Query psy2623
Match_columns 707
No_of_seqs 244 out of 447
Neff 6.0
Searched_HMMs 46136
Date Fri Aug 16 20:57:19 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2623.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2623hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3818|consensus 100.0 8E-116 2E-120 927.9 30.0 449 5-676 59-516 (525)
2 PTZ00235 DNA polymerase epsilo 100.0 9.8E-60 2.1E-64 489.2 17.1 229 426-676 25-282 (291)
3 PRK04036 DNA polymerase II sma 100.0 6.3E-37 1.4E-41 346.8 29.1 337 264-670 107-476 (504)
4 KOG3818|consensus 100.0 4.4E-35 9.5E-40 312.5 4.5 342 91-571 152-509 (525)
5 PF04042 DNA_pol_E_B: DNA poly 100.0 2.2E-31 4.8E-36 268.6 6.2 195 431-645 1-208 (209)
6 COG1311 HYS2 Archaeal DNA poly 99.9 4E-24 8.7E-29 234.0 18.8 339 265-672 93-456 (481)
7 KOG1625|consensus 99.9 2.6E-23 5.7E-28 228.7 24.4 341 273-676 208-580 (600)
8 cd07386 MPP_DNA_pol_II_small_a 99.9 4.4E-24 9.5E-29 220.9 14.9 211 432-672 2-229 (243)
9 PTZ00235 DNA polymerase epsilo 99.8 1.2E-20 2.5E-25 197.4 0.8 194 319-544 24-239 (291)
10 COG5214 POL12 DNA polymerase a 99.7 8.9E-16 1.9E-20 163.6 18.7 297 323-664 203-539 (581)
11 cd07387 MPP_PolD2_C PolD2 (DNA 99.6 4.8E-15 1E-19 154.8 14.5 144 512-672 93-246 (257)
12 KOG2732|consensus 99.1 1.9E-08 4.1E-13 108.9 21.6 335 274-665 27-416 (435)
13 PRK04036 DNA polymerase II sma 98.6 6E-08 1.3E-12 111.1 8.9 119 59-251 108-231 (504)
14 PF04042 DNA_pol_E_B: DNA poly 97.1 3.5E-05 7.5E-10 78.0 -3.8 80 419-499 69-151 (209)
15 PRK09453 phosphodiesterase; Pr 96.5 0.045 9.8E-07 54.3 13.3 54 632-691 119-176 (182)
16 cd00841 MPP_YfcE Escherichia c 96.0 0.15 3.3E-06 48.7 13.5 30 632-663 103-132 (155)
17 cd07398 MPP_YbbF-LpxH Escheric 95.7 0.015 3.2E-07 58.7 5.3 131 512-661 68-217 (217)
18 PRK05340 UDP-2,3-diacylglucosa 95.7 0.12 2.5E-06 53.8 11.9 143 514-684 71-237 (241)
19 COG0622 Predicted phosphoester 95.2 0.14 3.1E-06 51.0 10.2 136 430-662 3-138 (172)
20 TIGR01854 lipid_A_lpxH UDP-2,3 93.8 0.28 6.1E-06 50.6 9.0 132 518-672 71-227 (231)
21 PF12850 Metallophos_2: Calcin 93.8 0.11 2.5E-06 49.0 5.5 34 628-663 106-139 (156)
22 cd07394 MPP_Vps29 Homo sapiens 88.7 1 2.2E-05 44.9 6.4 45 632-680 107-159 (178)
23 COG2908 Uncharacterized protei 87.9 0.68 1.5E-05 48.3 4.6 142 512-672 66-225 (237)
24 PHA02546 47 endonuclease subun 85.5 2.4 5.2E-05 46.6 7.6 52 513-572 76-127 (340)
25 cd07400 MPP_YydB Bacillus subt 80.2 3.1 6.7E-05 39.1 5.2 27 631-657 113-143 (144)
26 COG2129 Predicted phosphoester 78.4 21 0.00045 37.3 10.7 41 630-672 174-215 (226)
27 cd04490 PolII_SU_OBF PolII_SU_ 74.2 21 0.00045 31.0 8.2 64 326-389 3-77 (79)
28 cd07385 MPP_YkuE_C Bacillus su 74.2 9.6 0.00021 38.4 7.1 110 429-573 2-112 (223)
29 TIGR00040 yfcE phosphoesterase 71.1 8.6 0.00019 37.0 5.6 30 631-662 106-135 (158)
30 PF03100 CcmE: CcmE; InterPro 70.6 32 0.00069 32.7 9.3 61 322-384 50-119 (131)
31 cd08165 MPP_MPPE1 human MPPE1 70.0 5.9 0.00013 38.6 4.2 26 518-549 79-104 (156)
32 COG0420 SbcD DNA repair exonuc 65.2 14 0.00031 41.1 6.6 59 626-688 194-262 (390)
33 PRK13254 cytochrome c-type bio 63.4 59 0.0013 31.8 9.6 62 321-384 50-119 (148)
34 PF14582 Metallophos_3: Metall 60.7 8.1 0.00018 40.5 3.3 43 627-671 202-245 (255)
35 cd07402 MPP_GpdQ Enterobacter 59.9 7 0.00015 39.9 2.8 35 626-662 177-211 (240)
36 PRK11340 phosphodiesterase Yae 57.9 9.1 0.0002 40.6 3.3 119 427-577 48-168 (271)
37 cd07396 MPP_Nbla03831 Homo sap 54.4 11 0.00023 39.8 3.1 43 618-662 200-245 (267)
38 COG3111 Periplasmic protein wi 49.8 81 0.0018 30.0 7.6 69 308-377 44-113 (128)
39 COG1409 Icc Predicted phosphoh 49.6 15 0.00032 38.1 3.2 43 430-472 2-46 (301)
40 PRK13159 cytochrome c-type bio 49.4 1.1E+02 0.0023 30.3 8.8 73 310-384 39-119 (155)
41 KOG3325|consensus 48.0 16 0.00035 35.8 2.9 37 633-672 109-145 (183)
42 PF04076 BOF: Bacterial OB fol 46.1 1E+02 0.0022 28.4 7.6 67 308-375 21-88 (103)
43 cd00840 MPP_Mre11_N Mre11 nucl 44.7 15 0.00032 36.8 2.2 74 430-526 1-87 (223)
44 PRK11148 cyclic 3',5'-adenosin 43.7 16 0.00036 38.6 2.5 31 627-657 191-222 (275)
45 cd07395 MPP_CSTP1 Homo sapiens 43.5 25 0.00054 36.6 3.8 27 631-657 206-232 (262)
46 cd07388 MPP_Tt1561 Thermus the 43.4 36 0.00077 35.5 4.8 39 630-671 178-216 (224)
47 TIGR00619 sbcd exonuclease Sbc 42.6 26 0.00056 36.9 3.7 34 518-562 78-111 (253)
48 TIGR00156 conserved hypothetic 42.3 1.2E+02 0.0025 29.1 7.6 68 308-376 44-112 (126)
49 COG2332 CcmE Cytochrome c-type 41.3 1.2E+02 0.0026 29.8 7.6 72 313-384 42-120 (153)
50 PF01336 tRNA_anti-codon: OB-f 39.9 47 0.001 27.1 4.2 50 326-375 2-58 (75)
51 PF00149 Metallophos: Calcineu 39.5 19 0.00041 32.5 1.9 42 430-474 2-46 (200)
52 cd07410 MPP_CpdB_N Escherichia 37.4 63 0.0014 34.1 5.7 54 629-685 216-270 (277)
53 cd07392 MPP_PAE1087 Pyrobaculu 37.3 31 0.00067 33.4 3.1 27 631-657 161-188 (188)
54 PRK10966 exonuclease subunit S 35.1 37 0.0008 38.5 3.7 49 627-682 216-264 (407)
55 cd07388 MPP_Tt1561 Thermus the 33.7 35 0.00076 35.5 3.0 38 430-472 6-44 (224)
56 cd07384 MPP_Cdc1_like Saccharo 32.5 28 0.00062 34.4 2.0 12 518-529 90-101 (171)
57 PRK13150 cytochrome c-type bio 31.5 1.7E+02 0.0037 29.0 7.1 60 323-384 58-126 (159)
58 cd04478 RPA2_DBD_D RPA2_DBD_D: 30.2 1.9E+02 0.004 25.2 6.7 52 325-376 2-62 (95)
59 PF13742 tRNA_anti_2: OB-fold 30.2 1.9E+02 0.0042 25.9 6.8 64 312-375 11-82 (99)
60 cd07379 MPP_239FB Homo sapiens 29.8 49 0.0011 30.8 3.1 26 632-657 105-135 (135)
61 cd07399 MPP_YvnB Bacillus subt 29.1 29 0.00063 35.4 1.5 43 430-472 2-48 (214)
62 PRK10053 hypothetical protein; 27.9 2.5E+02 0.0055 27.0 7.4 68 309-377 49-117 (130)
63 cd04489 ExoVII_LU_OBF ExoVII_L 24.8 2.1E+02 0.0046 23.7 5.8 51 325-375 2-59 (78)
64 PRK13165 cytochrome c-type bio 24.5 2.9E+02 0.0063 27.5 7.4 60 323-384 58-126 (160)
65 cd07390 MPP_AQ1575 Aquifex aeo 23.9 2.7E+02 0.0059 27.0 7.2 43 518-574 72-114 (168)
66 TIGR00583 mre11 DNA repair pro 23.7 94 0.002 35.3 4.4 31 631-663 228-262 (405)
67 cd07401 MPP_TMEM62_N Homo sapi 23.4 80 0.0017 33.2 3.6 31 626-657 194-230 (256)
68 COG5416 Uncharacterized integr 21.5 40 0.00088 30.6 0.7 27 161-187 26-53 (98)
69 cd07383 MPP_Dcr2 Saccharomyces 21.2 71 0.0015 31.9 2.5 32 628-662 161-193 (199)
70 TIGR01732 tiny_TM_bacill conse 21.1 50 0.0011 23.0 0.9 17 160-176 10-26 (26)
71 PRK09968 serine/threonine-spec 21.0 1.4E+02 0.003 30.6 4.7 34 630-665 178-211 (218)
72 KOG2947|consensus 20.6 76 0.0016 33.8 2.6 121 308-437 46-172 (308)
73 cd07391 MPP_PF1019 Pyrococcus 20.5 74 0.0016 31.1 2.4 18 632-649 123-140 (172)
No 1
>KOG3818|consensus
Probab=100.00 E-value=8e-116 Score=927.91 Aligned_cols=449 Identities=36% Similarity=0.629 Sum_probs=415.7
Q ss_pred CCCCCcCHHHHHHHHHHHhccCCCCccceeEEecCCCCCCCccCcccCceee-ccCCcccCCChHHHHHHHHHHHHHHHH
Q psy2623 5 RDNPSCTYDLIEFTTNECCRTEINSEEQIFSVISAFDIPQFDYDPDLKKFKL-VDKKRKLCADSDAKSKLFRERYNIIRQ 83 (707)
Q Consensus 5 ~~~~~~~~~~~~~a~~ec~~~~~~d~~~~f~VI~AF~~Pr~~Yd~~rK~F~~-~~~~~sl~~~a~~k~~~fr~RY~li~q 83 (707)
-.+|+++++.+|+|+|||++++.+|+|+||+|||||++|||.||++||||+. .+.+++|++++++|++|||+||++++|
T Consensus 59 l~s~~~~r~~~~~avq~~~~sg~~~~e~~F~vidAf~~prF~Yn~~~kkFvl~~k~~~~l~~~~~~ks~m~~~Ry~i~~q 138 (525)
T KOG3818|consen 59 LNSPHEEREAIEAAVQECSSSGTQDAEKYFNVIDAFSLPRFDYNSDRKKFVLPNKPKPSLLADPSDKSDMFRQRYFIVKQ 138 (525)
T ss_pred cCCchhhHHHHHHHHHHhhhcccccHHHHHhhcchhcCCccccCchheEEEecCCCCccccCChHHHHHHHHHHHHHHHH
Confidence 3689999999999999999999999999999999999999999999999997 566789999999999999999999999
Q ss_pred HHhhccCCCCCCCCCCccccceeeeeccccccCCcEEEEeeeecccccccccCCCCcccccchhhhhhhhhhheehhhhh
Q psy2623 84 RTLRHSLFNNINPNADSVKLDWVEYLMSLTNVNHKTVVLGMISQLKENITTSGLLGKHQSPHLNLLCLIWVKIFICTLIF 163 (707)
Q Consensus 84 R~lRne~F~~~~~~~~~~~l~~i~~l~~~~g~~g~~~vlGmL~q~~~~~~~~~l~g~~~~ed~~~~~~~~~~~~~~~~~~ 163 (707)
|++|||+||+|.. |. |+..
