccCCCc
Q 039019 156 RLQTLFGWDIHYVDSTESISCKSDEVWTAQVVGPAVKTIRAFLSEDERLMPNLAGMIGTSVNSTERDLWTQYVCKACGDK 235 (292)
Q Consensus 156 ~~~~~~~~~i~~lD~t~~~~~~~~~~W~~~V~~pa~~iv~~Fl~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~Ce~C~~~ 235 (292)
+.....++.+||||+|++..+++.+.|++.|++||++||.+||++.+...+.. +.. . . ...+.|++|+||+|+++
T Consensus 353 rl~~~~~~~i~~lD~t~~~~~~~~~~W~~~V~~pa~~iv~~fL~~~~~~~~~~-~~~--~-~-~~~~~~~~~~Ce~C~~~ 427 (468)
T PLN02748 353 RLNTVFGWNIHYIDATEAILCKSEESWNAKVVKPAVEIVRRFLSDDTSSGPDA-SSG--K-S-VSRELWTQYVCEACGNK 427 (468)
T ss_pred hhhhcccCCeeEeechhhhhhccHhHHHHHhHHHHHHHHHHHHcCCCCCCcCc-ccc--c-c-ccccccccccccCCCCc
Confidence 87555568999999999876677888999999999999999999977433322 211 1 1 25667999999999755
Q ss_pred eeeCHHHHHHHhhchHHHHHhHHHHHhhhhhhhh
Q 039019 236 VLRGAYEWEQHKQGRRHRKRIYNLRKSQRFSSAG 269 (292)
Q Consensus 236 ~~~Ge~~W~~HlkSr~Hrk~~k~~~k~~~~~~~~ 269 (292)
+++|+++|++|++||+||+++++++|++.....+
T Consensus 428 ~~~G~~eW~~Hlksr~Hk~~~~~~~k~~~~~~~~ 461 (468)
T PLN02748 428 VLRGAHEWEQHKQGRGHRKRVQRLKQKQTQKNRL 461 (468)
T ss_pred ccCCHHHHHHHhcchHHHHHHhHHHhhhhccchh
Confidence 9999999999999999999999999998876654
No 2
>PLN02165 adenylate isopentenyltransferase
Probab=100.00 E-value=1.7e-34 Score=275.00 Aligned_cols=152 Identities=39% Similarity=0.713 Sum_probs=125.1
Q ss_pred CCccEEEEEEeCChHHHHHHHHHHHHHHHHhcHHHHHHHHHhcCCCC--CCCccccccHHHHHHHHhcccCCCCCCCCCC
Q 039019 19 FRFNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYDIYNANADY--TRGLRQAIGVREFEDFLSVYHSVDRDNKTSG 96 (292)
Q Consensus 19 ~ry~~l~~wL~~dr~~L~~RLd~RVd~Ml~~GLldEV~~L~~~~~~~--~~Gi~qaIGyKEf~~yL~~~~~~~~~~~~~~ 96 (292)
++|++++|||++|+++|++||++|||.|+++||++||+.|++.+.+. +.|++||||||||.+||++..+.+..+.
T Consensus 172 ~~~~~~~i~l~~dr~~L~~RI~~Rvd~Ml~~GlldEv~~L~~~~~~~~~~~~~~qaIGYkE~~~yL~~~~~~~~~g~--- 248 (334)
T PLN02165 172 LRYDCCFIWVDVSEPVLFEYLSKRVDEMMDSGMFEELAEFYDPVKSGSEPLGIRKAIGVPEFDRYFKKYPPENKMGK--- 248 (334)
T ss_pred cCCCeEEEEECCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHccCCcccCCCceeEEcHHHHHHHHHhccccccCCc---
Confidence 46999999999999999999999999999999999999999875433 5699999999999999985322111111
Q ss_pred CCcccccccccchhhhHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhhhhcccCceeEEecCCCccc-
Q 039019 97 PTNATLNSRNKDDKTLKDCMRAILKSSADDQLKVLLEEAIDRVKLNTRRLVRCQKRRLNRLQTLFGWDIHYVDSTESIS- 175 (292)
Q Consensus 97 ~~~~~~~s~~~~~k~~~~~~~~~l~~~~~~~~~~~~~eaie~lk~~TRqYAKRQ~~Wir~~~~~~~~~i~~lD~t~~~~- 175 (292)
+ +...+.++++|++.++.+||||||||+||||+.. ...|++++||+|+++.
T Consensus 249 -~--------------------------~~~~~~~l~e~ie~ik~~TrqYAKRQ~TWfR~~~-~~~~~~~~lD~t~~~~~ 300 (334)
T PLN02165 249 -W--------------------------DQARKAAYEEAVREIKENTCQLAKRQIEKIMKLK-SAGWDIKRVDATASFRA 300 (334)
T ss_pred -c--------------------------chhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCCc-ccCCcEEEEechhhhhh
Confidence 0 0112347999999999999999999999999975 3468999999998853
Q ss_pred --------ccchhhHhhhhhcHHHHHHHHHhccC
Q 039019 176 --------CKSDEVWTAQVVGPAVKTIRAFLSED 201 (292)
Q Consensus 176 --------~~~~~~W~~~V~~pa~~iv~~Fl~~~ 201 (292)
.+.++.|++.|++||++|+.+||.|+
T Consensus 301 ~~~~~~~~~~~~~~w~~~v~~~~~~i~~~fl~~~ 334 (334)
T PLN02165 301 VMRKKGKKKKWREIWEKDVLEPSVKIVKRFLVED 334 (334)
T ss_pred hhcccccccchhhHHHHHHHHHHHHHHHHHhcCC
Confidence 13458899999999999999999874
No 3
>KOG1384 consensus tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=99.98 E-value=1.2e-32 Score=259.36 Aligned_cols=200 Identities=34% Similarity=0.590 Sum_probs=157.9
Q ss_pred CCCCCccEEEEEEeCChHHHHHHHHHHHHHHHHhcHHHHHHHHHhcC-CCCCCCccccccHHHHHHHHhcccCCCCCCCC
Q 039019 16 VDNFRFNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYDIYNAN-ADYTRGLRQAIGVREFEDFLSVYHSVDRDNKT 94 (292)
Q Consensus 16 ~~~~ry~~l~~wL~~dr~~L~~RLd~RVd~Ml~~GLldEV~~L~~~~-~~~~~Gi~qaIGyKEf~~yL~~~~~~~~~~~~ 94 (292)
+..++|+||+|||+++.++|++||++|||.||++||+||+++|++.. .++..|+.++||+.||+.|++.....
T Consensus 132 pS~lryd~c~lWlda~~~VL~~~l~~RVD~Ml~~Gl~eE~~~f~~~~~s~~~~~i~~~iGv~e~d~f~~~~~~~------ 205 (348)
T KOG1384|consen 132 PSELRYDCCFLWLDADQAVLFERLDKRVDDMLESGLLEELRDFYDPYNSSYRSGIRKAIGVPEFDGFKEFYPWL------ 205 (348)
T ss_pred CcccccceEEEEEecchHHHHHHHHHHHHHHHHcchHHHHHHHhhhhhcCccccchhccCcHHHhhhhhccccc------
Confidence 45669999999999999999999999999999999999999999974 45677889999999999998865321
Q ss_pred CCCCcccccccccchhhhHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhhhhcccCceeEEecCCCcc
Q 039019 95 SGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKVLLEEAIDRVKLNTRRLVRCQKRRLNRLQTLFGWDIHYVDSTESI 174 (292)
Q Consensus 95 ~~~~~~~~~s~~~~~k~~~~~~~~~l~~~~~~~~~~~~~eaie~lk~~TRqYAKRQ~~Wir~~~~~~~~~i~~lD~t~~~ 174 (292)
+ ...+.....++++||+.||.+|+||||||.+||.++.....|.++.+|+|+++
T Consensus 206 ---~-----------------------~k~d~~~~~~l~~aie~iK~nT~~lakrQ~~~I~~l~~~~~~~i~~vdaT~~~ 259 (348)
T KOG1384|consen 206 ---T-----------------------DKWDLARKELLEKAIEAIKENTRRLAKRQKRKIEKLFLPRKWDIHRVDATEVF 259 (348)
T ss_pred ---c-----------------------chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccchHHHH
Confidence 0 01123345589999999999999999999999999875545999999999987
Q ss_pred cc----------cchhhHhhhhhcHHHHHHHHHhccCCCCCCccccCCCCCCCCcccCcccccccccCCCc-----eeeC
Q 039019 175 SC----------KSDEVWTAQVVGPAVKTIRAFLSEDERLMPNLAGMIGTSVNSTERDLWTQYVCKACGDK-----VLRG 239 (292)
Q Consensus 175 ~~----------~~~~~W~~~V~~pa~~iv~~Fl~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~Ce~C~~~-----~~~G 239 (292)
.. .....|+..|..|+.+|++.||.......- ..+.+..+.|++|.+. +..|
T Consensus 260 ~~~~~~~s~~~~~~~~~w~~~v~~ps~~iv~~~l~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~ 326 (348)
T KOG1384|consen 260 LFAKNRSSWFRIEQREIWNNPVKPPSAKIVKRFLDYYESEAR-------------RLEGPESLAAEICLNDSLEACVVKG 326 (348)
T ss_pred HHhhhhhHHhhhccchhhccccccchHHHHHHHHHhhhhhcc-------------cccchHHHhHHHhhccchhHHHHHh
Confidence 53 225679999999999999999875433110 1122344555555321 5789
Q ss_pred HHHHHHHhhchHHHHHhHHHH
Q 039019 240 AYEWEQHKQGRRHRKRIYNLR 260 (292)
Q Consensus 240 e~~W~~HlkSr~Hrk~~k~~~ 260 (292)
+..|.+|..+|+|+-.+++.+
T Consensus 327 ~r~~~~~~~~k~~~s~~~r~~ 347 (348)
T KOG1384|consen 327 ERSKNRHEGSKSHKSCVKRNK 347 (348)
T ss_pred hhhhhhhhccccccccccccC
Confidence 999999999999998887643
No 4
>PF01715 IPPT: IPP transferase; InterPro: IPR002627 tRNA isopentenyltransferases 2.5.1.8 from EC also known as tRNA delta(2)-isopentenylpyrophosphate transferases or IPP transferases. These enzymes modify both cytoplasmic and mitochondrial tRNAs at A(37) to give isopentenyl A(37) [].; GO: 0005524 ATP binding, 0008033 tRNA processing; PDB: 2ZXU_A 3FOZ_A 2ZM5_B 3D3Q_A 3EXA_B 2QGN_A 3A8T_A 3EPK_B 3EPH_A 3EPJ_A ....
