Query psy8633
Match_columns 327
No_of_seqs 137 out of 477
Neff 6.1
Searched_HMMs 46136
Date Fri Aug 16 23:46:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8633.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8633hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2732|consensus 100.0 6E-101 1E-105 739.5 21.5 315 5-322 28-435 (435)
2 cd07387 MPP_PolD2_C PolD2 (DNA 100.0 8.8E-69 1.9E-73 501.6 18.6 166 155-320 92-257 (257)
3 PRK04036 DNA polymerase II sma 100.0 7.7E-55 1.7E-59 442.3 22.9 277 8-322 121-504 (504)
4 COG1311 HYS2 Archaeal DNA poly 100.0 9.6E-50 2.1E-54 393.8 18.1 310 4-322 47-472 (481)
5 cd07386 MPP_DNA_pol_II_small_a 100.0 1E-28 2.3E-33 228.6 15.4 149 155-310 79-243 (243)
6 PF04042 DNA_pol_E_B: DNA poly 100.0 2E-29 4.3E-34 227.6 6.4 126 155-280 76-209 (209)
7 KOG3818|consensus 99.1 8.3E-10 1.8E-14 109.1 13.5 212 85-303 189-505 (525)
8 PTZ00235 DNA polymerase epsilo 98.8 2.2E-08 4.8E-13 95.4 10.9 160 155-317 107-286 (291)
9 KOG1625|consensus 98.8 4.3E-08 9.4E-13 99.5 12.3 204 88-300 268-564 (600)
10 cd07387 MPP_PolD2_C PolD2 (DNA 98.8 4.1E-09 8.9E-14 99.4 4.0 56 1-56 198-253 (257)
11 KOG2732|consensus 98.7 5.7E-09 1.2E-13 102.4 3.7 56 1-57 375-430 (435)
12 COG5214 POL12 DNA polymerase a 98.1 5.5E-05 1.2E-09 75.0 12.9 185 86-274 224-516 (581)
13 PRK05340 UDP-2,3-diacylglucosa 96.6 0.0047 1E-07 57.2 6.4 143 156-318 69-238 (241)
14 PHA02546 47 endonuclease subun 95.7 0.054 1.2E-06 53.0 9.2 144 156-319 75-231 (340)
15 cd04490 PolII_SU_OBF PolII_SU_ 95.7 0.042 9E-07 42.8 6.5 49 88-136 20-76 (79)
16 TIGR01854 lipid_A_lpxH UDP-2,3 95.7 0.015 3.2E-07 53.6 4.6 140 156-311 67-229 (231)
17 cd08163 MPP_Cdc1 Saccharomyces 95.3 0.075 1.6E-06 50.2 8.0 137 157-301 84-254 (257)
18 cd00841 MPP_YfcE Escherichia c 93.4 0.62 1.3E-05 39.5 9.0 100 158-315 47-152 (155)
19 cd07402 MPP_GpdQ Enterobacter 92.6 0.25 5.5E-06 44.8 5.7 126 157-299 70-210 (240)
20 TIGR00040 yfcE phosphoesterase 91.8 1.8 4E-05 37.0 9.9 100 158-316 52-156 (158)
21 PRK09453 phosphodiesterase; Pr 91.8 1.8 4E-05 38.0 10.1 99 157-314 63-166 (182)
22 cd07394 MPP_Vps29 Homo sapiens 90.7 8.6 0.00019 34.0 13.3 96 159-314 54-158 (178)
23 PRK04036 DNA polymerase II sma 90.6 0.22 4.8E-06 51.5 3.4 51 1-56 435-498 (504)
24 PF12850 Metallophos_2: Calcin 89.8 1.8 3.9E-05 36.0 7.8 104 157-312 47-155 (156)
25 COG0622 Predicted phosphoester 85.4 22 0.00048 31.6 12.4 89 197-322 72-165 (172)
26 cd07388 MPP_Tt1561 Thermus the 84.5 4 8.7E-05 37.9 7.5 140 157-314 62-220 (224)
27 cd07401 MPP_TMEM62_N Homo sapi 83.5 7.6 0.00016 36.3 9.0 155 157-320 76-256 (256)
28 cd07398 MPP_YbbF-LpxH Escheric 82.2 1.3 2.7E-05 39.6 3.1 55 155-221 67-122 (217)
29 COG1311 HYS2 Archaeal DNA poly 78.2 1.8 4E-05 44.4 3.1 37 1-39 413-449 (481)
30 PRK11148 cyclic 3',5'-adenosin 77.5 5.5 0.00012 37.4 6.0 33 263-300 190-224 (275)
31 TIGR03729 acc_ester putative p 76.9 1.3 2.9E-05 40.6 1.5 27 266-297 209-236 (239)
32 cd07379 MPP_239FB Homo sapiens 75.2 14 0.0003 30.6 7.2 15 265-279 103-117 (135)
33 cd07395 MPP_CSTP1 Homo sapiens 74.4 11 0.00025 34.7 7.1 128 156-299 85-234 (262)
34 cd07404 MPP_MS158 Microscilla 70.2 8.2 0.00018 33.0 4.8 28 265-297 136-163 (166)
35 cd00839 MPP_PAPs purple acid p 69.3 17 0.00036 34.0 7.0 81 155-239 66-148 (294)
36 PF03100 CcmE: CcmE; InterPro 69.1 19 0.00042 30.5 6.7 47 88-134 74-121 (131)
37 cd04491 SoSSB_OBF SoSSB_OBF: A 67.9 20 0.00044 27.2 6.1 36 88-123 26-64 (82)
38 PLN02533 probable purple acid 67.4 18 0.00039 36.7 7.2 116 155-280 196-336 (427)
39 cd04489 ExoVII_LU_OBF ExoVII_L 64.7 30 0.00066 25.6 6.4 46 88-133 20-75 (78)
40 cd04485 DnaE_OBF DnaE_OBF: A s 64.3 16 0.00035 26.7 4.8 45 88-132 22-74 (84)
41 PF01336 tRNA_anti-codon: OB-f 64.0 11 0.00023 27.4 3.7 37 88-124 19-60 (75)
42 cd04492 YhaM_OBF_like YhaM_OBF 63.1 31 0.00068 25.4 6.3 46 88-133 22-74 (83)
43 PRK06461 single-stranded DNA-b 61.5 26 0.00055 29.6 6.0 41 88-128 43-86 (129)
44 cd07396 MPP_Nbla03831 Homo sap 60.9 19 0.00041 33.7 5.6 50 157-217 73-123 (267)
45 cd04478 RPA2_DBD_D RPA2_DBD_D: 60.7 31 0.00067 26.7 6.0 42 88-129 19-69 (95)
46 PRK13254 cytochrome c-type bio 59.9 35 0.00076 29.8 6.7 47 88-134 74-121 (148)
47 cd00838 MPP_superfamily metall 51.7 6.1 0.00013 30.9 0.6 19 264-282 101-119 (131)
48 cd04488 RecG_wedge_OBF RecG_we 51.4 43 0.00093 23.9 5.1 41 88-128 21-66 (75)
49 cd04320 AspRS_cyto_N AspRS_cyt 50.0 1.2E+02 0.0027 23.8 8.0 37 88-124 20-67 (102)
50 cd07390 MPP_AQ1575 Aquifex aeo 48.7 27 0.00059 30.2 4.3 46 158-214 70-115 (168)
51 cd04321 ScAspRS_mt_like_N ScAs 47.7 66 0.0014 24.8 5.9 37 88-124 20-63 (86)
52 cd04483 hOBFC1_like hOBFC1_lik 47.7 67 0.0014 25.5 6.0 40 88-127 17-82 (92)
53 cd00844 MPP_Dbr1_N Dbr1 RNA la 44.4 34 0.00073 32.5 4.4 54 156-216 72-125 (262)
54 PRK13150 cytochrome c-type bio 42.5 96 0.0021 27.5 6.7 47 88-134 81-128 (159)
55 PF04076 BOF: Bacterial OB fol 41.4 85 0.0018 25.7 5.8 40 86-125 49-91 (103)
56 COG2908 Uncharacterized protei 41.0 19 0.00041 33.9 2.1 144 155-315 65-231 (237)
57 cd07392 MPP_PAE1087 Pyrobaculu 40.9 35 0.00075 29.1 3.7 47 155-215 50-96 (188)
58 PF09285 Elong-fact-P_C: Elong 37.8 78 0.0017 23.1 4.5 22 293-314 31-52 (56)
59 PRK07217 replication factor A; 36.6 77 0.0017 31.1 5.6 40 90-129 107-150 (311)
60 cd03524 RPA2_OBF_family RPA2_O 35.6 1.3E+02 0.0029 20.6 5.6 37 88-124 20-62 (75)
61 PRK07218 replication factor A; 35.4 85 0.0018 32.1 6.0 42 88-129 200-243 (423)
62 TIGR00156 conserved hypothetic 35.1 94 0.002 26.5 5.3 39 86-124 72-113 (126)
63 COG0420 SbcD DNA repair exonuc 34.7 20 0.00044 35.4 1.3 18 155-172 73-90 (390)
64 cd05794 S1_EF-P_repeat_2 S1_EF 34.6 90 0.0019 22.8 4.4 22 293-314 31-52 (56)
65 PRK07373 DNA polymerase III su 34.1 70 0.0015 32.9 5.2 46 88-133 305-358 (449)
66 PF15072 DUF4539: Domain of un 34.1 68 0.0015 25.4 4.0 37 84-120 18-59 (86)
67 cd07403 MPP_TTHA0053 Thermus t 33.2 1.3E+02 0.0029 24.8 5.9 17 266-282 91-107 (129)
68 PRK13165 cytochrome c-type bio 33.1 1.6E+02 0.0036 26.1 6.6 47 88-134 81-128 (160)
69 KOG1942|consensus 30.6 36 0.00079 33.6 2.3 39 54-103 168-206 (456)
70 cd07384 MPP_Cdc1_like Saccharo 30.5 59 0.0013 28.5 3.5 37 265-302 133-169 (171)
71 PRK08402 replication factor A; 30.4 98 0.0021 30.8 5.3 42 88-129 102-151 (355)
72 PRK06386 replication factor A; 29.7 1.2E+02 0.0026 30.3 5.9 40 88-129 145-186 (358)
73 COG2129 Predicted phosphoester 29.2 3.2E+02 0.0069 25.7 8.1 144 155-321 62-225 (226)
74 cd04323 AsnRS_cyto_like_N AsnR 28.6 2E+02 0.0044 21.7 5.9 36 88-123 19-61 (84)
75 smart00841 Elong-fact-P_C Elon 25.7 1.6E+02 0.0034 21.6 4.4 22 293-314 31-52 (56)
76 PRK13480 3'-5' exoribonuclease 25.3 1.3E+02 0.0028 29.5 5.1 48 88-135 36-90 (314)
77 PRK07211 replication factor A; 25.3 1E+02 0.0022 32.1 4.5 38 88-125 308-347 (485)
78 cd04100 Asp_Lys_Asn_RS_N Asp_L 25.3 2.4E+02 0.0052 21.3 5.7 36 88-123 19-62 (85)
79 cd04319 PhAsnRS_like_N PhAsnRS 22.9 1.7E+02 0.0036 23.2 4.6 36 88-123 19-62 (103)
80 PF06138 Chordopox_E11: Chordo 22.9 58 0.0013 27.9 1.9 16 88-103 5-20 (130)
81 cd04318 EcAsnRS_like_N EcAsnRS 22.4 3.1E+02 0.0068 20.5 5.9 42 88-129 19-72 (82)
82 cd04317 EcAspRS_like_N EcAspRS 22.1 2.7E+02 0.0058 23.1 5.9 36 88-123 34-76 (135)
83 PF08476 VD10_N: Viral D10 N-t 21.8 82 0.0018 22.1 2.1 15 88-102 22-36 (45)
84 PRK12366 replication factor A; 21.7 1.7E+02 0.0037 31.4 5.6 42 88-129 214-259 (637)
85 PRK12366 replication factor A; 21.6 1.3E+02 0.0028 32.3 4.6 36 88-123 438-475 (637)
86 cd07399 MPP_YvnB Bacillus subt 21.3 3E+02 0.0064 24.8 6.4 59 263-321 144-212 (214)
No 1
>KOG2732|consensus
Probab=100.00 E-value=6.2e-101 Score=739.47 Aligned_cols=315 Identities=44% Similarity=0.740 Sum_probs=293.7
Q ss_pred cCCcEEEeCCC--CchhhhhhhhhcCCceeEEeecccccCCce-EEEEEceeeecCCCCcchHHHHHhhccCCCCCCCCC
Q psy8633 5 SCPDVYFTGNQ--SKFETKTIEIEKGKSVSVLKLSDLNETDTE-ECVIIGTLFKHQQLKPNILKEISEELKLVPQPQHTH 81 (327)
Q Consensus 5 ~~phvYf~gnq--~~~~~~~a~~kwg~~v~i~~l~~~~~~~~~-~~viiGTL~k~m~lkPsiL~e~~~e~~~~~~~~~~~ 81 (327)
..-|+||+|++ +.+.++.|++|||++.++.+++++ ++++ .||++|||||+|+||||||+|+++|+++++++++++
T Consensus 28 Qy~~iY~aRL~elRp~i~~~A~k~wg~~~~l~~~l~l--~~~~~~C~vVGTlfk~~~lKPsIl~~v~~e~~~~p~~~~~~ 105 (435)
T KOG2732|consen 28 QYFHIYFARLKELRPRILELAQKKWGSGPPLKKQLDL--EKGKGECWVVGTLFKAMALKPSILDEVSNEHKVAPDPEESN 105 (435)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHhhcCCCCchhhheee--ccCCccEEEEEehhhhcccCcHHHHHHhhhhccCCCCcccc
Confidence 35689999994 479999999999999999999999 4555 999999999999999999999999999999999999
Q ss_pred ccCCCCeEEEecCCceEEEEec-ccccccccceEEEEEeeEecCCcEEEEEEEecC-CCC-CCCCCCCCC----------
Q psy8633 82 FVSDSDELILEDELQRIPLHGN-IDIHNQVTGVVVAIKGTPVGNGKFKVSDVCYAT-PVF-NPRTTLSNN---------- 148 (327)
Q Consensus 82 y~~~~D~l~LED~sgRi~L~g~-~~~~~lvTG~Vvav~G~~~~~G~F~V~di~~p~-~~~-~~~~~~~~d---------- 148 (327)
|.+.+|+|+||||+|||+|.|. +....++||+||||+|+++++|.|.|+|+|||+ .|| .|.+...++
T Consensus 106 y~~ped~i~LEDe~grV~L~G~~i~~~~~vTGvvvavlG~~~e~G~F~VeDv~fp~~~pq~~P~~~~~~~~~i~lVSGL~ 185 (435)
T KOG2732|consen 106 YHSPEDEIVLEDESGRVRLEGSFISHAVLVTGVVVAVLGKEAEAGRFLVEDVLFPGSSPQGKPRATLPSQRKIALVSGLD 185 (435)
T ss_pred cCCccceEEEecCCceEEEEeecccccceeeeEEEEEecccccCceEEEEEEeccCCCccCCCCCcCCCCCEEEEEeccc
Confidence 9999999999999999999995 999999999999999999999999999999999 888 554433221
Q ss_pred -----------------------------------------------C-------Cc--c-----------e--------
Q psy8633 149 -----------------------------------------------E-------NK--Y-----------V-------- 153 (327)
Q Consensus 149 -----------------------------------------------k-------~~--~-----------v-------- 153 (327)
+ +. + +
T Consensus 186 l~~~~~~~~~l~~l~D~l~g~lg~e~~~~~~~i~rliv~Gn~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ld~~L~ 265 (435)
T KOG2732|consen 186 LGGGSKNLLRLELLVDWLRGQLGNEYEQSASSIGRLIVAGNSLSFSIKILDSQSTSISRLTKKDSAASVIPVKELDNFLA 265 (435)
T ss_pred cCCCcchhHHHHHHHHHHhcccCccccccccccceEEEeccccchhhhccccceeeeeeccccccccccccHHHHHHHHH
Confidence 0 00 0 0
Q ss_pred e-cCceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccC-CCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCCCCChHH
Q psy8633 154 N-HSSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASK-YSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLD 231 (327)
Q Consensus 154 ~-~~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~-~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~ 231 (327)
+ +.+++||+|||..||+|.+|||||||+||||++.. +++++++||||+|++||.+|||||||||+|+.||++.++.||
T Consensus 266 ~~~~s~~VdimPG~~Dp~~~~lPqqPlh~~lfp~s~~~~~~~q~vTNPy~~~ld~~~vl~tSGqNvsDl~ry~~~~s~ld 345 (435)
T KOG2732|consen 266 QIPASISVDIMPGVNDPSNFMLPQQPLHRCLFPKSPQSLSTLQLVTNPYEFSLDGARVLGTSGQNVSDLLRYSSKKSGLD 345 (435)
T ss_pred hccccCCccCCCCCCChhhccCCcCCcchhhhccCccccchhhcccCceEEEEcCEEEEecCCccHHHHhhhcchhhHHH
Confidence 1 78999999999999999999999999999999988 799999999999999999999999999999999999999999
Q ss_pred HHHHHHhcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecCCCCCCCeEEEEeCC
Q psy8633 232 ILEYTLRCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVPDFFSSRTVAILNLS 311 (327)
Q Consensus 232 ~m~~~L~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F~~t~~~vlvnl~ 311 (327)
+||.||+|||+|||||||||||||.++|||||++|||||+|||||+|+++.++++ |++++|||||+||+||.+|+|||+
T Consensus 346 ~le~tlkw~HvaPTaPDTL~cyPftekDPFv~~~~Phvy~~GNqp~f~~r~i~~~-g~~~~Lv~VP~FskT~~~vllnL~ 424 (435)
T KOG2732|consen 346 ALENTLKWGHVAPTAPDTLWCYPFTEKDPFVMDECPHVYIVGNQPKFGTRLIEGG-GKNTLLVCVPKFSKTGVAVLLNLE 424 (435)
T ss_pred HHhhhheeccccCCCCCcccccccccCCCeeecCCCeEEEecCCCcccceeeecC-CceEEEEEcccccccceEEEEEcc
Confidence 9999999999999999999999999999999999999999999999999999986 999999999999999999999999
Q ss_pred CCcEEEEEEcc
Q psy8633 312 TLECHSLVVED 322 (327)
Q Consensus 312 tl~~~~v~F~~ 322 (327)
||+|++++|+.