T Consensus 139 R~mR~e~Fq~pv~----------------------------------~s------~~~~--------------------- 157 (525)
T KOG3818|consen 139 RTMRNELFQPPVS----------------------------------GS------GRCA--------------------- 157 (525)
T ss_pred HHHhhhccCCCcc----------------------------------CC------chhh---------------------
Confidence 9999999998720 00 2220
Q ss_pred hhhhhhhhccccccCCCceeeccCCCccccceeeccccccccCCCCccccccccchhhhhhhhhhhcccccCCCCeEEEE
Q psy2623 164 IFIILIISLCSFSFNSSQVPTDVQGPVTAFETYHNLVPLILHPVIPVSNREQNNIMNWLKLSSECCRTEINSEEQIFSVI 243 (707)
Q Consensus 164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~g~~~e~~~~eg~~~~~~f~Vi 243 (707)
T Consensus 158 -------------------------------------------------------------------------------- 157 (525)
T KOG3818|consen 158 -------------------------------------------------------------------------------- 157 (525)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cCCCCCCCcccccccceeeccccccccCCchhHHHHHHHHHHHHHHHhhhccccCCCCCCCCcccchHHHHhh-cccCCc
Q psy2623 244 SAFDIPQFDYDPDLKKFKLVDKKRKLCADSDAKSKLFRERYNIIRQRTLRHSLFNNINPNADSVKLDWVEYLM-SLTNVN 322 (707)
Q Consensus 244 ~Af~~P~~~y~~~rk~F~~~~~~~sl~g~a~sk~~lfr~Ry~~i~qrllR~~~F~~~~~~~~~~klt~I~~Ll-g~~~~~ 322 (707)
+.+.+++++|++|| |+..
T Consensus 158 -----------------------------------------------------------q~~~fklt~ienLL~t~~~-- 176 (525)
T KOG3818|consen 158 -----------------------------------------------------------QLKKFKLTPIENLLSTRAL-- 176 (525)
T ss_pred -----------------------------------------------------------hccccceeEHHHhhccccc--
Confidence 11245677788888 4444
Q ss_pred ceEEEEEEeeeccCCcEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEecCceEEEEeecCCCccCccccccccCcc
Q psy2623 323 HKTVVLGMISQLKENRYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYKDQILHVDALGFPPPEASKNSRLYFGNQ 402 (707)
Q Consensus 323 ~~~vvLG~Lsq~~~G~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~s~~f~v~~i~~PP~E~r~~S~~~~gn~ 402 (707)
+.++|||||+|..+|+||||||+|.|+||+++++++.|+|+||||||+||.|.+++|+|+++|+||.|+|+.|+.++||.
T Consensus 177 ~~~lvLGlLTq~k~G~~~lEDpsgsVqlDlsqa~fh~glf~egC~VL~EG~f~~~vf~V~~lg~PP~E~~~~tr~~~gN~ 256 (525)
T KOG3818|consen 177 QSFLVLGLLTQLKEGKFHLEDPSGSVQLDLSQAKFHHGLFCEGCFVLVEGTFESGVFHVNELGFPPVERREVTRKELGNL 256 (525)
T ss_pred cceeeeehhhhccCCcEEEeCCCCcEEEeecccccccceeccceEEEEeeeeecceEEEeeccCCCCCcchhHHHHhccC
Confidence 68888888888888888888888888888888889999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCchhhhhhHHHhhhhcCCcceEEEEeCCCCCchhhchhhHHHhHhhhccccCCCCCC----CCCCCccccccc
Q psy2623 403 NIWGGPSPVSLKSVNRMTKMEKNNENAMIVILSDVHLDNDKVRNNLCEFITSEFQGFVPNSTMA----TNPCRVQYCSQE 478 (707)
Q Consensus 403 D~fG~~~~~~~k~~~~L~~~e~~~~~~~fVfvSD~~Lds~~~~~~L~~~l~~lf~~~~~~~p~a----GNF~s~~y~sqe 478 (707)
|+|||.+....|.+++|++.|+..++++|||+||+|||+..+|++|++ +|+||.+.||.| ||||+.++...+
T Consensus 257 n~~Gg~~~~~~k~sA~L~~lE~~~~d~~fVfLSdV~LD~~~vm~aL~k----ifqgy~~~pP~~iIlcG~FtS~p~~~~s 332 (525)
T KOG3818|consen 257 NWLGGDSKIAFKCSARLRSLEAENTDTSFVFLSDVFLDDKKVMEALRK----IFQGYKDAPPTAIILCGSFTSSPRQTSS 332 (525)
T ss_pred cccCCcchhhhHHHHHHHHHHHhCcCceEEEEehhccccHHHHHHHHH----HHhhccCCCCeEEEEeccccccccccch
Confidence 999999999999999999999999999999999999999999999999 999999998865 999999999999
Q ss_pred eEEeHHHHHHHhhhccCCCCCcCC-ccccccccCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEe
Q psy2623 479 ILVVREELLSKMCRNCIKFPEEGD-ISKHVSKNNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMA 557 (707)
Q Consensus 479 iv~~rd~f~~km~RN~i~fp~Lad-L~~~p~l~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~ 557 (707)
+..++|+|+ .||+ |+.++.+. ++|+ |||||||+|||. +++|||||||+.+++++.+.+|+++||
T Consensus 333 ~~~~k~~f~-----------~LA~~l~~~~~~~-ekT~--fIFVPGP~Dp~~-~~iLPr~piP~~~~~~i~kv~~~tvfa 397 (525)
T KOG3818|consen 333 SDQLKDGFR-----------WLAAQLTCFRKDY-EKTQ--FIFVPGPNDPWV-DNILPRPPIPSLFTKHISKVCKNTVFA 397 (525)
T ss_pred HHHHHHHHH-----------HHHhhcccccccc-ccce--EEEecCCCCCCc-CccCCCCCchHHHHHHHHhhcCCceec
Confidence 999999999 9999 99999999 8899 999999999999 899999999999999999999999999
Q ss_pred eCCcEEEECCEEEEEEehhHHHHhhhccccCCCC-CChhHHHHHHHhcCCCCCCCCCCCcccccCcccccccCCCCcEEE
Q psy2623 558 TNPCRVQYCSQEILVVREELLSKMCRNCIKFPEE-GDISKHFVRTLVSQGTLVSLPLNLCPVYWSQYGALSLYPLPDLVI 636 (707)
Q Consensus 558 SNPcRi~~~~qeIvifRdDl~~~l~r~~i~~p~~-~d~~~~lvktIL~Q~HL~Pl~~~~~Pi~w~~D~aL~L~PlPd~li 636 (707)
||||||+|++||||||||||++|+|||++.+|.+ .++++|+|||||+||||+|+|..++||+|||||||+|||+||+||
T Consensus 398 sNPcRIqy~sQEIvVfR~DL~~kfcRn~l~Fp~~~~qipq~~vkTIL~QgHLsP~p~~~~PV~WD~D~aLsl~PlPdlmv 477 (525)
T KOG3818|consen 398 SNPCRIQYCSQEIVVFRDDLSGKFCRNSLNFPITVEQIPQHLVKTILDQGHLSPFPQHIRPVLWDFDHALSLYPLPDLMV 477 (525)
T ss_pred cCCeeeEeecceEEEEhHhhhhHHhhccccCCCcHHHHHHHHHHHHhhccccCCCccccCccccCcccceEeccCcceEE
Confidence 9999999999999999999999999999999865 678999999999999999999999999999999999999999999
Q ss_pred ecCCCC-CceeeeCCeEEEcCCCCcccccCeeEEEEEeccc
Q psy2623 637 LGDQLN-AYTIQNTDCIFINPVFHNTVRNAFEVEKEHHAVS 676 (707)
Q Consensus 637 L~D~~~-~f~~~y~gc~vvNPG~~sF~~~~~~f~~y~~~~~ 676 (707)
+||+.. .|.++|.||.|+||| ||.++.|+|.+|+|+..