Probab=99.97 E-value=3e-31 Score=244.68 Aligned_cols=118 Identities=31% Similarity=0.463 Sum_probs=108.5
Q ss_pred ccCCccccccCCC--CCCCccEEEEEEeCChHHHHHHHHHHHHHHHHhcHHHHHHHHHhcCCCCCCCccccccHHHHHHH
Q 039019 4 NLLHVAGQNWGRV--DNFRFNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYDIYNANADYTRGLRQAIGVREFEDF 81 (292)
Q Consensus 4 ~~~~~~~~~~~~~--~~~ry~~l~~wL~~dr~~L~~RLd~RVd~Ml~~GLldEV~~L~~~~~~~~~Gi~qaIGyKEf~~y 81 (292)
..+|++.+.|.+. ..++|++++|||++|+++|++||++|||.||++||++||+.|++.+.+.+.+++||||||||++|
T Consensus 133 ~~tG~~~s~~~~~~~~~~~~~~~~i~L~~~r~~L~~RI~~Rvd~Ml~~GlleEv~~L~~~~~~~~~~~~~aIGYkE~~~~ 212 (253)
T PF01715_consen 133 ELTGKPPSEWQKKQKPPPRYDFLVIGLDRDREELYERINKRVDEMLEQGLLEEVRALLERGLPPDLPAMQAIGYKEFIDY 212 (253)
T ss_dssp HHHSS-HHHHHHCHHHCBSSEEEEEEEESSHHHHHHHHHHHHHHHHHTTHHHHHHHHHHTTGGTTSCGGGSTTHHHHHHH
T ss_pred HhcCCChhHhhhcccccccCCeEEEEeCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHcCCCCcchhceeeehHHHHHh
Confidence 3579999999975 67789999999999999999999999999999999999999999987778899999999999999
Q ss_pred HhcccCCCCCCCCCCCCcccccccccchhhhHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhhhhccc
Q 039019 82 LSVYHSVDRDNKTSGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKVLLEEAIDRVKLNTRRLVRCQKRRLNRLQTLF 161 (292)
Q Consensus 82 L~~~~~~~~~~~~~~~~~~~~~s~~~~~k~~~~~~~~~l~~~~~~~~~~~~~eaie~lk~~TRqYAKRQ~~Wir~~~~~~ 161 (292)
|.+. + ++++|++.++.+||||||||+||||++.
T Consensus 213 l~g~------------~--------------------------------~~~e~~e~i~~~TrqyAKRQ~TWfr~~~--- 245 (253)
T PF01715_consen 213 LEGE------------I--------------------------------SLEEAIERIKTNTRQYAKRQRTWFRNQP--- 245 (253)
T ss_dssp HTTS------------S--------------------------------CHHHHHHHHHHHHHHHHHHHHHHHHTTS---
T ss_pred hcCC------------C--------------------------------CHHHHHHHHHHHHHHHHHHHHHHhCCCC---
Confidence 9985 2 4899999999999999999999999998
Q ss_pred CceeEEecC
Q 039019 162 GWDIHYVDS 170 (292)
Q Consensus 162 ~~~i~~lD~ 170 (292)
.++|+|+
T Consensus 246 --~~~w~d~ 252 (253)
T PF01715_consen 246 --NIHWIDI 252 (253)
T ss_dssp --SEEEEET
T ss_pred --CCeeeeC
Confidence 7999986
No 5
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=99.97 E-value=2.6e-30 Score=242.37 Aligned_cols=119 Identities=29% Similarity=0.367 Sum_probs=106.6
Q ss_pred cCCccccccCC--CCCCCccEEEEEEeCChHHHHHHHHHHHHHHHHhcHHHHHHHHHhcCCCCCCCccccccHHHHHHHH
Q 039019 5 LLHVAGQNWGR--VDNFRFNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYDIYNANADYTRGLRQAIGVREFEDFL 82 (292)
Q Consensus 5 ~~~~~~~~~~~--~~~~ry~~l~~wL~~dr~~L~~RLd~RVd~Ml~~GLldEV~~L~~~~~~~~~Gi~qaIGyKEf~~yL 82 (292)
.+|++.+.|.. ...++|++++|||++|++.|++||++|||.|+++||++||..|++.+.+.+.+++||||||||++||
T Consensus 166 ~tG~~~s~~~~~~~~~~~~~~~~i~l~~dr~~L~~rI~~Rv~~Mi~~Gl~eEv~~l~~~~~~~~~~~~~aIGYkE~~~~l 245 (287)
T TIGR00174 166 ATGKPPSELFKEQKIELFYDAVQIGLASSREPLHQRIEQRVHDMLESGLLAEVKALYAQYDLCDLPSIQAIGYKEFLLYL 245 (287)
T ss_pred HHCCChHHHhhccCCCCCCCeEEEEECCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHhccCCcCCchhhhccHHHHHHHH
Confidence 47889998853 2235799999999999999999999999999999999999999987666678999999999999999
Q ss_pred hcccCCCCCCCCCCCCcccccccccchhhhHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhhhhcccC
Q 039019 83 SVYHSVDRDNKTSGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKVLLEEAIDRVKLNTRRLVRCQKRRLNRLQTLFG 162 (292)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~s~~~~~k~~~~~~~~~l~~~~~~~~~~~~~eaie~lk~~TRqYAKRQ~~Wir~~~~~~~ 162 (292)
.+. + ++++|++.++.+||||||||+||||+..
T Consensus 246 ~g~------------~--------------------------------~~~e~ie~i~~~Tr~yAKRQ~TWfR~~~---- 277 (287)
T TIGR00174 246 EGT------------V--------------------------------SLEDAIERIKCNTRQYAKRQLTWFRKWS---- 277 (287)
T ss_pred cCC------------C--------------------------------CHHHHHHHHHHHHHHHHHHHHHHhCCCC----
Confidence 874 2 4899999999999999999999999986
Q ss_pred ceeEEecCCC
Q 039019 163 WDIHYVDSTE 172 (292)
Q Consensus 163 ~~i~~lD~t~ 172 (292)
+++|+|+++
T Consensus 278 -~~~~~~~~~ 286 (287)
T TIGR00174 278 -DVLWLDSTD 286 (287)
T ss_pred -CCEEeCCCC
Confidence 689999875
No 6
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=99.96 E-value=8.5e-30 Score=241.02 Aligned_cols=119 Identities=28% Similarity=0.341 Sum_probs=105.7
Q ss_pred cCCccccccCCC-CCCCccEEEEEEeCChHHHHHHHHHHHHHHHHhcHHHHHHHHHhcCCCCCCCccccccHHHHHHHHh
Q 039019 5 LLHVAGQNWGRV-DNFRFNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYDIYNANADYTRGLRQAIGVREFEDFLS 83 (292)
Q Consensus 5 ~~~~~~~~~~~~-~~~ry~~l~~wL~~dr~~L~~RLd~RVd~Ml~~GLldEV~~L~~~~~~~~~Gi~qaIGyKEf~~yL~ 83 (292)
.+|++.+.|... ...+|++++|||++|+++|++||++|||.|+++||++||..|++.+.+...|++||||||||++||.
T Consensus 171 ~tG~~~s~~~~~~~~~~~~~~~~~l~~dr~~L~~rI~~Rv~~Ml~~Gl~eEv~~l~~~~~~~~~~~~~aIGykE~~~yl~ 250 (307)
T PRK00091 171 LTGKPLSELQKRGKPPPYRVLIIGLDPDREELYERINQRVDQMLEQGLLEEVRALLARGYLPDLPAMRAIGYKELLAYLD 250 (307)
T ss_pred HHCCChhhhhhccccCCCCeEEEEEcCCHHHHHHHHHHHHHHHHHCcHHHHHHHHHHcCCCCCCccceeecHHHHHHHHc
Confidence 478888888642 3467999999999999999999999999999999999999999876556789999999999999998
Q ss_pred cccCCCCCCCCCCCCcccccccccchhhhHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhhhhcccCc
Q 039019 84 VYHSVDRDNKTSGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKVLLEEAIDRVKLNTRRLVRCQKRRLNRLQTLFGW 163 (292)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~s~~~~~k~~~~~~~~~l~~~~~~~~~~~~~eaie~lk~~TRqYAKRQ~~Wir~~~~~~~~ 163 (292)
+. + ++++|++.++.+||||||||+||||++.
T Consensus 251 g~------------~--------------------------------s~~e~~e~i~~~Tr~yAKRQ~TWfr~~~----- 281 (307)
T PRK00091 251 GE------------I--------------------------------SLEEAIEKIKQATRQYAKRQLTWFRRQP----- 281 (307)
T ss_pred CC------------C--------------------------------CHHHHHHHHHHHHHHHHHHHHHHhCCCC-----
Confidence 75 1 4889999999999999999999999987
Q ss_pred eeEEecCCC
Q 039019 164 DIHYVDSTE 172 (292)
Q Consensus 164 ~i~~lD~t~ 172 (292)
+++|+|.++
T Consensus 282 ~~~w~~~~~ 290 (307)
T PRK00091 282 DIHWLDLSP 290 (307)
T ss_pred CCeeecCCC
Confidence 789999443
No 7
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=99.96 E-value=1.2e-29 Score=239.24 Aligned_cols=119 Identities=19% Similarity=0.240 Sum_probs=104.9
Q ss_pred cCCccccccCCCCCCCccEEEEEEeCChHHHHHHHHHHHHHHHHhcHHHHHHHHHhcCCCCCCCccccccHHHHHHHHh-
Q 039019 5 LLHVAGQNWGRVDNFRFNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYDIYNANADYTRGLRQAIGVREFEDFLS- 83 (292)
Q Consensus 5 ~~~~~~~~~~~~~~~ry~~l~~wL~~dr~~L~~RLd~RVd~Ml~~GLldEV~~L~~~~~~~~~Gi~qaIGyKEf~~yL~- 83 (292)
++|++.+.|......+|++++|||++|+++|++||++|||.|+++||++||+.|++.+.+.+.+++||||||||.+||.
T Consensus 170 ~tG~~~s~~~~~~~~~~~~~~i~l~~~r~~L~~rI~~Rv~~Ml~~GlieEv~~l~~~~~~~~~~~~~aIGYkE~~~yl~~ 249 (300)
T PRK14729 170 QTGIPISQFLKKQNMFKNILAIGLKRPMEEMKSRIISRVNNMIDCGLLSEIKSLLGKGYNENTPAFKGIGYREFLLWKSR 249 (300)
T ss_pred HhCCChHhhhhccCCCCCeEEEEeCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHhcCCCCCCCcceeEcHHHHHHHHhc
Confidence 5799999986433346899999999999999999999999999999999999999876666889999999999999994
Q ss_pred cccCCCCCCCCCCCCcccccccccchhhhHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhhhhcccCc
Q 039019 84 VYHSVDRDNKTSGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKVLLEEAIDRVKLNTRRLVRCQKRRLNRLQTLFGW 163 (292)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~s~~~~~k~~~~~~~~~l~~~~~~~~~~~~~eaie~lk~~TRqYAKRQ~~Wir~~~~~~~~ 163 (292)
+. + ++++|++.++.+||||||||+||||+..
T Consensus 250 g~------------~--------------------------------~l~e~~e~i~~~Tr~yAKRQ~TWfr~~~----- 280 (300)
T PRK14729 250 PC------------Y--------------------------------MLNDIINLIVKNSFLYVKRQMTFFAKIP----- 280 (300)
T ss_pred CC------------C--------------------------------CHHHHHHHHHHHHHHHHHHHHHHcCCCC-----
Confidence 42 1 4899999999999999999999999986
Q ss_pred eeEEecCCC
Q 039019 164 DIHYVDSTE 172 (292)
Q Consensus 164 ~i~~lD~t~ 172 (292)
+++|+|.++
T Consensus 281 ~~~w~~~~~ 289 (300)
T PRK14729 281 NVLWFHPDD 289 (300)
T ss_pred CCeeecCCC
Confidence 688998743
No 8
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=2e-27 Score=224.25 Aligned_cols=121 Identities=27% Similarity=0.358 Sum_probs=108.7
Q ss_pred ccCCccccccCC---CCCCCccEEEEEEeCChHHHHHHHHHHHHHHHHhcHHHHHHHHHhcCCCCCCCccccccHHHHHH
Q 039019 4 NLLHVAGQNWGR---VDNFRFNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYDIYNANADYTRGLRQAIGVREFED 80 (292)
Q Consensus 4 ~~~~~~~~~~~~---~~~~ry~~l~~wL~~dr~~L~~RLd~RVd~Ml~~GLldEV~~L~~~~~~~~~Gi~qaIGyKEf~~ 80 (292)
-++|++.+.|+. +...+|++++|||.+++++|+.||+.|||.|++.||++||+.|+..+.....+++|+||||||.+
T Consensus 169 ~~tGk~~s~~~~~~~~~~~~~~~~~~~l~~~r~~L~~rI~~R~d~Ml~~Gli~EV~~L~~~g~~~~~~~~~~iGy~e~~~ 248 (308)
T COG0324 169 YLTGKPISELQKRSRPILEPYDILIIALAADREVLYERINRRVDAMLEQGLIEEVKALYARGLHLDLPAMQAIGYKEILA 248 (308)
T ss_pred HHHCCCHHHHhhcccCCCCCcceEEEEEeCCHHHHHHHHHHHHHHHHHccHHHHHHHHHhccCCccchHHHhcCHHHHHH
Confidence 368999988763 23348999999999999999999999999999999999999999987667789999999999999
Q ss_pred HHhcccCCCCCCCCCCCCcccccccccchhhhHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhhhhcc
Q 039019 81 FLSVYHSVDRDNKTSGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKVLLEEAIDRVKLNTRRLVRCQKRRLNRLQTL 160 (292)
Q Consensus 81 yL~~~~~~~~~~~~~~~~~~~~~s~~~~~k~~~~~~~~~l~~~~~~~~~~~~~eaie~lk~~TRqYAKRQ~~Wir~~~~~ 160 (292)
||.+. + ++++|++.++.+||||||||+||||+..