T Consensus 425 tL~~~~v~Fd~ 435 (435)
T KOG2732|consen 425 TLACETVNFDM 435 (435)
T ss_pred cccceeEeccC
Confidence 99999999973
No 2
>cd07387 MPP_PolD2_C PolD2 (DNA polymerase delta, subunit 2), C-terminal domain. PolD2 (DNA polymerase delta, subunit 2) is an auxiliary subunit of the eukaryotic DNA polymerase delta (PolD) complex thought to play a regulatory role and to serve as a scaffold for PolD assembly by interacting simultaneously with all of the other three subunits. PolD2 is catalytically inactive and lacks the active site residues required for phosphoesterase activity in other members of this superfamily. PolD2 is also involved in the recruitment of several proteins regulating DNA metabolism, including p21, PDIP1, PDIP38, PDIP46, and WRN. Human PolD consists of four subunits: p125 (PolD1), p50 (PolD2), p66(PolD3), and p12(PolD4). PolD is one of three major replicases in eukaryotes. PolD also plays an essential role in translesion DNA synthesis, homologous recombination, and DNA repair. Within the PolD complex, PolD2 tightly associates with PolD3. PolD2 belongs to the metallophosphatase (MPP) superfamily
Probab=100.00 E-value=8.8e-69 Score=501.57 Aligned_cols=166 Identities=59% Similarity=1.009 Sum_probs=164.0
Q ss_pred cCceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCCCCChHHHHH
Q psy8633 155 HSSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLDILE 234 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~~m~ 234 (327)
+++|+|+||||+|||++.+|||||||+++||++++|++++++||||+|+|+|++|||||||||+||+||+++++++++||
T Consensus 92 ~~~i~V~imPG~~Dp~~~~lPQqplh~~lfp~s~~~~~~~~vtNP~~~~i~g~~vLgtsGqni~Di~ky~~~~~~l~~me 171 (257)
T cd07387 92 ASSVPVDLMPGEFDPANHSLPQQPLHRCLFPKSSNYSTLNLVTNPYEFSIDGVRVLGTSGQNVDDILKYSSLESRLDILE 171 (257)
T ss_pred hcCCeEEECCCCCCcccccCCCCCCCHHHhhcccccCCcEEeCCCeEEEECCEEEEEECCCCHHHHHHhCCCCCHHHHHH
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecCCCCCCCeEEEEeCCCCc
Q psy8633 235 YTLRCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVPDFFSSRTVAILNLSTLE 314 (327)
Q Consensus 235 ~~L~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F~~t~~~vlvnl~tl~ 314 (327)
++|+|||+|||||||||||||.++|||||+++||||||||||+|++++++++++++|||||||+|++||++|||||+||+
T Consensus 172 ~~L~wrHlaPTaPDTL~~yP~~~~Dpfvi~~~PhVyf~Gnq~~f~t~~~~~~~~~~v~lv~vP~Fs~t~~~vlvdl~tLe 251 (257)
T cd07387 172 RTLKWRHIAPTAPDTLWCYPFTDRDPFILEECPHVYFAGNQPKFGTKLVEGEEGQRVLLVCVPSFSKTGTAVLVNLRTLE 251 (257)
T ss_pred HHHHhcccCCCCCCccccccCCCCCceeecCCCCEEEeCCCcceeeeEEEcCCCCeEEEEEeCCcCcCCEEEEEECCcCc
Confidence 99999999999999999999999999999999999999999999999999988999999999999999999999999999
Q ss_pred EEEEEE
Q psy8633 315 CHSLVV 320 (327)
Q Consensus 315 ~~~v~F 320 (327)
|++++|
T Consensus 252 ~~~v~f 257 (257)
T cd07387 252 CEPISF 257 (257)
T ss_pred EEEEeC
Confidence 999998
No 3
>PRK04036 DNA polymerase II small subunit; Validated
Probab=100.00 E-value=7.7e-55 Score=442.29 Aligned_cols=277 Identities=21% Similarity=0.297 Sum_probs=224.6
Q ss_pred cEEEeCCCC--chhhhhhhhhcCCceeEEeecccccC-CceEEEEEceeeecCCCCcchHHHHHhhccCCCCCCCCCccC
Q psy8633 8 DVYFTGNQS--KFETKTIEIEKGKSVSVLKLSDLNET-DTEECVIIGTLFKHQQLKPNILKEISEELKLVPQPQHTHFVS 84 (327)
Q Consensus 8 hvYf~gnq~--~~~~~~a~~kwg~~v~i~~l~~~~~~-~~~~~viiGTL~k~m~lkPsiL~e~~~e~~~~~~~~~~~y~~ 84 (327)
|+|..|.+. +...++++.+ ++.+|.++ + +++.|++||||+ ++ . .++
T Consensus 121 ~~y~~R~~~L~~~l~~~~~~~-----~i~~l~~~--~~~~~~~~viG~v~-~~----------~-------------~~~ 169 (504)
T PRK04036 121 AYFRDRYEKLSKIIRGRVNHR-----PIESLKKL--KRGGEEVSIIGMVS-DI----------R-------------STK 169 (504)
T ss_pred HHHHHHHHHHHHHHHhhcccc-----cHHHHhcC--ccCCceEEEEEEEE-Ee----------e-------------ccc
Confidence 445555532 2334444433 46788888 5 678899999997 22 1 123
Q ss_pred CCC-eEEEecCCceEEEEecc------c-ccccccceEEEEEeeEecCC-cEEEEEEEecC-CCCCCCCCCCCC------
Q psy8633 85 DSD-ELILEDELQRIPLHGNI------D-IHNQVTGVVVAIKGTPVGNG-KFKVSDVCYAT-PVFNPRTTLSNN------ 148 (327)
Q Consensus 85 ~~D-~l~LED~sgRi~L~g~~------~-~~~lvTG~Vvav~G~~~~~G-~F~V~di~~p~-~~~~~~~~~~~d------ 148 (327)
+++ .++|||+||||+|.|.. + .+.||||+||||+|++.++| .|.|+||+||+ +++.+.+...++
T Consensus 170 ~g~~~~~LED~sgrv~l~~~~~~~~~~~~~~~lvtg~vv~v~G~~~~~g~~f~v~~i~~p~~p~~~~~~~~~~~~~i~~I 249 (504)
T PRK04036 170 NGHKIVELEDTTGTFPVLIMKDREDLAELADELLLDEVIGVEGTLSGDGGLIFADEIIRPDVPRTKEPPTKDEKVYAVFI 249 (504)
T ss_pred CCceEEEEECCCCeEEEEeecchhhhhhhhhcccCceEEEEEEEEcCCCCEEEEEEEECCCCCccCCCCcCCCccEEEEE
Confidence 344 78999999999999831 2 35799999999999999999 89999999999 777443222211
Q ss_pred ----------------------C---------C---cc-------e----------------------e---------cC
Q psy8633 149 ----------------------E---------N---KY-------V----------------------N---------HS 156 (327)
Q Consensus 149 ----------------------k---------~---~~-------v----------------------~---------~~ 156 (327)
. + .+ + + ++
T Consensus 250 SDlHlgs~~~~~~~l~~li~~L~g~~~~~~~~~~~~d~lVIaGDivd~~~~~p~~~~~~~~~~~~~~~~~l~~~L~~L~~ 329 (504)
T PRK04036 250 SDVHVGSKEFLEDAFEKFIDWLNGEVGNEEEIASRVKYLIIAGDLVDGIGIYPGQEEELEIVDIYEQYEAAAEYLKQIPE 329 (504)
T ss_pred cccCCCCcchhHHHHHHHHHHHhCCCccchhhhhcCCEEEEeCcccccccCCccchhhccchhhHHHHHHHHHHHHhhhc
Confidence 0 0 00 0 0 45
Q ss_pred ceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCC---CCChHHHH
Q psy8633 157 SIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSN---LSNPLDIL 233 (327)
Q Consensus 157 ~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~---~~~~l~~m 233 (327)
+++|++|||||||++.++||||+|+++.....+ .+++.++||++++++|++++++|||+++|+++|.+ ++++.++|
T Consensus 330 ~i~V~~ipGNHD~~~~~lPQ~~l~~~l~~~l~~-~~v~~lsNP~~i~l~G~~iLl~HG~~idDl~~~i~~~s~~~p~~~m 408 (504)
T PRK04036 330 DIKIIISPGNHDAVRQAEPQPAFPEEIRSLFPE-HNVTFVSNPALVNLHGVDVLIYHGRSIDDVISLIPGASYEKPGKAM 408 (504)
T ss_pred CCeEEEecCCCcchhhccCCCCccHHHHHhcCc-CCeEEecCCeEEEECCEEEEEECCCCHHHHHhhcccccccCHHHHH
Confidence 679999999999999999999999997321111 47999999999999999999999999999999964 57899999
Q ss_pred HHHHhcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecCCCC-------------
Q psy8633 234 EYTLRCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVPDFF------------- 300 (327)
Q Consensus 234 ~~~L~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F~------------- 300 (327)
+.+|+|||+|||||||+||||. +.|||+|+++|||||+||+|+|+++.+.| +++|++|+|+
T Consensus 409 ~~~l~~rHlaPt~p~~~~~~p~-~~D~lvi~~~Pdv~~~GH~H~~~~~~~~g-----~~~IN~gsf~~~t~fq~~~~~~p 482 (504)
T PRK04036 409 EELLKRRHLAPIYGGRTPIAPE-KEDYLVIDEVPDIFHTGHVHINGYGKYRG-----VLLINSGTWQAQTEFQKRVNIVP 482 (504)
T ss_pred HHHHHhcccCCCCCCCEEeCcC-CCCCEEEecCCCEEEeCCCCccceEEECC-----EEEEECCcccccccccceeccCC
Confidence 9999999999999999999995 89999999999999999999999998765 9999999999
Q ss_pred CCCeEEEEeCCCCcEEEEEEcc
Q psy8633 301 SSRTVAILNLSTLECHSLVVED 322 (327)
Q Consensus 301 ~t~~~vlvnl~tl~~~~v~F~~ 322 (327)
+||++|||||+||+|++++|+.
T Consensus 483 ~~~~~~lv~l~tl~~~~~~f~~ 504 (504)
T PRK04036 483 TPARVPIVDLDTLEVTVLDFDE 504 (504)
T ss_pred CCCEEEEEECCCCcEEEEEecC
Confidence 4899999999999999999973
No 4
>COG1311 HYS2 Archaeal DNA polymerase II, small subunit/DNA polymerase delta, subunit B [DNA replication, recombination, and repair]
Probab=100.00 E-value=9.6e-50 Score=393.83 Aligned_cols=310 Identities=25% Similarity=0.288 Sum_probs=253.0
Q ss_pred ccCCcEEEeCC-CC--chhhhhhhhhcCCce------eEEeecccccCCceEEE-EEceeeecCCCCcchHHHHHhhccC
Q psy8633 4 ESCPDVYFTGN-QS--KFETKTIEIEKGKSV------SVLKLSDLNETDTEECV-IIGTLFKHQQLKPNILKEISEELKL 73 (327)
Q Consensus 4 ~~~phvYf~gn-q~--~~~~~~a~~kwg~~v------~i~~l~~~~~~~~~~~v-iiGTL~k~m~lkPsiL~e~~~e~~~ 73 (327)
....+.||+|+ .. ....+.+.++|+... .+..++|. ++...|+ +++-+.+.++.|.+-|+++-++...
T Consensus 47 ~qy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ve~~~d~--~~~s~~~g~vedf~~~f~~R~~kL~~ii~~~~~ 124 (481)
T COG1311 47 IQYASIYFARLLKALRPRIIKESVKRWPDKPVLERDLDVEYLPDV--RGNSTCGGIVEDFVPYFRDRYEKLSRIIREREE 124 (481)
T ss_pred cccchHHHhhhhhhhccccchhhhhcccCccccccceeEEEccCc--ccccccceeHHHHHHHHHHHHHHHHHHHhcccc
Confidence 34678889998 22 234556667887643 24455566 5666666 6889999999999999998776543
Q ss_pred CCC---CCCCCccCCCC-eEEEecCCceEEEEec-ccccccccceEEEEEeeEecCCcEEEEEEEecC-CCCCCC-----
Q psy8633 74 VPQ---PQHTHFVSDSD-ELILEDELQRIPLHGN-IDIHNQVTGVVVAIKGTPVGNGKFKVSDVCYAT-PVFNPR----- 142 (327)
Q Consensus 74 ~~~---~~~~~y~~~~D-~l~LED~sgRi~L~g~-~~~~~lvTG~Vvav~G~~~~~G~F~V~di~~p~-~~~~~~----- 142 (327)
.+. ..+ .+-+.+| ++++|+.++|....|+ +-.-+.+||+|.+|+|+..+.|+|.+ |+|+|. .+....
T Consensus 125 ~~~~~~~~~-~~~~g~dv~Iig~v~~~r~t~~gh~ii~~ed~tG~v~vvl~k~~e~~~~~~-dvl~d~vig~~g~~t~~~ 202 (481)
T COG1311 125 ARYVSPIKK-DLEGGSDVKIIGEVNDVRETKNGHFIISLEDTTGVVTVVLGKDREAGRFVV-DVLFDEVIGVSGPVTPRS 202 (481)
T ss_pred CCCcchhhc-ccccCCCcEEEEEEccceeeecccEEEEcccccceEEEEeccchhhhhhHH-hhcCCccccccCccCCcc
Confidence 321 122 5666677 9999999999999997 66778899999999999888899999 999988 332211
Q ss_pred -----------CCCC--C------------C----------------------------CCcc-----------------
Q psy8633 143 -----------TTLS--N------------N----------------------------ENKY----------------- 152 (327)
Q Consensus 143 -----------~~~~--~------------d----------------------------k~~~----------------- 152 (327)
|..+ . | ..||
T Consensus 203 ~~a~~~~~p~Vpg~~~~~~~~e~v~v~~isDih~GSk~F~~~~f~~fi~wl~g~~~~a~~vkyliiagd~VDGigiYpgq 282 (481)
T COG1311 203 SFADRIYLPDVPGLSLNNTGDERVYVALISDIHRGSKEFLEDEFEKFIDWLNGPGDLASRVKYLIIAGDVVDGIGIYPGQ 282 (481)
T ss_pred ccCCcceeccCccccCCCCCCcceEEEEEeeeecccHHHHHHHHHHHHHHhcCCcccccceEEEEEecccccccccccCc
Confidence 0000 0 0 1133
Q ss_pred -------------------ee--cCceeEEEcCCCCCCCCCCCCCCCCCcCCcCCc-cCCCCeeeecCCcEEEECCEEEE
Q psy8633 153 -------------------VN--HSSIEVDLMPGEFDPANTTLPQQPLHPCLFPEA-SKYSTFHPVTNPYIFEMEGKLLM 210 (327)
Q Consensus 153 -------------------v~--~~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~-~~~~~~~~vtNP~~~~i~g~~vl 210 (327)
+. +.+|.|++||||||+++.+|||| |+..+-++ -.+.++++++||++++|+|+.||
T Consensus 283 ~~eL~i~di~~qy~~~A~~L~~vp~~I~v~i~PGnhDa~r~a~PQp--~~~~~~kslf~~~n~~~v~NP~~~~l~G~~vL 360 (481)
T COG1311 283 EEELVIADIYEQYEELAEFLDQVPEHIKVFIMPGNHDAVRQALPQP--HFPELIKSLFSLNNLLFVSNPALVSLHGVDVL 360 (481)
T ss_pred ccccccccchHHHHHHHHHHhhCCCCceEEEecCCCCccccccCCC--CcchhhcccccccceEecCCCcEEEECCEEEE
Confidence 11 88999999999999999999999 66555444 22357999999999999999999
Q ss_pred EEcCCchhhhhccCC---CCChHHHHHHHHhcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecC
Q psy8633 211 GTSGQPVSDIAKFSN---LSNPLDILEYTLRCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEK 287 (327)
Q Consensus 211 gtsGq~i~di~k~~~---~~~~l~~m~~~L~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~ 287 (327)
.+|||||+||.++.| +++++.+|+.||+|||||||||||+||||+. +|+|||+++||||+|||+|.|+++.|+|
T Consensus 361 ~~hG~sidDii~~vP~~~~~~~~~ame~lLk~rHlaPtygg~~p~aP~~-kD~lVIeevPDv~~~Ghvh~~g~~~y~g-- 437 (481)
T COG1311 361 IYHGRSIDDIIKLVPGADYDSPLKAMEELLKRRHLAPTYGGTLPIAPET-KDYLVIEEVPDVFHTGHVHKFGTGVYEG-- 437 (481)
T ss_pred EecCCCHHHHHhhCCCCCccchHHHHHHHHHhcccCCCCCCccccccCC-cCceeeccCCcEEEEccccccceeEEec--
Confidence 999999999999998 6789999999999999999999999999996 9999999999999999999999999986
Q ss_pred CceEEEEecCCCCCCCeEEEEeCCCCcEEEEEEcc
Q psy8633 288 DKNVRLISVPDFFSSRTVAILNLSTLECHSLVVED 322 (327)
Q Consensus 288 ~~~v~lv~vP~F~~t~~~vlvnl~tl~~~~v~F~~ 322 (327)
.+.+...++|+|++++..|++|+.++.+..++|..
T Consensus 438 v~~vns~T~q~qTefqk~vni~p~~~~v~vv~~~~ 472 (481)
T COG1311 438 VNLVNSGTWQEQTEFQKMVNINPTPGNVPVVDFDS 472 (481)
T ss_pred cceEEeeeecchhccceEEEecCcccceeEEeccc
Confidence 78899999999999999999999999999999986
No 5
>cd07386 MPP_DNA_pol_II_small_archeal_C archeal DNA polymerase II, small subunit, C-terminal metallophosphatase domain. The small subunit of the archeal DNA polymerase II contains a C-terminal metallophosphatase domain. This domain is thought to be functionally active because the active site residues required for phosphoesterase activity in other members of this superfamily are intact. The archeal replicative DNA polymerases are thought to possess intrinsic phosphatase activity that hydrolyzes the pyrophosphate released during nucleotide polymerization. This domain belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiestera
Probab=99.96 E-value=1e-28 Score=228.57 Aligned_cols=149 Identities=22% Similarity=0.342 Sum_probs=133.0
Q ss_pred cCceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccC---CCCChHH
Q psy8633 155 HSSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFS---NLSNPLD 231 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~---~~~~~l~ 231 (327)
++.++|++||||||+.+.++||||+|++++.... ..+++.++||+.++++|.+++++||++++|++++. ..+.+.+
T Consensus 79 ~~~~~v~~ipGNHD~~~~~~pq~~l~~~l~~~~~-~~~v~~l~Np~~~~~~g~~i~~~~G~~~~d~~~~~~~~~~~~~~~ 157 (243)
T cd07386 79 PSHIKIIIIPGNHDAVRQAEPQPALPEEIRKLFL-PGNVEFVSNPALVKIHGVDVLIYHGRSIDDVVKLIPGLSYDKPGK 157 (243)
T ss_pred ccCCeEEEeCCCCCcccccCCCCCccHHHHhhcC-CCceEEeCCCCEEEECCEEEEEECCCCHHHHHHhCCCCCcccHHH
Confidence 4568999999999999999999999999876442 35799999999999999999999999999999985 3566899
Q ss_pred HHHHHHhcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecCCCC-----------
Q psy8633 232 ILEYTLRCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVPDFF----------- 300 (327)
Q Consensus 232 ~m~~~L~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F~----------- 300 (327)
+|+.+|+|||+|||+|++++|||+ ..|||+++..||++++||+|+++++.+.+ +++|++++|.
T Consensus 158 ~~~~~l~~~hl~P~~~~~~~~~~~-~~~~~~~~~~p~vii~Gh~h~~~~~~~~~-----~~~vn~Gsf~~~~~~~~~~~~ 231 (243)
T cd07386 158 AMEELLKRRHLAPIYGGRTPIAPE-PEDYLVIDEVPDILHTGHVHVYGVGVYRG-----VLLVNSGTWQSQTEFQKKMNI 231 (243)
T ss_pred HHHHHHhhcccCCCCCCCEeeCCC-CCCCEEecCCCCEEEECCCCchHhEEECC-----EEEEECCCCcCCCCcceeecc
Confidence 999999999999999999999997 69999999999999999999999998643 8999999985
Q ss_pred --CCCeEEEEeC
Q psy8633 301 --SSRTVAILNL 310 (327)
Q Consensus 301 --~t~~~vlvnl 310 (327)
++|.+.+|||
T Consensus 232 ~~~~~~~~~~~~ 243 (243)
T cd07386 232 NPTPGKVPVVNL 243 (243)
T ss_pred CCCcceeeeecC
Confidence 4567777765
No 6
>PF04042 DNA_pol_E_B: DNA polymerase alpha/epsilon subunit B; InterPro: IPR007185 DNA polymerase epsilon is essential for cell viability and chromosomal DNA replication in budding yeast. In addition, DNA polymerase epsilon may be involved in DNA repair and cell-cycle checkpoint control. The enzyme consists of at least four subunits in mammalian cells as well as in yeast. The largest subunit of DNA polymerase epsilon is responsible for polymerase activity. In mouse, the DNA polymerase epsilon subunit B is the second largest subunit of the DNA polymerase. A part of the N-terminal was found to be responsible for the interaction with SAP18. Experimental evidence suggests that this subunit may recruit histone deacetylase to the replication fork to modify the chromatin structure [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3E0J_C 3FLO_G.
Probab=99.96 E-value=2e-29 Score=227.63 Aligned_cols=126 Identities=33% Similarity=0.580 Sum_probs=102.7
Q ss_pred cCceeEEEcCCCCCCCCC-CCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCCCCC-----
Q psy8633 155 HSSIEVDLMPGEFDPANT-TLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSN----- 228 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~~~-~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~----- 228 (327)
+.+++|++|||.+||++. ++||||||++++++..++.+++++|||+.++++|++|+++||+.++||.|+....+
T Consensus 76 ~~~~~vvlvPg~~D~~~~~~lPq~pl~~~~~~~~~~~~~~~~~sNP~~~~i~~~~i~~~s~d~~~~l~~~~~~~~~~~~~ 155 (209)
T PF04042_consen 76 LPSTQVVLVPGPNDPTSSPVLPQPPLHSKLFPKLKKYSNIHFVSNPCRISINGQEIGVTSGDILDDLRRYEISKSSSSED 155 (209)
T ss_dssp HCCSEEEEE--TTCTT-S-SCSB----TTTTCHHCTTTTEEE--CSEEEEETTEEEEE-SSHHHHHHHHCCESHHHHHS-
T ss_pred ccccEEEEeCCCccccccCCCCCCCCCHHHHhhhhhcCceEEeCCCeEEEEeCCcEEEECCcHHHHHHhhccCCCcchhH
Confidence 678999999999999999 99999999999999999988999999999999999999999999999999987444
Q ss_pred -hHHHHHHHHhcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCC-ccccce
Q psy8633 229 -PLDILEYTLRCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGN-QSKFET 280 (327)
Q Consensus 229 -~l~~m~~~L~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn-~~~f~~ 280 (327)
..++|+.+|+|||++|++||++.++|+...|+|+|+.+|||+++|+ +++|++
T Consensus 156 ~~~~l~~~il~q~hl~P~~pd~~~~~~~~~~~~l~l~~~Pdili~~~~~~~F~~ 209 (209)
T PF04042_consen 156 RIERLMETILQQRHLYPLYPDTLPPIPWSYDDPLVLDPTPDILILPSDLPPFVK 209 (209)
T ss_dssp HHHHHHHHHHHCTBS-TTSSE--B-GGGGGCGCTCGCS--SEEEEEESCSSEE-
T ss_pred HHHHHHHHHHHhhcccCCCCCCccccccCcCCCcccCCCCcEEEECCCCcCcCC
Confidence 3899999999999999999999999999999999999999999999 888864
No 7
>KOG3818|consensus
Probab=99.12 E-value=8.3e-10 Score=109.08 Aligned_cols=212 Identities=18% Similarity=0.239 Sum_probs=151.6
Q ss_pred CCCeEEEecCCceEEEEec---ccccccccceEEEEEeeEecCCcEEEEEEEecC--CCCCCCCCCCC-C----------
Q psy8633 85 DSDELILEDELQRIPLHGN---IDIHNQVTGVVVAIKGTPVGNGKFKVSDVCYAT--PVFNPRTTLSN-N---------- 148 (327)
Q Consensus 85 ~~D~l~LED~sgRi~L~g~---~~~~~lvTG~Vvav~G~~~~~G~F~V~di~~p~--~~~~~~~~~~~-d---------- 148 (327)
.++.++|||.||.|.|.-. .....++.|+.|-|-|...+ |.|.|.++-||- +....+...+. +
T Consensus 189 k~G~~~lEDpsgsVqlDlsqa~fh~glf~egC~VL~EG~f~~-~vf~V~~lg~PP~E~~~~tr~~~gN~n~~Gg~~~~~~ 267 (525)
T KOG3818|consen 189 KEGKFHLEDPSGSVQLDLSQAKFHHGLFCEGCFVLVEGTFES-GVFHVNELGFPPVERREVTRKELGNLNWLGGDSKIAF 267 (525)
T ss_pred cCCcEEEeCCCCcEEEeecccccccceeccceEEEEeeeeec-ceEEEeeccCCCCCcchhHHHHhccCcccCCcchhhh
Confidence 4789999999999999854 44577899999999999665 999999999976 33222221110 0
Q ss_pred ------------------------------------C--Ccc-------------------------------------e
Q psy8633 149 ------------------------------------E--NKY-------------------------------------V 153 (327)
Q Consensus 149 ------------------------------------k--~~~-------------------------------------v 153 (327)
| .+| +
T Consensus 268 k~sA~L~~lE~~~~d~~fVfLSdV~LD~~~vm~aL~kifqgy~~~pP~~iIlcG~FtS~p~~~~s~~~~k~~f~~LA~~l 347 (525)
T KOG3818|consen 268 KCSARLRSLEAENTDTSFVFLSDVFLDDKKVMEALRKIFQGYKDAPPTAIILCGSFTSSPRQTSSSDQLKDGFRWLAAQL 347 (525)
T ss_pred HHHHHHHHHHHhCcCceEEEEehhccccHHHHHHHHHHHhhccCCCCeEEEEeccccccccccchHHHHHHHHHHHHhhc
Confidence 0 011 0
Q ss_pred e-----cCceeEEEcCCCCCCC-CCCCCCCCCCcCCcCCc-cCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccC-C
Q psy8633 154 N-----HSSIEVDLMPGEFDPA-NTTLPQQPLHPCLFPEA-SKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFS-N 225 (327)
Q Consensus 154 ~-----~~~i~V~lmPG~~Dp~-~~~lPQqplh~~lf~~~-~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~-~ 225 (327)
+ ...-..+.+||..||+ ...||++||+.+++.+- ..+.+..+.|||+.+.--...++..---=+...+|.+ .