T Consensus 478 l~Ds~~sf~~vt~~gC~v~NPG--SF~~s~~~f~vy~P~~k 516 (525)
T KOG3818|consen 478 LADSFSSFFDVTYAGCIVINPG--SFSRSNYTFKVYYPSQK 516 (525)
T ss_pred eecccccccccccCCceeeCCC--cccccceeEEEEecccc
Confidence 999975 556799999999999 99999999999998743
No 2
>PTZ00235 DNA polymerase epsilon subunit B; Provisional
Probab=100.00 E-value=9.8e-60 Score=489.20 Aligned_cols=229 Identities=19% Similarity=0.264 Sum_probs=201.5
Q ss_pred CCcceEEEEeCCCCCchhhchhhHHHhHhhhccccCC-----CCC----CCCCCCcccc--ccceEEeHHHHHHHhhhcc
Q psy2623 426 NENAMIVILSDVHLDNDKVRNNLCEFITSEFQGFVPN-----STM----ATNPCRVQYC--SQEILVVREELLSKMCRNC 494 (707)
Q Consensus 426 ~~~~~fVfvSD~~Lds~~~~~~L~~~l~~lf~~~~~~-----~p~----aGNF~s~~y~--sqeiv~~rd~f~~km~RN~ 494 (707)
....+|||+||+|||++.++++|++ +|++|++. .|. +||||+.++. .+....|+++|+
T Consensus 25 ~~~~~~VilSDV~LD~p~tl~~L~k----vf~~y~~~~~~~~~P~~fVL~GnF~S~p~~~~~~~~~~yk~~Fd------- 93 (291)
T PTZ00235 25 DKRHNWIIMHDVYLDSPYTFEVLDK----MLSLYVNTYPENELPVGFIFMGDFISLKFDYNRNFHKVYIKGFE------- 93 (291)
T ss_pred CCceEEEEEEeeccCCHHHHHHHHH----HHHHhhccCcccCCCeEEEEecCccCCcccCCCCchHHHHHHHH-------
Confidence 3458899999999999999999999 99999532 244 4999999853 344556999999
Q ss_pred CCCCCcCC--ccccccccCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccC-------CCeEEeeCCcEEEE
Q psy2623 495 IKFPEEGD--ISKHVSKNNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFV-------PNSTMATNPCRVQY 565 (707)
Q Consensus 495 i~fp~Lad--L~~~p~l~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~-------~n~~f~SNPcRi~~ 565 (707)
+|++ |++||+++ ++|+ ||||||++|||.+..+|||||||+.++++|++++ |+++||||||||+|
T Consensus 94 ----~La~llls~fp~L~-~~s~--fVFVPGpnDPw~s~~~LPR~PIp~~f~~~~~~~~e~~~~~~~~~i~aSNPcRI~y 166 (291)
T PTZ00235 94 ----KLSVMLISKFKLIL-EHCY--LIFIPGINDPCACKNSIPKMPILPYYIRKFKQNIESFFSSKRNIIFATNPCRIRH 166 (291)
T ss_pred ----HHHHHHHHhChHHH-hcCe--EEEECCCCCCCcCcccCCCCCchHHHHHHHHHhhhhccCCCCceEEecCCcEEEe
Confidence 8986 78999999 9999 9999999999875689999999999999998665 79999999999999
Q ss_pred CCEEEEEEehhHHHHhhhcccc-CCC--CCChhHHHHHHHhcCCCCCCCCCCCcccccCcccccccCCCCcEEEecCC-C
Q psy2623 566 CSQEILVVREELLSKMCRNCIK-FPE--EGDISKHFVRTLVSQGTLVSLPLNLCPVYWSQYGALSLYPLPDLVILGDQ-L 641 (707)
Q Consensus 566 ~~qeIvifRdDl~~~l~r~~i~-~p~--~~d~~~~lvktIL~Q~HL~Pl~~~~~Pi~w~~D~aL~L~PlPd~liL~D~-~ 641 (707)
+|||||||||||+++|+|+++. .++ ..|..++|||||||||||||++ ...||+|+|||||+|||+||+|||||+ +
T Consensus 167 ~sqEIVifRdDl~~~L~r~~~i~~~~~~~~d~~~~lvkTIldQ~HL~Pl~-~~~pI~W~yD~aL~LyPlPd~ivL~D~s~ 245 (291)
T PTZ00235 167 LSKKMIFFRHDILNDLIWSSTINATNNERNNLQNILVSTIVGQSHIYPIP-HDNRILKRYSPFLFLYPLPHFICVCDNSC 245 (291)
T ss_pred cCceEEEEeHHHHHHHhhhccCCCCCccchhHHHHHHHhhhcccccCCCc-cCCccccccccceeccCCCCEEEEecCCC
Confidence 9999999999999999999953 332 2578999999999999999999 678999999999999999999999999 5
Q ss_pred CC---cee-eeCCeEEEcC-CCCcccccCeeEEEEEeccc
Q psy2623 642 NA---YTI-QNTDCIFINP-VFHNTVRNAFEVEKEHHAVS 676 (707)
Q Consensus 642 ~~---f~~-~y~gc~vvNP-G~~sF~~~~~~f~~y~~~~~ 676 (707)
++ |.. ++++|+|+|| | ||.+ +.+|.+|+|+-.
T Consensus 246 ~~~~~~~~~~~~~~~~~Np~g--sF~~-~~sF~~Y~~~~~ 282 (291)
T PTZ00235 246 NSFISYASEDTSDCIISNSDM--SFTR-KKTFTVYSALHH 282 (291)
T ss_pred CccceeecccCCceEEECCCC--ccCC-CceEEEEehhcc
Confidence 77 445 7889999998 7 9997 559999997644
No 3
>PRK04036 DNA polymerase II small subunit; Validated
Probab=100.00 E-value=6.3e-37 Score=346.84 Aligned_cols=337 Identities=19% Similarity=0.232 Sum_probs=259.5
Q ss_pred cccccccCCchhHHHHHHHHHHHHHHHhhhccccCCCCCCCCcccchHHHHhhcccCCcceEEEEEEeeecc---CCc--
Q psy2623 264 DKKRKLCADSDAKSKLFRERYNIIRQRTLRHSLFNNINPNADSVKLDWVEYLMSLTNVNHKTVVLGMISQLK---ENR-- 338 (707)
Q Consensus 264 ~~~~sl~g~a~sk~~lfr~Ry~~i~qrllR~~~F~~~~~~~~~~klt~I~~Llg~~~~~~~~vvLG~Lsq~~---~G~-- 338 (707)
+++....|.+.+++++|++||..+++++.++. +.++|.+|++....++.++|+|||++.+ +|+
T Consensus 107 ~~~~~~~~~~~~~~~~y~~R~~~L~~~l~~~~------------~~~~i~~l~~~~~~~~~~~viG~v~~~~~~~~g~~~ 174 (504)
T PRK04036 107 TGKSTCTGEVEDFVAYFRDRYEKLSKIIRGRV------------NHRPIESLKKLKRGGEEVSIIGMVSDIRSTKNGHKI 174 (504)
T ss_pred CCcccCCCCHHHHHHHHHHHHHHHHHHHHhhc------------ccccHHHHhcCccCCceEEEEEEEEEeecccCCceE
Confidence 36677889999999999999999999998865 2346788887663457899999999887 676
Q ss_pred EEeecCCceEEEEeeccc--c-C-CCccCcCeEEEEEeEecC-c-eEEEEeecCCCccCccccccccCcccccCCCCCch
Q psy2623 339 YFLEDPTGIVQLDLSQTS--Y-H-PGLYTENCIVLVEGHYKD-Q-ILHVDALGFPPPEASKNSRLYFGNQNIWGGPSPVS 412 (707)
Q Consensus 339 ~~LED~tg~i~Ldls~a~--~-~-~g~f~p~~iVLveG~f~s-~-~f~v~~i~~PP~E~r~~S~~~~gn~D~fG~~~~~~ 412 (707)
++|||++|+++|..+.++ + . .+.+.+|++|.++|...+ | .|.|..+.+|+.+++..