T Consensus 249 yl~g~------------~--------------------------------~~~ea~~~~~~~TRqyAKRQ~TWfr~~~-- 282 (308)
T COG0324 249 YLDGG------------I--------------------------------SLEEAIERIKTATRQYAKRQLTWFRNQL-- 282 (308)
T ss_pred HHhCC------------C--------------------------------CHHHHHHHHHHHHHHHHHHHHHHhccCc--
Confidence 99975 1 4999999999999999999999999987
Q ss_pred cCceeEEecCCCc
Q 039019 161 FGWDIHYVDSTES 173 (292)
Q Consensus 161 ~~~~i~~lD~t~~ 173 (292)
.++|+|....
T Consensus 283 ---~~~w~~~~~~ 292 (308)
T COG0324 283 ---GVHWLDSESP 292 (308)
T ss_pred ---ccceeccCCc
Confidence 6899998765
No 9
>PLN02840 tRNA dimethylallyltransferase
Probab=99.94 E-value=8.7e-27 Score=228.04 Aligned_cols=115 Identities=14% Similarity=0.232 Sum_probs=94.4
Q ss_pred CCCccEEEEEEeCChHHHHHHHHHHHHHHHH--hcHHHHHHHHHhcCCCCC-CCccccccHHHHHHHHhcccCCCCCCCC
Q 039019 18 NFRFNCCFICVDAANPVLDRYVEQRVDCMID--AGLLDEVYDIYNANADYT-RGLRQAIGVREFEDFLSVYHSVDRDNKT 94 (292)
Q Consensus 18 ~~ry~~l~~wL~~dr~~L~~RLd~RVd~Ml~--~GLldEV~~L~~~~~~~~-~Gi~qaIGyKEf~~yL~~~~~~~~~~~~ 94 (292)
+++|++++|||++||++|++||+.|||.||+ +||++||+.|++.+.... .+++||||||||++||...... .|+
T Consensus 229 ~~~y~~~~i~L~~dR~~Ly~RI~~Rvd~Ml~~~~GLleEV~~Ll~~g~~~~~~~a~~aIGYkE~~~yL~~~~~~--~G~- 305 (421)
T PLN02840 229 ELDYDFLCFFLSSPRLDLYRSIDLRCEEMLAGTNGILSEASWLLDLGLLPNSNSATRAIGYRQAMEYLLQCRQN--GGE- 305 (421)
T ss_pred CCCCCeEEEEeCCCHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHcCCCccccchHHHhcHHHHHHHHHhhccc--CCC-
Confidence 4579999999999999999999999999999 999999999999765443 5899999999999999832110 011
Q ss_pred CCCCcccccccccchhhhHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhhhhcccCceeEEecCCC
Q 039019 95 SGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKVLLEEAIDRVKLNTRRLVRCQKRRLNRLQTLFGWDIHYVDSTE 172 (292)
Q Consensus 95 ~~~~~~~~~s~~~~~k~~~~~~~~~l~~~~~~~~~~~~~eaie~lk~~TRqYAKRQ~~Wir~~~~~~~~~i~~lD~t~ 172 (292)
++ ...+.++++.++.+||||||||+||||+.. .++|+|.++
T Consensus 306 ---~s-----------------------------~ee~~~~~e~i~~~TRqYAKRQ~TWFR~~~-----~~~w~~~~~ 346 (421)
T PLN02840 306 ---SS-----------------------------PQEFLAFLSKFQTASRNFAKRQMTWFRNEP-----IYHWLDASQ 346 (421)
T ss_pred ---CC-----------------------------HHHHHHHHHHHHHHHHHHHHHHHHHhCCCC-----CCeEecCCC
Confidence 10 013446779999999999999999999986 789999754
No 10
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=98.27 E-value=3.5e-07 Score=56.49 Aligned_cols=27 Identities=33% Similarity=0.811 Sum_probs=24.9
Q ss_pred ccccccCCCceeeCHHHHHHHhhchHHH
Q 039019 226 QYVCKACGDKVLRGAYEWEQHKQGRRHR 253 (292)
Q Consensus 226 ~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hr 253 (292)
+++|++| ++.+.++.+|+.|++|++||
T Consensus 1 q~~C~~C-~k~f~~~~~~~~H~~sk~Hk 27 (27)
T PF12171_consen 1 QFYCDAC-DKYFSSENQLKQHMKSKKHK 27 (27)
T ss_dssp -CBBTTT-TBBBSSHHHHHCCTTSHHHH
T ss_pred CCCcccC-CCCcCCHHHHHHHHccCCCC
Confidence 5899999 59999999999999999997
No 11
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=98.21 E-value=9.5e-07 Score=57.06 Aligned_cols=32 Identities=25% Similarity=0.647 Sum_probs=29.3
Q ss_pred ccccccCCCceeeCHHHHHHHhhchHHHHHhHH
Q 039019 226 QYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYN 258 (292)
Q Consensus 226 ~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~ 258 (292)
.++|++| ++.+.++.+|..|++|++|++++++
T Consensus 3 ~~~C~~C-~~~~~~~~~~~~H~~gk~H~~~~~~ 34 (35)
T smart00451 3 GFYCKLC-NVTFTDEISVEAHLKGKKHKKNVKK 34 (35)
T ss_pred CeEcccc-CCccCCHHHHHHHHChHHHHHHHHc
Confidence 5899999 6899999999999999999998875
No 12
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.84 E-value=1.2e-05 Score=48.25 Aligned_cols=25 Identities=24% Similarity=0.690 Sum_probs=23.7
Q ss_pred cccccCCCceeeCHHHHHHHhhchHH
Q 039019 227 YVCKACGDKVLRGAYEWEQHKQGRRH 252 (292)
Q Consensus 227 ~~Ce~C~~~~~~Ge~~W~~HlkSr~H 252 (292)
|+|++| ++.+.++.+|+.|++|++|
T Consensus 1 ~~C~~C-~~~f~s~~~~~~H~~s~~H 25 (25)
T PF12874_consen 1 FYCDIC-NKSFSSENSLRQHLRSKKH 25 (25)
T ss_dssp EEETTT-TEEESSHHHHHHHHTTHHH
T ss_pred CCCCCC-CCCcCCHHHHHHHHCcCCC
Confidence 689999 6999999999999999998
No 13
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=96.18 E-value=0.0038 Score=41.89 Aligned_cols=33 Identities=27% Similarity=0.606 Sum_probs=19.5
Q ss_pred cccccccCCCceeeCH--HHHHHHhhchHHHHHhHH
Q 039019 225 TQYVCKACGDKVLRGA--YEWEQHKQGRRHRKRIYN 258 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge--~~W~~HlkSr~Hrk~~k~ 258 (292)
.+|+||.| ++.+..+ ..+..|..|.+|+.++++
T Consensus 2 ~ryyCdyC-~~~~~~d~~~~Rk~H~~G~kH~~nv~~ 36 (38)
T PF06220_consen 2 PRYYCDYC-KKYLTHDSPSIRKQHERGWKHKENVKR 36 (38)
T ss_dssp -S-B-TTT---B-S--SHHHHHHHT--THHHHHHHH
T ss_pred cCeecccc-cceecCCChHHHHHhhccHHHHHHHHH
Confidence 36999999 5766343 478999999999998864
No 14
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=95.35 E-value=0.014 Score=58.35 Aligned_cols=39 Identities=18% Similarity=0.534 Sum_probs=34.8
Q ss_pred cccccCCCceeeCHHHHHHHhhchHHHHHhHHHHHhhhhh
Q 039019 227 YVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLRKSQRFS 266 (292)
Q Consensus 227 ~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~k~~~~~ 266 (292)
++|-+| +++|-.+.+|..|.+||+|++.|..+++--+..
T Consensus 293 lyC~vC-nKsFKseKq~kNHEnSKKHkenv~eLrqemEEE 331 (508)
T KOG0717|consen 293 LYCVVC-NKSFKSEKQLKNHENSKKHKENVAELRQEMEEE 331 (508)
T ss_pred eEEeec-cccccchHHHHhhHHHHHHHHHHHHHHHHHHHh
Confidence 999999 699999999999999999999999998654433
No 15
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=95.26 E-value=0.0093 Score=49.77 Aligned_cols=36 Identities=25% Similarity=0.508 Sum_probs=33.8
Q ss_pred ccccccccCCCceeeCHHHHHHHhhchHHHHHhHHHH
Q 039019 224 WTQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLR 260 (292)
Q Consensus 224 ~~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~ 260 (292)
-.+++|=.| .+-|+.+.....|.+||.||+++|..+
T Consensus 55 ~GqfyCi~C-aRyFi~~~~l~~H~ktK~HKrRvK~l~ 90 (129)
T KOG3408|consen 55 GGQFYCIEC-ARYFIDAKALKTHFKTKVHKRRVKELR 90 (129)
T ss_pred Cceeehhhh-hhhhcchHHHHHHHhccHHHHHHHhcc
Confidence 468999999 699999999999999999999999988
No 16
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=94.97 E-value=0.013 Score=41.55 Aligned_cols=31 Identities=26% Similarity=0.399 Sum_probs=24.2
Q ss_pred ccccccccCCCceeeCHHHHHHHhhchHHHHHhHH
Q 039019 224 WTQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYN 258 (292)
Q Consensus 224 ~~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~ 258 (292)
.+..|||.|..+ =...+.|+.|++||+-.+.
T Consensus 3 ~k~GYCE~Cr~k----fd~l~~Hi~s~~Hr~FA~~ 33 (49)
T smart00586 3 KKPGYCENCREK----YDDLETHLLSEKHRRFAEN 33 (49)
T ss_pred CCCcccccHhHH----HhhHHHHhccHHHHHHHcC
Confidence 368899999533 3578999999999986554
No 17
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=94.22 E-value=0.03 Score=49.45 Aligned_cols=34 Identities=24% Similarity=0.602 Sum_probs=29.0
Q ss_pred ccccccccCCCceeeCHHHHHHHhhchHHHHHhHH
Q 039019 224 WTQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYN 258 (292)
Q Consensus 224 ~~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~ 258 (292)
---|||+|| +-|+--..++-.|++++.|.+++.-
T Consensus 73 ~~GyyCdVC-dcvvKDSinflDHiNgKkHqrnlgm 106 (193)
T KOG4727|consen 73 KGGYYCDVC-DCVVKDSINFLDHINGKKHQRNLGM 106 (193)
T ss_pred cCceeeeec-ceeehhhHHHHHHhccHHHHHHHhh
Confidence 357999999 6888888899999999999996643
No 18
>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding
Probab=94.09 E-value=0.035 Score=39.35 Aligned_cols=29 Identities=28% Similarity=0.394 Sum_probs=23.2
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHHhH
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIY 257 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k 257 (292)
+..+||.|. +.-...+.|+.|++||+-..