T Consensus 348 ~~~~~~~ekT~fIFVPGP~Dp~~~~iLPr~piP~~~~~~i~kv~~~tvfasNPcRIqy~sQEIvVfR~DL~~kfcRn~l~ 427 (525)
T KOG3818|consen 348 TCFRKDYEKTQFIFVPGPNDPWVDNILPRPPIPSLFTKHISKVCKNTVFASNPCRIQYCSQEIVVFRDDLSGKFCRNSLN 427 (525)
T ss_pred cccccccccceEEEecCCCCCCcCccCCCCCchHHHHHHHHhhcCCceeccCCeeeEeecceEEEEhHhhhhHHhhcccc
Confidence 0 2345689999999998 55899999999998765 3447799999999999888887777533333333322 1
Q ss_pred C-CC----hHHHHHHHHhcccCCCCCCCceecCcCCCCCC-eeecCCCcEEEcCCccccceeEEeecCCceEEEEecCCC
Q psy8633 226 L-SN----PLDILEYTLRCGHVAPTAPDTLACYPFYDNDP-MIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVPDF 299 (327)
Q Consensus 226 ~-~~----~l~~m~~~L~~rHlaPtaPdtl~~~P~~~~Dp-fvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F 299 (327)
+ .+ +-...+.+|.-+||+|.-+-+.|+++ |-|+ +-+-..|++++.+..-+-.+.+ .+..|.++.=.+|
T Consensus 428 Fp~~~~qipq~~vkTIL~QgHLsP~p~~~~PV~W--D~D~aLsl~PlPdlmvl~Ds~~sf~~v----t~~gC~v~NPGSF 501 (525)
T KOG3818|consen 428 FPITVEQIPQHLVKTILDQGHLSPFPQHIRPVLW--DFDHALSLYPLPDLMVLADSFSSFFDV----TYAGCIVINPGSF 501 (525)
T ss_pred CCCcHHHHHHHHHHHHhhccccCCCccccCcccc--CcccceEeccCcceEEeeccccccccc----ccCCceeeCCCcc
Confidence 1 11 34578889999999999999999998 4444 5667899999999855444442 2345788887777
Q ss_pred CCCC
Q psy8633 300 FSSR 303 (327)
Q Consensus 300 ~~t~ 303 (327)
...+
T Consensus 502 ~~s~ 505 (525)
T KOG3818|consen 502 SRSN 505 (525)
T ss_pred cccc
Confidence 6544
No 8
>PTZ00235 DNA polymerase epsilon subunit B; Provisional
Probab=98.83 E-value=2.2e-08 Score=95.43 Aligned_cols=160 Identities=14% Similarity=0.168 Sum_probs=114.1
Q ss_pred cCceeEEEcCCCCCCC--CCCCCCCCCCcCCcCCcc--------CCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccC
Q psy8633 155 HSSIEVDLMPGEFDPA--NTTLPQQPLHPCLFPEAS--------KYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFS 224 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~--~~~lPQqplh~~lf~~~~--------~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~ 224 (327)
.++...+++||.+||+ ...|||+||++.+-.+-. .-.++.++|||+.++.-+..+...--.-+.+|.+-.
T Consensus 107 ~~~s~fVFVPGpnDPw~s~~~LPR~PIp~~f~~~~~~~~e~~~~~~~~~i~aSNPcRI~y~sqEIVifRdDl~~~L~r~~ 186 (291)
T PTZ00235 107 LEHCYLIFIPGINDPCACKNSIPKMPILPYYIRKFKQNIESFFSSKRNIIFATNPCRIRHLSKKMIFFRHDILNDLIWSS 186 (291)
T ss_pred HhcCeEEEECCCCCCCcCcccCCCCCchHHHHHHHHHhhhhccCCCCceEEecCCcEEEecCceEEEEeHHHHHHHhhhc
Confidence 4567899999999995 468999999986622111 124799999999999999888877655555666533
Q ss_pred --C-C-C---C-hHHHHHHHHhcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccce-eEEeecCCceEEEEe
Q psy8633 225 --N-L-S---N-PLDILEYTLRCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFET-KTIEIEKDKNVRLIS 295 (327)
Q Consensus 225 --~-~-~---~-~l~~m~~~L~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~-~~~~~~~~~~v~lv~ 295 (327)
+ . + + .-.+.+.+|--+||||.. ...+++.- -..-+-+-..||+++.|... +.. --+.+.....|.++.
T Consensus 187 ~i~~~~~~~~d~~~~lvkTIldQ~HL~Pl~-~~~pI~W~-yD~aL~LyPlPd~ivL~D~s-~~~~~~~~~~~~~~~~~~N 263 (291)
T PTZ00235 187 TINATNNERNNLQNILVSTIVGQSHIYPIP-HDNRILKR-YSPFLFLYPLPHFICVCDNS-CNSFISYASEDTSDCIISN 263 (291)
T ss_pred cCCCCCccchhHHHHHHHhhhcccccCCCc-cCCccccc-cccceeccCCCCEEEEecCC-CCccceeecccCCceEEEC
Confidence 1 1 1 1 124778889999999996 55677763 23345668899999999862 221 112222445688899
Q ss_pred cC-CCCCCCeEEEEeCCCCcEEE
Q psy8633 296 VP-DFFSSRTVAILNLSTLECHS 317 (327)
Q Consensus 296 vP-~F~~t~~~vlvnl~tl~~~~ 317 (327)
.+ +|+.+++-++.+..|-+++.
T Consensus 264 p~gsF~~~~sF~~Y~~~~~~~~~ 286 (291)
T PTZ00235 264 SDMSFTRKKTFTVYSALHHEAKR 286 (291)
T ss_pred CCCccCCCceEEEEehhcceehe
Confidence 87 99999999999999887764
No 9
>KOG1625|consensus
Probab=98.80 E-value=4.3e-08 Score=99.51 Aligned_cols=204 Identities=21% Similarity=0.264 Sum_probs=130.9
Q ss_pred eEEEecC----C-ceEEEEec-ccccccccceEEEEEeeEecCCcEEEEEEEecC-CCCCCCCCCCCC------------
Q psy8633 88 ELILEDE----L-QRIPLHGN-IDIHNQVTGVVVAIKGTPVGNGKFKVSDVCYAT-PVFNPRTTLSNN------------ 148 (327)
Q Consensus 88 ~l~LED~----s-gRi~L~g~-~~~~~lvTG~Vvav~G~~~~~G~F~V~di~~p~-~~~~~~~~~~~d------------ 148 (327)
.+.||+. + .||+|.-+ ++.-.+-.|=||||.|.-...+.|.|++|.-+- .| .+....++|
T Consensus 268 Sv~Less~e~~~g~~Vrldls~l~e~SiFPGQIVavkG~N~~G~~l~v~ki~~~~plp-~~~~~~qed~~~~~~~~ivva 346 (600)
T KOG1625|consen 268 SVLLESSREDSSGVRVRLDLSRLKEYSIFPGQIVAVKGKNPTGEKLTVEKILPIPPLP-IPVQPLQEDATFEANTVIVVA 346 (600)
T ss_pred ceEeeeccccCCCceEEeehhhccceeecCCcEEEEeeecCCCCeEEeeeeccCCCCC-CCcCchhhhhhccccceEEEE
Confidence 5777754 3 37888765 777788999999999995555678888876433 22 122111111
Q ss_pred ----------------------CC---------------cc-----------------------ee---cCceeEEEcCC
Q psy8633 149 ----------------------EN---------------KY-----------------------VN---HSSIEVDLMPG 165 (327)
Q Consensus 149 ----------------------k~---------------~~-----------------------v~---~~~i~V~lmPG 165 (327)
++ +. ++ ...+.++|+|-
T Consensus 347 sGPyt~sDnl~yepL~dll~~v~~~~pdvLIL~GPFlD~~h~~i~~~~~t~t~delF~~~i~~ile~~~~~~~~vVlvPs 426 (600)
T KOG1625|consen 347 SGPYTASDNLSYEPLCDLLDYVNAERPDVLILFGPFLDSKHPLINKGALTITFDELFEKLILGILETLVGSKTQVVLVPS 426 (600)
T ss_pred ecCccCccccchhHHHHHHHHHhcCCCCEEEEeccccCccChhhccCCcCccHHHHHHHHHHHHHHhccCCcceEEEecc
Confidence 00 00 11 44567999999
Q ss_pred CCCCC-CCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhc--cCC-----CCChH-HHHHHH
Q psy8633 166 EFDPA-NTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAK--FSN-----LSNPL-DILEYT 236 (327)
Q Consensus 166 ~~Dp~-~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k--~~~-----~~~~l-~~m~~~ 236 (327)
.+|.. -...||+||.+.-+.. .+ .++.++.||+.|.|+|+.|-.+|--.+.++.. +.. -.+++ .+..++
T Consensus 427 ~~Da~~~~vfPq~pf~~~~~~~-~~-~~l~~~~nPc~f~in~v~vg~ts~D~l~~Ls~eE~~~~~~~~~~dR~~Rls~Hl 504 (600)
T KOG1625|consen 427 TNDALCLPVFPQPPFARNRLSD-EK-KNLKCVANPCLFSINGVEVGVTSTDTLLHLSSEEFFRNALQSNGDRLARLSSHL 504 (600)
T ss_pred ccccccCccCCCCchhhhhccC-cc-cceEEccCcceEEEccEEEEeecchHHHHhhhhHhhcCCCCcchHHHHHHHHHH
Confidence 99887 5689999995433321 11 58999999999999999999999888888732 111 23344 478899
Q ss_pred HhcccCCCCCC-CceecCcCC-CCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecCCCC
Q psy8633 237 LRCGHVAPTAP-DTLACYPFY-DNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVPDFF 300 (327)
Q Consensus 237 L~~rHlaPtaP-dtl~~~P~~-~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F~ 300 (327)
|.-||+-|.+| ..++. -|. --+..-|...|||++.=---++-.+.+.+ |-+|...++.
T Consensus 505 L~QrsfYPL~PP~dl~~-s~~~~~~~~~~~~~PdIlIlPSdLr~Fvk~V~~-----~V~iNpGr~a 564 (600)
T KOG1625|consen 505 LTQRSFYPLFPPEDLPV-SYSLLLKYAQIGSTPDILILPSDLRHFVKDVNG-----CVVINPGRLA 564 (600)
T ss_pred hhcccccccCCchhcch-hhhhHHHHhccCCCCcEEEechhhHHHHHhcCC-----eEEEcchhhc
Confidence 99999999888 32221 111 11222335889999876544444444432 4455544443
No 10
>cd07387 MPP_PolD2_C PolD2 (DNA polymerase delta, subunit 2), C-terminal domain. PolD2 (DNA polymerase delta, subunit 2) is an auxiliary subunit of the eukaryotic DNA polymerase delta (PolD) complex thought to play a regulatory role and to serve as a scaffold for PolD assembly by interacting simultaneously with all of the other three subunits. PolD2 is catalytically inactive and lacks the active site residues required for phosphoesterase activity in other members of this superfamily. PolD2 is also involved in the recruitment of several proteins regulating DNA metabolism, including p21, PDIP1, PDIP38, PDIP46, and WRN. Human PolD consists of four subunits: p125 (PolD1), p50 (PolD2), p66(PolD3), and p12(PolD4). PolD is one of three major replicases in eukaryotes. PolD also plays an essential role in translesion DNA synthesis, homologous recombination, and DNA repair. Within the PolD complex, PolD2 tightly associates with PolD3. PolD2 belongs to the metallophosphatase (MPP) superfamily
Probab=98.78 E-value=4.1e-09 Score=99.35 Aligned_cols=56 Identities=41% Similarity=0.631 Sum_probs=51.7
Q ss_pred CccccCCcEEEeCCCCchhhhhhhhhcCCceeEEeecccccCCceEEEEEceeeec
Q psy8633 1 MIIESCPDVYFTGNQSKFETKTIEIEKGKSVSVLKLSDLNETDTEECVIIGTLFKH 56 (327)
Q Consensus 1 fi~~~~phvYf~gnq~~~~~~~a~~kwg~~v~i~~l~~~~~~~~~~~viiGTL~k~ 56 (327)
|||++||||||+|||++|+++.++...|++++++++|+|++++..+++++.||.++
T Consensus 198 fvi~~~PhVyf~Gnq~~f~t~~~~~~~~~~v~lv~vP~Fs~t~~~vlvdl~tLe~~ 253 (257)
T cd07387 198 FILEECPHVYFAGNQPKFGTKLVEGEEGQRVLLVCVPSFSKTGTAVLVNLRTLECE 253 (257)
T ss_pred eeecCCCCEEEeCCCcceeeeEEEcCCCCeEEEEEeCCcCcCCEEEEEECCcCcEE
Confidence 89999999999999999999998766677899999999999999999999999875
No 11
>KOG2732|consensus
Probab=98.74 E-value=5.7e-09 Score=102.43 Aligned_cols=56 Identities=30% Similarity=0.531 Sum_probs=52.9
Q ss_pred CccccCCcEEEeCCCCchhhhhhhhhcCCceeEEeecccccCCceEEEEEceeeecC
Q psy8633 1 MIIESCPDVYFTGNQSKFETKTIEIEKGKSVSVLKLSDLNETDTEECVIIGTLFKHQ 57 (327)
Q Consensus 1 fi~~~~phvYf~gnq~~~~~~~a~~kwg~~v~i~~l~~~~~~~~~~~viiGTL~k~m 57 (327)
|||++|||+||+|||++|+++.++.. |+.+++++||+|++++..+++++.||.+++
T Consensus 375 Fv~~~~Phvy~~GNqp~f~~r~i~~~-g~~~~Lv~VP~FskT~~~vllnL~tL~~~~ 430 (435)
T KOG2732|consen 375 FVMDECPHVYIVGNQPKFGTRLIEGG-GKNTLLVCVPKFSKTGVAVLLNLETLACET 430 (435)
T ss_pred eeecCCCeEEEecCCCcccceeeecC-CceEEEEEcccccccceEEEEEccccccee
Confidence 89999999999999999999999977 888999999999999998999999999886
No 12
>COG5214 POL12 DNA polymerase alpha-primase complex, polymerase-associated subunit B [DNA replication, recombination, and repair]
Probab=98.07 E-value=5.5e-05 Score=75.00 Aligned_cols=185 Identities=23% Similarity=0.324 Sum_probs=125.2
Q ss_pred CCeEEEecC-C----ceEEEEec-ccccccccceEEEEEeeEecCCcEEEEEEEe-cCCCCCCCCCCC------------
Q psy8633 86 SDELILEDE-L----QRIPLHGN-IDIHNQVTGVVVAIKGTPVGNGKFKVSDVCY-ATPVFNPRTTLS------------ 146 (327)
Q Consensus 86 ~D~l~LED~-s----gRi~L~g~-~~~~~lvTG~Vvav~G~~~~~G~F~V~di~~-p~~~~~~~~~~~------------ 146 (327)
...++||.. . -||+|.-+ ++.-.+-.|-+|||.|.-.+.|.|.|+.|.- |-.|-.|....+
T Consensus 224 ~eSv~lesSr~gg~gvrVRL~l~~l~~yS~FpGQIVavKGkN~~G~~ftv~~ilpiP~~p~~p~s~~qE~~~fqan~~~q 303 (581)
T COG5214 224 SESVFLESSRDGGNGVRVRLNLAHLQRYSVFPGQIVAVKGKNTDGGKFTVEAILPIPVVPINPASDGQEKKYFQANTNNQ 303 (581)
T ss_pred cceeeeeeecccCCCeEEEeehhhccccccccccEEEEecccCCCCeEEeeeeeccCCcCCCcCcchhhhhhhccccCCC
Confidence 457899976 2 27888765 7777789999999999988888999999864 321111111000
Q ss_pred --------------CC--------------CC--c-----------------c----------------------eecCc
Q psy8633 147 --------------NN--------------EN--K-----------------Y----------------------VNHSS 157 (327)
Q Consensus 147 --------------~d--------------k~--~-----------------~----------------------v~~~~ 157 (327)
+| +. + | ++-.+
T Consensus 304 ~~~iv~~sGPy~~~dd~s~~pl~~~id~vn~n~vdvlIl~GPFidi~h~li~~G~~~~t~~~~l~ElF~~r~tpiL~~~~ 383 (581)
T COG5214 304 PTSIVAFSGPYGPRDDLSGSPLFDAIDRVNANDVDVLILIGPFIDINHILIQYGATQSTPDSMLKELFIPRITPILDRNA 383 (581)
T ss_pred ceEEEEEcCCCCCccccCcChHHHHHHHhccCCccEEEEeccccCcchhhhhhCCCCCCChhHHHHHHHHhhhHHHhccC
Confidence 00 00 0 0 01111
Q ss_pred e-eEEEcCCCCCCC--CCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhh-----hc--cCCCC
Q psy8633 158 I-EVDLMPGEFDPA--NTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDI-----AK--FSNLS 227 (327)
Q Consensus 158 i-~V~lmPG~~Dp~--~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di-----~k--~~~~~ 227 (327)
. .-+|+|--+|.+ -.++||-||.+..+.-. +||.|..||++|.|+.+.|-..+--..-|+ ++ ...-.
T Consensus 384 ~p~~vLIPstnDa~s~h~a~PQ~~~~r~al~lp---~nfkC~~NPc~F~INei~fg~Ss~Dt~l~~s~eE~f~~~l~s~g 460 (581)
T COG5214 384 GPKAVLIPSTNDATSCHNAFPQGPIGRNALRLP---SNFKCTGNPCEFFINEILFGISSLDTPLEISSEECFHDSLLSGG 460 (581)
T ss_pred CCceEEeccccchhhccccCCccccchhhhcCC---ccccccCCcceeEeeeeEEEeccCCchhhccHHHHhcccccccc
Confidence 2 489999999998 45899999999765433 579999999999999999888877666655 23 11223
Q ss_pred ChHH-HHHHHHhcccCCCCCCC--ceecCcCCCCCCeee-------cCCCcEEEcCC
Q psy8633 228 NPLD-ILEYTLRCGHVAPTAPD--TLACYPFYDNDPMII-------ESCPDVYFTGN 274 (327)
Q Consensus 228 ~~l~-~m~~~L~~rHlaPtaPd--tl~~~P~~~~Dpfvi-------~~~Phv~f~Gn 274 (327)
++++ +-+++|.-||.-|..|. .-.|-|. +-|---+ ...||||.+--
T Consensus 461 ~rl~Ris~H~l~QR~fyPvFPg~~~~k~~ps-~ldv~~l~l~Ef~~~t~PDI~IvpS 516 (581)
T COG5214 461 DRLGRISYHLLFQRTFYPVFPGGSLEKCNPS-SLDVVSLSLPEFMSMTAPDIYIVPS 516 (581)
T ss_pred chHHHHHHHHHhhceeecccCCccccccCcc-ccceEEecchhhhccCCCcEEEehH
Confidence 4554 67899999999999983 3356663 4554332 36899987654
No 13
>PRK05340 UDP-2,3-diacylglucosamine hydrolase; Provisional
Probab=96.60 E-value=0.0047 Score=57.17 Aligned_cols=143 Identities=15% Similarity=0.218 Sum_probs=86.2
Q ss_pred CceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCch--hh-hhc-cC-------
Q psy8633 156 SSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPV--SD-IAK-FS------- 224 (327)
Q Consensus 156 ~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i--~d-i~k-~~------- 224 (327)
..++|.+++||||.... ..++. ...+....||..++++|.+++.+||-.. +| .++ +.
T Consensus 69 ~g~~v~~v~GNHD~~~~--------~~~~~----~~g~~~l~~~~~~~~~g~~i~l~HGd~~~~~d~~y~~~r~~~r~~~ 136 (241)
T PRK05340 69 SGVPCYFMHGNRDFLLG--------KRFAK----AAGMTLLPDPSVIDLYGQRVLLLHGDTLCTDDKAYQRFRRKVRNPW 136 (241)
T ss_pred cCCeEEEEeCCCchhhh--------HHHHH----hCCCEEeCCcEEEEECCEEEEEECCcccccCCHHHHHHHHHHhCHH
Confidence 44899999999997321 11111 1357889999999999999999999987 33 222 11
Q ss_pred --------CCCChHHHHHHH---HhcccCCCCCCCceecCcCCCCCCeee-----cCCCcEEEcCCccccceeEEeecCC
Q psy8633 225 --------NLSNPLDILEYT---LRCGHVAPTAPDTLACYPFYDNDPMII-----ESCPDVYFTGNQSKFETKTIEIEKD 288 (327)
Q Consensus 225 --------~~~~~l~~m~~~---L~~rHlaPtaPdtl~~~P~~~~Dpfvi-----~~~Phv~f~Gn~~~f~~~~~~~~~~ 288 (327)
|++..+.+.+.+ .+..+. +.+ .++.+.++--+ +.-.+++++||.|.-....+. .++
T Consensus 137 ~~~~~~~~p~~~~~~ia~~~~~~s~~~~~-~~~------~~~~~~~~~~~~~~~~~~~~~~~i~GH~H~~~~~~~~-~~~ 208 (241)
T PRK05340 137 LQWLFLALPLSIRLRIAAKMRAKSKAANQ-SKS------LEIMDVNPEAVAALMEKHGVDTLIHGHTHRPAIHQLQ-AGG 208 (241)
T ss_pred HHHHHHhCCHHHHHHHHHHHHHHHHHhcC-CCc------ccccCCCHHHHHHHHHHhCCCEEEECcccCcceeecc-CCC
Confidence 112222222222 111221 111 11112222111 235688999999976654442 233
Q ss_pred ceEEEEecCCCCCCCeEEEEeCCCCcEEEE
Q psy8633 289 KNVRLISVPDFFSSRTVAILNLSTLECHSL 318 (327)
Q Consensus 289 ~~v~lv~vP~F~~t~~~vlvnl~tl~~~~v 318 (327)
..++-+..++|...++.+.+|=..++....