T Consensus 175 ~~LED~sgrv~l~~~~~~~~~~~~~~~lvtg~vv~v~G~~~~~g~~f~v~~i~~p~~p~~~~------------------ 236 (504)
T PRK04036 175 VELEDTTGTFPVLIMKDREDLAELADELLLDEVIGVEGTLSGDGGLIFADEIIRPDVPRTKE------------------ 236 (504)
T ss_pred EEEECCCCeEEEEeecchhhhhhhhhcccCceEEEEEEEEcCCCCEEEEEEEECCCCCccCC------------------
Confidence 899999999999987654 1 1 134799999999999975 5 89999999998764311
Q ss_pred hhhhhHHHhhhhcCCcceEEEEeCCCCCchhhchh-hHHHhHhhhcccc----------CCCCCCCCCCCc--cccccce
Q psy2623 413 LKSVNRMTKMEKNNENAMIVILSDVHLDNDKVRNN-LCEFITSEFQGFV----------PNSTMATNPCRV--QYCSQEI 479 (707)
Q Consensus 413 ~k~~~~L~~~e~~~~~~~fVfvSD~~Lds~~~~~~-L~~~l~~lf~~~~----------~~~p~aGNF~s~--~y~sqei 479 (707)
.++..++.+++|+||+|+++...... +..++.+ +.+.. +...++||+++. .|..|+-
T Consensus 237 ---------~~~~~~~~~i~~ISDlHlgs~~~~~~~l~~li~~-L~g~~~~~~~~~~~~d~lVIaGDivd~~~~~p~~~~ 306 (504)
T PRK04036 237 ---------PPTKDEKVYAVFISDVHVGSKEFLEDAFEKFIDW-LNGEVGNEEEIASRVKYLIIAGDLVDGIGIYPGQEE 306 (504)
T ss_pred ---------CCcCCCccEEEEEcccCCCCcchhHHHHHHHHHH-HhCCCccchhhhhcCCEEEEeCcccccccCCccchh
Confidence 11234667899999999998655443 4443333 44332 234567999975 2333221
Q ss_pred E----EeHHHHHHHhhhccCCCCCcCC-ccccccccCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCe
Q psy2623 480 L----VVREELLSKMCRNCIKFPEEGD-ISKHVSKNNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNS 554 (707)
Q Consensus 480 v----~~rd~f~~km~RN~i~fp~Lad-L~~~p~l~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~ 554 (707)
. ...+++. .+++ |.+.+ +... ++++||+|||+. ..+||||+++.+.+.+.+ +++
T Consensus 307 ~~~~~~~~~~~~-----------~l~~~L~~L~----~~i~--V~~ipGNHD~~~--~~lPQ~~l~~~l~~~l~~--~~v 365 (504)
T PRK04036 307 ELEIVDIYEQYE-----------AAAEYLKQIP----EDIK--IIISPGNHDAVR--QAEPQPAFPEEIRSLFPE--HNV 365 (504)
T ss_pred hccchhhHHHHH-----------HHHHHHHhhh----cCCe--EEEecCCCcchh--hccCCCCccHHHHHhcCc--CCe
Confidence 0 1111111 2333 44332 3447 999999999987 789999999988554432 589
Q ss_pred EEeeCCcEEEECCEEEEEEe----hhHHHHhhhccccCCCCCChhHHHHHHHhcCCCCCCCCCCCcccccCcccccccCC
Q psy2623 555 TMATNPCRVQYCSQEILVVR----EELLSKMCRNCIKFPEEGDISKHFVRTLVSQGTLVSLPLNLCPVYWSQYGALSLYP 630 (707)
Q Consensus 555 ~f~SNPcRi~~~~qeIvifR----dDl~~~l~r~~i~~p~~~d~~~~lvktIL~Q~HL~Pl~~~~~Pi~w~~D~aL~L~P 630 (707)
++.+|||+++++|++++++| +|+++.+.+.+. +.+.++++++++|+||||+++...|++|.+++.|.|++
T Consensus 366 ~~lsNP~~i~l~G~~iLl~HG~~idDl~~~i~~~s~------~~p~~~m~~~l~~rHlaPt~p~~~~~~p~~~D~lvi~~ 439 (504)
T PRK04036 366 TFVSNPALVNLHGVDVLIYHGRSIDDVISLIPGASY------EKPGKAMEELLKRRHLAPIYGGRTPIAPEKEDYLVIDE 439 (504)
T ss_pred EEecCCeEEEECCEEEEEECCCCHHHHHhhcccccc------cCHHHHHHHHHHhcccCCCCCCCEEeCcCCCCCEEEec
Confidence 99999999999999999999 788777765332 34689999999999999999999999999999999999
Q ss_pred CCcEEEecCCCCCceeeeCCeEEEcCCCCcccccCeeEEE
Q psy2623 631 LPDLVILGDQLNAYTIQNTDCIFINPVFHNTVRNAFEVEK 670 (707)
Q Consensus 631 lPd~liL~D~~~~f~~~y~gc~vvNPG~~sF~~~~~~f~~ 670 (707)
.||+++.||.+.++...|+||++|||| ||+ .+.+|++
T Consensus 440 ~Pdv~~~GH~H~~~~~~~~g~~~IN~g--sf~-~~t~fq~ 476 (504)
T PRK04036 440 VPDIFHTGHVHINGYGKYRGVLLINSG--TWQ-AQTEFQK 476 (504)
T ss_pred CCCEEEeCCCCccceEEECCEEEEECC--ccc-ccccccc
Confidence 999999999999888899999999999 998 5888886
No 4
>KOG3818|consensus
Probab=100.00 E-value=4.4e-35 Score=312.54 Aligned_cols=342 Identities=23% Similarity=0.321 Sum_probs=270.7
Q ss_pred CCCCCCCCCccccceeeeecccccc-CCcEEEEeeeecccccccccCCCCcccccchhhhhhhhhhheehhhhhhhhhhh
Q psy2623 91 FNNINPNADSVKLDWVEYLMSLTNV-NHKTVVLGMISQLKENITTSGLLGKHQSPHLNLLCLIWVKIFICTLIFIFIILI 169 (707)
Q Consensus 91 F~~~~~~~~~~~l~~i~~l~~~~g~-~g~~~vlGmL~q~~~~~~~~~l~g~~~~ed~~~~~~~~~~~~~~~~~~~~~~~~ 169 (707)
++++...++++++++||.|++ |+ .++++|||||+|++| |+|++||+
T Consensus 152 ~s~~~~q~~~fklt~ienLL~--t~~~~~~lvLGlLTq~k~--------G~~~lEDp----------------------- 198 (525)
T KOG3818|consen 152 GSGRCAQLKKFKLTPIENLLS--TRALQSFLVLGLLTQLKE--------GKFHLEDP----------------------- 198 (525)
T ss_pred CCchhhhccccceeEHHHhhc--cccccceeeeehhhhccC--------CcEEEeCC-----------------------
Confidence 666666778899999988876 55 458999999999999 99999999
Q ss_pred hhccccccCCCceeeccCCCccccceeeccccccccCCCCccccccccchhhhhhhhhhh--cccccCCCCeEEEEcCCC
Q psy2623 170 ISLCSFSFNSSQVPTDVQGPVTAFETYHNLVPLILHPVIPVSNREQNNIMNWLKLSSECC--RTEINSEEQIFSVISAFD 247 (707)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~g~~~e~~--~~eg~~~~~~f~Vi~Af~ 247 (707)
||+|++|++++- ||. |+|.|+| ++||+|..++|+| ++++
T Consensus 199 ---------sgsVqlDlsqa~-----fh~------------------------glf~egC~VL~EG~f~~~vf~V-~~lg 239 (525)
T KOG3818|consen 199 ---------SGSVQLDLSQAK-----FHH------------------------GLFCEGCFVLVEGTFESGVFHV-NELG 239 (525)
T ss_pred ---------CCcEEEeecccc-----ccc------------------------ceeccceEEEEeeeeecceEEE-eecc
Confidence 999999999964 344 7777899 9999999999999 9999
Q ss_pred CCCCcccccccceeeccccccccCCchhHHHHHHHHHHHHHHHhhhccccCCCCCCCCcccchHHHHhhcccCCcceEEE
Q psy2623 248 IPQFDYDPDLKKFKLVDKKRKLCADSDAKSKLFRERYNIIRQRTLRHSLFNNINPNADSVKLDWVEYLMSLTNVNHKTVV 327 (707)
Q Consensus 248 ~P~~~y~~~rk~F~~~~~~~sl~g~a~sk~~lfr~Ry~~i~qrllR~~~F~~~~~~~~~~klt~I~~Llg~~~~~~~~vv 327 (707)
+||.|-....+++. ++...+|..+....-+..|. .-++++.+|+++++
T Consensus 240 ~PP~E~~~~tr~~~---gN~n~~Gg~~~~~~k~sA~L-----------------------------~~lE~~~~d~~fVf 287 (525)
T KOG3818|consen 240 FPPVERREVTRKEL---GNLNWLGGDSKIAFKCSARL-----------------------------RSLEAENTDTSFVF 287 (525)
T ss_pred CCCCCcchhHHHHh---ccCcccCCcchhhhHHHHHH-----------------------------HHHHHhCcCceEEE
Confidence 99976655555432 46666666654444332222 12345677889999
Q ss_pred EEEeeeccCCcEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEecCceEEEEeecCCCccCccccccccCcccccCC
Q psy2623 328 LGMISQLKENRYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYKDQILHVDALGFPPPEASKNSRLYFGNQNIWGG 407 (707)
Q Consensus 328 LG~Lsq~~~G~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~s~~f~v~~i~~PP~E~r~~S~~~~gn~D~fG~ 407 (707)
|++| ||||..++.+|.+.+++|++. +|.|||+| |+|++.+++.+ .+..++.+++.+
T Consensus 288 LSdV--------~LD~~~vm~aL~kifqgy~~~--pP~~iIlc-G~FtS~p~~~~-----------s~~~~k~~f~~L-- 343 (525)
T KOG3818|consen 288 LSDV--------FLDDKKVMEALRKIFQGYKDA--PPTAIILC-GSFTSSPRQTS-----------SSDQLKDGFRWL-- 343 (525)
T ss_pred Eehh--------ccccHHHHHHHHHHHhhccCC--CCeEEEEe-ccccccccccc-----------hHHHHHHHHHHH--
Confidence 9988 999999999999999999986 99999999 99998865543 223455566665
Q ss_pred CCCchhhhhhHHHhhhhcCCcceEEEE---eCCCCCchhhchhhHHHhHhhhccccCCCCCCCCCCCccccccceEEeHH
Q psy2623 408 PSPVSLKSVNRMTKMEKNNENAMIVIL---SDVHLDNDKVRNNLCEFITSEFQGFVPNSTMATNPCRVQYCSQEILVVRE 484 (707)