T Consensus 4 k~GYCE~C~----~ky~~l~~Hi~s~~Hr~FA~ 32 (49)
T PF07535_consen 4 KPGYCENCR----VKYDDLEEHIQSEKHRKFAE 32 (49)
T ss_pred CCccCcccc----chhhhHHHHhCCHHHHHHHc
Confidence 678999995 33457999999999998553
No 19
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=94.02 E-value=0.46 Score=43.85 Aligned_cols=105 Identities=17% Similarity=0.202 Sum_probs=70.5
Q ss_pred CCCccEEEEEEeC-ChHHHHHHHHHHHHHHHHh-----cHHHHHHHHHhcCCCCCCCccccc-cHHHHHHHHhcccCCCC
Q 039019 18 NFRFNCCFICVDA-ANPVLDRYVEQRVDCMIDA-----GLLDEVYDIYNANADYTRGLRQAI-GVREFEDFLSVYHSVDR 90 (292)
Q Consensus 18 ~~ry~~l~~wL~~-dr~~L~~RLd~RVd~Ml~~-----GLldEV~~L~~~~~~~~~Gi~qaI-GyKEf~~yL~~~~~~~~ 90 (292)
+.+|...+..+.. +++....|+.+||.+|+.- +||+|+..+.... ..++++..| ||+-.+.|-....-.
T Consensus 113 ~~~f~w~i~rl~l~d~~~f~~ra~~Rv~~ML~p~~~~~Sll~EL~~lW~~p--~~r~~ledIdGyr~~i~~a~~~~v~-- 188 (233)
T PF01745_consen 113 SLDFRWHIRRLRLPDEEVFMARAKRRVRQMLRPDSSGPSLLEELVALWNDP--ALRPILEDIDGYRYIIRFARKHQVT-- 188 (233)
T ss_dssp SSSSEEEEEE-----HHHHHHHHHHHHHHHHS--SSS--HHHHHHHHHTST--THHHHHTTSTTHHHHHHHHHHTT----
T ss_pred cCCCeEEEEEEECCChHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHhCc--cccchHhhhccHHHHHHHHHHhCCC--
Confidence 3678887777764 7999999999999999984 8999999999753 245566666 899999998754210
Q ss_pred CCCCCCCCcccccccccchhhhHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhh
Q 039019 91 DNKTSGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKVLLEEAIDRVKLNTRRLVRCQKRRLNR 156 (292)
Q Consensus 91 ~~~~~~~~~~~~~s~~~~~k~~~~~~~~~l~~~~~~~~~~~~~eaie~lk~~TRqYAKRQ~~Wir~ 156 (292)
. ++.++ . .....++.+..|-..--.||..|.+=|-.
T Consensus 189 -------~-------~~l~~------------~----~~~~~~~Li~~ia~eY~~ha~~QEq~F~~ 224 (233)
T PF01745_consen 189 -------P-------DQLLS------------I----DLDMLQELIEGIAEEYLEHAQWQEQEFPQ 224 (233)
T ss_dssp -------G-------GGCCG-----------------THHHHHHHHHHHHHHHHHHHHHHHHHS--
T ss_pred -------H-------HHHHH------------h----hHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 0 00000 0 11256778888888889999999875543
No 20
>KOG0227 consensus Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=93.52 E-value=0.037 Score=49.71 Aligned_cols=55 Identities=22% Similarity=0.350 Sum_probs=44.5
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHHhHHHHHhhhhhhhhHHhhhhcccccc
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLRKSQRFSSAGQQHQQQNTSVAT 281 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~k~~~~~~~~~~~~~~~~~~~~ 281 (292)
..|.|-.| ...-+.+..+..|..||+|.-++.+...+...++. -..|+|+.+|+.
T Consensus 52 G~yeCkLC-lT~H~ne~Syl~HtqGKKHq~Nlarraa~e~k~s~-~~~~~~k~~v~v 106 (222)
T KOG0227|consen 52 GKYECKLC-LTLHNNEGSYLAHTQGKKHQTNLARRAAKEAKESP-DLPQPQKIIVEV 106 (222)
T ss_pred cceeehhh-hhhhcchhhhhhhhccchhhHHHHHHHHHHhhcCc-cccccccchhhh
Confidence 58999999 58888999999999999999999887766665554 667777777654
No 21
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.64 E-value=0.1 Score=48.21 Aligned_cols=34 Identities=29% Similarity=0.666 Sum_probs=29.2
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHHhHHHH
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLR 260 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~ 260 (292)
.+.+|-+| +.. +-+.-|..|+.||+||-+|-.++
T Consensus 34 gql~C~vC-n~p-iKp~lW~vHvnsKkHre~id~lK 67 (264)
T KOG3032|consen 34 GQLVCRVC-NVP-IKPSLWDVHVNSKKHREAIDSLK 67 (264)
T ss_pred CCeeEEEe-cCc-ccHHHHHHHhccHHHHHHHHHHH
Confidence 57899999 454 45999999999999999998877
No 22
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=91.39 E-value=0.057 Score=48.69 Aligned_cols=50 Identities=22% Similarity=0.451 Sum_probs=0.0
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHHhH-----------HHHHhhhhhhhhHHhhh
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIY-----------NLRKSQRFSSAGQQHQQ 274 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k-----------~~~k~~~~~~~~~~~~~ 274 (292)
+.|+|||||+.+-.|...++.|...-||-.-++ ...|..+..+-.+.++.
T Consensus 100 ~ey~CEICGN~~Y~GrkaFekHF~E~rH~~GlrcLGI~nt~~F~~IT~I~dA~~Lw~kl~~ 160 (196)
T PF11931_consen 100 VEYKCEICGNQSYKGRKAFEKHFQEWRHAYGLRCLGIPNTKHFKGITKIEDALELWEKLKK 160 (196)
T ss_dssp -------------------------------------------------------------
T ss_pred CeeeeEeCCCcceecHHHHHHhcChhHHHccChhcCCCCcHHHcCcCcHHHHHHHHHHHHH
Confidence 789999999999999999999999999987444 33455555554444443
No 23
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=91.00 E-value=0.19 Score=28.97 Aligned_cols=22 Identities=27% Similarity=0.673 Sum_probs=19.8
Q ss_pred cccccCCCceeeCHHHHHHHhhc
Q 039019 227 YVCKACGDKVLRGAYEWEQHKQG 249 (292)
Q Consensus 227 ~~Ce~C~~~~~~Ge~~W~~HlkS 249 (292)
|.|+.|+ +.+.....+..|++.
T Consensus 1 y~C~~C~-~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICG-KSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTT-EEESSHHHHHHHHHH
T ss_pred CCCCCCC-CccCCHHHHHHHHhH
Confidence 6899995 999999999999986
No 24
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=90.55 E-value=0.14 Score=42.12 Aligned_cols=37 Identities=27% Similarity=0.513 Sum_probs=34.1
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHHhHHHHHh
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLRKS 262 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~k~ 262 (292)
.++||-.| .+-|+.+..--.|.+|+-||+++|..|.-
T Consensus 54 GqhYCieC-aryf~t~~aL~~HkkgkvHkRR~KelRev 90 (126)
T COG5112 54 GQHYCIEC-ARYFITEKALMEHKKGKVHKRRAKELREV 90 (126)
T ss_pred ceeeeehh-HHHHHHHHHHHHHhccchhHHHHHHHhcC
Confidence 68999999 69999999999999999999999998853
No 25
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=88.83 E-value=0.19 Score=49.08 Aligned_cols=37 Identities=24% Similarity=0.500 Sum_probs=31.1
Q ss_pred ccccccccCCCceeeCHHHHHHHhhchHHHHHhHHHHH
Q 039019 224 WTQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLRK 261 (292)
Q Consensus 224 ~~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~k 261 (292)
-...+|+.|+ +.+-.-.-++.|+.||+|.|..++++.
T Consensus 236 ~~~~YC~~C~-r~f~~~~VFe~Hl~gK~H~k~~~~~~~ 272 (470)
T COG5188 236 FPKVYCVKCG-REFSRSKVFEYHLEGKRHCKEGQGKEE 272 (470)
T ss_pred ccceeeHhhh-hHhhhhHHHHHHHhhhhhhhhhhhhhH
Confidence 3689999996 877776899999999999998877653
No 26
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=87.95 E-value=0.23 Score=48.77 Aligned_cols=47 Identities=23% Similarity=0.376 Sum_probs=38.4
Q ss_pred ccccccccCCCceeeCHHHHHHHhhchHHHHHhHHHHHhhh-hhhhhHH
Q 039019 224 WTQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLRKSQR-FSSAGQQ 271 (292)
Q Consensus 224 ~~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~k~~~-~~~~~~~ 271 (292)
...++|++| ++-+.-......|++||+|+..+++.-++.+ ..++..|
T Consensus 66 ~~~~~c~~c-~k~~~s~~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q 113 (390)
T KOG2785|consen 66 ESVVYCEAC-NKSFASPKAHENHLKSKKHVENLSNHQRSEEGDSAKISQ 113 (390)
T ss_pred ccceehHHh-hccccChhhHHHHHHHhhcchhhhhhhccccccchhhhh
Confidence 357999999 6889999999999999999999998877444 4554443
No 27
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=87.36 E-value=0.48 Score=28.38 Aligned_cols=24 Identities=21% Similarity=0.584 Sum_probs=20.5
Q ss_pred ccccccCCCceeeCHHHHHHHhhch
Q 039019 226 QYVCKACGDKVLRGAYEWEQHKQGR 250 (292)
Q Consensus 226 ~~~Ce~C~~~~~~Ge~~W~~HlkSr 250 (292)
.+.|+.| ++.+.....|..|++..
T Consensus 1 ~~~C~~C-~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDEC-GKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTT-TEEESSHHHHHHHHCTT
T ss_pred CCCCCcc-CCccCChhHHHHHhHHh
Confidence 3789999 59999999999999653
No 28
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=86.88 E-value=0.56 Score=26.52 Aligned_cols=22 Identities=36% Similarity=0.754 Sum_probs=17.4
Q ss_pred cccccCCCceeeCHHHHHHHhhc
Q 039019 227 YVCKACGDKVLRGAYEWEQHKQG 249 (292)
Q Consensus 227 ~~Ce~C~~~~~~Ge~~W~~HlkS 249 (292)
|.|++|+ ..+....+|..|+..
T Consensus 1 ~~C~~C~-~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICG-KSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS--EESSHHHHHHHHHH
T ss_pred CCCcCCC-CcCCcHHHHHHHHHh
Confidence 5799995 889999999999874
No 29
>COG5246 PRP11 Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=78.66 E-value=0.95 Score=40.60 Aligned_cols=34 Identities=21% Similarity=0.547 Sum_probs=29.5
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHHhHHH
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNL 259 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~ 259 (292)
.+++|-.| +..-..+..+..|+.+|+|+-++.+.
T Consensus 52 Gk~vC~LC-~T~H~~e~Sy~~H~~GKKH~~n~~rr 85 (222)
T COG5246 52 GKYVCLLC-KTKHLTEMSYVKHREGKKHKENSSRR 85 (222)
T ss_pred CcEEeeee-ccccccHHHHHHhhccchhhhhHHHH
Confidence 58999999 57788899999999999999877554
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=77.78 E-value=1.1 Score=34.08 Aligned_cols=31 Identities=26% Similarity=0.595 Sum_probs=25.4
Q ss_pred ccccccCCCceeeCHHHHHHHhhchHHHHHhH
Q 039019 226 QYVCKACGDKVLRGAYEWEQHKQGRRHRKRIY 257 (292)
Q Consensus 226 ~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k 257 (292)
.+.|.+|+ ..+.....+..|++++.|.+...