T Consensus 209 ~~~~~~~lgdw~~~~~~~~~~~~~~~~~~~ 238 (241)
T PRK05340 209 QPATRIVLGDWHEQGSVLKVDADGVELIPF 238 (241)
T ss_pred cceEEEEeCCCCCCCeEEEEECCceEEEeC
Confidence 456788899999989999888887665543
No 14
>PHA02546 47 endonuclease subunit; Provisional
Probab=95.74 E-value=0.054 Score=52.99 Aligned_cols=144 Identities=15% Similarity=0.194 Sum_probs=76.0
Q ss_pred CceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEE--EcC-CchhhhhccCCCCChHHH
Q psy8633 156 SSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMG--TSG-QPVSDIAKFSNLSNPLDI 232 (327)
Q Consensus 156 ~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlg--tsG-q~i~di~k~~~~~~~l~~ 232 (327)
..++|.++|||||..........-...+| ..+.+++....|..+.++|+.+.+ +.+ .++.+++++.+.+.+
T Consensus 75 ~gi~v~~I~GNHD~~~~~~~~~~~~~~ll---~~~~~v~v~~~~~~v~i~g~~i~~lP~~~~~~~~~~~~~l~~~~~--- 148 (340)
T PHA02546 75 AGITLHVLVGNHDMYYKNTIRPNAPTELL---GQYDNITVIDEPTTVDFDGCSIDLIPWICKENTEEILEFIKNSKS--- 148 (340)
T ss_pred CCCeEEEEccCCCcccccccccCchHHHH---hhCCCEEEeCCceEEEECCEEEEECCCCCHHHHHHHHHHhccCCC---
Confidence 36899999999998532211111111222 234678888999999999998765 332 244454444322111
Q ss_pred HHHHHhcccCCCC----CCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecC---CCCC---C
Q psy8633 233 LEYTLRCGHVAPT----APDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVP---DFFS---S 302 (327)
Q Consensus 233 m~~~L~~rHlaPt----aPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP---~F~~---t 302 (327)
.+--.|+.-. ++.. .. ...-||-.+....- .+.||-|+.... .+++-.--| +|++ .
T Consensus 149 ---~ill~H~~v~g~~~~~g~-~~--~~~~~~~~~~~fdy-vALGHiH~~~~~-------~~i~Y~GSp~~~sf~E~~~~ 214 (340)
T PHA02546 149 ---EYCVGHWELNGFYFYKGM-KS--DHGLDPDFLKKYKQ-VWSGHFHTISEK-------GNVTYIGTPYTLTAGDENDP 214 (340)
T ss_pred ---cEEEEeeEEecCcccCCC-cc--ccCCChhHhccCCE-EeecccccCccc-------CCEEEeCCceeeCccccCCC
Confidence 1223454211 1110 00 01123434444433 589999986432 112222222 3664 5
Q ss_pred CeEEEEeCCCCcEEEEE
Q psy8633 303 RTVAILNLSTLECHSLV 319 (327)
Q Consensus 303 ~~~vlvnl~tl~~~~v~ 319 (327)
+.+++||+++.+.+.+.
T Consensus 215 KG~~~vd~~~~~~efip 231 (340)
T PHA02546 215 RGFWVFDTETHKLEFIA 231 (340)
T ss_pred CeEEEEECCCCceEEEe
Confidence 67889999988765443
No 15
>cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit. PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain.
Probab=95.68 E-value=0.042 Score=42.75 Aligned_cols=49 Identities=18% Similarity=0.240 Sum_probs=40.7
Q ss_pred eEEEecCCceEEEEec---cc----ccccccceEEEEEeeEecC-CcEEEEEEEecC
Q psy8633 88 ELILEDELQRIPLHGN---ID----IHNQVTGVVVAIKGTPVGN-GKFKVSDVCYAT 136 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~---~~----~~~lvTG~Vvav~G~~~~~-G~F~V~di~~p~ 136 (327)
.+.|||.+|++.+.-- .. .+.+..|.++.|.|..... +++.+++|++|+
T Consensus 20 ~~~leD~~G~~Ev~~F~~~~~~~~~~~~l~~d~~v~v~g~v~~~~~~l~~~~I~~~~ 76 (79)
T cd04490 20 IVELEDTTGRITVLLTKDKEELFEEAEDILPDEVIGVSGTVSKDGGLIFADEIFRPD 76 (79)
T ss_pred EEEEECCCCEEEEEEeCchhhhhhhhhhccCCCEEEEEEEEecCCCEEEEEEeEcCC
Confidence 8899999999999842 22 4578999999999998642 369999999998
No 16
>TIGR01854 lipid_A_lpxH UDP-2,3-diacylglucosamine hydrolase. This model represents LpxH, UDP-2,3-diacylglucosamine hydrolase, and essential enzyme in E. coli that catalyzes the fourth step in lipid A biosynthesis. Note that Pseudomonas aeruginosa has both a member of this family that shares this function and a more distant homolog, designated LpxH2, that does not. Many species that produce lipid A lack an lpxH gene in this family; some of those species have an lpxH2 gene instead, although for which the function is unknown.
Probab=95.67 E-value=0.015 Score=53.62 Aligned_cols=140 Identities=13% Similarity=0.245 Sum_probs=80.5
Q ss_pred CceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchh--hh-hc-cCC-CCCh-
Q psy8633 156 SSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVS--DI-AK-FSN-LSNP- 229 (327)
Q Consensus 156 ~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~--di-~k-~~~-~~~~- 229 (327)
..++|..++||||.... .. |. +..++....|+..++++|.+++.+||..+. |- ++ +.. ..++
T Consensus 67 ~~~~v~~v~GNHD~~~~--------~~-~~---~~~gi~~l~~~~~~~~~g~~ill~HGd~~~~~d~~y~~~r~~~r~~~ 134 (231)
T TIGR01854 67 QGVPCYFMHGNRDFLIG--------KR-FA---REAGMTLLPDPSVIDLYGQKVLLMHGDTLCTDDTAYQAFRAKVHQPW 134 (231)
T ss_pred CCCeEEEEcCCCchhhh--------HH-HH---HHCCCEEECCCEEEEECCEEEEEEcCccccCCCHHHHHHHHHHhCHH
Confidence 35899999999997421 11 11 113688999999999999999999999873 31 11 111 0111
Q ss_pred ------------HHHHHHHHhc----ccCCCCCC-CceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEE
Q psy8633 230 ------------LDILEYTLRC----GHVAPTAP-DTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVR 292 (327)
Q Consensus 230 ------------l~~m~~~L~~----rHlaPtaP-dtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~ 292 (327)
...+...++. .+. .-+ ..+..-|. .-.-++-..-++++++||.|.-....+.. ++..++
T Consensus 135 ~~~~~~~l~~~~r~~l~~~~~~~s~~~~~--~~~~~~~~~~~~-~~~~~~~~~~~~~~i~GHtH~~~~~~~~~-~~~~~~ 210 (231)
T TIGR01854 135 LQRLFLHLPLAVRVKLARKIRAESRADKQ--MKSQDIMDVNPA-EVAAVMRRYGVDRLIHGHTHRPAIHPLQA-DGQPAT 210 (231)
T ss_pred HHHHHHhCCHHHHHHHHHHHHHHHHHhcC--CCcchhhCCCHH-HHHHHHHHcCCCEEEECCccCcceeeccc-CCCccE
Confidence 1112222221 111 111 11000010 00011113367899999999777665432 344577
Q ss_pred EEecCCCCCCCeEEEEeCC
Q psy8633 293 LISVPDFFSSRTVAILNLS 311 (327)
Q Consensus 293 lv~vP~F~~t~~~vlvnl~ 311 (327)
-+..++|.+.+++..+|-+
T Consensus 211 ~~~lgdW~~~~~~~~~~~~ 229 (231)
T TIGR01854 211 RIVLGDWYRQGSILRVDAD 229 (231)
T ss_pred EEEECCCccCCeEEEEcCC
Confidence 8889999999998887753
No 17
>cd08163 MPP_Cdc1 Saccharomyces cerevisiae CDC1 and related proteins, metallophosphatase domain. Cdc1 (also known as XlCdc1 in Xenopus laevis) is an endoplasmic reticulum-localized transmembrane lipid phosphatase with a metallophosphatase domain facing the ER lumen. In budding yeast, the gene encoding CDC1 is essential while nonlethal mutations cause defects in Golgi inheritance and actin polarization. Cdc1 mutant cells accumulate an unidentified phospholipid, suggesting that Cdc1 is a lipid phosphatase. Cdc1 mutant cells also have highly elevated intracellular calcium levels suggesting a possible role for Cdc1 in calcium regulation. The 5' flanking region of Cdc1 is a regulatory region with conserved binding site motifs for AP1, AP2, Sp1, NF-1 and CREB. DNA polymerase delta consists of at least four subunits - Pol3, Cdc1, Cdc27, and Cdm1. Cdc1 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site
Probab=95.25 E-value=0.075 Score=50.18 Aligned_cols=137 Identities=17% Similarity=0.266 Sum_probs=78.3
Q ss_pred ceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCCCCChHHHHHHH
Q psy8633 157 SIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLDILEYT 236 (327)
Q Consensus 157 ~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~~m~~~ 236 (327)
.+++..+|||||-.-... .....-.+|...-.-+| +.+.++|.+|++..+..+.......-.....+.++..
T Consensus 84 ~~pv~~VpGNHDig~~~~-------~~~~~~~rf~~~Fg~~~-~~~~~~~~~fV~Lds~~l~~~~~~~~~~~~~~~l~~~ 155 (257)
T cd08163 84 RKMVESLPGNHDIGFGNG-------VVLPVRQRFEKYFGPTS-RVIDVGNHTFVILDTISLSNKDDPDVYQPPREFLHSF 155 (257)
T ss_pred cceEEEeCCCcccCCCCC-------CCHHHHHHHHHHhCCCc-eEEEECCEEEEEEccccccCCcccccchhHHHHHHhh
Confidence 468999999999532110 00000112211111244 6889999999998887665432221112244545554
Q ss_pred Hhc----------ccCCCCCCCceecCcCCCCCCe-----------eec----------CCCcEEEcCCccccceeEEee
Q psy8633 237 LRC----------GHVAPTAPDTLACYPFYDNDPM-----------IIE----------SCPDVYFTGNQSKFETKTIEI 285 (327)
Q Consensus 237 L~~----------rHlaPtaPdtl~~~P~~~~Dpf-----------vi~----------~~Phv~f~Gn~~~f~~~~~~~ 285 (327)
|.. .|.=.--+....|=|..+.++. +|. --|.+.|+||-|.|..-.+.-
T Consensus 156 l~~~~~~~p~ILl~H~Plyr~~~~~cg~~re~~~~~~~~~g~~yq~~l~~~~s~~il~~~~P~~vfsGhdH~~C~~~h~~ 235 (257)
T cd08163 156 SAMKVKSKPRILLTHVPLYRPPNTSCGPLRESKTPLPYGYGYQYQNLLEPSLSEVILKAVQPVIAFSGDDHDYCEVVHEY 235 (257)
T ss_pred hhccCCCCcEEEEeccccccCCCCCCCCccccCCCCCCCCCccceeecCHHHHHHHHHhhCCcEEEecCCCccceeEccc
Confidence 432 2221112223567776555532 332 259999999999999887651
Q ss_pred ---cCCceEEEEecCCCCC
Q psy8633 286 ---EKDKNVRLISVPDFFS 301 (327)
Q Consensus 286 ---~~~~~v~lv~vP~F~~ 301 (327)
.....++=|+|++||=
T Consensus 236 ~~~~~~~~~~E~tv~S~s~ 254 (257)
T cd08163 236 QFNGKSGSTREITVKSISM 254 (257)
T ss_pred ccCCCCCCceEEEeccccc
Confidence 1235689999999973
No 18
>cd00841 MPP_YfcE Escherichia coli YfcE and related proteins, metallophosphatase domain. YfcE is a manganase-dependent metallophosphatase, found in bacteria and archaea, that cleaves bis-p-nitrophenyl phosphate, thymidine 5'-monophosphate-p-nitrophenyl ester, and p-nitrophenyl phosphorylcholine, but is unable to hydrolyze 2',3 ' or 3',5' cyclic nucleic phosphodiesters, and various phosphomonoesters, including p-nitrophenyl phosphate. This family also includes the Bacilus subtilis YsnB and Methanococcus jannaschii MJ0936 proteins. This domain family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid ph
Probab=93.43 E-value=0.62 Score=39.46 Aligned_cols=100 Identities=24% Similarity=0.207 Sum_probs=60.4
Q ss_pred eeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCCCCChHHHHHHHH
Q psy8633 158 IEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLDILEYTL 237 (327)
Q Consensus 158 i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~~m~~~L 237 (327)
.++..++||||.... +........++++|.+++.+||-...... ..+. ..
T Consensus 47 ~~~~~V~GNhD~~~~--------------------~~~~p~~~~~~~~g~~i~v~Hg~~~~~~~-------~~~~-~~-- 96 (155)
T cd00841 47 APVIAVRGNCDGEVD--------------------FPILPEEAVLEIGGKRIFLTHGHLYGVKN-------GLDR-LY-- 96 (155)
T ss_pred CcEEEEeCCCCCcCC--------------------cccCCceEEEEECCEEEEEECCccccccc-------chhh-hh--
Confidence 468899999998643 01112224578999999999997643210 0000 00
Q ss_pred hcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecC-----CCCCCCeEEEEeCCC
Q psy8633 238 RCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVP-----DFFSSRTVAILNLST 312 (327)
Q Consensus 238 ~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP-----~F~~t~~~vlvnl~t 312 (327)
+.-..-.+++++||.|........ +++++.-. .+...++.+++++..
T Consensus 97 -----------------------~~~~~~~d~vi~GHtH~~~~~~~~-----~~~~inpGs~~~~~~~~~~~~~i~~~~~ 148 (155)
T cd00841 97 -----------------------LAKEGGADVVLYGHTHIPVIEKIG-----GVLLLNPGSLSLPRGGGPPTYAILEIDD 148 (155)
T ss_pred -----------------------hhhhcCCCEEEECcccCCccEEEC-----CEEEEeCCCccCcCCCCCCeEEEEEecC
Confidence 011223489999999988766542 25565543 344456889999984
Q ss_pred -CcE
Q psy8633 313 -LEC 315 (327)
Q Consensus 313 -l~~ 315 (327)
+++
T Consensus 149 ~~~~ 152 (155)
T cd00841 149 KGEV 152 (155)
T ss_pred CCcE
Confidence 444
No 19
>cd07402 MPP_GpdQ Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain. GpdQ (glycerophosphodiesterase Q, also known as Rv0805 in Mycobacterium tuberculosis) is a binuclear metallophosphoesterase from Enterobacter aerogenes that catalyzes the hydrolysis of mono-, di-, and triester substrates, including some organophosphate pesticides and products of the degradation of nerve agents. The GpdQ homolog, Rv0805, has 2',3'-cyclic nucleotide phosphodiesterase activity. GpdQ and Rv0805 belong to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosa
Probab=92.58 E-value=0.25 Score=44.81 Aligned_cols=126 Identities=17% Similarity=0.247 Sum_probs=65.0
Q ss_pred ceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCCCCChHHHHHHH
Q psy8633 157 SIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLDILEYT 236 (327)
Q Consensus 157 ~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~~m~~~ 236 (327)
.+|+..+|||||-.... ...|..... . .. .--+.++++|++|++..+..-..-..+. .+..+++|+..
T Consensus 70 ~~p~~~v~GNHD~~~~~-------~~~~~~~~~--~-~~-~~~~~~~~~~~~~i~lds~~~~~~~~~~-~~~ql~wL~~~ 137 (240)
T cd07402 70 PIPVYLLPGNHDDRAAM-------RAVFPELPP--A-PG-FVQYVVDLGGWRLILLDSSVPGQHGGEL-CAAQLDWLEAA 137 (240)
T ss_pred CCCEEEeCCCCCCHHHH-------HHhhccccc--c-cc-ccceeEecCCEEEEEEeCCCCCCcCCEE-CHHHHHHHHHH
Confidence 67899999999974211 111211100 0 00 0124688899999998654311100000 13367788888
Q ss_pred Hhcc---------cCCCCCCCc--eecCcCCCCCCe--eecCC--CcEEEcCCccccceeEEeecCCceEEEEecCCC
Q psy8633 237 LRCG---------HVAPTAPDT--LACYPFYDNDPM--IIESC--PDVYFTGNQSKFETKTIEIEKDKNVRLISVPDF 299 (327)
Q Consensus 237 L~~r---------HlaPtaPdt--l~~~P~~~~Dpf--vi~~~--Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F 299 (327)
|+.. |..|..... ...+......-| ++.+. ++++++||.|......+.| +.++..|+.
T Consensus 138 L~~~~~~~~il~~H~pp~~~~~~~~~~~~~~~~~~~~~~l~~~~~v~~v~~GH~H~~~~~~~~g-----~~~~~~gs~ 210 (240)
T cd07402 138 LAEAPDKPTLVFLHHPPFPVGIAWMDAIGLRNAEALAAVLARHPNVRAILCGHVHRPIDGSWGG-----IPLLTAPST 210 (240)
T ss_pred HHhCCCCCEEEEECCCCccCCchhhhhhhCCCHHHHHHHHhcCCCeeEEEECCcCchHHeEECC-----EEEEEcCcc
Confidence 7754 333332211 000000000111 34554 4779999999987776633 677777763
No 20
>TIGR00040 yfcE phosphoesterase, MJ0936 family. Members of this largely uncharacterized family share a motif approximating DXH(X25)GDXXD(X25)GNHD as found in several phosphoesterases, including the nucleases SbcD and Mre11, and a family of uncharacterized archaeal putative phosphoesterases described by TIGR00024. In this family, the His residue in GNHD portion of the motif is not conserved. The member MJ0936, one of two from Methanococcus jannaschii, was shown (PubMed:15128743) to act on model phosphodiesterase substrates; a divalent cation was required.
Probab=91.82 E-value=1.8 Score=36.98 Aligned_cols=100 Identities=24% Similarity=0.210 Sum_probs=59.9
Q ss_pred eeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCCCCChHHHHHHHH
Q psy8633 158 IEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLDILEYTL 237 (327)
Q Consensus 158 i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~~m~~~L 237 (327)
.++...+||||--...+|. -..++++|.+++.+||-. +.+..+ .+.++...
T Consensus 52 ~~~~~V~GN~D~~~~~~~~----------------------~~~~~~~g~~i~l~Hg~~------~~~~~~-~~~l~~~~ 102 (158)
T TIGR00040 52 AKVIAVRGNNDGERDELPE----------------------EEIFEAEGIDFGLVHGDL------VYPRGD-LLVLEYLA 102 (158)
T ss_pred CceEEEccCCCchhhhCCc----------------------ceEEEECCEEEEEEeCcc------cccCCC-HHHHHHHH
Confidence 4689999999974322221 146889999999999975 112111 12121111
Q ss_pred hcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecC-----CCCCCCeEEEEeCCC
Q psy8633 238 RCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVP-----DFFSSRTVAILNLST 312 (327)
Q Consensus 238 ~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP-----~F~~t~~~vlvnl~t 312 (327)
-+.-.+++++||.|......+.+ +.++.-+ .+....+..++++.+
T Consensus 103 -------------------------~~~~~d~vi~GHtH~~~~~~~~~-----~~~iNpGs~~~~~~~~~~~~~il~~~~ 152 (158)
T TIGR00040 103 -------------------------KELGVDVLIFGHTHIPVAEELRG-----ILLINPGSLTGPRNGNTPSYAILDVDK 152 (158)
T ss_pred -------------------------hccCCCEEEECCCCCCccEEECC-----EEEEECCccccccCCCCCeEEEEEecC
Confidence 01123789999999876665432 4444443 344456888888877
Q ss_pred CcEE
Q psy8633 313 LECH 316 (327)
Q Consensus 313 l~~~ 316 (327)
-+.+
T Consensus 153 ~~~~ 156 (158)
T TIGR00040 153 DKVT 156 (158)
T ss_pred CeEE
Confidence 5543
No 21
>PRK09453 phosphodiesterase; Provisional
Probab=91.78 E-value=1.8 Score=38.01 Aligned_cols=99 Identities=22% Similarity=0.189 Sum_probs=57.3
Q ss_pred ceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCCCCChHHHHHHH
Q psy8633 157 SIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLDILEYT 236 (327)
Q Consensus 157 ~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~~m~~~ 236 (327)
..++.+++||||... .|.-.. ++. .....+++++|.+++.+||-.... +.+
T Consensus 63 ~~~v~~V~GNhD~~~---~~~~~~---~~~---------~~~~~~~~l~g~~i~l~HG~~~~~-----------~~~--- 113 (182)
T PRK09453 63 ADKIIAVRGNCDSEV---DQMLLH---FPI---------MAPYQQVLLEGKRLFLTHGHLYGP-----------ENL--- 113 (182)
T ss_pred CCceEEEccCCcchh---hhhccC---Ccc---------cCceEEEEECCeEEEEECCCCCCh-----------hhc---
Confidence 357999999999632 111000 111 122355889999999999943320 000
Q ss_pred HhcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecCCC-----CCCCeEEEEeCC
Q psy8633 237 LRCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVPDF-----FSSRTVAILNLS 311 (327)
Q Consensus 237 L~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F-----~~t~~~vlvnl~ 311 (327)
+ .. .-.+++++||.|.-...... .+++++-.+- ....+.++++++
T Consensus 114 -----------------~-~~-------~~~d~vi~GHtH~p~~~~~~-----~~~~iNpGs~~~p~~~~~~s~~il~~~ 163 (182)
T PRK09453 114 -----------------P-AL-------HDGDVLVYGHTHIPVAEKQG-----GIILFNPGSVSLPKGGYPASYGILDDN 163 (182)
T ss_pred -----------------c-cc-------cCCCEEEECCCCCCcceEEC-----CEEEEECCCccccCCCCCCeEEEEECC
Confidence 0 01 12479999999976555432 2555555442 234588888886
Q ss_pred CCc
Q psy8633 312 TLE 314 (327)
Q Consensus 312 tl~ 314 (327)
+++
T Consensus 164 ~~~ 166 (182)
T PRK09453 164 VLS 166 (182)
T ss_pred cEE
Confidence 543
No 22
>cd07394 MPP_Vps29 Homo sapiens Vps29 and related proteins, metallophosphatase domain. Vps29 (vacuolar sorting protein 29), also known as vacuolar membrane protein Pep11, is a subunit of the retromer complex which is responsible for the retrieval of mannose-6-phosphate receptors (MPRs) from the endosomes for retrograde transport back to the Golgi. Vps29 has a phosphoesterase fold that acts as a protein interaction scaffold for retromer complex assembly as well as a phosphatase with specificity for the cytoplasmic tail of the MPR. The retromer includes the following 5 subunits: Vps35, Vps26, Vps29, and a dimer of the sorting nexins Vps5 (Snx1), and Vps17 (Snx2). Vps29 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily incl
Probab=90.74 E-value=8.6 Score=34.03 Aligned_cols=96 Identities=19% Similarity=0.237 Sum_probs=59.7
Q ss_pred eEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCCCCChHHHHHHHHh
Q psy8633 159 EVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLDILEYTLR 238 (327)
Q Consensus 159 ~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~~m~~~L~ 238 (327)
++....||+|... -+|.. ..++++|.+++.+||-.. .+. ...+.+....+
T Consensus 54 ~~~~V~GN~D~~~-----------~lp~~------------~~~~~~g~~i~l~HG~~~------~~~-~~~~~~~~~~~ 103 (178)
T cd07394 54 DVHIVRGDFDENL-----------NYPET------------KVITVGQFKIGLIHGHQV------VPW-GDPDSLAALQR 103 (178)
T ss_pred ceEEEECCCCccc-----------cCCCc------------EEEEECCEEEEEEECCcC------CCC-CCHHHHHHHHH
Confidence 6889999999642 12211 368999999999999532 111 11122222221
Q ss_pred cccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecCCCCC---------CCeEEEEe
Q psy8633 239 CGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVPDFFS---------SRTVAILN 309 (327)
Q Consensus 239 ~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F~~---------t~~~vlvn 309 (327)
. .-++|+++||.|........ +++++.-.+-+. ..+.++++
T Consensus 104 ~-------------------------~~~dvii~GHTH~p~~~~~~-----g~~viNPGSv~~~~~~~~~~~~~syail~ 153 (178)
T cd07394 104 Q-------------------------LDVDILISGHTHKFEAFEHE-----GKFFINPGSATGAFSPLDPNVIPSFVLMD 153 (178)
T ss_pred h-------------------------cCCCEEEECCCCcceEEEEC-----CEEEEECCCCCCCCCCCCCCCCCeEEEEE
Confidence 1 12289999999987766543 367777666541 35888888
Q ss_pred CCCCc
Q psy8633 310 LSTLE 314 (327)
Q Consensus 310 l~tl~ 314 (327)
+++-.