Q Consensus 408 ~~~~~~k~~~~L~~~e~~~~~~~fVfv---SD~~Lds~~~~~~L~~~l~~lf~~~~~~~p~aGNF~s~~y~sqeiv~~rd 484 (707)
+..|..+.+..++++|||| .|||.++.+|++|||++|+..+++..+...+|+||||++|++|||++||+
T Consensus 344 --------A~~l~~~~~~~ekT~fIFVPGP~Dp~~~~iLPr~piP~~~~~~i~kv~~~tvfasNPcRIqy~sQEIvVfR~ 415 (525)
T KOG3818|consen 344 --------AAQLTCFRKDYEKTQFIFVPGPNDPWVDNILPRPPIPSLFTKHISKVCKNTVFASNPCRIQYCSQEIVVFRD 415 (525)
T ss_pred --------HhhccccccccccceEEEecCCCCCCcCccCCCCCchHHHHHHHHhhcCCceeccCCeeeEeecceEEEEhH
Confidence 4556667777788999999 99999999999999999999888888888899999999999999999999
Q ss_pred HHHHHhhhccCCCCCcCC-cccc--ccccCCcceeEEEEecCCCCCCCC--CCcccCCCccHHHH--H---HhhccCCCe
Q psy2623 485 ELLSKMCRNCIKFPEEGD-ISKH--VSKNNGEKDIIFLIVPKIYVEGTV--TSKVLSPALPKFIT--S---EFQGFVPNS 554 (707)
Q Consensus 485 ~f~~km~RN~i~fp~Lad-L~~~--p~l~~~~s~~~fVfVPG~~Dp~~~--~~~LPrpplP~~~~--~---~l~~~~~n~ 554 (707)
|+.+|||||+++||.-.+ |+++ .+++ .+.| ++..|..--|..| +++|-.+|+|+.++ . .+-...-+-
T Consensus 416 DL~~kfcRn~l~Fp~~~~qipq~~vkTIL-~QgH--LsP~p~~~~PV~WD~D~aLsl~PlPdlmvl~Ds~~sf~~vt~~g 492 (525)
T KOG3818|consen 416 DLSGKFCRNSLNFPITVEQIPQHLVKTIL-DQGH--LSPFPQHIRPVLWDFDHALSLYPLPDLMVLADSFSSFFDVTYAG 492 (525)
T ss_pred hhhhHHhhccccCCCcHHHHHHHHHHHHh-hccc--cCCCccccCccccCcccceEeccCcceEEeecccccccccccCC
Confidence 999999999999996656 9887 4678 8999 9999999999665 78999999998763 1 111111222
Q ss_pred EEeeCCcEEEECCEEEE
Q psy2623 555 TMATNPCRVQYCSQEIL 571 (707)
Q Consensus 555 ~f~SNPcRi~~~~qeIv 571 (707)
-.+.||.-+..-+..+-
T Consensus 493 C~v~NPGSF~~s~~~f~ 509 (525)
T KOG3818|consen 493 CIVINPGSFSRSNYTFK 509 (525)
T ss_pred ceeeCCCcccccceeEE
Confidence 34568865544443333
No 5
>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=99.97 E-value=2.2e-31 Score=268.64 Aligned_cols=195 Identities=22% Similarity=0.232 Sum_probs=138.0
Q ss_pred EEEEeCCCCC-chhhchhhHHHhHhhhcccc-CC----CCCCCCCCCccccc--cceE--EeHHHHHHHhhhccCCCCCc
Q psy2623 431 IVILSDVHLD-NDKVRNNLCEFITSEFQGFV-PN----STMATNPCRVQYCS--QEIL--VVREELLSKMCRNCIKFPEE 500 (707)
Q Consensus 431 fVfvSD~~Ld-s~~~~~~L~~~l~~lf~~~~-~~----~p~aGNF~s~~y~s--qeiv--~~rd~f~~km~RN~i~fp~L 500 (707)
+||+||+|++ +...+++|.+ ++.++. .. ..++|||++..... ++-. .++..+. .+
T Consensus 1 Iv~~Sg~~~~~~~~~~~~L~~----~l~~~~~~~~p~~lIl~G~fi~~~~~~~~~~~~~~~~~~~~~-----------~~ 65 (209)
T PF04042_consen 1 IVFASGPFLDSDNLSLEPLRD----LLSGVEDASKPDVLILMGPFIDSPHPYISSGSVPDSYSFEED-----------FL 65 (209)
T ss_dssp EEEEES--CTTT-HHHHHHHH----HHHCCCHCTTECEEEEES-SCBTTSHHHHHT---HHCCHHHH-----------HH
T ss_pred CEEEecCccCCCHhHHHHHHH----HHHhccccCCCcEEEEeCCCcCccccccccccccccccccHH-----------HH
Confidence 5889999999 6788999999 666655 33 34569999976532 1111 2233232 12
Q ss_pred CC-ccccccccCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEEEECCEEEEEEehhHHH
Q psy2623 501 GD-ISKHVSKNNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRVQYCSQEILVVREELLS 579 (707)
Q Consensus 501 ad-L~~~p~l~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi~~~~qeIvifRdDl~~ 579 (707)
.. ++.+..+. ++++ +|+|||++||+. ..++||||+++.+++.++ +..+++|+|||||++++|++|+++|.|++.
T Consensus 66 ~~~~~~~~~i~-~~~~--vvlvPg~~D~~~-~~~lPq~pl~~~~~~~~~-~~~~~~~~sNP~~~~i~~~~i~~~s~d~~~ 140 (209)
T PF04042_consen 66 KELDSFLESIL-PSTQ--VVLVPGPNDPTS-SPVLPQPPLHSKLFPKLK-KYSNIHFVSNPCRISINGQEIGVTSGDILD 140 (209)
T ss_dssp HHCHHHHCCCH-CCSE--EEEE--TTCTT--S-SCSB----TTTTCHHC-TTTTEEE--CSEEEEETTEEEEE-SSHHHH
T ss_pred HHHHHHHhhcc-cccE--EEEeCCCccccc-cCCCCCCCCCHHHHhhhh-hcCceEEeCCCeEEEEeCCcEEEECCcHHH
Confidence 23 34445666 7889 999999999999 569999999999887765 344599999999999999999999999999
Q ss_pred HhhhccccCCC-CCChhHHHHHHHhcCCCCCCCCC-CCcccccCcccccccCCCCcEEEecCCCCCce
Q psy2623 580 KMCRNCIKFPE-EGDISKHFVRTLVSQGTLVSLPL-NLCPVYWSQYGALSLYPLPDLVILGDQLNAYT 645 (707)
Q Consensus 580 ~l~r~~i~~p~-~~d~~~~lvktIL~Q~HL~Pl~~-~~~Pi~w~~D~aL~L~PlPd~liL~D~~~~f~ 645 (707)
+|+|+++..+. ..+...++++|||+||||||+++ ...|+.|+++++|.|+|+||++|+||+.++|.
T Consensus 141 ~l~~~~~~~~~~~~~~~~~l~~~il~q~hl~P~~pd~~~~~~~~~~~~l~l~~~Pdili~~~~~~~F~ 208 (209)
T PF04042_consen 141 DLRRYEISKSSSSEDRIERLMETILQQRHLYPLYPDTLPPIPWSYDDPLVLDPTPDILILPSDLPPFV 208 (209)
T ss_dssp HHHHCCESHHHHHS-HHHHHHHHHHHCTBS-TTSSE--B-GGGGGCGCTCGCS--SEEEEEESCSSEE
T ss_pred HHHhhccCCCcchhHHHHHHHHHHHHhhcccCCCCCCccccccCcCCCcccCCCCcEEEECCCCcCcC
Confidence 99999997543 35778999999999999999999 89999999999999999999999999989986
No 6
>COG1311 HYS2 Archaeal DNA polymerase II, small subunit/DNA polymerase delta, subunit B [DNA replication, recombination, and repair]
Probab=99.92 E-value=4e-24 Score=233.97 Aligned_cols=339 Identities=16% Similarity=0.191 Sum_probs=238.9
Q ss_pred ccccccCCchhHHHHHHHHHHHHHHHhhhccccCCCCCCCCcccchHHH-HhhcccCCcceEEEEEEeeecc---CCc--
Q psy2623 265 KKRKLCADSDAKSKLFRERYNIIRQRTLRHSLFNNINPNADSVKLDWVE-YLMSLTNVNHKTVVLGMISQLK---ENR-- 338 (707)
Q Consensus 265 ~~~sl~g~a~sk~~lfr~Ry~~i~qrllR~~~F~~~~~~~~~~klt~I~-~Llg~~~~~~~~vvLG~Lsq~~---~G~-- 338 (707)
+..+..|...+...+|++||..++..+..++.=.. .+++. .+- .+. .+-+.||++..+ +|+
T Consensus 93 ~~s~~~g~vedf~~~f~~R~~kL~~ii~~~~~~~~---------~~~~~~~~~--~g~--dv~Iig~v~~~r~t~~gh~i 159 (481)
T COG1311 93 GNSTCGGIVEDFVPYFRDRYEKLSRIIREREEARY---------VSPIKKDLE--GGS--DVKIIGEVNDVRETKNGHFI 159 (481)
T ss_pred cccccceeHHHHHHHHHHHHHHHHHHHhccccCCC---------cchhhcccc--cCC--CcEEEEEEccceeeecccEE
Confidence 44556677899999999999999999988873221 12222 222 332 288999997765 476
Q ss_pred EEeecCCceEEEEeeccc----cCCCccCcCeEEEEEeEecCceEEEEeecCCCccCccccccccCcccccCCCCCchhh
Q psy2623 339 YFLEDPTGIVQLDLSQTS----YHPGLYTENCIVLVEGHYKDQILHVDALGFPPPEASKNSRLYFGNQNIWGGPSPVSLK 414 (707)
Q Consensus 339 ~~LED~tg~i~Ldls~a~----~~~g~f~p~~iVLveG~f~s~~f~v~~i~~PP~E~r~~S~~~~gn~D~fG~~~~~~~k 414 (707)
+-+||.+|.+..-+.+.. +.. ..++..++-+.|..+..--.++.+.+|..- |
T Consensus 160 i~~ed~tG~v~vvl~k~~e~~~~~~-dvl~d~vig~~g~~t~~~~~a~~~~~p~Vp---------------g-------- 215 (481)
T COG1311 160 ISLEDTTGVVTVVLGKDREAGRFVV-DVLFDEVIGVSGPVTPRSSFADRIYLPDVP---------------G-------- 215 (481)
T ss_pred EEcccccceEEEEeccchhhhhhHH-hhcCCccccccCccCCccccCCcceeccCc---------------c--------
Confidence 456899999998888732 222 246666677767765321134444333111 0
Q ss_pred hhhHHHhhhhcCCcceEEEEeCCCCCchhhchh-hHHHhHhhhccccCC------CCCCCCCCCc--cccccceEEeHH-
Q psy2623 415 SVNRMTKMEKNNENAMIVILSDVHLDNDKVRNN-LCEFITSEFQGFVPN------STMATNPCRV--QYCSQEILVVRE- 484 (707)
Q Consensus 415 ~~~~L~~~e~~~~~~~fVfvSD~~Lds~~~~~~-L~~~l~~lf~~~~~~------~p~aGNF~s~--~y~sqeiv~~rd- 484 (707)
+..-+...+..+++++||+|.|+..+++. .++++.| |.+..+. ...||+-... -|..|+....-.