T Consensus 50 ~~~C~~C~-~~f~s~~~l~~Hm~~~~H~~~~~ 80 (100)
T PF12756_consen 50 SFRCPYCN-KTFRSREALQEHMRSKHHKKRNS 80 (100)
T ss_dssp SEEBSSSS--EESSHHHHHHHHHHTTTTC-S-
T ss_pred CCCCCccC-CCCcCHHHHHHHHcCccCCCccc
Confidence 68999995 77999999999999999987543
No 31
>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]
Probab=77.35 E-value=2.2 Score=37.45 Aligned_cols=32 Identities=28% Similarity=0.625 Sum_probs=24.2
Q ss_pred ccccccCCCceeeCH--HHHHHHhhchHHHHHhHH
Q 039019 226 QYVCKACGDKVLRGA--YEWEQHKQGRRHRKRIYN 258 (292)
Q Consensus 226 ~~~Ce~C~~~~~~Ge--~~W~~HlkSr~Hrk~~k~ 258 (292)
.|+||-| +.-+.-+ ..-..|..||+|+.++|-
T Consensus 3 RYyCDYC-dt~LthDslsvRK~H~~GrkH~~nvk~ 36 (165)
T KOG3454|consen 3 RYYCDYC-DTYLTHDSLSVRKTHCGGRKHKDNVKD 36 (165)
T ss_pred cchhhhh-hhhhhcccHHHHHhhhhhHHHHHHHHH
Confidence 6999999 4433332 367799999999998864
No 32
>smart00355 ZnF_C2H2 zinc finger.
Probab=76.99 E-value=2.1 Score=24.17 Aligned_cols=21 Identities=33% Similarity=0.833 Sum_probs=18.4
Q ss_pred cccccCCCceeeCHHHHHHHhh
Q 039019 227 YVCKACGDKVLRGAYEWEQHKQ 248 (292)
Q Consensus 227 ~~Ce~C~~~~~~Ge~~W~~Hlk 248 (292)
+.|+.|+ ..+.+...+..|++
T Consensus 1 ~~C~~C~-~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECG-KVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCc-chhCCHHHHHHHHH
Confidence 5799995 88899999999987
No 33
>PTZ00448 hypothetical protein; Provisional
Probab=75.79 E-value=2.3 Score=41.92 Aligned_cols=36 Identities=17% Similarity=0.320 Sum_probs=31.4
Q ss_pred ccccccCCCceeeCHHHHHHHhhchHHHHHhHHHHHh
Q 039019 226 QYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLRKS 262 (292)
Q Consensus 226 ~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~k~ 262 (292)
.++|..| +..|....+-..|.||==||+++|++-.-
T Consensus 314 ~~tC~~C-~v~F~~~~~qR~H~KSDwHrYNLKRkl~g 349 (373)
T PTZ00448 314 MLLCRKC-NIQLMDHNAFKQHYRSEWHIFNTKRNARK 349 (373)
T ss_pred Ccccccc-ccccCCHHHHHHHhhhhHHHHHHHHHhcC
Confidence 5889999 48788889999999999999999987543
No 34
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=75.39 E-value=2.2 Score=43.02 Aligned_cols=54 Identities=22% Similarity=0.439 Sum_probs=42.7
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHH-----------HhHHHHHhhhhhhhhHHhhhhccc
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRK-----------RIYNLRKSQRFSSAGQQHQQQNTS 278 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk-----------~~k~~~k~~~~~~~~~~~~~~~~~ 278 (292)
..|.||||||.+-.|...++.|..-=||-+ ..+...+..+...--+..|.|..+
T Consensus 400 ~ey~CEICGNy~Y~GrkaF~RHF~EwRH~hGmrCLGIpnt~~F~~IT~I~eA~~LW~k~k~q~~~ 464 (497)
T KOG2636|consen 400 IEYNCEICGNYVYKGRKAFDRHFNEWRHAHGMRCLGIPNTSVFKGITKIEEALELWKKMKEQSQS 464 (497)
T ss_pred cccceeeccCccccCcHHHHHHhHHHHHhhcceecCCCCcHHhcccccHHHHHHHHHHHHHhhhh
Confidence 789999999999999999999999999987 456666666666655555555444
No 35
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=74.23 E-value=2.8 Score=39.20 Aligned_cols=47 Identities=19% Similarity=0.322 Sum_probs=34.3
Q ss_pred cccccccCCCceeeCHHH--HHHHhhchHHHHHhHHHHHhhhhhhhhHH
Q 039019 225 TQYVCKACGDKVLRGAYE--WEQHKQGRRHRKRIYNLRKSQRFSSAGQQ 271 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~--W~~HlkSr~Hrk~~k~~~k~~~~~~~~~~ 271 (292)
+..+|+|||--+.+++.+ -..|+.||-|..=++=..+..+.....++
T Consensus 189 kl~VCeVCGA~Ls~~D~d~RladH~~GK~HlGy~~IR~~l~el~e~~~~ 237 (254)
T PF03194_consen 189 KLEVCEVCGAFLSVGDNDRRLADHFGGKQHLGYAKIREKLKELKEKREE 237 (254)
T ss_pred CccchhhhhhHHhccchHHHHHHHhccchhhhHHHHHHHHHHHHHHHHH
Confidence 679999998667777765 78999999998766555555554444444
No 36
>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]
Probab=71.12 E-value=3.5 Score=39.75 Aligned_cols=33 Identities=18% Similarity=0.454 Sum_probs=25.2
Q ss_pred cccccccCCCceeeCHH--HHHHHhhchHHHHHhHHH
Q 039019 225 TQYVCKACGDKVLRGAY--EWEQHKQGRRHRKRIYNL 259 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~--~W~~HlkSr~Hrk~~k~~ 259 (292)
-+++|+.|. +.+++. -=..|-++++||-+|++.
T Consensus 9 ~kkfCdyCK--iWi~dN~~Sv~~He~GkrHke~V~Kr 43 (336)
T KOG0150|consen 9 PKKFCDYCK--IWIKDNPASVRFHERGKRHKENVAKR 43 (336)
T ss_pred cchhhhhhh--hhhcCChHHHHhHhhhhHHHHHHHHH
Confidence 368999994 556554 567899999999887543
No 37
>KOG2384 consensus Major histocompatibility complex protein BAT4, contains G-patch and ankyrin domains [General function prediction only]
Probab=70.38 E-value=1.2 Score=40.45 Aligned_cols=34 Identities=12% Similarity=0.209 Sum_probs=27.6
Q ss_pred cccccccccCCCceeeCHHHHHHHhhchHHHHHhHH
Q 039019 223 LWTQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYN 258 (292)
Q Consensus 223 ~~~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~ 258 (292)
....++||+|+ +.+-+.-|..|.+|=.|.=.++.
T Consensus 81 ~e~lfyCE~Cd--~~ip~~~~snH~tSttHllsl~~ 114 (223)
T KOG2384|consen 81 DEALFYCEVCD--IYIPNSKKSNHFTSTTHLLSLQH 114 (223)
T ss_pred CCccchhhhhh--hhccCCCCccchhhHHHHhhhcc
Confidence 34789999994 57788889999999999766544
No 38
>PF04988 AKAP95: A-kinase anchoring protein 95 (AKAP95); InterPro: IPR007071 A-kinase (or PKA)-anchoring protein AKAP95 is implicated in mitotic chromosome condensation by acting as a targeting molecule for the condensin complex. The protein contains two zinc fingers which are thought to mediate the binding of AKAP95 to DNA [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=69.97 E-value=3.5 Score=36.25 Aligned_cols=32 Identities=19% Similarity=0.487 Sum_probs=24.4
Q ss_pred cccccCCCceeeCHHHHHHHhhchHHHHHhHHH
Q 039019 227 YVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNL 259 (292)
Q Consensus 227 ~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~ 259 (292)
++|.+|.-+++.+ .+.+.|+.|+-|+-.++..
T Consensus 1 F~Cs~CKfrtf~~-~ei~~HleS~~H~E~~~~i 32 (165)
T PF04988_consen 1 FTCSFCKFRTFEE-KEIEKHLESKFHKETLKYI 32 (165)
T ss_pred CccceeeeecccH-HHHHHHHccchHHHHHHHH
Confidence 5899996565544 6799999999999555444
No 39
>PRK11545 gntK gluconate kinase 1; Provisional
Probab=67.74 E-value=5.8 Score=33.92 Aligned_cols=24 Identities=21% Similarity=0.290 Sum_probs=21.7
Q ss_pred CccEEEEEEeCChHHHHHHHHHHH
Q 039019 20 RFNCCFICVDAANPVLDRYVEQRV 43 (292)
Q Consensus 20 ry~~l~~wL~~dr~~L~~RLd~RV 43 (292)
..++.++||+++.++|.+|+..|-
T Consensus 89 ~~~~~~v~l~a~~~~l~~Rl~~R~ 112 (163)
T PRK11545 89 NPNLSFIYLKGDFDVIESRLKARK 112 (163)
T ss_pred CCCEEEEEEECCHHHHHHHHHhcc
Confidence 357899999999999999999995
No 40
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=60.25 E-value=4.5 Score=39.81 Aligned_cols=54 Identities=17% Similarity=0.362 Sum_probs=38.9
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHH-----------hHHHHHhhhhhhhhHHhhhhccc
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKR-----------IYNLRKSQRFSSAGQQHQQQNTS 278 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~-----------~k~~~k~~~~~~~~~~~~~~~~~ 278 (292)
+-|.||||+|.+-+|..-+..|..--+|=+. .|...+..+...--+..|-|-||
T Consensus 373 ~ef~CEICgNyvy~GR~~FdrHF~E~rHiygl~clGi~ps~vfkgIT~I~ea~~lw~~m~~~ss~ 437 (470)
T COG5188 373 IEFECEICGNYVYYGRDRFDRHFEEDRHIYGLECLGIKPSRVFKGITRIGEAMKLWNRMEESSSS 437 (470)
T ss_pred cceeeeecccccccchHHHHhhhhhhhhhhheeeccccchHHHhhhhhHHHHHHHHHHhhhhhhh
Confidence 6899999999999999999999999999873 34444444444433444444434
No 41
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=60.14 E-value=8.3 Score=33.54 Aligned_cols=23 Identities=17% Similarity=0.267 Sum_probs=21.2
Q ss_pred ccEEEEEEeCChHHHHHHHHHHH
Q 039019 21 FNCCFICVDAANPVLDRYVEQRV 43 (292)
Q Consensus 21 y~~l~~wL~~dr~~L~~RLd~RV 43 (292)
.++.+|||+++.++|.+|+.+|-
T Consensus 98 ~~~~~v~l~a~~~~l~~Rl~~R~ 120 (176)
T PRK09825 98 PNVHFLWLDGDYETILARMQRRA 120 (176)
T ss_pred CCEEEEEEeCCHHHHHHHHhccc
Confidence 46899999999999999999995
No 42
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=59.63 E-value=7.6 Score=38.46 Aligned_cols=35 Identities=23% Similarity=0.399 Sum_probs=31.1
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHHhHHHH
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLR 260 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~ 260 (292)
+.++|..| +..|-...+=..|.||==||.+|||+-
T Consensus 2 t~ftC~tC-~v~F~~ad~Qr~HyKSdWHRYNLKRkV 36 (390)
T KOG2785|consen 2 TGFTCNTC-NVEFDDADEQRAHYKSDWHRYNLKRKV 36 (390)
T ss_pred Ccceeece-eeeeccHHHHHHHhhhhHHHhhHHhHh
Confidence 35899999 688999999999999999999999854
No 43
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=52.21 E-value=14 Score=31.31 Aligned_cols=21 Identities=24% Similarity=0.324 Sum_probs=19.5
Q ss_pred cEEEEEEeCChHHHHHHHHHH
Q 039019 22 NCCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~R 42 (292)
+.++|||+++.+++.+||..|
T Consensus 111 ~~~~i~l~~~~~~~~~Rl~~R 131 (179)
T TIGR02322 111 NLLVVNITASPDVLAQRLAAR 131 (179)
T ss_pred CcEEEEEECCHHHHHHHHHHc
Confidence 568999999999999999988
No 44
>PF14968 CCDC84: Coiled coil protein 84
Probab=50.74 E-value=6.5 Score=38.40 Aligned_cols=32 Identities=16% Similarity=0.332 Sum_probs=24.1
Q ss_pred ccccCCCceeeCHHHHHHHhhchHHHHHhHHHHHhh
Q 039019 228 VCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLRKSQ 263 (292)
Q Consensus 228 ~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~k~~ 263 (292)
+|++|. +. -.+|..|+=|++|+++|...-.|-
T Consensus 1 yC~vCr-~~---h~~gr~H~Y~~~Hq~~L~~~L~rf 32 (336)
T PF14968_consen 1 YCEVCR-RN---HDQGRRHVYSPKHQKSLSAFLSRF 32 (336)
T ss_pred Ccchhh-Cc---ccccCCCccCHHHHHHHHHHHHHH
Confidence 699994 42 244999999999999887664333
No 45
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=46.12 E-value=25 Score=32.24 Aligned_cols=37 Identities=22% Similarity=0.557 Sum_probs=26.7
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHHhHHHHHhh
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLRKSQ 263 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~k~~ 263 (292)
.++.|.+|+ +.|.|.+=|..||..| |--.|...++.-
T Consensus 76 ~K~~C~lc~-KlFkg~eFV~KHI~nK-H~e~ve~~~~ev 112 (214)
T PF04959_consen 76 DKWRCPLCG-KLFKGPEFVRKHIFNK-HPEKVEEVKKEV 112 (214)
T ss_dssp EEEEE-SSS--EESSHHHHHHHHHHH--HHHHHHHHHHH
T ss_pred CEECCCCCC-cccCChHHHHHHHhhc-CHHHHHHHHHHH
Confidence 479999995 9999999999999864 766666555443
No 46
>COG5067 DBF4 Protein kinase essential for the initiation of DNA replication [DNA replication, recombination, and repair / Cell division and chromosome partitioning]
Probab=44.54 E-value=8.7 Score=38.33 Aligned_cols=28 Identities=25% Similarity=0.417 Sum_probs=22.6
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHHh
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKRI 256 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~ 256 (292)
++.|||-|. .--+..+.|+.|.+||+-.