T Consensus 154 ~~~~~ 158 (178)
T cd07394 154 IQGSK 158 (178)
T ss_pred ecCCe
Confidence 86544
No 23
>PRK04036 DNA polymerase II small subunit; Validated
Probab=90.60 E-value=0.22 Score=51.51 Aligned_cols=51 Identities=18% Similarity=0.244 Sum_probs=37.1
Q ss_pred CccccCCcEEEeCCCCchhhhhhhhhcCCceeEEeecccc-------------cCCceEEEEEceeeec
Q psy8633 1 MIIESCPDVYFTGNQSKFETKTIEIEKGKSVSVLKLSDLN-------------ETDTEECVIIGTLFKH 56 (327)
Q Consensus 1 fi~~~~phvYf~gnq~~~~~~~a~~kwg~~v~i~~l~~~~-------------~~~~~~~viiGTL~k~ 56 (327)
|+|+++||+||+|+++++.++... .+.++.++.|. +++...+++++||.++
T Consensus 435 lvi~~~Pdv~~~GH~H~~~~~~~~-----g~~~IN~gsf~~~t~fq~~~~~~p~~~~~~lv~l~tl~~~ 498 (504)
T PRK04036 435 LVIDEVPDIFHTGHVHINGYGKYR-----GVLLINSGTWQAQTEFQKRVNIVPTPARVPIVDLDTLEVT 498 (504)
T ss_pred EEEecCCCEEEeCCCCccceEEEC-----CEEEEECCcccccccccceeccCCCCCEEEEEECCCCcEE
Confidence 678999999999999998776644 24444555553 3567777889998754
No 24
>PF12850 Metallophos_2: Calcineurin-like phosphoesterase superfamily domain; InterPro: IPR024654 Domains in this entry are members of the calcineurin-like phosphoesterase domain superfamily [].; PDB: 2GJU_A 1Z2W_A 1Z2X_B 3PSO_B 3PSN_B 1W24_A 2R17_B 3QFN_B 3QFO_A 3QFM_A ....
Probab=89.79 E-value=1.8 Score=36.04 Aligned_cols=104 Identities=17% Similarity=0.229 Sum_probs=61.4
Q ss_pred ceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCCCCChHHHHHHH
Q psy8633 157 SIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLDILEYT 236 (327)
Q Consensus 157 ~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~~m~~~ 236 (327)
.+++..++||||-.. |+.... .....+-..+++++.+++.+||...+.. ...+.+...
T Consensus 47 ~~~~~~v~GNHD~~~------------~~~~~~---~~~~~~~~~~~~~~~~i~~~H~~~~~~~-------~~~~~~~~~ 104 (156)
T PF12850_consen 47 DIPVYVVRGNHDNWA------------FPNEND---EEYLLDALRLTIDGFKILLSHGHPYDVQ-------WDPAELREI 104 (156)
T ss_dssp HHEEEEE--CCHSTH------------HHSEEC---TCSSHSEEEEEETTEEEEEESSTSSSST-------TTHHHHHHH
T ss_pred cCCEEEEeCCccccc------------chhhhh---ccccccceeeeecCCeEEEECCCCcccc-------cChhhhhhh
Confidence 448999999999221 111100 0015556678889999999999665511 111112222
Q ss_pred HhcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceEEEEecCCCC-----CCCeEEEEeCC
Q psy8633 237 LRCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVPDFF-----SSRTVAILNLS 311 (327)
Q Consensus 237 L~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F~-----~t~~~vlvnl~ 311 (327)
+. ..-++++++||.|.-..... ....+++.+++. +.++.+++|++
T Consensus 105 ~~-------------------------~~~~~~~~~GH~H~~~~~~~-----~~~~~~~~Gs~~~~~~~~~~~~~i~~~~ 154 (156)
T PF12850_consen 105 LS-------------------------RENVDLVLHGHTHRPQVFKI-----GGIHVINPGSIGGPRHGDQSGYAILDIE 154 (156)
T ss_dssp HH-------------------------HTTSSEEEESSSSSEEEEEE-----TTEEEEEE-GSSS-SSSSSEEEEEEEET
T ss_pred hc-------------------------ccCCCEEEcCCcccceEEEE-----CCEEEEECCcCCCCCCCCCCEEEEEEEe
Confidence 21 23478899999998666542 226777776543 47888999987
Q ss_pred C
Q psy8633 312 T 312 (327)
Q Consensus 312 t 312 (327)
+
T Consensus 155 ~ 155 (156)
T PF12850_consen 155 D 155 (156)
T ss_dssp T
T ss_pred c
Confidence 6
No 25
>COG0622 Predicted phosphoesterase [General function prediction only]
Probab=85.42 E-value=22 Score=31.64 Aligned_cols=89 Identities=26% Similarity=0.300 Sum_probs=61.6
Q ss_pred cCCcEEEECCEEEEEEcCCchhhhhccCCCCChHHHHHHHHhcccCCCCCCCceecCcCCCCCCeeecCCCcEEEcCCcc
Q psy8633 197 TNPYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLDILEYTLRCGHVAPTAPDTLACYPFYDNDPMIIESCPDVYFTGNQS 276 (327)
Q Consensus 197 tNP~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~~m~~~L~~rHlaPtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~ 276 (327)
.....++++|++|+.+||--+. .+. -...++.+.+-+. -||.+-||.|
T Consensus 72 p~~~~~~~~g~ki~l~HGh~~~--~~~-----~~~~l~~la~~~~-------------------------~Dvli~GHTH 119 (172)
T COG0622 72 PEELVLEVGGVKIFLTHGHLYF--VKT-----DLSLLEYLAKELG-------------------------ADVLIFGHTH 119 (172)
T ss_pred ChhHeEEECCEEEEEECCCccc--ccc-----CHHHHHHHHHhcC-------------------------CCEEEECCCC
Confidence 3446799999999999994433 221 1122333332222 6899999999
Q ss_pred ccceeEEeecCCceEEEE-----ecCCCCCCCeEEEEeCCCCcEEEEEEcc
Q psy8633 277 KFETKTIEIEKDKNVRLI-----SVPDFFSSRTVAILNLSTLECHSLVVED 322 (327)
Q Consensus 277 ~f~~~~~~~~~~~~v~lv-----~vP~F~~t~~~vlvnl~tl~~~~v~F~~ 322 (327)
+.......+ +.+| |.|..+...+.+++|..+.+.+...+..
T Consensus 120 ~p~~~~~~~-----i~~vNPGS~s~pr~~~~~sy~il~~~~~~~~~~~~~~ 165 (172)
T COG0622 120 KPVAEKVGG-----ILLVNPGSVSGPRGGNPASYAILDVDNLEVEVLFLER 165 (172)
T ss_pred cccEEEECC-----EEEEcCCCcCCCCCCCCcEEEEEEcCCCEEEEEEeec
Confidence 988887543 4444 5677776679999999999988877654
No 26
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=84.51 E-value=4 Score=37.86 Aligned_cols=140 Identities=16% Similarity=0.196 Sum_probs=69.0
Q ss_pred ceeEEEcCCCCCCCC-CCCCCCCCC-cCCcCCccCCCCeeeecCCcEEEECC-EEEEEEcCCchhhhhccCCCCChH---
Q psy8633 157 SIEVDLMPGEFDPAN-TTLPQQPLH-PCLFPEASKYSTFHPVTNPYIFEMEG-KLLMGTSGQPVSDIAKFSNLSNPL--- 230 (327)
Q Consensus 157 ~i~V~lmPG~~Dp~~-~~lPQqplh-~~lf~~~~~~~~~~~vtNP~~~~i~g-~~vlgtsGq~i~di~k~~~~~~~l--- 230 (327)
.+++..+|||||..- ..+.+ .+. ...||. ...+.+ ..+.+.| ++|+|..|.+... ..++.-+ .+
T Consensus 62 ~~pv~~V~GNhD~~v~~~l~~-~~~~~~~~p~------~~~lh~-~~~~~~g~~~~~GlGGs~~~~-~e~sE~e-~~~~~ 131 (224)
T cd07388 62 HLPTFYVPGPQDAPLWEYLRE-AYNAELVHPE------IRNVHE-TFAFWRGPYLVAGVGGEIADE-GEPEEHE-ALRYP 131 (224)
T ss_pred CCceEEEcCCCChHHHHHHHH-HhcccccCcc------ceecCC-CeEEecCCeEEEEecCCcCCC-CCcCHHH-Hhhhh
Confidence 468999999999630 11111 000 011121 111222 2455544 8999999988653 1121110 10
Q ss_pred HH-HHHHHhcccCCCCCCCceecCcCCCCCC------------eeecCCCcEEEcCCccccceeEEeecCCceEEEEecC
Q psy8633 231 DI-LEYTLRCGHVAPTAPDTLACYPFYDNDP------------MIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLISVP 297 (327)
Q Consensus 231 ~~-m~~~L~~rHlaPtaPdtl~~~P~~~~Dp------------fvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP 297 (327)
.+ ++..|+.-.-.+..++-|=++. ...+- ||=...|.+.+|||.| -..... .++.+|.-.
T Consensus 132 ~~~~~~~l~~~~~~~~~~~VLv~H~-PP~g~g~~h~GS~alr~~I~~~~P~l~i~GHih-~~~~~~-----g~t~vvNpg 204 (224)
T cd07388 132 AWVAEYRLKALWELKDYRKVFLFHT-PPYHKGLNEQGSHEVAHLIKTHNPLVVLVGGKG-QKHELL-----GASWVVVPG 204 (224)
T ss_pred hhHHHHHHHHHHhCCCCCeEEEECC-CCCCCCCCccCHHHHHHHHHHhCCCEEEEcCCc-eeEEEe-----CCEEEECCC
Confidence 00 1222111111133455544332 11222 2335679999999988 333221 236677776
Q ss_pred CCCCCCeEEEEeCCCCc
Q psy8633 298 DFFSSRTVAILNLSTLE 314 (327)
Q Consensus 298 ~F~~t~~~vlvnl~tl~ 314 (327)
.+++ |..+++|++.-+
T Consensus 205 ~~~~-g~~a~i~~~~~~ 220 (224)
T cd07388 205 DLSE-GRYALLDLRARK 220 (224)
T ss_pred cccC-CcEEEEEecCcc
Confidence 7654 567799988644
No 27
>cd07401 MPP_TMEM62_N Homo sapiens TMEM62, N-terminal metallophosphatase domain. TMEM62 (transmembrane protein 62) is an uncharacterized Homo sapiens transmembrane protein with an N-terminal metallophosphatase domain. TMEM62 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=83.47 E-value=7.6 Score=36.29 Aligned_cols=155 Identities=15% Similarity=0.113 Sum_probs=76.2
Q ss_pred ceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCC-cEEE--ECCEEEEEEcCCchhhhh---ccCC--CCC
Q psy8633 157 SIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNP-YIFE--MEGKLLMGTSGQPVSDIA---KFSN--LSN 228 (327)
Q Consensus 157 ~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP-~~~~--i~g~~vlgtsGq~i~di~---k~~~--~~~ 228 (327)
.+++..+|||||..+....+.+.+ .|. +|......+.. +..+ .+++.|+|.......+-. .+.. .+.
T Consensus 76 ~~p~~~v~GNHD~~~~~~~~~~~~--~~~---~y~~~~~~~~~~~~~~~~~~~~~~I~Ldt~~~~~~~~~~~~~g~l~~~ 150 (256)
T cd07401 76 KEKWFDIRGNHDLFNIPSLDSENN--YYR---KYSATGRDGSFSFSHTTRFGNYSFIGVDPTLFPGPKRPFNFFGSLDKK 150 (256)
T ss_pred cceEEEeCCCCCcCCCCCccchhh--HHH---HhheecCCCccceEEEecCCCEEEEEEcCccCCCCCCCCceeccCCHH
Confidence 578999999999964332232222 221 12111111112 2222 489999999876432111 1111 134
Q ss_pred hHHHHHHHHhcccCCCCCCCc-eec-CcCCCCCC--------e--ee-cCCCcEEEcCCccccce-eEEeecCCceEEEE
Q psy8633 229 PLDILEYTLRCGHVAPTAPDT-LAC-YPFYDNDP--------M--II-ESCPDVYFTGNQSKFET-KTIEIEKDKNVRLI 294 (327)
Q Consensus 229 ~l~~m~~~L~~rHlaPtaPdt-l~~-~P~~~~Dp--------f--vi-~~~Phv~f~Gn~~~f~~-~~~~~~~~~~v~lv 294 (327)
.+++++..|+-. |.+.-+ +-| +|...-++ | +| +.-.+++++||.|..+. ....- +|..--+|
T Consensus 151 ql~wL~~~L~~~---~~~~~~IV~~HhP~~~~~~~~~~~~~~~~~ll~~~~v~~vl~GH~H~~~~~~p~h~-~~~~~~~~ 226 (256)
T cd07401 151 LLDRLEKELEKS---TNSNYTIWFGHYPTSTIISPSAKSSSKFKDLLKKYNVTAYLCGHLHPLGGLEPVHY-AGHPYALI 226 (256)
T ss_pred HHHHHHHHHHhc---ccCCeEEEEEcccchhccCCCcchhHHHHHHHHhcCCcEEEeCCccCCCcceeeee-cCCceEEE
Confidence 567777766521 111111 111 22211111 1 23 34577899999999888 43332 22334466
Q ss_pred ecCCCCCCCe----EEEEeCCCCcEEEEEE
Q psy8633 295 SVPDFFSSRT----VAILNLSTLECHSLVV 320 (327)
Q Consensus 295 ~vP~F~~t~~----~vlvnl~tl~~~~v~F 320 (327)
+-|.=++.-. .-..|.+.-.++++.|
T Consensus 227 ~~p~~~~~~~~~~~~~~~~~~~~~~r~~~f 256 (256)
T cd07401 227 TNPKPSLYLAPVHEPSNFNLHSTHIRVLSF 256 (256)
T ss_pred eCCCChHHcCcccccccccccCCceEEEeC
Confidence 6664332222 3456666666666665
No 28
>cd07398 MPP_YbbF-LpxH Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain. YbbF/LpxH is an Escherichia coli UDP-2,3-diacylglucosamine hydrolase thought to catalyze the fourth step of lipid A biosynthesis, in which a precursor UDP-2,3-diacylglucosamine is hydrolyzed to yield 2,3-diacylglucosamine 1-phosphate and UMP. YbbF belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues l
Probab=82.16 E-value=1.3 Score=39.56 Aligned_cols=55 Identities=20% Similarity=0.324 Sum_probs=40.4
Q ss_pred cCceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCc-EEEECCEEEEEEcCCchhhhh
Q psy8633 155 HSSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPY-IFEMEGKLLMGTSGQPVSDIA 221 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~-~~~i~g~~vlgtsGq~i~di~ 221 (327)
...++|..++||||..-.. .+... .......+|. .++++|.+++.+||-.++...
T Consensus 67 ~~~~~v~~v~GNHD~~~~~---------~~~~~---~~~~~~~~~~~~~~~~g~~~~~~HG~~~d~~~ 122 (217)
T cd07398 67 DRGTRVYYVPGNHDFLLGD---------FFAEE---LGLILLPDPLVHLELDGKRILLEHGDQFDTDD 122 (217)
T ss_pred HCCCeEEEECCCchHHHHh---------HHHHH---cCCEEeccceEEEeeCCeEEEEECCCcCchhH
Confidence 4567899999999974211 11111 2356778888 899999999999999988753
No 29
>COG1311 HYS2 Archaeal DNA polymerase II, small subunit/DNA polymerase delta, subunit B [DNA replication, recombination, and repair]
Probab=78.24 E-value=1.8 Score=44.39 Aligned_cols=37 Identities=32% Similarity=0.426 Sum_probs=29.1
Q ss_pred CccccCCcEEEeCCCCchhhhhhhhhcCCceeEEeeccc
Q psy8633 1 MIIESCPDVYFTGNQSKFETKTIEIEKGKSVSVLKLSDL 39 (327)
Q Consensus 1 fi~~~~phvYf~gnq~~~~~~~a~~kwg~~v~i~~l~~~ 39 (327)
|+|++.||+|-+|+++.|.++..+. ++-+..-+.+++
T Consensus 413 lVIeevPDv~~~Ghvh~~g~~~y~g--v~~vns~T~q~q 449 (481)
T COG1311 413 LVIEEVPDVFHTGHVHKFGTGVYEG--VNLVNSGTWQEQ 449 (481)
T ss_pred eeeccCCcEEEEccccccceeEEec--cceEEeeeecch
Confidence 7899999999999999999988774 333445555555
No 30
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=77.50 E-value=5.5 Score=37.39 Aligned_cols=33 Identities=15% Similarity=0.251 Sum_probs=22.1
Q ss_pred ecCCC--cEEEcCCccccceeEEeecCCceEEEEecCCCC
Q psy8633 263 IESCP--DVYFTGNQSKFETKTIEIEKDKNVRLISVPDFF 300 (327)
Q Consensus 263 i~~~P--hv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F~ 300 (327)
|++.| ..+|+||.|......+. +++++..|+.+
T Consensus 190 l~~~~~v~~vl~GH~H~~~~~~~~-----gi~~~~~ps~~ 224 (275)
T PRK11148 190 LAKFPNVKAILCGHIHQELDLDWN-----GRRLLATPSTC 224 (275)
T ss_pred HhcCCCceEEEecccChHHhceEC-----CEEEEEcCCCc
Confidence 45555 56899999986555443 36777777643
No 31
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=76.86 E-value=1.3 Score=40.64 Aligned_cols=27 Identities=15% Similarity=-0.004 Sum_probs=20.1
Q ss_pred CCcEEEcCCcccccee-EEeecCCceEEEEecC
Q psy8633 266 CPDVYFTGNQSKFETK-TIEIEKDKNVRLISVP 297 (327)
Q Consensus 266 ~Phv~f~Gn~~~f~~~-~~~~~~~~~v~lv~vP 297 (327)
-|...++||.|.--.. .+ ..++++++|
T Consensus 209 ~v~~~i~GH~H~~~~~~~i-----~~~~~~~~~ 236 (239)
T TIGR03729 209 EIKDVIFGHLHRRFGPLTI-----GGTTYHNRP 236 (239)
T ss_pred CCCEEEECCccCCCCCEEE-----CCEEEEecC
Confidence 5889999999977533 22 348899887
No 32
>cd07379 MPP_239FB Homo sapiens 239FB and related proteins, metallophosphatase domain. 239FB (Fetal brain protein 239) is thought to play a role in central nervous system development, but its specific role in unknown. 239FB is expressed predominantly in human fetal brain from a gene located in the chromosome 11p13 region associated with the mental retardation component of the WAGR (Wilms tumor, Aniridia, Genitourinary anomalies, Mental retardation) syndrome. Orthologous brp-like (brain protein 239-like) proteins have been identified in the invertebrate amphioxus group and in vertebrates. 239FB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzyme
Probab=75.24 E-value=14 Score=30.59 Aligned_cols=15 Identities=13% Similarity=0.033 Sum_probs=12.0
Q ss_pred CCCcEEEcCCccccc
Q psy8633 265 SCPDVYFTGNQSKFE 279 (327)
Q Consensus 265 ~~Phv~f~Gn~~~f~ 279 (327)
.-|++.++||.|...
T Consensus 103 ~~~~~~i~GH~H~~~ 117 (135)
T cd07379 103 VRPKLHVFGHIHEGY 117 (135)
T ss_pred HCCcEEEEcCcCCcC
Confidence 347899999999774
No 33
>cd07395 MPP_CSTP1 Homo sapiens CSTP1 and related proteins, metallophosphatase domain. CSTP1 (complete S-transactivated protein 1) is an uncharacterized Homo sapiens protein with a metallophosphatase domain, that is transactivated by the complete S protein of hepatitis B virus. CSTP1 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is th
Probab=74.44 E-value=11 Score=34.74 Aligned_cols=128 Identities=13% Similarity=0.176 Sum_probs=61.9
Q ss_pred CceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhhccCC-CCChHHHHH
Q psy8633 156 SSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIAKFSN-LSNPLDILE 234 (327)
Q Consensus 156 ~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~k~~~-~~~~l~~m~ 234 (327)
..+|+..+|||||-.+....+ .+ .-|. ..+. ..-|.+..+|++|++.+.....+--.+.. ....+++|+
T Consensus 85 ~~vp~~~i~GNHD~~~~~~~~-~~--~~f~--~~~g-----~~~y~~~~~~~~~i~lds~~~~~~~~~~~~~~~ql~WL~ 154 (262)
T cd07395 85 PDIPLVCVCGNHDVGNTPTEE-SI--KDYR--DVFG-----DDYFSFWVGGVFFIVLNSQLFFDPSEVPELAQAQDVWLE 154 (262)
T ss_pred CCCcEEEeCCCCCCCCCCChh-HH--HHHH--HHhC-----CcceEEEECCEEEEEeccccccCccccccchHHHHHHHH
Confidence 357999999999975421000 00 0010 0010 12256788999999886543222111101 123567777
Q ss_pred HHHhc------------ccCCCCCCCcee-cCcCCCCCC-----e--eec-CCCcEEEcCCccccceeEEeecCCceEEE
Q psy8633 235 YTLRC------------GHVAPTAPDTLA-CYPFYDNDP-----M--IIE-SCPDVYFTGNQSKFETKTIEIEKDKNVRL 293 (327)
Q Consensus 235 ~~L~~------------rHlaPtaPdtl~-~~P~~~~Dp-----f--vi~-~~Phv~f~Gn~~~f~~~~~~~~~~~~v~l 293 (327)
..|+- .|. |..+..-. ...+...+. | +++ .--+++|+||.|......+. ++..