T Consensus 216 ----~~~~~~~~e~v~v~~isDih~GSk~F~~~~f~~fi~w-l~g~~~~a~~vkyliiagd~VDGigiYpgq~~eL~i~d 290 (481)
T COG1311 216 ----LSLNNTGDERVYVALISDIHRGSKEFLEDEFEKFIDW-LNGPGDLASRVKYLIIAGDVVDGIGIYPGQEEELVIAD 290 (481)
T ss_pred ----ccCCCCCCcceEEEEEeeeecccHHHHHHHHHHHHHH-hcCCcccccceEEEEEecccccccccccCccccccccc
Confidence 11111234556889999999999888764 4454444 6665431 2345888873 344443221111
Q ss_pred HHHHHhhhccCCCCCcCC-ccccccccCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEE
Q psy2623 485 ELLSKMCRNCIKFPEEGD-ISKHVSKNNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRV 563 (707)
Q Consensus 485 ~f~~km~RN~i~fp~Lad-L~~~p~l~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi 563 (707)
.++ ++..+|+ |.+.| .+-+ +++.||+|||.+ .++|||..|....+.+ ...|+.|.||||.+
T Consensus 291 i~~--------qy~~~A~~L~~vp----~~I~--v~i~PGnhDa~r--~a~PQp~~~~~~kslf--~~~n~~~v~NP~~~ 352 (481)
T COG1311 291 IYE--------QYEELAEFLDQVP----EHIK--VFIMPGNHDAVR--QALPQPHFPELIKSLF--SLNNLLFVSNPALV 352 (481)
T ss_pred chH--------HHHHHHHHHhhCC----CCce--EEEecCCCCccc--cccCCCCcchhhcccc--cccceEecCCCcEE
Confidence 111 0113444 44444 3335 999999999998 8999996666554444 35679999999999
Q ss_pred EECCEEEEEEe----hhHHHHhhhccccCCCCCChhHHHHHHHhcCCCCCCCCCCCcccccCcccccccCCCCcEEEecC
Q psy2623 564 QYCSQEILVVR----EELLSKMCRNCIKFPEEGDISKHFVRTLVSQGTLVSLPLNLCPVYWSQYGALSLYPLPDLVILGD 639 (707)
Q Consensus 564 ~~~~qeIvifR----dDl~~~l~r~~i~~p~~~d~~~~lvktIL~Q~HL~Pl~~~~~Pi~w~~D~aL~L~PlPd~liL~D 639 (707)
+++|..+.+|+ ||+.+...+. +++-+...|+++|..+||||.++...|+++.-.+.|.+..+||+++.||
T Consensus 353 ~l~G~~vL~~hG~sidDii~~vP~~------~~~~~~~ame~lLk~rHlaPtygg~~p~aP~~kD~lVIeevPDv~~~Gh 426 (481)
T COG1311 353 SLHGVDVLIYHGRSIDDIIKLVPGA------DYDSPLKAMEELLKRRHLAPTYGGTLPIAPETKDYLVIEEVPDVFHTGH 426 (481)
T ss_pred EECCEEEEEecCCCHHHHHhhCCCC------CccchHHHHHHHHHhcccCCCCCCccccccCCcCceeeccCCcEEEEcc
Confidence 99999999999 8888876652 3456789999999999999999999999999999999999999999999
Q ss_pred CCCCceeeeCCeEEEcCCCCcccccCeeEEEEE
Q psy2623 640 QLNAYTIQNTDCIFINPVFHNTVRNAFEVEKEH 672 (707)
Q Consensus 640 ~~~~f~~~y~gc~vvNPG~~sF~~~~~~f~~y~ 672 (707)
.+...+..|+||..+|.| +|+ .+.+|++-.
T Consensus 427 vh~~g~~~y~gv~~vns~--T~q-~qTefqk~v 456 (481)
T COG1311 427 VHKFGTGVYEGVNLVNSG--TWQ-EQTEFQKMV 456 (481)
T ss_pred ccccceeEEeccceEEee--eec-chhccceEE
Confidence 999888999999999999 998 599998764
No 7
>KOG1625|consensus
Probab=99.92 E-value=2.6e-23 Score=228.72 Aligned_cols=341 Identities=17% Similarity=0.185 Sum_probs=239.8
Q ss_pred chhHHHHHHHHHHHHHHHhhhcccc----CCCCCCCCcccchHHHHhhcccCCcceEEEEEEeeecc---CCc-----EE
Q psy2623 273 SDAKSKLFRERYNIIRQRTLRHSLF----NNINPNADSVKLDWVEYLMSLTNVNHKTVVLGMISQLK---ENR-----YF 340 (707)
Q Consensus 273 a~sk~~lfr~Ry~~i~qrllR~~~F----~~~~~~~~~~klt~I~~Llg~~~~~~~~vvLG~Lsq~~---~G~-----~~ 340 (707)
-.++..+.++|...+..++.++-.. .+++ .-..+.++.+||+.... +|+ ..
T Consensus 208 l~d~~e~l~~Ri~~~~~~~~~~~~~~ed~~~p~-----------------~~Sq~~v~avG~I~~d~~~~~~kln~~Sv~ 270 (600)
T KOG1625|consen 208 LSDRSEVLRDRIESFAPAIQESYLISEDFANPS-----------------IPSQSSVYAVGQIVCDSTKDNGKLNEESVL 270 (600)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhccccccCCcc-----------------cccccceEEEEEEecCCCCcccccCccceE
Confidence 3567777777777777776665432 2220 11124789999998888 443 46
Q ss_pred ee----cCCc-eEEEEeeccc-cCCCccCcCeEEEEEeEecC-ceEEEEeecCCCccCccccccccCcccccCCCCCchh
Q psy2623 341 LE----DPTG-IVQLDLSQTS-YHPGLYTENCIVLVEGHYKD-QILHVDALGFPPPEASKNSRLYFGNQNIWGGPSPVSL 413 (707)
Q Consensus 341 LE----D~tg-~i~Ldls~a~-~~~g~f~p~~iVLveG~f~s-~~f~v~~i~~PP~E~r~~S~~~~gn~D~fG~~~~~~~ 413 (707)
|| |..| +|.||++.-+ |+ +.||+||.++|...+ +.|.|+++--+|+-+-..+ .
T Consensus 271 Less~e~~~g~~Vrldls~l~e~S---iFPGQIVavkG~N~~G~~l~v~ki~~~~plp~~~~--------~--------- 330 (600)
T KOG1625|consen 271 LESSREDSSGVRVRLDLSRLKEYS---IFPGQIVAVKGKNPTGEKLTVEKILPIPPLPIPVQ--------P--------- 330 (600)
T ss_pred eeeccccCCCceEEeehhhcccee---ecCCcEEEEeeecCCCCeEEeeeeccCCCCCCCcC--------c---------
Confidence 65 3223 7888888654 43 599999999999975 6899999844443220000 0
Q ss_pred hhhhHHHhhhhcCCcceEEEEeCCCCC-chhhchhhHHHhHhhhccccCCCCCCCCCCCcccc--cc--ceEEeHHHHHH
Q psy2623 414 KSVNRMTKMEKNNENAMIVILSDVHLD-NDKVRNNLCEFITSEFQGFVPNSTMATNPCRVQYC--SQ--EILVVREELLS 488 (707)
Q Consensus 414 k~~~~L~~~e~~~~~~~fVfvSD~~Ld-s~~~~~~L~~~l~~lf~~~~~~~p~aGNF~s~~y~--sq--eiv~~rd~f~~ 488 (707)
......++ .++.||+.|.||.. +-+..+||-++|..+-....+.+.++|.|...... .+ ....|.|-|..
T Consensus 331 --~qed~~~~---~~~~ivvasGPyt~sDnl~yepL~dll~~v~~~~pdvLIL~GPFlD~~h~~i~~~~~t~t~delF~~ 405 (600)
T KOG1625|consen 331 --LQEDATFE---ANTVIVVASGPYTASDNLSYEPLCDLLDYVNAERPDVLILFGPFLDSKHPLINKGALTITFDELFEK 405 (600)
T ss_pred --hhhhhhcc---ccceEEEEecCccCccccchhHHHHHHHHHhcCCCCEEEEeccccCccChhhccCCcCccHHHHHHH
Confidence 11122222 12346777999966 57888999996666555555556677999998542 22 22356777772
Q ss_pred HhhhccCCCCCcCCccccccccCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEEEECCE
Q psy2623 489 KMCRNCIKFPEEGDISKHVSKNNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRVQYCSQ 568 (707)
Q Consensus 489 km~RN~i~fp~LadL~~~p~l~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi~~~~q 568 (707)
++.+= |+ .+.+.++| .|+||+.+|..+ ..++||||+ ...++....+|+.+..|||-+++++.