T Consensus 421 k~GYCENCr----eky~~lE~Hi~s~~HrrFA 448 (468)
T COG5067 421 KKGYCENCR----EKYESLEQHIVSEKHRRFA 448 (468)
T ss_pred ccchhHHHH----HHHHHHHHHhhhhhhhhhh
Confidence 679999994 3346799999999999843
No 47
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=40.18 E-value=27 Score=20.94 Aligned_cols=20 Identities=25% Similarity=0.662 Sum_probs=15.8
Q ss_pred cccccCCCceeeCHHHHHHHhh
Q 039019 227 YVCKACGDKVLRGAYEWEQHKQ 248 (292)
Q Consensus 227 ~~Ce~C~~~~~~Ge~~W~~Hlk 248 (292)
..|.+|+ +.| +....+.|++
T Consensus 3 ~~C~~Cg-R~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICG-RKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCC-CEE-CHHHHHHHHH
Confidence 5799996 766 7777999875
No 48
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=38.52 E-value=15 Score=24.47 Aligned_cols=12 Identities=42% Similarity=1.024 Sum_probs=7.4
Q ss_pred cccccccCCCce
Q 039019 225 TQYVCKACGDKV 236 (292)
Q Consensus 225 ~~~~Ce~C~~~~ 236 (292)
..|.|++|++.+
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 579999999764
No 49
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=37.43 E-value=36 Score=28.97 Aligned_cols=25 Identities=16% Similarity=0.202 Sum_probs=21.8
Q ss_pred ccEEEEEEeCChHHHHHHHHHHHHH
Q 039019 21 FNCCFICVDAANPVLDRYVEQRVDC 45 (292)
Q Consensus 21 y~~l~~wL~~dr~~L~~RLd~RVd~ 45 (292)
.++.++||.|+.++|.+|+.+|-+.
T Consensus 110 ~~~~~v~l~~~~~~l~~R~~~R~~~ 134 (175)
T cd00227 110 LDVLWVGVRCPGEVAEGRETARGDR 134 (175)
T ss_pred CCEEEEEEECCHHHHHHHHHhcCCc
Confidence 4689999999999999999998544
No 50
>PHA00616 hypothetical protein
Probab=37.29 E-value=16 Score=25.34 Aligned_cols=23 Identities=30% Similarity=0.580 Sum_probs=19.3
Q ss_pred ccccccCCCceeeCHHHHHHHhhc
Q 039019 226 QYVCKACGDKVLRGAYEWEQHKQG 249 (292)
Q Consensus 226 ~~~Ce~C~~~~~~Ge~~W~~HlkS 249 (292)
.|.|..|| .++.-..+...|+++
T Consensus 1 pYqC~~CG-~~F~~~s~l~~H~r~ 23 (44)
T PHA00616 1 MYQCLRCG-GIFRKKKEVIEHLLS 23 (44)
T ss_pred CCccchhh-HHHhhHHHHHHHHHH
Confidence 37899996 888999999999943
No 51
>PHA02768 hypothetical protein; Provisional
Probab=36.47 E-value=25 Score=25.54 Aligned_cols=23 Identities=22% Similarity=0.465 Sum_probs=17.8
Q ss_pred ccccccCCCceeeCHHHHHHHhhc
Q 039019 226 QYVCKACGDKVLRGAYEWEQHKQG 249 (292)
Q Consensus 226 ~~~Ce~C~~~~~~Ge~~W~~HlkS 249 (292)
-|.|+.|| +.+.-...-..|++.
T Consensus 5 ~y~C~~CG-K~Fs~~~~L~~H~r~ 27 (55)
T PHA02768 5 GYECPICG-EIYIKRKSMITHLRK 27 (55)
T ss_pred ccCcchhC-CeeccHHHHHHHHHh
Confidence 47899997 556666667888877
No 52
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=36.18 E-value=43 Score=27.38 Aligned_cols=23 Identities=22% Similarity=0.327 Sum_probs=20.7
Q ss_pred CccEEEEEEeCChHHHHHHHHHH
Q 039019 20 RFNCCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 20 ry~~l~~wL~~dr~~L~~RLd~R 42 (292)
.++..++||+++.+++.+|+..|
T Consensus 96 ~~~~~~v~l~~~~~~~~~R~~~R 118 (150)
T cd02021 96 NPRVRFVHLDGPREVLAERLAAR 118 (150)
T ss_pred CCCEEEEEEECCHHHHHHHHHhc
Confidence 35678999999999999999999
No 53
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=35.56 E-value=42 Score=27.94 Aligned_cols=23 Identities=22% Similarity=0.244 Sum_probs=20.6
Q ss_pred ccEEEEEEeCChHHHHHHHHHHH
Q 039019 21 FNCCFICVDAANPVLDRYVEQRV 43 (292)
Q Consensus 21 y~~l~~wL~~dr~~L~~RLd~RV 43 (292)
+++.++||+++.+++.+|+..|.
T Consensus 93 ~~~~~i~l~~~~e~~~~R~~~R~ 115 (163)
T TIGR01313 93 PNLHFIYLSGDKDVILERMKARK 115 (163)
T ss_pred CCEEEEEEeCCHHHHHHHHHhcc
Confidence 45788999999999999999995
No 54
>PF01712 dNK: Deoxynucleoside kinase; InterPro: IPR002624 This family consists of various deoxynucleoside kinases including cytidine (2.7.1.74 from EC), guanosine (2.7.1.113 from EC), adenosine (2.7.1.76 from EC) and thymidine kinase (2.7.1.21 from EC, which also phosphorylates deoxyuridine and deoxycytosine. These enzymes catalyse the production of deoxynucleotide 5'-monophosphate from a deoxynucleoside, using ATP and yielding ADP in the process.; GO: 0005524 ATP binding, 0016773 phosphotransferase activity, alcohol group as acceptor, 0006139 nucleobase-containing compound metabolic process; PDB: 2JAS_B 2JAT_B 2JAQ_A 2VP4_D 1ZMX_F 1ZM7_C 1OE0_B 2VP9_C 2VPP_B 2VP6_G ....
Probab=34.04 E-value=33 Score=28.76 Aligned_cols=29 Identities=14% Similarity=0.094 Sum_probs=21.1
Q ss_pred cEEEEEEeCChHHHHHHHHHHHHHHHHhcH
Q 039019 22 NCCFICVDAANPVLDRYVEQRVDCMIDAGL 51 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~RVd~Ml~~GL 51 (292)
+-++|+|+++.+++.+||.+|=..+ |.|+
T Consensus 68 pdl~IYL~~~~e~~~~RI~kRgR~~-E~~i 96 (146)
T PF01712_consen 68 PDLIIYLDASPETCLERIKKRGREE-EKNI 96 (146)
T ss_dssp -SEEEEEE--HHHHHHHHHHCTTGG-GTTS
T ss_pred CCeEEEEeCCHHHHHHHHHHhCCch-hcCC
Confidence 4589999999999999999986655 3444
No 55
>KOG4722 consensus Zn-finger protein [General function prediction only]
Probab=32.73 E-value=24 Score=35.71 Aligned_cols=35 Identities=20% Similarity=0.468 Sum_probs=28.7
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHHHhHHHH
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRKRIYNLR 260 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk~~k~~~ 260 (292)
.+..|..| +.++..+.--=.|++||+|..+++...
T Consensus 492 rkkqcslc-nvlissevylfshvkgrkhqqal~e~~ 526 (672)
T KOG4722|consen 492 RKKQCSLC-NVLISSEVYLFSHVKGRKHQQALNELL 526 (672)
T ss_pred hhhccchh-hhhhhhhhhhhhhhcchhHHHHHHHHh
Confidence 56789999 687777777789999999998876543
No 56
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=31.40 E-value=37 Score=32.99 Aligned_cols=45 Identities=18% Similarity=0.272 Sum_probs=30.8
Q ss_pred cccccccCCCceeeCHHH--HHHHhhchHHHHHhHHHHHhhhhhhhh
Q 039019 225 TQYVCKACGDKVLRGAYE--WEQHKQGRRHRKRIYNLRKSQRFSSAG 269 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~--W~~HlkSr~Hrk~~k~~~k~~~~~~~~ 269 (292)
+..+|||||--+.+.+.+ -..|+.||-|..-++-..+-++.+...