T Consensus 155 ~~L~~~~~~~~~~~iv~~H~-P~~~~~~~~~~~~~~~~~~~~~~l~~ll~~~~V~~v~~GH~H~~~~~~~~-----g~~~ 228 (262)
T cd07395 155 EQLEIAKESDCKHVIVFQHI-PWFLEDPDEEDSYFNIPKSVRKPLLDKFKKAGVKAVFSGHYHRNAGGRYG-----GLEM 228 (262)
T ss_pred HHHHHHHhccCCcEEEEECc-CCccCCCCCCcccCCcCHHHHHHHHHHHHhcCceEEEECccccCCceEEC-----CEEE
Confidence 76653 233 22211100 000000000 0 223 33567999999988876653 3555
Q ss_pred EecCCC
Q psy8633 294 ISVPDF 299 (327)
Q Consensus 294 v~vP~F 299 (327)
+..|+.
T Consensus 229 ~~~~~~ 234 (262)
T cd07395 229 VVTSAI 234 (262)
T ss_pred EEcCce
Confidence 665644
No 34
>cd07404 MPP_MS158 Microscilla MS158 and related proteins, metallophosphatase domain. MS158 is an uncharacterized Microscilla protein with a metallophosphatase domain. Microscilla proteins MS152, and MS153 are also included in this family. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is t
Probab=70.17 E-value=8.2 Score=33.02 Aligned_cols=28 Identities=18% Similarity=0.166 Sum_probs=20.0
Q ss_pred CCCcEEEcCCccccceeEEeecCCceEEEEecC
Q psy8633 265 SCPDVYFTGNQSKFETKTIEIEKDKNVRLISVP 297 (327)
Q Consensus 265 ~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP 297 (327)
.-+.+.++||.|.-....+. ++++++-|
T Consensus 136 ~~v~~~i~GH~H~~~~~~~~-----g~~~~~np 163 (166)
T cd07404 136 DPIDLWIHGHTHFNFDYRIG-----GTRVLSNQ 163 (166)
T ss_pred cCCCEEEECCccccceEEEC-----CEEEEecC
Confidence 45788999999987655443 36777765
No 35
>cd00839 MPP_PAPs purple acid phosphatases of the metallophosphatase superfamily, metallophosphatase domain. Purple acid phosphatases (PAPs) belong to a diverse family of binuclear metallohydrolases that have been identified and characterized in plants, animals, and fungi. PAPs contain a binuclear metal center and their characteristic pink or purple color derives from a charge-transfer transition between a tyrosine residue and a chromophoric ferric ion within the binuclear center. PAPs catalyze the hydrolysis of a wide range of activated phosphoric acid mono- and di-esters and anhydrides. PAPs are distinguished from the other phosphatases by their insensitivity to L-(+) tartrate inhibition and are therefore also known as tartrate resistant acid phosphatases (TRAPs). While only a few copies of PAP-like genes are present in mammalian and fungal genomes, multiple copies are present in plant genomes. PAPs belong to the metallophosphatase (MPP) superfamily. MPPs are functionally diver
Probab=69.29 E-value=17 Score=34.02 Aligned_cols=81 Identities=17% Similarity=0.073 Sum_probs=43.9
Q ss_pred cCceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCC-eeeecC-CcEEEECCEEEEEEcCCchhhhhccCCCCChHHH
Q psy8633 155 HSSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYST-FHPVTN-PYIFEMEGKLLMGTSGQPVSDIAKFSNLSNPLDI 232 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~-~~~vtN-P~~~~i~g~~vlgtsGq~i~di~k~~~~~~~l~~ 232 (327)
.+.+|+...|||||-....-..- ....+.......+ .....| -|.+.+++++|++.+...... .-......+++
T Consensus 66 ~~~~P~~~~~GNHD~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Ysf~~g~v~fi~Lds~~~~~--~~~~~~~q~~W 141 (294)
T cd00839 66 ASYVPYMVTPGNHEADYNFSFYK--IKAFFPRFRFPHSPSGSTSNLWYSFDVGPVHFVSLSTEVDFY--GDGPGSPQYDW 141 (294)
T ss_pred HhcCCcEEcCcccccccCCCCcc--cccccccccccCCCCCCCCCceEEEeeCCEEEEEEecccccc--cCCCCcHHHHH
Confidence 45689999999999764332211 1111100000000 011112 267889999999998654332 11123457788
Q ss_pred HHHHHhc
Q psy8633 233 LEYTLRC 239 (327)
Q Consensus 233 m~~~L~~ 239 (327)
|+..|+.
T Consensus 142 L~~~L~~ 148 (294)
T cd00839 142 LEADLAK 148 (294)
T ss_pred HHHHHHH
Confidence 8888874
No 36
>PF03100 CcmE: CcmE; InterPro: IPR004329 CcmE is the product of one of a cluster of Ccm genes that are necessary for cytochrome c biosynthesis in eubacteria. Expression of these proteins is induced when the organisms are grown under anaerobic conditions with nitrate or nitrite as the final electron acceptor.; GO: 0017003 protein-heme linkage, 0017004 cytochrome complex assembly, 0005886 plasma membrane; PDB: 1SR3_A 2KCT_A 1J6Q_A 1LM0_A.
Probab=69.08 E-value=19 Score=30.46 Aligned_cols=47 Identities=17% Similarity=0.173 Sum_probs=36.2
Q ss_pred eEEEecCCceEEEEec-ccccccccceEEEEEeeEecCCcEEEEEEEe
Q psy8633 88 ELILEDELQRIPLHGN-IDIHNQVTGVVVAIKGTPVGNGKFKVSDVCY 134 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-~~~~~lvTG~Vvav~G~~~~~G~F~V~di~~ 134 (327)
.-.|.|...++.+.=. .-++.|--|.-|=|.|+..++|.|++++++-
T Consensus 74 ~F~i~D~~~~i~V~Y~G~~Pd~F~eg~~VVv~G~~~~~g~F~A~~lL~ 121 (131)
T PF03100_consen 74 TFTITDGGKEIPVVYTGPLPDLFREGQGVVVEGRLGEDGVFEATELLA 121 (131)
T ss_dssp EEEEE-SS-EEEEEEES--CTT--TTSEEEEEEEECCTSEEEEEEEEE
T ss_pred EEEEEECCcEEEEEECCCCCccccCCCeEEEEEEECCCCEEEEEEEEe
Confidence 6789999999988744 5678899999999999999999999999984
No 37
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=67.86 E-value=20 Score=27.20 Aligned_cols=36 Identities=19% Similarity=0.072 Sum_probs=28.5
Q ss_pred eEEEecCCceEEEEec-cc-ccccccceEEEEE-eeEec
Q psy8633 88 ELILEDELQRIPLHGN-ID-IHNQVTGVVVAIK-GTPVG 123 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-~~-~~~lvTG~Vvav~-G~~~~ 123 (327)
.+.|.|+||+|++.-. .+ ...+-.|-|+.+. |....
T Consensus 26 ~~~l~D~TG~i~~~~W~~~~~~~~~~G~vv~i~~~~v~~ 64 (82)
T cd04491 26 SGLVGDETGTIRFTLWDEKAADDLEPGDVVRIENAYVRE 64 (82)
T ss_pred EEEEECCCCEEEEEEECchhcccCCCCCEEEEEeEEEEe
Confidence 6999999999999864 22 5678899999999 65443
No 38
>PLN02533 probable purple acid phosphatase
Probab=67.43 E-value=18 Score=36.68 Aligned_cols=116 Identities=21% Similarity=0.307 Sum_probs=60.3
Q ss_pred cCceeEEEcCCCCCCCCCCCCCCCCCcCCcC-CccCCCC-e---eeecCC-cEEEECCEEEEEEcCCchhhhhccCCCCC
Q psy8633 155 HSSIEVDLMPGEFDPANTTLPQQPLHPCLFP-EASKYST-F---HPVTNP-YIFEMEGKLLMGTSGQPVSDIAKFSNLSN 228 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~-~~~~~~~-~---~~vtNP-~~~~i~g~~vlgtsGq~i~di~k~~~~~~ 228 (327)
.+.+|+...|||||-... |+ .++..|. -..+|.. . ....|- |.|..+++.|++.+... .+...+.
T Consensus 196 ~s~~P~m~~~GNHE~~~~--~~--~~~~~f~~y~~rf~mP~~~~g~~~~~yYSfd~g~vhfI~Lds~~-----~~~~~~~ 266 (427)
T PLN02533 196 ASQRPWMVTHGNHELEKI--PI--LHPEKFTAYNARWRMPFEESGSTSNLYYSFNVYGVHIIMLGSYT-----DFEPGSE 266 (427)
T ss_pred hhcCceEEeCcccccccc--cc--ccCcCccchhhcccCCccccCCCCCceEEEEECCEEEEEEeCCc-----cccCchH
Confidence 557899999999997542 11 1111111 1111100 0 011232 45889999999887642 1222345
Q ss_pred hHHHHHHHHhcccCCCCCCC-----ceecCcCC-----C------C---CCeeecCCCcEEEcCCccccce
Q psy8633 229 PLDILEYTLRCGHVAPTAPD-----TLACYPFY-----D------N---DPMIIESCPDVYFTGNQSKFET 280 (327)
Q Consensus 229 ~l~~m~~~L~~rHlaPtaPd-----tl~~~P~~-----~------~---Dpfvi~~~Phv~f~Gn~~~f~~ 280 (327)
.+++|+..|+...-. ..|= --|.|... + + .|++-+.-.+++|+||.|.|+-
T Consensus 267 Q~~WLe~dL~~~~r~-~~pwiIv~~H~P~y~s~~~~~~~~~~~~~r~~le~Ll~~~~VdlvlsGH~H~YeR 336 (427)
T PLN02533 267 QYQWLENNLKKIDRK-TTPWVVAVVHAPWYNSNEAHQGEKESVGMKESMETLLYKARVDLVFAGHVHAYER 336 (427)
T ss_pred HHHHHHHHHHhhccc-CCCEEEEEeCCCeeecccccCCcchhHHHHHHHHHHHHHhCCcEEEecceecccc
Confidence 788888888742100 0110 00111110 0 0 1222245699999999999874
No 39
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=64.73 E-value=30 Score=25.58 Aligned_cols=46 Identities=20% Similarity=0.081 Sum_probs=35.7
Q ss_pred eEEEecCCceEEEEec-----ccccccccceEEEEEeeEecC---C--cEEEEEEE
Q psy8633 88 ELILEDELQRIPLHGN-----IDIHNQVTGVVVAIKGTPVGN---G--KFKVSDVC 133 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-----~~~~~lvTG~Vvav~G~~~~~---G--~F~V~di~ 133 (327)
.+-|||.+|++.+..- -....|..|.+|-+.|..... | ++.++++.
T Consensus 20 ~~~L~D~~~~i~~~~f~~~~~~~~~~l~~g~~v~v~g~v~~~~~~~~~~l~v~~i~ 75 (78)
T cd04489 20 YFTLKDEDASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEPRGGYQLIVEEIE 75 (78)
T ss_pred EEEEEeCCeEEEEEEEcchhhhCCCCCCCCCEEEEEEEEEEECCCCEEEEEEEEEE
Confidence 6889999999999742 224678999999999998732 3 58888875
No 40
>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=64.28 E-value=16 Score=26.69 Aligned_cols=45 Identities=13% Similarity=0.082 Sum_probs=33.6
Q ss_pred eEEEecCCceEEEEec---c--cccccccceEEEEEeeEecC-C--cEEEEEE
Q psy8633 88 ELILEDELQRIPLHGN---I--DIHNQVTGVVVAIKGTPVGN-G--KFKVSDV 132 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~---~--~~~~lvTG~Vvav~G~~~~~-G--~F~V~di 132 (327)
.+.|+|.+|.+.+.-- . ....+..|.++.+.|..... | .+.++++
T Consensus 22 ~~~l~D~tg~~~~~~f~~~~~~~~~~l~~g~~v~v~G~v~~~~~~~~l~~~~i 74 (84)
T cd04485 22 FVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRDGGLRLIAERI 74 (84)
T ss_pred EEEEEeCCCeEEEEECHHHHHHHHHHhcCCCEEEEEEEEEecCCceEEEeecc
Confidence 6889999999999742 1 24568899999999999864 3 3444444
No 41
>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands. The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....
Probab=63.98 E-value=11 Score=27.42 Aligned_cols=37 Identities=19% Similarity=0.061 Sum_probs=29.7
Q ss_pred eEEEecCCceEEEEec-----ccccccccceEEEEEeeEecC
Q psy8633 88 ELILEDELQRIPLHGN-----IDIHNQVTGVVVAIKGTPVGN 124 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-----~~~~~lvTG~Vvav~G~~~~~ 124 (327)
.+.|+|+||+|.+... -..+.+-.|-+|.|.|.....
T Consensus 19 ~~~l~D~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~ 60 (75)
T PF01336_consen 19 FFTLEDGTGSIQVVFFNEEYERFREKLKEGDIVRVRGKVKRY 60 (75)
T ss_dssp EEEEEETTEEEEEEEETHHHHHHHHTS-TTSEEEEEEEEEEE
T ss_pred EEEEEECCccEEEEEccHHhhHHhhcCCCCeEEEEEEEEEEE
Confidence 6889999999999853 235778999999999998753
No 42
>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Probab=63.08 E-value=31 Score=25.41 Aligned_cols=46 Identities=24% Similarity=0.287 Sum_probs=34.8
Q ss_pred eEEEecCCceEEEEec----ccccccccceEEEEEeeEec-CC--cEEEEEEE
Q psy8633 88 ELILEDELQRIPLHGN----IDIHNQVTGVVVAIKGTPVG-NG--KFKVSDVC 133 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~----~~~~~lvTG~Vvav~G~~~~-~G--~F~V~di~ 133 (327)
.+.|||.+|++.+.-- -....+-.|.++-|.|.+.. +| .+.+.++.
T Consensus 22 ~~~l~D~tg~i~~~~f~~~~~~~~~l~~g~~v~v~G~v~~~~~~~~l~~~~i~ 74 (83)
T cd04492 22 ALTLQDKTGEIEAKLWDASEEDEEKFKPGDIVHVKGRVEEYRGRLQLKIQRIR 74 (83)
T ss_pred EEEEEcCCCeEEEEEcCCChhhHhhCCCCCEEEEEEEEEEeCCceeEEEEEEE
Confidence 6899999999999842 12456889999999999874 44 35566665
No 43
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=61.47 E-value=26 Score=29.57 Aligned_cols=41 Identities=27% Similarity=0.237 Sum_probs=30.4
Q ss_pred eEEEecCCceEEEEec-ccccccccceEEEEEeeE-ec-CCcEE
Q psy8633 88 ELILEDELQRIPLHGN-IDIHNQVTGVVVAIKGTP-VG-NGKFK 128 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-~~~~~lvTG~Vvav~G~~-~~-~G~F~ 128 (327)
.+.|.|+||+|++... -+...|-.|-||.|.|.. .. +|.+.
T Consensus 43 ~~~l~D~TG~I~~tlW~~~a~~l~~GdvV~I~na~v~~f~G~lq 86 (129)
T PRK06461 43 EAVVGDETGRVKLTLWGEQAGSLKEGEVVEIENAWTTLYRGKVQ 86 (129)
T ss_pred EEEEECCCCEEEEEEeCCccccCCCCCEEEEECcEEeeeCCEEE
Confidence 5899999999999865 345677889999999543 22 45533
No 44
>cd07396 MPP_Nbla03831 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain. Nbla03831 (also known as LOC56985) is an uncharacterized Homo sapiens protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=60.90 E-value=19 Score=33.65 Aligned_cols=50 Identities=20% Similarity=0.210 Sum_probs=29.3
Q ss_pred ceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCC-cEEEECCEEEEEEcCCch
Q psy8633 157 SIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNP-YIFEMEGKLLMGTSGQPV 217 (327)
Q Consensus 157 ~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP-~~~~i~g~~vlgtsGq~i 217 (327)
.+|+..+|||||--.... .-+. +. + ......+ |.+..+|.++++.++...
T Consensus 73 ~~p~~~v~GNHD~~~~~~--~~~~---~~----~--~~~~~~~yysf~~~~~~~i~lds~~~ 123 (267)
T cd07396 73 KGPVHHVLGNHDLYNPSR--EYLL---LY----T--LLGLGAPYYSFSPGGIRFIVLDGYDI 123 (267)
T ss_pred CCCEEEecCccccccccH--hhhh---cc----c--ccCCCCceEEEecCCcEEEEEeCCcc
Confidence 479999999999764321 0000 00 0 0011222 557788999999887654
No 45
>cd04478 RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA dam
Probab=60.65 E-value=31 Score=26.75 Aligned_cols=42 Identities=17% Similarity=0.225 Sum_probs=32.1
Q ss_pred eEEEecCCceEEEEec----c----cccccccceEEEEEeeEec-CCcEEE
Q psy8633 88 ELILEDELQRIPLHGN----I----DIHNQVTGVVVAIKGTPVG-NGKFKV 129 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~----~----~~~~lvTG~Vvav~G~~~~-~G~F~V 129 (327)
.+.|+|.||+|+..-. . ....+-.|.++.|.|.+.. +|.-.+
T Consensus 19 ~~tL~D~TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~~g~~ql 69 (95)
T cd04478 19 TYTIDDGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQGKKSI 69 (95)
T ss_pred EEEEECCCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccCCeeEE
Confidence 7899999999998743 1 3456888999999999876 345443
No 46
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=59.88 E-value=35 Score=29.76 Aligned_cols=47 Identities=19% Similarity=0.192 Sum_probs=41.0
Q ss_pred eEEEecCCceEEEEec-ccccccccceEEEEEeeEecCCcEEEEEEEe
Q psy8633 88 ELILEDELQRIPLHGN-IDIHNQVTGVVVAIKGTPVGNGKFKVSDVCY 134 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-~~~~~lvTG~Vvav~G~~~~~G~F~V~di~~ 134 (327)
...|.|....|++.=+ +-++.|-.|.-|=+.|++.++|.|.+++++-
T Consensus 74 ~F~ltD~~~~i~V~Y~G~lPd~F~eg~~VVv~G~~~~~g~F~A~~vLa 121 (148)
T PRK13254 74 RFVVTDGNATVPVVYTGILPDLFREGQGVVAEGRLQDGGVFVADEVLA 121 (148)
T ss_pred EEEEEeCCeEEEEEECCCCCccccCCCEEEEEEEECCCCeEEEEEEEe
Confidence 6788999999988754 5688899999999999999889999999985
No 47
>cd00838 MPP_superfamily metallophosphatase superfamily, metallophosphatase domain. Metallophosphatases (MPPs), also known as metallophosphoesterases, phosphodiesterases (PDEs), binuclear metallophosphoesterases, and dimetal-containing phosphoesterases (DMPs), represent a diverse superfamily of enzymes with a conserved domain containing an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. This superfamily includes: the phosphoprotein phosphatases (PPPs), Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive me
Probab=51.72 E-value=6.1 Score=30.87 Aligned_cols=19 Identities=16% Similarity=0.377 Sum_probs=15.5
Q ss_pred cCCCcEEEcCCccccceeE
Q psy8633 264 ESCPDVYFTGNQSKFETKT 282 (327)
Q Consensus 264 ~~~Phv~f~Gn~~~f~~~~ 282 (327)
...++++|+||.|.+....
T Consensus 101 ~~~~~~~~~GH~H~~~~~~ 119 (131)
T cd00838 101 KYGVDLVLSGHTHVYERRE 119 (131)
T ss_pred HhCCCEEEeCCeecccccc
Confidence 5678999999999887654
No 48
>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha
Probab=51.38 E-value=43 Score=23.85 Aligned_cols=41 Identities=20% Similarity=0.176 Sum_probs=31.5
Q ss_pred eEEEecCCceEEEEe-c---ccccccccceEEEEEeeEecC-CcEE
Q psy8633 88 ELILEDELQRIPLHG-N---IDIHNQVTGVVVAIKGTPVGN-GKFK 128 (327)
Q Consensus 88 ~l~LED~sgRi~L~g-~---~~~~~lvTG~Vvav~G~~~~~-G~F~ 128 (327)
.+.+.|++|.+++.- + -....+-.|..+.+.|.+... |..+
T Consensus 21 ~~~~~D~~g~i~~~~F~~~~~~~~~~~~G~~~~v~Gkv~~~~~~~q 66 (75)
T cd04488 21 KVTLSDGTGTLTLVFFNFQPYLKKQLPPGTRVRVSGKVKRFRGGLQ 66 (75)
T ss_pred EEEEEcCCCEEEEEEECCCHHHHhcCCCCCEEEEEEEEeecCCeeE
Confidence 689999999999873 1 224678899999999998864 4343
No 49
>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.
Probab=49.95 E-value=1.2e+02 Score=23.83 Aligned_cols=37 Identities=16% Similarity=0.046 Sum_probs=28.5
Q ss_pred eEEEecCCceEEEEeccc-----------ccccccceEEEEEeeEecC
Q psy8633 88 ELILEDELQRIPLHGNID-----------IHNQVTGVVVAIKGTPVGN 124 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~~~-----------~~~lvTG~Vvav~G~~~~~ 124 (327)
-+.|-|.+|.+.++-+-. ...|-.|.+|.|.|.+...