T Consensus 406 ~i~~i---------le---~~~~~~~~--vVlvPs~~Da~~-~~vfPq~pf---~~~~~~~~~~~l~~~~nPc~f~in~v 467 (600)
T KOG1625|consen 406 LILGI---------LE---TLVGSKTQ--VVLVPSTNDALC-LPVFPQPPF---ARNRLSDEKKNLKCVANPCLFSINGV 467 (600)
T ss_pred HHHHH---------HH---hccCCcce--EEEecccccccc-CccCCCCch---hhhhccCcccceEEccCcceEEEccE
Confidence 22210 22 12223458 999999999988 899999999 22333222369999999999999999
Q ss_pred EEEEEehhHHHHhhhccccCC---CCCChhHHHHHHHhcCCCCCCCCCCCcccccCcc---cccccCCCCcEEEecCCCC
Q psy2623 569 EILVVREELLSKMCRNCIKFP---EEGDISKHFVRTLVSQGTLVSLPLNLCPVYWSQY---GALSLYPLPDLVILGDQLN 642 (707)
Q Consensus 569 eIvifRdDl~~~l~r~~i~~p---~~~d~~~~lvktIL~Q~HL~Pl~~~~~Pi~w~~D---~aL~L~PlPd~liL~D~~~ 642 (707)
++.+...|++..|.+++++.. ...|+..++.+|||.|||+||++++ .-+..+|. .++.+--+||+||++....
T Consensus 468 ~vg~ts~D~l~~Ls~eE~~~~~~~~~~dR~~Rls~HlL~QrsfYPL~PP-~dl~~s~~~~~~~~~~~~~PdIlIlPSdLr 546 (600)
T KOG1625|consen 468 EVGVTSTDTLLHLSSEEFFRNALQSNGDRLARLSSHLLTQRSFYPLFPP-EDLPVSYSLLLKYAQIGSTPDILILPSDLR 546 (600)
T ss_pred EEEeecchHHHHhhhhHhhcCCCCcchHHHHHHHHHHhhcccccccCCc-hhcchhhhhHHHHhccCCCCcEEEechhhH
Confidence 999999999999999888742 2478999999999999999999982 12222333 2357779999999999999
Q ss_pred CceeeeCCeEEEcCCCCcccccC--eeEEEEEeccc
Q psy2623 643 AYTIQNTDCIFINPVFHNTVRNA--FEVEKEHHAVS 676 (707)
Q Consensus 643 ~f~~~y~gc~vvNPG~~sF~~~~--~~f~~y~~~~~ 676 (707)
.|+..++||+||||| .++|+. -+|...+-+.+
T Consensus 547 ~Fvk~V~~~V~iNpG--r~aKg~~~Gtfa~lti~~p 580 (600)
T KOG1625|consen 547 HFVKDVNGCVVINPG--RLAKGTNGGTFAKLTIRLP 580 (600)
T ss_pred HHHHhcCCeEEEcch--hhccCcCCceeEEEEEecC
Confidence 999999999999999 999843 38988886654
No 8
>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=99.91 E-value=4.4e-24 Score=220.90 Aligned_cols=211 Identities=18% Similarity=0.172 Sum_probs=158.9
Q ss_pred EEEeCCCCCchhhchhhHHHhHhhhccccC------CCCCCCCCCCcc--ccccceE----EeHHHHHHHhhhccCCCCC
Q psy2623 432 VILSDVHLDNDKVRNNLCEFITSEFQGFVP------NSTMATNPCRVQ--YCSQEIL----VVREELLSKMCRNCIKFPE 499 (707)
Q Consensus 432 VfvSD~~Lds~~~~~~L~~~l~~lf~~~~~------~~p~aGNF~s~~--y~sqeiv----~~rd~f~~km~RN~i~fp~ 499 (707)
+++||+|+++....+.....|.+.+.+..+ ...++||+++.. +..+... ...+.+. .
T Consensus 2 ~~iSDlHl~~~~~~~~~~~~l~~~l~~~~~~~~~~d~lvi~GDl~d~~~~~~~~~~~~~~~~~~~~~~-----------~ 70 (243)
T cd07386 2 VFISDVHVGSKTFLEDAFEKFVRWLNGEDDSASRVKYLIIAGDLVDGIGVYPGQEEELEILDIYEQYE-----------E 70 (243)
T ss_pred EEecccCCCchhhhHHHHHHHHHHHcCCcccccCccEEEEeCCcccccccCCcchhhhhhhhHHHHHH-----------H
Confidence 789999999876544332334445555433 234569999862 1111100 0111111 2
Q ss_pred cCC-ccccccccCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEEEECCEEEEEEe----
Q psy2623 500 EGD-ISKHVSKNNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRVQYCSQEILVVR---- 574 (707)
Q Consensus 500 Lad-L~~~p~l~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi~~~~qeIvifR---- 574 (707)
+.+ +.+ +. +... ++++||+||++. ..+||+|+++.+.+.+. .+++++.+|||+++++|++|+++|
T Consensus 71 ~~~~l~~---L~-~~~~--v~~ipGNHD~~~--~~~pq~~l~~~l~~~~~--~~~v~~l~Np~~~~~~g~~i~~~~G~~~ 140 (243)
T cd07386 71 AAEYLSD---VP-SHIK--IIIIPGNHDAVR--QAEPQPALPEEIRKLFL--PGNVEFVSNPALVKIHGVDVLIYHGRSI 140 (243)
T ss_pred HHHHHHh---cc-cCCe--EEEeCCCCCccc--ccCCCCCccHHHHhhcC--CCceEEeCCCCEEEECCEEEEEECCCCH
Confidence 222 232 22 3457 999999999986 78999999998876653 468999999999999999999999
Q ss_pred hhHHHHhhhccccCCCCCChhHHHHHHHhcCCCCCCCCCCCcccccCcccccccCCCCcEEEecCCCCCceeeeCCeEEE
Q psy2623 575 EELLSKMCRNCIKFPEEGDISKHFVRTLVSQGTLVSLPLNLCPVYWSQYGALSLYPLPDLVILGDQLNAYTIQNTDCIFI 654 (707)
Q Consensus 575 dDl~~~l~r~~i~~p~~~d~~~~lvktIL~Q~HL~Pl~~~~~Pi~w~~D~aL~L~PlPd~liL~D~~~~f~~~y~gc~vv 654 (707)
+|+++.+.+.+ .+.+.++++++++|+||||+++...|++|.+++.+.+++.||++|.||.+.++...++||+++
T Consensus 141 ~d~~~~~~~~~------~~~~~~~~~~~l~~~hl~P~~~~~~~~~~~~~~~~~~~~~p~vii~Gh~h~~~~~~~~~~~~v 214 (243)
T cd07386 141 DDVVKLIPGLS------YDKPGKAMEELLKRRHLAPIYGGRTPIAPEPEDYLVIDEVPDILHTGHVHVYGVGVYRGVLLV 214 (243)
T ss_pred HHHHHhCCCCC------cccHHHHHHHHHhhcccCCCCCCCEeeCCCCCCCEEecCCCCEEEECCCCchHhEEECCEEEE
Confidence 66666654332 245789999999999999999999999999999999999999999999999988899999999
Q ss_pred cCCCCcccccCeeEEEEE
Q psy2623 655 NPVFHNTVRNAFEVEKEH 672 (707)
Q Consensus 655 NPG~~sF~~~~~~f~~y~ 672 (707)
||| ||. ++++|+.--
T Consensus 215 n~G--sf~-~~~~~~~~~ 229 (243)
T cd07386 215 NSG--TWQ-SQTEFQKKM 229 (243)
T ss_pred ECC--CCc-CCCCcceee
Confidence 999 998 599998754
No 9
>PTZ00235 DNA polymerase epsilon subunit B; Provisional
Probab=99.79 E-value=1.2e-20 Score=197.36 Aligned_cols=194 Identities=15% Similarity=0.281 Sum_probs=153.5
Q ss_pred cCCcceEEEEEEeeeccCCcEEeecCCceEEEEeeccccCCC---ccCcCeEEEEEeEecCceEEEEeecCCCccCcccc
Q psy2623 319 TNVNHKTVVLGMISQLKENRYFLEDPTGIVQLDLSQTSYHPG---LYTENCIVLVEGHYKDQILHVDALGFPPPEASKNS 395 (707)
Q Consensus 319 ~~~~~~~vvLG~Lsq~~~G~~~LED~tg~i~Ldls~a~~~~g---~f~p~~iVLveG~f~s~~f~v~~i~~PP~E~r~~S 395 (707)
+...++++|||++ |||++.++.+|++.+.+|+.. ...|.+|||+ |+|++.++.. .++.+
T Consensus 24 ~~~~~~~VilSDV--------~LD~p~tl~~L~kvf~~y~~~~~~~~~P~~fVL~-GnF~S~p~~~---------~~~~~ 85 (291)
T PTZ00235 24 NDKRHNWIIMHDV--------YLDSPYTFEVLDKMLSLYVNTYPENELPVGFIFM-GDFISLKFDY---------NRNFH 85 (291)
T ss_pred CCCceEEEEEEee--------ccCCHHHHHHHHHHHHHhhccCcccCCCeEEEEe-cCccCCcccC---------CCCch
Confidence 4445799999988 999999999999999998431 1359999999 9999886542 11223
Q ss_pred ccccCcccccCCCCCchhhhhh-HHHhhhhcCCcceEEEE---eCCCC-CchhhchhhHHHhHhhhcccc-------CCC
Q psy2623 396 RLYFGNQNIWGGPSPVSLKSVN-RMTKMEKNNENAMIVIL---SDVHL-DNDKVRNNLCEFITSEFQGFV-------PNS 463 (707)
Q Consensus 396 ~~~~gn~D~fG~~~~~~~k~~~-~L~~~e~~~~~~~fVfv---SD~~L-ds~~~~~~L~~~l~~lf~~~~-------~~~ 463 (707)
..|+.++|-| +. .+++++++.++++|||| +|||. .+.+|++||+..+++.|++.. +++
T Consensus 86 ~~yk~~Fd~L----------a~llls~fp~L~~~s~fVFVPGpnDPw~s~~~LPR~PIp~~f~~~~~~~~e~~~~~~~~~ 155 (291)
T PTZ00235 86 KVYIKGFEKL----------SVMLISKFKLILEHCYLIFIPGINDPCACKNSIPKMPILPYYIRKFKQNIESFFSSKRNI 155 (291)
T ss_pred HHHHHHHHHH----------HHHHHHhChHHHhcCeEEEECCCCCCCcCcccCCCCCchHHHHHHHHHhhhhccCCCCce
Confidence 3466667666 34 47899999999999999 99997 479999999998888887553 345
Q ss_pred CCCCCCCCccccccceEEeHHHHHHHhhhcc-CCCCCc--CCcccc--ccccCCcceeEEEEecCCCCCC--CCCCcccC
Q psy2623 464 TMATNPCRVQYCSQEILVVREELLSKMCRNC-IKFPEE--GDISKH--VSKNNGEKDIIFLIVPKIYVEG--TVTSKVLS 536 (707)
Q Consensus 464 p~aGNF~s~~y~sqeiv~~rd~f~~km~RN~-i~fp~L--adL~~~--p~l~~~~s~~~fVfVPG~~Dp~--~~~~~LPr 536 (707)
.+++||||++|++|||++||||+.+|||||+ +..+.. .+++++ .+++ .|+| +...| ...|. ..+++|-.