T Consensus 185 kl~VCeVCGa~L~~~D~d~RlaDHf~GKlHlGy~~iR~~l~eLk~~~ 231 (319)
T KOG0796|consen 185 KLRVCEVCGAFLSVNDADRRLADHFGGKLHLGYVLIREKLAELKKEK 231 (319)
T ss_pred hhhHHHhhhHHHhccchHHHHHHhhcchHHHHHHHHHHHHHHHHHHH
Confidence 688999998555555553 568999999998665554444433333
No 57
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=30.35 E-value=59 Score=27.97 Aligned_cols=21 Identities=19% Similarity=0.434 Sum_probs=18.9
Q ss_pred cEEEEEEeCChHHHHHHHHHH
Q 039019 22 NCCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~R 42 (292)
...+|||+++.++|.+||..|
T Consensus 111 ~~~vi~l~~s~e~l~~RL~~R 131 (186)
T PRK10078 111 ALLPVCLQVSPEILRQRLENR 131 (186)
T ss_pred CEEEEEEeCCHHHHHHHHHHh
Confidence 467899999999999999887
No 58
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=30.12 E-value=46 Score=29.47 Aligned_cols=37 Identities=16% Similarity=0.074 Sum_probs=26.5
Q ss_pred CccccccCCCCC--CCccEEEEEEeCChHHHHHHHHHHH
Q 039019 7 HVAGQNWGRVDN--FRFNCCFICVDAANPVLDRYVEQRV 43 (292)
Q Consensus 7 ~~~~~~~~~~~~--~ry~~l~~wL~~dr~~L~~RLd~RV 43 (292)
|.-.-.|+.-+- .++-=++|.|.||.++|+.||..|.
T Consensus 76 Gg~IVDyHgCd~FperwfdlVvVLr~~~s~LY~RL~sRg 114 (176)
T KOG3347|consen 76 GGNIVDYHGCDFFPERWFDLVVVLRTPNSVLYDRLKSRG 114 (176)
T ss_pred CCcEEeecccCccchhheeEEEEEecCchHHHHHHHHcC
Confidence 444456665332 3343478889999999999999997
No 59
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=29.93 E-value=42 Score=24.28 Aligned_cols=26 Identities=23% Similarity=0.408 Sum_probs=18.0
Q ss_pred ccccccccCCCceeeCHHHHHHHhhch
Q 039019 224 WTQYVCKACGDKVLRGAYEWEQHKQGR 250 (292)
Q Consensus 224 ~~~~~Ce~C~~~~~~Ge~~W~~HlkSr 250 (292)
...-+|.+| +.++.-..+-..|+..+
T Consensus 22 ~~PatCP~C-~a~~~~srnLrRHle~~ 47 (54)
T PF09237_consen 22 EQPATCPIC-GAVIRQSRNLRRHLEIR 47 (54)
T ss_dssp S--EE-TTT---EESSHHHHHHHHHHH
T ss_pred CCCCCCCcc-hhhccchhhHHHHHHHH
Confidence 467899999 49999999999998654
No 60
>PRK13808 adenylate kinase; Provisional
Probab=29.30 E-value=29 Score=33.84 Aligned_cols=25 Identities=24% Similarity=0.121 Sum_probs=21.7
Q ss_pred cEEEEEEeCChHHHHHHHHHHHHHH
Q 039019 22 NCCFICVDAANPVLDRYVEQRVDCM 46 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~RVd~M 46 (292)
.-++|+|+++.++|-.||..|...|
T Consensus 107 PDlVI~LDVp~evll~Rl~~R~~~~ 131 (333)
T PRK13808 107 LDAVVELRVNEGALLARVETRVAEM 131 (333)
T ss_pred cCeEEEEECCHHHHHHHHHcCcccc
Confidence 3479999999999999999998654
No 61
>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.
Probab=29.10 E-value=78 Score=27.06 Aligned_cols=25 Identities=16% Similarity=0.053 Sum_probs=21.5
Q ss_pred cEEEEEEeCChHHHHHHHHHHHHHH
Q 039019 22 NCCFICVDAANPVLDRYVEQRVDCM 46 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~RVd~M 46 (292)
+.++|+|+++.++..+|+.+|-..+
T Consensus 125 pd~~i~l~~~~~~~~~Ri~~R~r~~ 149 (193)
T cd01673 125 PDLVIYLDASPETCLKRIKKRGRPE 149 (193)
T ss_pred CCEEEEEeCCHHHHHHHHHhcCcHh
Confidence 5689999999999999999986543
No 62
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=27.55 E-value=54 Score=29.37 Aligned_cols=20 Identities=20% Similarity=0.178 Sum_probs=18.1
Q ss_pred EEEEEEeCChHHHHHHHHHH
Q 039019 23 CCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 23 ~l~~wL~~dr~~L~~RLd~R 42 (292)
-++|-|.+++++|++||..|
T Consensus 84 dlVvVLR~~p~~L~~RLk~R 103 (180)
T COG1936 84 DLVVVLRADPEVLYERLKGR 103 (180)
T ss_pred CEEEEEcCCHHHHHHHHHHc
Confidence 47889999999999999887
No 63
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=27.31 E-value=52 Score=26.23 Aligned_cols=29 Identities=24% Similarity=0.449 Sum_probs=22.5
Q ss_pred ccccccccCCCceeeCHHHHHHHhhchHHHH
Q 039019 224 WTQYVCKACGDKVLRGAYEWEQHKQGRRHRK 254 (292)
Q Consensus 224 ~~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk 254 (292)
.+.-.|-.|+ ..+-..++..||+++.|..
T Consensus 9 ~~vlIC~~C~--~av~~~~v~~HL~~~H~~~ 37 (109)
T PF12013_consen 9 YRVLICRQCQ--YAVQPSEVESHLRKRHHIL 37 (109)
T ss_pred CCEEEeCCCC--cccCchHHHHHHHHhcccc
Confidence 3567899995 5666699999999987654
No 64
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=25.93 E-value=27 Score=37.38 Aligned_cols=29 Identities=28% Similarity=0.550 Sum_probs=26.9
Q ss_pred cccccccCCCceeeCHHHHHHHhhchHHHH
Q 039019 225 TQYVCKACGDKVLRGAYEWEQHKQGRRHRK 254 (292)
Q Consensus 225 ~~~~Ce~C~~~~~~Ge~~W~~HlkSr~Hrk 254 (292)
+.++|++| +..+.|-.-|.+|++.-+|++
T Consensus 192 qL~~~kw~-k~~a~G~qs~re~lr~~r~l~ 220 (816)
T KOG3792|consen 192 QLHYCKWC-KISAAGPQTYREHLRGQKHLK 220 (816)
T ss_pred HhhhhHHH-HHhccccHHHHHHHHHHHHHH
Confidence 78999999 589999999999999999976
No 65
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=25.92 E-value=63 Score=23.82 Aligned_cols=28 Identities=29% Similarity=0.509 Sum_probs=23.3
Q ss_pred ccCcccccccccCCCceeeCHHHHHHHhh
Q 039019 220 ERDLWTQYVCKACGDKVLRGAYEWEQHKQ 248 (292)
Q Consensus 220 ~~~~~~~~~Ce~C~~~~~~Ge~~W~~Hlk 248 (292)
.++...-..|.-|+ .++.-...+..|++
T Consensus 11 ~RDGE~~lrCPRC~-~~FR~~K~Y~RHVN 38 (65)
T COG4049 11 DRDGEEFLRCPRCG-MVFRRRKDYIRHVN 38 (65)
T ss_pred ccCCceeeeCCchh-HHHHHhHHHHHHhh
Confidence 34556789999995 88999999999985
No 66
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=25.73 E-value=40 Score=26.16 Aligned_cols=18 Identities=22% Similarity=0.344 Sum_probs=14.7
Q ss_pred EEEeCChHHHHHHHHHHH
Q 039019 26 ICVDAANPVLDRYVEQRV 43 (292)
Q Consensus 26 ~wL~~dr~~L~~RLd~RV 43 (292)
|+|+|+.+++.+|+..|-
T Consensus 96 i~L~~~~e~~~~R~~~R~ 113 (129)
T PF13238_consen 96 IFLDCSPEELRKRLKKRG 113 (129)
T ss_dssp EEEE--HHHHHHHHHCTT
T ss_pred EEEECCHHHHHHHHHhCC
Confidence 999999999999998875
No 67
>PRK05541 adenylylsulfate kinase; Provisional
Probab=25.45 E-value=65 Score=27.25 Aligned_cols=20 Identities=10% Similarity=-0.036 Sum_probs=17.3
Q ss_pred EEEEEEeCChHHHHHHHHHH
Q 039019 23 CCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 23 ~l~~wL~~dr~~L~~RLd~R 42 (292)
.+++||+++.+++.+|+.++
T Consensus 103 ~~~v~l~~~~e~~~~R~~~~ 122 (176)
T PRK05541 103 YFEVYLKCDMEELIRRDQKG 122 (176)
T ss_pred eEEEEEeCCHHHHHHhchhh
Confidence 47899999999999998754
No 68
>PF07931 CPT: Chloramphenicol phosphotransferase-like protein; InterPro: IPR012853 The members of this family are all similar to chloramphenicol 3-O phosphotransferase (CPT, Q56148 from SWISSPROT) expressed by Streptomyces venezuelae. Chloramphenicol (Cm) is a metabolite produced by this bacterium that can inhibit ribosomal peptidyl transferase activity and therefore protein production. By transferring a phosphate group to the C-3 hydroxyl group of Cm, CPT inactivates this potentially lethal metabolite [, ]. ; GO: 0005524 ATP binding, 0016740 transferase activity; PDB: 1QHX_A 1QHN_A 1GRR_A 1QHY_A 1QHS_A 1GRQ_A.
Probab=23.52 E-value=1e+02 Score=27.16 Aligned_cols=26 Identities=23% Similarity=0.284 Sum_probs=21.0
Q ss_pred CccEEEEEEeCChHHHHHHHHHHHHH
Q 039019 20 RFNCCFICVDAANPVLDRYVEQRVDC 45 (292)
Q Consensus 20 ry~~l~~wL~~dr~~L~~RLd~RVd~ 45 (292)
.|++++++|.|+.++|.+|=..|=|.
T Consensus 108 ~~~vl~VgV~Cpleil~~RE~~RgDR 133 (174)
T PF07931_consen 108 GLPVLFVGVRCPLEILERRERARGDR 133 (174)
T ss_dssp TS-EEEEEEE--HHHHHHHHHHHTSS
T ss_pred CCceEEEEEECCHHHHHHHHHhcCCc
Confidence 58899999999999999999999884
No 69
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=23.46 E-value=54 Score=26.60 Aligned_cols=21 Identities=19% Similarity=0.180 Sum_probs=18.5
Q ss_pred cEEEEEEeCChHHHHHHHHHH
Q 039019 22 NCCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~R 42 (292)
+.+++||+++.+++.+|+..|
T Consensus 92 ~~~~i~l~~~~e~~~~R~~~r 112 (154)
T cd00464 92 NGIVVWLDASPEELLERLARD 112 (154)
T ss_pred CCeEEEEeCCHHHHHHHhccC
Confidence 568999999999999998876
No 70
>PRK00625 shikimate kinase; Provisional
Probab=23.46 E-value=62 Score=28.16 Aligned_cols=21 Identities=5% Similarity=0.140 Sum_probs=18.9
Q ss_pred cEEEEEEeCChHHHHHHHHHH
Q 039019 22 NCCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~R 42 (292)
..+++||+++.+++.+||..|
T Consensus 96 ~~~Vv~L~~~~e~l~~Rl~~R 116 (173)
T PRK00625 96 RGLLVLLSLPIATIYQRLQKR 116 (173)
T ss_pred CCEEEEEECCHHHHHHHHhcC
Confidence 467999999999999999876
No 71
>PF14968 CCDC84: Coiled coil protein 84
Probab=23.15 E-value=1.1e+02 Score=30.05 Aligned_cols=34 Identities=18% Similarity=0.270 Sum_probs=24.8
Q ss_pred ccccccccCCCceeeCHH-------HHHHHhhchHHHHHhHHH
Q 039019 224 WTQYVCKACGDKVLRGAY-------EWEQHKQGRRHRKRIYNL 259 (292)
Q Consensus 224 ~~~~~Ce~C~~~~~~Ge~-------~W~~HlkSr~Hrk~~k~~ 259 (292)
...++|-.|+ . -+.+. .--.||.|--|++++++=
T Consensus 56 ~~~fWC~fC~-~-ev~~~~s~~~~~~ai~HLaS~eH~k~vk~F 96 (336)
T PF14968_consen 56 RNRFWCVFCD-C-EVREHDSSFACGGAIEHLASPEHRKNVKKF 96 (336)
T ss_pred cceeEeeCcc-c-hhhhccchhhhccHHhhcCCHHHHHHHHHH
Confidence 3578899995 3 22322 577999999999988763
No 72
>TIGR00009 L28 ribosomal protein L28. This model describes bacterial and chloroplast forms of the 50S ribosomal protein L28, a polypeptide about 60 amino acids in length. Mitochondrial homologs differ substantially in architecture and are not included.