T Consensus 20 Fi~LrD~sg~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~ 67 (102)
T cd04320 20 FLVLRQQGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKP 67 (102)
T ss_pred EEEEecCCceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECC
Confidence 678899999999975411 1357789999999997764
No 50
>cd07390 MPP_AQ1575 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain. This family includes bacterial and archeal proteins homologous to AQ1575, an uncharacterized Aquifex aeolicus protein. AQ1575 may play an accessory role in DNA repair, based on the close proximity of its gene to Holliday junction resolvasome genes. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a d
Probab=48.65 E-value=27 Score=30.22 Aligned_cols=46 Identities=13% Similarity=0.098 Sum_probs=30.2
Q ss_pred eeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcC
Q psy8633 158 IEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSG 214 (327)
Q Consensus 158 i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsG 214 (327)
.++.+++||||......... .+..+........++++|.+++.+|+
T Consensus 70 ~~~~~v~GNHD~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~i~l~H~ 115 (168)
T cd07390 70 GRKHLIKGNHDSSLERKLLA-----------FLLKFESVLQAVRLKIGGRRVYLSHY 115 (168)
T ss_pred CCeEEEeCCCCchhhhcccc-----------cccccceeeeEEEEEECCEEEEEEeC
Confidence 46999999999654321110 00123345555788999999999995
No 51
>cd04321 ScAspRS_mt_like_N ScAspRS_mt_like_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae mitochondrial (mt) aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this fungal group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Mutations in the gene for
Probab=47.67 E-value=66 Score=24.77 Aligned_cols=37 Identities=16% Similarity=0.029 Sum_probs=27.8
Q ss_pred eEEEecCCc-eEEEEecc------cccccccceEEEEEeeEecC
Q psy8633 88 ELILEDELQ-RIPLHGNI------DIHNQVTGVVVAIKGTPVGN 124 (327)
Q Consensus 88 ~l~LED~sg-Ri~L~g~~------~~~~lvTG~Vvav~G~~~~~ 124 (327)
-+.|.|.+| ++.++-+- ....+-.|.+|+|.|.+...
T Consensus 20 Fi~LrD~~g~~iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~ 63 (86)
T cd04321 20 FADLRDPNGDIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLK 63 (86)
T ss_pred EEEEECCCCCEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeC
Confidence 578899999 68887531 12357789999999987753
No 52
>cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.
Probab=47.67 E-value=67 Score=25.46 Aligned_cols=40 Identities=10% Similarity=0.061 Sum_probs=30.8
Q ss_pred eEEEecCCceEEEEecc-------------------------cccccccceEEEEEeeEec-CCcE
Q psy8633 88 ELILEDELQRIPLHGNI-------------------------DIHNQVTGVVVAIKGTPVG-NGKF 127 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~~-------------------------~~~~lvTG~Vvav~G~~~~-~G~F 127 (327)
.+-|+|.||.|.+.-.. ....+-.|.++-|.|.+.. .|+.
T Consensus 17 ~~tLdDgTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~frg~~ 82 (92)
T cd04483 17 SFGVDDGTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTYRGER 82 (92)
T ss_pred EEEEecCCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEeccCCee
Confidence 78899999999887431 2345899999999999876 4543
No 53
>cd00844 MPP_Dbr1_N Dbr1 RNA lariat debranching enzyme, N-terminal metallophosphatase domain. Dbr1 is an RNA lariat debranching enzyme that hydrolyzes 2'-5' phosphodiester bonds at the branch points of excised intron lariats. This alignment model represents the N-terminal metallophosphatase domain of Dbr1. This domain belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal s
Probab=44.36 E-value=34 Score=32.49 Aligned_cols=54 Identities=15% Similarity=0.110 Sum_probs=37.3
Q ss_pred CceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCc
Q psy8633 156 SSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQP 216 (327)
Q Consensus 156 ~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~ 216 (327)
..+++..++||||..+.. -+.+ + ....-.|+...-+-..++++|++|.|.||.-
T Consensus 72 ~p~~t~fi~GNHE~~~~l-~~l~-~-----gg~v~~Ni~~Lg~~~v~~~~GlrIaGLsG~~ 125 (262)
T cd00844 72 APILTIFIGGNHEASNYL-WELP-Y-----GGWVAPNIYYLGYAGVVNFGGLRIAGLSGIY 125 (262)
T ss_pred CCeeEEEECCCCCCHHHH-Hhhc-C-----CCeecCcEEEecCCCEEEECCeEEEEecccc
Confidence 456789999999976542 1111 0 0111146777778889999999999999953
No 54
>PRK13150 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=42.54 E-value=96 Score=27.51 Aligned_cols=47 Identities=17% Similarity=0.075 Sum_probs=40.9
Q ss_pred eEEEecCCceEEEEec-ccccccccceEEEEEeeEecCCcEEEEEEEe
Q psy8633 88 ELILEDELQRIPLHGN-IDIHNQVTGVVVAIKGTPVGNGKFKVSDVCY 134 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-~~~~~lvTG~Vvav~G~~~~~G~F~V~di~~ 134 (327)
...+.|....|.+.-. +-++.|--|.-|=+.|++.++|.|.+++++-
T Consensus 81 ~F~vtD~~~~v~V~Y~GilPDlFrEG~gVVveG~~~~~g~F~A~evLA 128 (159)
T PRK13150 81 NFSLYDAEGSVTVSYEGILPDLFREGQGVVVQGTLEKGNHVLAHEVLA 128 (159)
T ss_pred EEEEEcCCcEEEEEEeccCCccccCCCeEEEEEEECCCCEEEEeEEEe
Confidence 5778899999988755 6688899999999999999999999999984
No 55
>PF04076 BOF: Bacterial OB fold (BOF) protein; InterPro: IPR005220 Proteins in this entry have an OB-fold fold (oligonucleotide/oligosaccharide binding motif). Analysis of the predicted nucleotide-binding site of the OB-fold suggests that they lack nucleic acid-binding properties. They contain an predicted N-terminal signal peptide which indicates that they localise to the periplasm where they may function to bind proteins, small molecules, or other typical OB-fold ligands. As hypothesised for the distantly related OB-fold containing bacterial enterotoxins, the loss of nucleotide-binding function and the rapid evolution of the OB-fold ligand-binding site may be associated with the presence of members in mobile genetic elements and their potential role in bacterial pathogenicity [].; PDB: 1NNX_A.
Probab=41.38 E-value=85 Score=25.68 Aligned_cols=40 Identities=15% Similarity=0.109 Sum_probs=27.6
Q ss_pred CCeEEEecCCceEEEEec---ccccccccceEEEEEeeEecCC
Q psy8633 86 SDELILEDELQRIPLHGN---IDIHNQVTGVVVAIKGTPVGNG 125 (327)
Q Consensus 86 ~D~l~LED~sgRi~L~g~---~~~~~lvTG~Vvav~G~~~~~G 125 (327)
+|.+.+-|.||+|++..+ -.-..+-.+--|-+.|.+.+++
T Consensus 49 ~d~Y~F~D~TG~I~VeId~~~w~g~~vt~~~~Vri~GeVDk~~ 91 (103)
T PF04076_consen 49 DDKYLFRDATGEIEVEIDDDVWRGQTVTPDDKVRISGEVDKDW 91 (103)
T ss_dssp TTEEEEEETTEEEEEE--GGGSTT----TTSEEEEEEEEEEET
T ss_pred CCEEEEECCCCcEEEEEChhhcCCcccCCCCEEEEEEEEeCCC
Confidence 778999999999999864 2334556677788999988654
No 56
>COG2908 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.97 E-value=19 Score=33.90 Aligned_cols=144 Identities=17% Similarity=0.190 Sum_probs=79.9
Q ss_pred cCceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchhhhh------ccCCCC-
Q psy8633 155 HSSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVSDIA------KFSNLS- 227 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~di~------k~~~~~- 227 (327)
.+..+|..||||||---. ..| +.....++...-|..+.++|.++|..||-.+.-.. +|..-.
T Consensus 65 ~~G~~v~~i~GN~Dfll~---------~~f--~~~~g~~~l~~~~~~~~l~g~~~Ll~HGD~f~t~~~~y~~~r~~~~~~ 133 (237)
T COG2908 65 RKGTRVYYIHGNHDFLLG---------KRF--AQEAGGMTLLPDPIVLDLYGKRILLAHGDTFCTDDRAYQWFRYKVHWA 133 (237)
T ss_pred hcCCeEEEecCchHHHHH---------HHH--HhhcCceEEcCcceeeeecCcEEEEEeCCcccchHHHHHHHHHHcccH
Confidence 556899999999994321 111 22334588899999999999999999997765432 222100
Q ss_pred -ChHHHHHHHHhcccC--------C-------CCCCCceecCcCCCCCCeeecCCCcEEEcCCccccceeEEeecCCceE
Q psy8633 228 -NPLDILEYTLRCGHV--------A-------PTAPDTLACYPFYDNDPMIIESCPDVYFTGNQSKFETKTIEIEKDKNV 291 (327)
Q Consensus 228 -~~l~~m~~~L~~rHl--------a-------PtaPdtl~~~P~~~~Dpfvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v 291 (327)
...-.+-..|+||.- + ..+=+-....|-.-.|-+- ..--+-..+||.|..+.....+ .
T Consensus 134 ~~~~lflnl~l~~R~ri~~k~r~~s~~~k~~~~~~~~i~d~~~~~v~~~~~-~~~vd~vI~GH~Hr~ai~~i~~-----~ 207 (237)
T COG2908 134 WLQLLFLNLPLRVRRRIAYKIRSLSSWAKKKVKKAVNIMDVNPAAVADEAR-RHGVDGVIHGHTHRPAIHNIPG-----I 207 (237)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHhhHHhHHhhhhHHHHHHhhHHHHHHHHH-HcCCCEEEecCcccHhhccCCC-----c
Confidence 011122222333311 0 1111111111110001111 1223566899999888876543 5
Q ss_pred EEEecCCCCCCCeEEEEeCCCCcE
Q psy8633 292 RLISVPDFFSSRTVAILNLSTLEC 315 (327)
Q Consensus 292 ~lv~vP~F~~t~~~vlvnl~tl~~ 315 (327)
+=|..++|...+.++-++=..++-
T Consensus 208 ~yi~lGdW~~~~s~~~v~~~~~~~ 231 (237)
T COG2908 208 TYINLGDWVSEGSILEVDDGGLEL 231 (237)
T ss_pred eEEecCcchhcceEEEEecCcEEE
Confidence 566678998777777776665543
No 57
>cd07392 MPP_PAE1087 Pyrobaculum aerophilum PAE1087 and related proteins, metallophosphatase domain. PAE1087 is an uncharacterized Pyrobaculum aerophilum protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordina
Probab=40.86 E-value=35 Score=29.11 Aligned_cols=47 Identities=19% Similarity=0.283 Sum_probs=28.5
Q ss_pred cCceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCC
Q psy8633 155 HSSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQ 215 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq 215 (327)
...+++..+|||||..... .. +. .......+ ..+.++|.+|+|..|.
T Consensus 50 ~~~~p~~~v~GNHD~~~~~-~~-------~~-----~~~~~~~~-~~~~~~~~~~~g~~~~ 96 (188)
T cd07392 50 AIGVPVLAVPGNCDTPEIL-GL-------LT-----SAGLNLHG-KVVEVGGYTFVGIGGS 96 (188)
T ss_pred hcCCCEEEEcCCCCCHHHH-Hh-------hh-----cCcEecCC-CEEEECCEEEEEeCCC
Confidence 3456899999999974321 10 10 01111222 4667899999999874
No 58
>PF09285 Elong-fact-P_C: Elongation factor P, C-terminal; InterPro: IPR015365 These nucleic acid binding domains are predominantly found in elongation factor P, where they adopt an OB-fold, with five beta-strands forming a beta-barrel in a Greek-key topology []. ; GO: 0043043 peptide biosynthetic process, 0005737 cytoplasm; PDB: 1YBY_A 3OYY_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H.
Probab=37.79 E-value=78 Score=23.15 Aligned_cols=22 Identities=18% Similarity=0.146 Sum_probs=17.0
Q ss_pred EEecCCCCCCCeEEEEeCCCCc
Q psy8633 293 LISVPDFFSSRTVAILNLSTLE 314 (327)
Q Consensus 293 lv~vP~F~~t~~~vlvnl~tl~ 314 (327)
.|.||.|-+.|..+.||.++.+
T Consensus 31 ~i~VP~FI~~Gd~I~VdT~~g~ 52 (56)
T PF09285_consen 31 EIQVPLFIEEGDKIKVDTRDGS 52 (56)
T ss_dssp EEEEETT--TT-EEEEETTTTE
T ss_pred EEEccceecCCCEEEEECCCCe
Confidence 5889999999999999999865
No 59
>PRK07217 replication factor A; Reviewed
Probab=36.62 E-value=77 Score=31.09 Aligned_cols=40 Identities=25% Similarity=0.351 Sum_probs=31.9
Q ss_pred EEecCCceEEEEecc--cccccccceEEEEEeeEec--CCcEEE
Q psy8633 90 ILEDELQRIPLHGNI--DIHNQVTGVVVAIKGTPVG--NGKFKV 129 (327)
Q Consensus 90 ~LED~sgRi~L~g~~--~~~~lvTG~Vvav~G~~~~--~G~F~V 129 (327)
+|+|+||||++.-.- +...+--|-++=+.+...+ +|.+.+
T Consensus 107 llgDETG~IkfT~W~~s~~~~leeGd~~rI~na~v~ey~G~~~l 150 (311)
T PRK07217 107 LLGDETGTIKFTKWAKSDLPELEEGKSYLLKNVVTDEYQGRFSV 150 (311)
T ss_pred EEEcCCceEEEEEccCCCCCcccCCCEEEEEeEEEeeECCEEEE
Confidence 799999999999762 5566888999999988776 366655
No 60
>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco
Probab=35.63 E-value=1.3e+02 Score=20.58 Aligned_cols=37 Identities=24% Similarity=0.101 Sum_probs=29.1
Q ss_pred eEEEecCC-ceEEEEec---cc--ccccccceEEEEEeeEecC
Q psy8633 88 ELILEDEL-QRIPLHGN---ID--IHNQVTGVVVAIKGTPVGN 124 (327)
Q Consensus 88 ~l~LED~s-gRi~L~g~---~~--~~~lvTG~Vvav~G~~~~~ 124 (327)
.+.|+|.+ |.+.+.-. .. ...+-.|.++.+.|.+...
T Consensus 20 ~~~l~D~~~~~i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~~ 62 (75)
T cd03524 20 IFTLTDGTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKKF 62 (75)
T ss_pred EEEEEcCCCCEEEEEEEchHHHHHHhhccCCCEEEEEEEEEec
Confidence 68999999 99999743 11 2468899999999998743
No 61
>PRK07218 replication factor A; Provisional
Probab=35.41 E-value=85 Score=32.05 Aligned_cols=42 Identities=24% Similarity=0.278 Sum_probs=32.6
Q ss_pred eEEEecCCceEEEEecccccccccceEEEEEeeEecC--CcEEE
Q psy8633 88 ELILEDELQRIPLHGNIDIHNQVTGVVVAIKGTPVGN--GKFKV 129 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~~~~~~lvTG~Vvav~G~~~~~--G~F~V 129 (327)
..+|.|+||||++.-.-+...+--|-++-+.|...+. |.+.+
T Consensus 200 ~giigDeTG~Ir~tlW~~~~~l~~Gd~v~I~na~v~e~~G~~el 243 (423)
T PRK07218 200 SGVLADETGRLPFTDWDPLPEIEIGASIRIEDAYVREFRGVPSV 243 (423)
T ss_pred EEEEECCCceEEEEEecccccCCCCCEEEEeeeEEeccCCeEEE
Confidence 4789999999999976344568889999999977764 55544
No 62
>TIGR00156 conserved hypothetical protein TIGR00156. As of the last revision, this family consists only of two proteins from Escherichia coli and one from the related species Haemophilus influenzae.
Probab=35.12 E-value=94 Score=26.49 Aligned_cols=39 Identities=15% Similarity=0.119 Sum_probs=30.8
Q ss_pred CCeEEEecCCceEEEEec---ccccccccceEEEEEeeEecC
Q psy8633 86 SDELILEDELQRIPLHGN---IDIHNQVTGVVVAIKGTPVGN 124 (327)
Q Consensus 86 ~D~l~LED~sgRi~L~g~---~~~~~lvTG~Vvav~G~~~~~ 124 (327)
+|.+.+-|.||+|+++.+ -+-..+-.+--|-+.|.++++
T Consensus 72 ~d~Y~F~D~TG~I~VeId~~~w~G~~v~p~d~V~I~GeVDk~ 113 (126)
T TIGR00156 72 DDRYVFRDKSGEINVVIPAAVWNGREVQPKDMVNISGSLDKK 113 (126)
T ss_pred CceEEEECCCCCEEEEECHHHcCCCcCCCCCEEEEEEEECCC
Confidence 678999999999999865 233455667888999998875
No 63
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=34.66 E-value=20 Score=35.39 Aligned_cols=18 Identities=22% Similarity=0.445 Sum_probs=15.4
Q ss_pred cCceeEEEcCCCCCCCCC
Q psy8633 155 HSSIEVDLMPGEFDPANT 172 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~~~ 172 (327)
-.+|||.+++||||+...
T Consensus 73 ~~~Ipv~~I~GNHD~~~~ 90 (390)
T COG0420 73 DAGIPVVVIAGNHDSPSR 90 (390)
T ss_pred cCCCcEEEecCCCCchhc
Confidence 347999999999999863
No 64
>cd05794 S1_EF-P_repeat_2 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-tRNA and puromycine in vitro. EF-P binds to both the 30S and 50S ribosomal subunits. EF-P binds near the streptomycine binding site of the 16S rRNA in the 30S subunit. EF-P interacts with domains 2 and 5 of the 23S rRNA. The L16 ribosomal protein of the 50S or its N-terminal fragment are required for EF-P mediated peptide bond synthesis, whereas L11, L15, and L7/L12 are not required in this reaction, suggesting that EF-P may function at a different ribosomal site than most other translation factors. EF-P is essential for cell viability and is required for protein synthesis. EF-P is mainly present in bacteria. The EF-P homologs in archaea and eukaryotes are the initiation factors aIF5A and eIF5A, respectively. EF-P
Probab=34.63 E-value=90 Score=22.84 Aligned_cols=22 Identities=23% Similarity=0.218 Sum_probs=20.3
Q ss_pred EEecCCCCCCCeEEEEeCCCCc
Q psy8633 293 LISVPDFFSSRTVAILNLSTLE 314 (327)
Q Consensus 293 lv~vP~F~~t~~~vlvnl~tl~ 314 (327)
.|.||.|-+.|..+.||.++-+
T Consensus 31 ~i~VP~FI~~Gd~I~V~T~~g~ 52 (56)
T cd05794 31 EVQVPLFIKEGEKIKVDTRTGE 52 (56)
T ss_pred EEEcCCeecCCCEEEEECCCCc
Confidence 6899999999999999999865
No 65
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=34.15 E-value=70 Score=32.86 Aligned_cols=46 Identities=17% Similarity=-0.081 Sum_probs=35.1
Q ss_pred eEEEecCCceEEEEec-----ccccccccceEEEEEeeEecC-C--cEEEEEEE
Q psy8633 88 ELILEDELQRIPLHGN-----IDIHNQVTGVVVAIKGTPVGN-G--KFKVSDVC 133 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-----~~~~~lvTG~Vvav~G~~~~~-G--~F~V~di~ 133 (327)
.+-|||++|++.++-- -....|..|.++-|.|++..+ | .+.|+++.
T Consensus 305 f~~leD~tG~ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~~~~~~liv~~i~ 358 (449)
T PRK07373 305 FLQLEDLSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRRDDQVQLIVEDAE 358 (449)
T ss_pred EEEEEECCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecCCeEEEEEeEee
Confidence 4789999999999852 124568899999999998743 4 57777764
No 66
>PF15072 DUF4539: Domain of unknown function (DUF4539)
Probab=34.07 E-value=68 Score=25.44 Aligned_cols=37 Identities=19% Similarity=0.131 Sum_probs=27.8
Q ss_pred CCCCeEEEecCCceEEEEec-----ccccccccceEEEEEee
Q psy8633 84 SDSDELILEDELQRIPLHGN-----IDIHNQVTGVVVAIKGT 120 (327)
Q Consensus 84 ~~~D~l~LED~sgRi~L~g~-----~~~~~lvTG~Vvav~G~ 120 (327)
+.|-.+.|.|+||+|...-. .....|..|.|+=.+-.
T Consensus 18 ~~D~~v~l~DpTG~i~~tiH~~v~~~y~~~l~~GavLlLk~V 59 (86)
T PF15072_consen 18 SEDAFVVLKDPTGEIRGTIHRKVLEEYGDELSPGAVLLLKDV 59 (86)
T ss_pred CCCeEEEEECCCCcEEEEEeHHHHhhcCCccccCEEEEEeee
Confidence 34558999999999998753 34578999999865543
No 67
>cd07403 MPP_TTHA0053 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain. TTHA0053 is an uncharacterized Thermus thermophilus protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=33.17 E-value=1.3e+02 Score=24.82 Aligned_cols=17 Identities=12% Similarity=0.198 Sum_probs=12.9
Q ss_pred CCcEEEcCCccccceeE
Q psy8633 266 CPDVYFTGNQSKFETKT 282 (327)
Q Consensus 266 ~Phv~f~Gn~~~f~~~~ 282 (327)
-|+++++||.|......
T Consensus 91 ~~~~vl~GH~H~~~~~~ 107 (129)
T cd07403 91 RPKLFIHGHTHLNYGYQ 107 (129)
T ss_pred CCcEEEEcCcCCCcCcc
Confidence 36899999999665544
No 68
>PRK13165 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=33.08 E-value=1.6e+02 Score=26.06 Aligned_cols=47 Identities=13% Similarity=0.053 Sum_probs=40.4
Q ss_pred eEEEecCCceEEEEec-ccccccccceEEEEEeeEecCCcEEEEEEEe
Q psy8633 88 ELILEDELQRIPLHGN-IDIHNQVTGVVVAIKGTPVGNGKFKVSDVCY 134 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-~~~~~lvTG~Vvav~G~~~~~G~F~V~di~~ 134 (327)
...+-|....|.+.-. +-++.|--|.-|=+.|++.++|.|.+++++-
T Consensus 81 ~F~vtD~~~~v~V~Y~GilPDlFrEG~gVVveG~~~~~g~F~A~~vLA 128 (160)
T PRK13165 81 SFTLYDAGGSVTVTYEGILPDLFREGQGIVAQGVLEEGNHIEAKEVLA 128 (160)
T ss_pred EEEEEcCCeEEEEEEcccCCccccCCCeEEEEEEECCCCeEEEEEEEe
Confidence 5678888888888755 6688999999999999999999999999884
No 69
>KOG1942|consensus
Probab=30.64 E-value=36 Score=33.62 Aligned_cols=39 Identities=23% Similarity=0.315 Sum_probs=32.9
Q ss_pred eecCCCCcchHHHHHhhccCCCCCCCCCccCCCCeEEEecCCceEEEEec
Q psy8633 54 FKHQQLKPNILKEISEELKLVPQPQHTHFVSDSDELILEDELQRIPLHGN 103 (327)
Q Consensus 54 ~k~m~lkPsiL~e~~~e~~~~~~~~~~~y~~~~D~l~LED~sgRi~L~g~ 103 (327)
-|+.||-|||.+.+.++.- ..+|.+|+|--||-|+=+|.