Probab=22.51 E-value=15 Score=26.47 Aligned_cols=17 Identities=24% Similarity=0.305 Sum_probs=12.7
Q ss_pred cccccCCCceeeCHHHH
Q 039019 227 YVCKACGDKVLRGAYEW 243 (292)
Q Consensus 227 ~~Ce~C~~~~~~Ge~~W 243 (292)
..|++||.....|-.--
T Consensus 3 ~~C~i~GK~~~~Gn~vs 19 (56)
T TIGR00009 3 RKCQLTGKGPLSGNNVS 19 (56)
T ss_pred CEeeeCCCcCccCCeee
Confidence 46999997788886533
No 73
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=21.81 E-value=2.6e+02 Score=23.15 Aligned_cols=36 Identities=14% Similarity=0.303 Sum_probs=30.4
Q ss_pred cEEEEEEeCChHHHHHHHHHHHHHHHHhcHHHHHHH
Q 039019 22 NCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYD 57 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~RVd~Ml~~GLldEV~~ 57 (292)
..+.+.+....+.|...+++=+..|.+.|.++++..
T Consensus 185 ~~~~~~~~~~~~~l~~~~n~~i~~l~~~G~~~~i~~ 220 (225)
T PF00497_consen 185 SPVYFAVRKKNPELLEIFNKAIRELKQSGEIQKILK 220 (225)
T ss_dssp EEEEEEEETTTHHHHHHHHHHHHHHHHTTHHHHHHH
T ss_pred ceeEEeecccccHHHHHHHHHHHHHHhCcHHHHHHH
Confidence 345667788889999999999999999999888654
No 74
>PRK13947 shikimate kinase; Provisional
Probab=21.69 E-value=47 Score=27.71 Aligned_cols=37 Identities=16% Similarity=0.274 Sum_probs=25.4
Q ss_pred EEEEEeCChHHHHHHHHHHHHHHH--HhcHHHHHHHHHh
Q 039019 24 CFICVDAANPVLDRYVEQRVDCMI--DAGLLDEVYDIYN 60 (292)
Q Consensus 24 l~~wL~~dr~~L~~RLd~RVd~Ml--~~GLldEV~~L~~ 60 (292)
++|||+++.+.|.+|+..|-...+ ...+.+++..+++
T Consensus 96 ~vv~L~~~~~~l~~Rl~~r~~rp~~~~~~~~~~i~~~~~ 134 (171)
T PRK13947 96 VVICLKARPEVILRRVGKKKSRPLLMVGDPEERIKELLK 134 (171)
T ss_pred EEEEEECCHHHHHHHhcCCCCCCCCCCCChHHHHHHHHH
Confidence 589999999999999987633211 2345566665554
No 75
>PRK13975 thymidylate kinase; Provisional
Probab=21.38 E-value=72 Score=27.24 Aligned_cols=20 Identities=15% Similarity=0.029 Sum_probs=18.3
Q ss_pred EEEEEEeCChHHHHHHHHHH
Q 039019 23 CCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 23 ~l~~wL~~dr~~L~~RLd~R 42 (292)
-++|||+++.+.+.+|+..|
T Consensus 115 d~vi~L~~~~e~~~~Rl~~r 134 (196)
T PRK13975 115 DLVFLLDVDIEEALKRMETR 134 (196)
T ss_pred CEEEEEcCCHHHHHHHHhcc
Confidence 47899999999999999877
No 76
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=21.25 E-value=83 Score=26.38 Aligned_cols=21 Identities=24% Similarity=0.042 Sum_probs=19.0
Q ss_pred cEEEEEEeCChHHHHHHHHHH
Q 039019 22 NCCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~R 42 (292)
+.++|||+++.+++.+|+.+|
T Consensus 126 ~~~~i~l~~~~~~~~~R~~~R 146 (200)
T cd01672 126 PDLTILLDIDPEVGLARIEAR 146 (200)
T ss_pred CCEEEEEeCCHHHHHHHHHhc
Confidence 458999999999999999988
No 77
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=21.25 E-value=89 Score=17.80 Aligned_cols=21 Identities=19% Similarity=0.453 Sum_probs=13.5
Q ss_pred cccccCCCceeeCHHHHHHHhhc
Q 039019 227 YVCKACGDKVLRGAYEWEQHKQG 249 (292)
Q Consensus 227 ~~Ce~C~~~~~~Ge~~W~~HlkS 249 (292)
|.|..|. =... +.....|++.
T Consensus 1 y~C~~C~-y~t~-~~~l~~H~~~ 21 (24)
T PF13909_consen 1 YKCPHCS-YSTS-KSNLKRHLKR 21 (24)
T ss_dssp EE-SSSS--EES-HHHHHHHHHH
T ss_pred CCCCCCC-CcCC-HHHHHHHHHh
Confidence 5799995 4444 7788888764
No 78
>PRK00698 tmk thymidylate kinase; Validated
Probab=21.20 E-value=98 Score=26.41 Aligned_cols=21 Identities=14% Similarity=0.012 Sum_probs=19.2
Q ss_pred cEEEEEEeCChHHHHHHHHHH
Q 039019 22 NCCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~R 42 (292)
+-++|+|+++.+.+.+||.+|
T Consensus 128 pd~~i~l~~~~~~~~~Rl~~R 148 (205)
T PRK00698 128 PDLTLYLDVPPEVGLARIRAR 148 (205)
T ss_pred CCEEEEEeCCHHHHHHHHHhc
Confidence 458999999999999999998
No 79
>TIGR00319 desulf_FeS4 desulfoferrodoxin FeS4 iron-binding domain. Neelaredoxin, a monomeric blue non-heme iron protein, lacks this domain.
Probab=20.89 E-value=52 Score=20.89 Aligned_cols=13 Identities=38% Similarity=0.928 Sum_probs=10.2
Q ss_pred cccccccCCCcee
Q 039019 225 TQYVCKACGDKVL 237 (292)
Q Consensus 225 ~~~~Ce~C~~~~~ 237 (292)
..|.|+.|++.+.
T Consensus 6 ~~ykC~~Cgniv~ 18 (34)
T TIGR00319 6 QVYKCEVCGNIVE 18 (34)
T ss_pred cEEEcCCCCcEEE
Confidence 5799999986643
No 80
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=20.81 E-value=59 Score=19.38 Aligned_cols=12 Identities=42% Similarity=1.027 Sum_probs=9.4
Q ss_pred cccccccCCCcee
Q 039019 225 TQYVCKACGDKVL 237 (292)
Q Consensus 225 ~~~~Ce~C~~~~~ 237 (292)
+.|.|+.|+ +.+
T Consensus 13 k~~~C~~C~-k~F 24 (26)
T PF13465_consen 13 KPYKCPYCG-KSF 24 (26)
T ss_dssp SSEEESSSS-EEE
T ss_pred CCCCCCCCc-Cee
Confidence 679999995 544
No 81
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=20.69 E-value=47 Score=26.57 Aligned_cols=26 Identities=19% Similarity=0.249 Sum_probs=23.1
Q ss_pred CccEEEEEEeCChHHHHHHHHHHHHH
Q 039019 20 RFNCCFICVDAANPVLDRYVEQRVDC 45 (292)
Q Consensus 20 ry~~l~~wL~~dr~~L~~RLd~RVd~ 45 (292)
.|...+++|+++.+++.+|+..|-..
T Consensus 96 ~~~~~~v~l~~~~~~~~~R~~~R~~~ 121 (143)
T PF13671_consen 96 GYPVRVVYLDAPEETLRERLAQRNRE 121 (143)
T ss_dssp TEEEEEEEECHHHHHHHHHHHTTHCC
T ss_pred CCeEEEEEEECCHHHHHHHHHhcCCc
Confidence 46789999999999999999998765
No 82
>PRK14527 adenylate kinase; Provisional
Probab=20.68 E-value=78 Score=27.30 Aligned_cols=20 Identities=15% Similarity=0.297 Sum_probs=18.3
Q ss_pred EEEEEeCChHHHHHHHHHHH
Q 039019 24 CFICVDAANPVLDRYVEQRV 43 (292)
Q Consensus 24 l~~wL~~dr~~L~~RLd~RV 43 (292)
++|||+++.+.+.+|+..|-
T Consensus 114 ~vi~l~~~~~~~~~Rl~~R~ 133 (191)
T PRK14527 114 AVVLLEVPDEELIRRIVERA 133 (191)
T ss_pred EEEEEECCHHHHHHHHHcCc
Confidence 57999999999999999993
No 83
>cd00974 DSRD Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small, single-domain homodimeric protein; each subunit contains an iron atom bound to four cysteinyl sulfur atoms, Fe(S-Cys)4, in a distorted tetrahedral coordination. Its metal center is similar to that found in rubredoxin type proteins. Desulforedoxin is regarded as a potential redox partner for rubredoxin. Desulfoferrodoxin forms a homodimeric protein, with each protomer comprised of two domains, the N-terminal DSRD domain and C-terminal superoxide reductase-like (SORL) domain. Each domain has a distinct iron center: the DSRD iron center I, Fe(S-Cys)4; and the SORL iron center II, Fe[His4Cys(Glu)].
Probab=20.54 E-value=54 Score=20.86 Aligned_cols=13 Identities=38% Similarity=0.902 Sum_probs=10.0
Q ss_pred cccccccCCCcee
Q 039019 225 TQYVCKACGDKVL 237 (292)
Q Consensus 225 ~~~~Ce~C~~~~~ 237 (292)
+.|.|+.|++.+.
T Consensus 3 ~~ykC~~CGniv~ 15 (34)
T cd00974 3 EVYKCEICGNIVE 15 (34)
T ss_pred cEEEcCCCCcEEE
Confidence 4689999986654
No 84
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=20.34 E-value=87 Score=26.27 Aligned_cols=21 Identities=10% Similarity=0.194 Sum_probs=19.0
Q ss_pred cEEEEEEeCChHHHHHHHHHH
Q 039019 22 NCCFICVDAANPVLDRYVEQR 42 (292)
Q Consensus 22 ~~l~~wL~~dr~~L~~RLd~R 42 (292)
..++|||+++.+.+.+|+..|
T Consensus 107 ~~~vi~l~~~~~~~~~Rl~~R 127 (188)
T TIGR01360 107 PTLVLYFDCSEDTMVKRLLKR 127 (188)
T ss_pred CCEEEEEECCHHHHHHHHHcc
Confidence 458999999999999999888
No 85
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=20.21 E-value=44 Score=27.23 Aligned_cols=14 Identities=29% Similarity=0.966 Sum_probs=9.6
Q ss_pred ccccccCCCceeeC
Q 039019 226 QYVCKACGDKVLRG 239 (292)
Q Consensus 226 ~~~Ce~C~~~~~~G 239 (292)
.++|.+|++.+.-|
T Consensus 2 kWkC~iCg~~I~~g 15 (101)
T PF09943_consen 2 KWKCYICGKPIYEG 15 (101)
T ss_pred ceEEEecCCeeeec
Confidence 57899998654433
Done!