T Consensus 168 tKqLkLdPsiyesi~kerv-----------~~GDViYIEaNsGavKrvGR 206 (456)
T KOG1942|consen 168 TKQLKLDPSIYESIQKERV-----------EVGDVIYIEANSGAVKRVGR 206 (456)
T ss_pred cceeccChHHHHHHHHhhh-----------ccCcEEEEEeccchhhcccc
Confidence 3778899999999988743 34899999999999999885
No 70
>cd07384 MPP_Cdc1_like Saccharomyces cerevisiae CDC1 and related proteins, metallophosphatase domain. Cdc1 (also known as XlCdc1 in Xenopus laevis) is an endoplasmic reticulum-localized transmembrane lipid phosphatase with a metallophosphatase domain facing the ER lumen. In budding yeast, the gene encoding CDC1 is essential while nonlethal mutations cause defects in Golgi inheritance and actin polarization. Cdc1 mutant cells accumulate an unidentified phospholipid, suggesting that Cdc1 is a lipid phosphatase. Cdc1 mutant cells also have highly elevated intracellular calcium levels suggesting a possible role for Cdc1 in calcium regulation. The 5' flanking region of Cdc1 is a regulatory region with conserved binding site motifs for AP1, AP2, Sp1, NF-1 and CREB. DNA polymerase delta consists of at least four subunits - Pol3, Cdc1, Cdc27, and Cdm1. This group also contains Saccharomyces cerevisiae TED1 (Trafficking of Emp24p/Erv25p-dependent cargo disrupted 1), which acts together wit
Probab=30.52 E-value=59 Score=28.47 Aligned_cols=37 Identities=22% Similarity=0.182 Sum_probs=26.7
Q ss_pred CCCcEEEcCCccccceeEEeecCCceEEEEecCCCCCC
Q psy8633 265 SCPDVYFTGNQSKFETKTIEIEKDKNVRLISVPDFFSS 302 (327)
Q Consensus 265 ~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv~vP~F~~t 302 (327)
.-|++.++||.|-...-...+ ....++-|+||+||-+
T Consensus 133 ~~~~~~lsGH~H~~~~~~~~~-~~~~~~ei~v~S~s~~ 169 (171)
T cd07384 133 IKPVLILSGHDHDQCEVVHSS-KAGSVREITVKSFSWR 169 (171)
T ss_pred cCceEEEeCcccCCeEEEecC-CCCCceEEeeccchhh
Confidence 357899999999774443332 2356999999999854
No 71
>PRK08402 replication factor A; Reviewed
Probab=30.39 E-value=98 Score=30.85 Aligned_cols=42 Identities=19% Similarity=0.218 Sum_probs=30.1
Q ss_pred eEEEecCCceEEEEec-ccc----cccccceEEEEEeeEec---CCcEEE
Q psy8633 88 ELILEDELQRIPLHGN-IDI----HNQVTGVVVAIKGTPVG---NGKFKV 129 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-~~~----~~lvTG~Vvav~G~~~~---~G~F~V 129 (327)
.+.|.|+||++++.-. -.+ ..+-.|-||++.|.... +|.+.+
T Consensus 102 ~i~l~DeTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a~V~e~~~G~~eL 151 (355)
T PRK08402 102 SLIIYDDTGRARVVLWDAKVAKYYNKINVGDVIKVIDAQVRESLSGLPEL 151 (355)
T ss_pred EEEEEcCCCeEEEEEechhhhhhcccCCCCCEEEEECCEEeecCCCcEEE
Confidence 3899999999999854 222 35888999999865444 455444
No 72
>PRK06386 replication factor A; Reviewed
Probab=29.75 E-value=1.2e+02 Score=30.28 Aligned_cols=40 Identities=18% Similarity=0.237 Sum_probs=28.7
Q ss_pred eEEEecCCceEEEEecccccccccceEEEEEeeEecC--CcEEE
Q psy8633 88 ELILEDELQRIPLHGNIDIHNQVTGVVVAIKGTPVGN--GKFKV 129 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~~~~~~lvTG~Vvav~G~~~~~--G~F~V 129 (327)
..+|.|+||||++.-.-+ .+=-|-++-+.+...+. |.+.+
T Consensus 145 sg~lgDeTGrIr~TlW~~--~l~eGd~v~i~na~v~e~~G~~el 186 (358)
T PRK06386 145 QGYIEDDTARVRISSFGK--PLEDNRFVRIENARVSQYNGYIEI 186 (358)
T ss_pred EEEEEcCCCeEEEEEccc--cccCCCEEEEeeeEEEccCCeEEE
Confidence 699999999999996521 35558888887776653 44444
No 73
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=29.15 E-value=3.2e+02 Score=25.67 Aligned_cols=144 Identities=19% Similarity=0.188 Sum_probs=78.5
Q ss_pred cCceeEEEcCCCCCCCCCCCCCCCCCcCCcCCccCCCCeeeecCCcEEEECCEEEEEEcCCchh---hhhccCCCCChHH
Q psy8633 155 HSSIEVDLMPGEFDPANTTLPQQPLHPCLFPEASKYSTFHPVTNPYIFEMEGKLLMGTSGQPVS---DIAKFSNLSNPLD 231 (327)
Q Consensus 155 ~~~i~V~lmPG~~Dp~~~~lPQqplh~~lf~~~~~~~~~~~vtNP~~~~i~g~~vlgtsGq~i~---di~k~~~~~~~l~ 231 (327)
...++|...|||.||-... ..+.++ -..+-+ -..+++|..|.|.-|-+.. ....++. +....
T Consensus 62 ~~~~~v~avpGNcD~~~v~--------~~l~~~-----~~~v~~-~v~~i~~~~~~G~Ggsn~tp~nt~~e~~E-~~I~s 126 (226)
T COG2129 62 ELGIPVLAVPGNCDPPEVI--------DVLKNA-----GVNVHG-RVVEIGGYGFVGFGGSNPTPFNTPREFSE-DEIYS 126 (226)
T ss_pred hcCCeEEEEcCCCChHHHH--------HHHHhc-----cccccc-ceEEecCcEEEEecccCCCCCCCccccCH-HHHHH
Confidence 4578999999999986432 122221 122223 6788999998886665542 2222221 11223
Q ss_pred HHHHHHhcc---------cCCCCCCCceecCcCCCCCC--------eeecCCCcEEEcCCccccceeEEeecCCceEEEE
Q psy8633 232 ILEYTLRCG---------HVAPTAPDTLACYPFYDNDP--------MIIESCPDVYFTGNQSKFETKTIEIEKDKNVRLI 294 (327)
Q Consensus 232 ~m~~~L~~r---------HlaPtaPdtl~~~P~~~~Dp--------fvi~~~Phv~f~Gn~~~f~~~~~~~~~~~~v~lv 294 (327)
.++.+++.- | ||-.+-.+. -|. +-+. ++-+..|-+-.|||.|+.. |.+.-.-.+|
T Consensus 127 ~l~~~v~~~~~~~~Il~~H-aPP~gt~~d-~~~-g~~hvGS~~vr~~ieefqP~l~i~GHIHEs~-----G~d~iG~Tiv 198 (226)
T COG2129 127 KLKSLVKKADNPVNILLTH-APPYGTLLD-TPS-GYVHVGSKAVRKLIEEFQPLLGLHGHIHESR-----GIDKIGNTIV 198 (226)
T ss_pred HHHHHHhcccCcceEEEec-CCCCCcccc-CCC-CccccchHHHHHHHHHhCCceEEEeeecccc-----cccccCCeEE
Confidence 333333333 4 455565555 232 2111 2225579999999999732 2221111233
Q ss_pred ecCCCCCCCeEEEEeCCCCcEEEEEEc
Q psy8633 295 SVPDFFSSRTVAILNLSTLECHSLVVE 321 (327)
Q Consensus 295 ~vP~F~~t~~~vlvnl~tl~~~~v~F~ 321 (327)
--|.=..-+..++++++.=.++.-.|.
T Consensus 199 VNPG~~~~g~yA~i~l~~~~Vk~~~~~ 225 (226)
T COG2129 199 VNPGPLGEGRYALIELEKEVVKLEQFS 225 (226)
T ss_pred ECCCCccCceEEEEEecCcEEEEEEec
Confidence 344335678889999988666655553
No 74
>cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with
Probab=28.64 E-value=2e+02 Score=21.74 Aligned_cols=36 Identities=17% Similarity=0.134 Sum_probs=27.8
Q ss_pred eEEEecCCceEEEEec--c-----cccccccceEEEEEeeEec
Q psy8633 88 ELILEDELQRIPLHGN--I-----DIHNQVTGVVVAIKGTPVG 123 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~--~-----~~~~lvTG~Vvav~G~~~~ 123 (327)
.+.|-|.+|.+.+.-+ . ....|-.|.+|+|.|.+..
T Consensus 19 Fi~LrD~~~~iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~ 61 (84)
T cd04323 19 FLVLRDGTGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKE 61 (84)
T ss_pred EEEEEcCCeEEEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEE
Confidence 6789999999988753 1 1235778999999998775
No 75
>smart00841 Elong-fact-P_C Elongation factor P, C-terminal. These nucleic acid binding domains are predominantly found in elongation factor P, where they adopt an OB-fold, with five beta-strands forming a beta-barrel in a Greek-key topology PUBMED:15210970.
Probab=25.72 E-value=1.6e+02 Score=21.55 Aligned_cols=22 Identities=23% Similarity=0.301 Sum_probs=20.0
Q ss_pred EEecCCCCCCCeEEEEeCCCCc
Q psy8633 293 LISVPDFFSSRTVAILNLSTLE 314 (327)
Q Consensus 293 lv~vP~F~~t~~~vlvnl~tl~ 314 (327)
.|.||.|-+.|..+.||.++-+
T Consensus 31 ~i~VP~FI~~Gd~I~V~T~~g~ 52 (56)
T smart00841 31 VVQVPLFINEGDKIKVDTRTGE 52 (56)
T ss_pred EEEcCCcccCCCEEEEECCCCc
Confidence 6889999999999999999854
No 76
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=25.31 E-value=1.3e+02 Score=29.48 Aligned_cols=48 Identities=29% Similarity=0.375 Sum_probs=36.6
Q ss_pred eEEEecCCceEEEEec----ccccccccceEEEEEeeEec-CCc--EEEEEEEec
Q psy8633 88 ELILEDELQRIPLHGN----IDIHNQVTGVVVAIKGTPVG-NGK--FKVSDVCYA 135 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~----~~~~~lvTG~Vvav~G~~~~-~G~--F~V~di~~p 135 (327)
.+.|+|.||.|+-.-. .+...+-.|.||.|.|.... +|. +.+..+-.+
T Consensus 36 ~l~l~D~tG~I~ak~W~~~~~~~~~~~~g~vv~v~G~v~~y~g~~Ql~i~~i~~~ 90 (314)
T PRK13480 36 TLILQDKSGDIEAKLWDVSPEDEATYVPETIVHVKGDIINYRGRKQLKVNQIRLA 90 (314)
T ss_pred EEEEEcCCcEEEEEeCCCChhhHhhcCCCCEEEEEEEEEEECCcceEEEEEeEEC
Confidence 6899999999998753 34567899999999999875 565 445566544
No 77
>PRK07211 replication factor A; Reviewed
Probab=25.31 E-value=1e+02 Score=32.15 Aligned_cols=38 Identities=13% Similarity=0.084 Sum_probs=30.0
Q ss_pred eEEEecCCceEEEEec--ccccccccceEEEEEeeEecCC
Q psy8633 88 ELILEDELQRIPLHGN--IDIHNQVTGVVVAIKGTPVGNG 125 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~--~~~~~lvTG~Vvav~G~~~~~G 125 (327)
.+.|-|+||||++.-. .....+-.|-+|++.|....+|
T Consensus 308 ~l~l~D~TG~IrvTLWg~~A~~~i~~GdvV~Ikg~~V~dg 347 (485)
T PRK07211 308 NVRIQDDTGDIRVALWGEKADLDIGPGDEVVAADVEIQDG 347 (485)
T ss_pred EEEEEcCCCcEEEEEeCccccCCCCCCCEEEEEccEEEec
Confidence 5999999999999854 2223578999999999766655
No 78
>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A
Probab=25.29 E-value=2.4e+02 Score=21.29 Aligned_cols=36 Identities=25% Similarity=0.226 Sum_probs=27.7
Q ss_pred eEEEecCCceEEEEec---c-----cccccccceEEEEEeeEec
Q psy8633 88 ELILEDELQRIPLHGN---I-----DIHNQVTGVVVAIKGTPVG 123 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~---~-----~~~~lvTG~Vvav~G~~~~ 123 (327)
.+.|-|.+|.+.++-+ . ....|-.|.+|.|.|.+..
T Consensus 19 Fi~Lrd~~~~iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~ 62 (85)
T cd04100 19 FIDLRDGSGIVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVK 62 (85)
T ss_pred EEEEEeCCeeEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEE
Confidence 5788899999999753 1 1246788999999998764
No 79
>cd04319 PhAsnRS_like_N PhAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Pyrococcus horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The archeal enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose.
Probab=22.93 E-value=1.7e+02 Score=23.24 Aligned_cols=36 Identities=11% Similarity=0.059 Sum_probs=27.6
Q ss_pred eEEEecCCceEEEEecc--------cccccccceEEEEEeeEec
Q psy8633 88 ELILEDELQRIPLHGNI--------DIHNQVTGVVVAIKGTPVG 123 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~~--------~~~~lvTG~Vvav~G~~~~ 123 (327)
-+.|-|.+|.+.++-+- ....+-.|.+|+|.|.+..
T Consensus 19 Fi~lrD~~g~iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~ 62 (103)
T cd04319 19 FIVLRDSTGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKA 62 (103)
T ss_pred EEEEecCCeeEEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEE
Confidence 57889999999987541 1235778999999998665
No 80
>PF06138 Chordopox_E11: Chordopoxvirus E11 protein; InterPro: IPR009201 This group represents a virion core protein, vaccinia E11L type.
Probab=22.92 E-value=58 Score=27.86 Aligned_cols=16 Identities=25% Similarity=0.441 Sum_probs=14.1
Q ss_pred eEEEecCCceEEEEec
Q psy8633 88 ELILEDELQRIPLHGN 103 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~ 103 (327)
-+|||.++||++|.-+
T Consensus 5 NIfLEsd~grvkl~~~ 20 (130)
T PF06138_consen 5 NIFLESDSGRVKLRYE 20 (130)
T ss_pred EEEEeccCceeEEEEe
Confidence 4899999999999865
No 81
>cd04318 EcAsnRS_like_N EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial
Probab=22.41 E-value=3.1e+02 Score=20.47 Aligned_cols=42 Identities=19% Similarity=0.262 Sum_probs=29.6
Q ss_pred eEEEecCCc--eEEEEecc------cccccccceEEEEEeeEecC----CcEEE
Q psy8633 88 ELILEDELQ--RIPLHGNI------DIHNQVTGVVVAIKGTPVGN----GKFKV 129 (327)
Q Consensus 88 ~l~LED~sg--Ri~L~g~~------~~~~lvTG~Vvav~G~~~~~----G~F~V 129 (327)
-+.|.|.+| .+.++-+- ....+-.|.+|.|.|.+... |.|++
T Consensus 19 Fi~LrD~s~~~~lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~~~~~~El 72 (82)
T cd04318 19 FIELNDGSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPGAKQPFEL 72 (82)
T ss_pred EEEEECCCCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCCCCCCEEE
Confidence 467779988 48887531 13467889999999987653 44555
No 82
>cd04317 EcAspRS_like_N EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS. These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, wh
Probab=22.06 E-value=2.7e+02 Score=23.08 Aligned_cols=36 Identities=11% Similarity=0.027 Sum_probs=27.6
Q ss_pred eEEEecCCceEEEEec--c-----cccccccceEEEEEeeEec
Q psy8633 88 ELILEDELQRIPLHGN--I-----DIHNQVTGVVVAIKGTPVG 123 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~--~-----~~~~lvTG~Vvav~G~~~~ 123 (327)
.+.|-|.+|.+.++-. . ....+-.|.+|.|.|.+..
T Consensus 34 Fi~LrD~~g~~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~ 76 (135)
T cd04317 34 FIDLRDRYGIVQVVFDPEEAPEFELAEKLRNESVIQVTGKVRA 76 (135)
T ss_pred EEEEecCCeeEEEEEeCCchhHHHHHhCCCCccEEEEEEEEEC
Confidence 6788999999988753 1 1235788999999998774
No 83
>PF08476 VD10_N: Viral D10 N-terminal; InterPro: IPR013683 This domain is found on the N terminus of the viral protein D10 (VD10) and the related MutT motif proteins []. The VD10 protein is probably essential for virus replication [] and is often found to the N terminus of a NUDIX hydrolase domain. Previous studies indicated that the vaccinia virus D10 protein, which is conserved in all sequenced poxviruses, participates in the rapid turnover of host and viral mRNAs. D10 contains a motif present in the family of Nudix/MutT enzymes, a subset of which has been shown to enhance mRNA turnover in eukaryotic cells through cleavage of the 5' cap (m7GpppNm-). The D10 protein possesses an intrinsic activity that liberates m7GDP from capped RNA substrates. Furthermore, point mutations in the Nudix/MutT motif abolished decapping activity. D10 has a strong affinity for capped RNA substrates of lengths of 24-309 nt were decapped efficiently. The poxviruses represent the only virus family shown to encode a Nudix hydrolase-decapping enzyme. The activity of the decapping and capping enzymes, accelerate mRNA turnover and helps to eliminate competing host mRNAs allowing stage-specific synthesis of viral proteins [].; GO: 0016791 phosphatase activity
Probab=21.84 E-value=82 Score=22.12 Aligned_cols=15 Identities=40% Similarity=0.623 Sum_probs=13.7
Q ss_pred eEEEecCCceEEEEe
Q psy8633 88 ELILEDELQRIPLHG 102 (327)
Q Consensus 88 ~l~LED~sgRi~L~g 102 (327)
.+.+.|++|||.+.|
T Consensus 22 tyi~~Dd~QrI~aT~ 36 (45)
T PF08476_consen 22 TYIFSDDSQRITATG 36 (45)
T ss_pred cEEEecCCeEEEEee
Confidence 678999999999987
No 84
>PRK12366 replication factor A; Reviewed
Probab=21.72 E-value=1.7e+02 Score=31.42 Aligned_cols=42 Identities=19% Similarity=0.220 Sum_probs=30.3
Q ss_pred eEEEecCCceEEEEec--ccccccccceEEEEEeeEec--CCcEEE
Q psy8633 88 ELILEDELQRIPLHGN--IDIHNQVTGVVVAIKGTPVG--NGKFKV 129 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~--~~~~~lvTG~Vvav~G~~~~--~G~F~V 129 (327)
.+.|-|+||+|++.-. .....+-.|-|++|.|...+ +|.+++
T Consensus 214 ~~~l~D~TG~irvTlW~~~a~~~~~~g~vv~i~g~~~~~~~~~~el 259 (637)
T PRK12366 214 SFILKDDTGSIRVTLWNDLTDIEVNKGDIVRVKGYVKQGYRTGLEI 259 (637)
T ss_pred EEEEEcCCCcEEEEEEChhhcccCCCCCEEEEEeEEecCcCCceEE
Confidence 6999999999999853 22234789999999996433 244544
No 85
>PRK12366 replication factor A; Reviewed
Probab=21.58 E-value=1.3e+02 Score=32.33 Aligned_cols=36 Identities=22% Similarity=0.064 Sum_probs=27.5
Q ss_pred eEEEecCCceEEEEec-ccc-cccccceEEEEEeeEec
Q psy8633 88 ELILEDELQRIPLHGN-IDI-HNQVTGVVVAIKGTPVG 123 (327)
Q Consensus 88 ~l~LED~sgRi~L~g~-~~~-~~lvTG~Vvav~G~~~~ 123 (327)
.++|.|+||+|++... -.+ ..+-.|-|+++.|....
T Consensus 438 ~i~l~D~TG~I~vtlWg~~a~~~~~~G~vi~i~~~~V~ 475 (637)
T PRK12366 438 NIELADGTGSIRLTLWDDDAEIEIKEGDAIKILHPYVK 475 (637)
T ss_pred EEEEEeCCCEEEEEEeccccccCCCCCCEEEEEeeEEE
Confidence 5899999999999854 122 24677999999987664
No 86
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for
Probab=21.25 E-value=3e+02 Score=24.76 Aligned_cols=59 Identities=7% Similarity=0.014 Sum_probs=35.0
Q ss_pred ecCCCcE--EEcCCccccceeEEe--ecCCceEEEEec-CCCCC---CC--eEEEEeCCCCcEEEEEEc
Q psy8633 263 IESCPDV--YFTGNQSKFETKTIE--IEKDKNVRLISV-PDFFS---SR--TVAILNLSTLECHSLVVE 321 (327)
Q Consensus 263 i~~~Phv--~f~Gn~~~f~~~~~~--~~~~~~v~lv~v-P~F~~---t~--~~vlvnl~tl~~~~v~F~ 321 (327)
+...|.| +++||.|........ +..|+.|..+.+ +.|.. ++ .++.+|.+......-.|+
T Consensus 144 l~~~~~V~~v~~GH~H~~~~~~~~~~~~~g~~v~~~~~~~q~~~~~g~~~~r~~~f~~~~~~i~~~tys 212 (214)
T cd07399 144 VKKNDNVFMVLSGHVHGAGRTTLVSVGDAGRTVHQMLADYQGEPNGGNGFLRLLEFDPDNNKIDVRTYS 212 (214)
T ss_pred HhCCCCEEEEEccccCCCceEEEcccCCCCCEeeEEeecccCCCCCCcceEEEEEEecCCCEEEEEeCC
Confidence 4566655 799999999988884 334555654433 33432 22 346677776544444443
Done!