T Consensus 156 i~aSNPcRI~y~sqEIVifRdDl~~~L~r~~~i~~~~~~~~d~~~~lvkTIl-dQ~H--L~Pl~-~~~pI~W~yD~aL~L 231 (291)
T PTZ00235 156 IFATNPCRIRHLSKKMIFFRHDILNDLIWSSTINATNNERNNLQNILVSTIV-GQSH--IYPIP-HDNRILKRYSPFLFL 231 (291)
T ss_pred EEecCCcEEEecCceEEEEeHHHHHHHhhhccCCCCCccchhHHHHHHHhhh-cccc--cCCCc-cCCccccccccceec
Confidence 6789999999999999999999999999999 455432 236665 5788 9999 99998 44563 33889999
Q ss_pred CCccHHHH
Q psy2623 537 PALPKFIT 544 (707)
Q Consensus 537 pplP~~~~ 544 (707)
+|+|+.++
T Consensus 232 yPlPd~iv 239 (291)
T PTZ00235 232 YPLPHFIC 239 (291)
T ss_pred cCCCCEEE
Confidence 99998763
No 10
>COG5214 POL12 DNA polymerase alpha-primase complex, polymerase-associated subunit B [DNA replication, recombination, and repair]
Probab=99.69 E-value=8.9e-16 Score=163.62 Aligned_cols=297 Identities=17% Similarity=0.158 Sum_probs=200.1
Q ss_pred ceEEEEEEeeeccC--------CcEEee---cCC--ceEEEEeeccccCCCccCcCeEEEEEeEecC-ceEEEEee-cCC
Q psy2623 323 HKTVVLGMISQLKE--------NRYFLE---DPT--GIVQLDLSQTSYHPGLYTENCIVLVEGHYKD-QILHVDAL-GFP 387 (707)
Q Consensus 323 ~~~vvLG~Lsq~~~--------G~~~LE---D~t--g~i~Ldls~a~~~~g~f~p~~iVLveG~f~s-~~f~v~~i-~~P 387 (707)
..++..|.+.-... ..++|| |.. .+|.|++.+.. .--+.||+||.++|...+ +.|.|.++ ..|
T Consensus 203 s~~y~vGrIv~~s~~~g~~Ln~eSv~lesSr~gg~gvrVRL~l~~l~--~yS~FpGQIVavKGkN~~G~~ftv~~ilpiP 280 (581)
T COG5214 203 SSFYTVGRIVNPSTNFGHKLNSESVFLESSRDGGNGVRVRLNLAHLQ--RYSVFPGQIVAVKGKNTDGGKFTVEAILPIP 280 (581)
T ss_pred CceEEEEEecCCCcccccccCcceeeeeeecccCCCeEEEeehhhcc--ccccccccEEEEecccCCCCeEEeeeeeccC
Confidence 57888898865421 235676 222 35566655432 222599999999999985 68999987 334
Q ss_pred CccCccccccccCcccccCCCCCchhhhhhHHHhhhh--cCCcceEEEEeCCC-CCchhhchhhHHHhHhhhccccCCCC
Q psy2623 388 PPEASKNSRLYFGNQNIWGGPSPVSLKSVNRMTKMEK--NNENAMIVILSDVH-LDNDKVRNNLCEFITSEFQGFVPNST 464 (707)
Q Consensus 388 P~E~r~~S~~~~gn~D~fG~~~~~~~k~~~~L~~~e~--~~~~~~fVfvSD~~-Lds~~~~~~L~~~l~~lf~~~~~~~p 464 (707)
+..-.-.+. ....+.+.. ..+..++|+.|.|| +.+.+...+|-+++..+...-++...
T Consensus 281 ~~p~~p~s~-------------------~qE~~~fqan~~~q~~~iv~~sGPy~~~dd~s~~pl~~~id~vn~n~vdvlI 341 (581)
T COG5214 281 VVPINPASD-------------------GQEKKYFQANTNNQPTSIVAFSGPYGPRDDLSGSPLFDAIDRVNANDVDVLI 341 (581)
T ss_pred CcCCCcCcc-------------------hhhhhhhccccCCCceEEEEEcCCCCCccccCcChHHHHHHHhccCCccEEE
Confidence 222000000 011222211 23446688889999 44667778888866665554444456
Q ss_pred CCCCCCCc-----cccc-c--ceEEeHHHHHHHhhhccCCCCCcCCccccccccCCcceeEEEEecCCCCCCCCCCcccC
Q psy2623 465 MATNPCRV-----QYCS-Q--EILVVREELLSKMCRNCIKFPEEGDISKHVSKNNGEKDIIFLIVPKIYVEGTVTSKVLS 536 (707)
Q Consensus 465 ~aGNF~s~-----~y~s-q--eiv~~rd~f~~km~RN~i~fp~LadL~~~p~l~~~~s~~~fVfVPG~~Dp~~~~~~LPr 536 (707)
++|.|..+ +|+. + .-..++|-|..| +.-++.+.+-|.-|+||+-+|+..+-.++||
T Consensus 342 l~GPFidi~h~li~~G~~~~t~~~~l~ElF~~r----------------~tpiL~~~~~p~~vLIPstnDa~s~h~a~PQ 405 (581)
T COG5214 342 LIGPFIDINHILIQYGATQSTPDSMLKELFIPR----------------ITPILDRNAGPKAVLIPSTNDATSCHNAFPQ 405 (581)
T ss_pred EeccccCcchhhhhhCCCCCCChhHHHHHHHHh----------------hhHHHhccCCCceEEeccccchhhccccCCc
Confidence 67999997 3431 1 234455555522 2112202222228999999999875679999
Q ss_pred CCccHHHHHHhhccCC-CeEEeeCCcEEEECCEEEEEEehhHHHHhhhcccc---CCCCCChhHHHHHHHhcCCCCCCCC
Q psy2623 537 PALPKFITSEFQGFVP-NSTMATNPCRVQYCSQEILVVREELLSKMCRNCIK---FPEEGDISKHFVRTLVSQGTLVSLP 612 (707)
Q Consensus 537 pplP~~~~~~l~~~~~-n~~f~SNPcRi~~~~qeIvifRdDl~~~l~r~~i~---~p~~~d~~~~lvktIL~Q~HL~Pl~ 612 (707)
-|+-..- + ++| |...+.|||-+.++..-+++..-|....+.|.+.. .++..++..++..+||.|+|++|+.
T Consensus 406 ~~~~r~a---l--~lp~nfkC~~NPc~F~INei~fg~Ss~Dt~l~~s~eE~f~~~l~s~g~rl~Ris~H~l~QR~fyPvF 480 (581)
T COG5214 406 GPIGRNA---L--RLPSNFKCTGNPCEFFINEILFGISSLDTPLEISSEECFHDSLLSGGDRLGRISYHLLFQRTFYPVF 480 (581)
T ss_pred cccchhh---h--cCCccccccCCcceeEeeeeEEEeccCCchhhccHHHHhccccccccchHHHHHHHHHhhceeeccc
Confidence 9986332 2 344 78899999999999999999999999999776664 3556899999999999999999998
Q ss_pred CC-----Cccc-----ccCcccccccCCCCcEEEecCCCCCceeeeCCeEEEcCCCCccccc
Q psy2623 613 LN-----LCPV-----YWSQYGALSLYPLPDLVILGDQLNAYTIQNTDCIFINPVFHNTVRN 664 (707)
Q Consensus 613 ~~-----~~Pi-----~w~~D~aL~L~PlPd~liL~D~~~~f~~~y~gc~vvNPG~~sF~~~ 664 (707)
++ ..|- +...-..+.. -.||++|++.....|+..++.++++||| .+.|.
T Consensus 481 Pg~~~~k~~ps~ldv~~l~l~Ef~~~-t~PDI~IvpS~L~hF~r~V~nvVvvNpG--~~~k~ 539 (581)
T COG5214 481 PGGSLEKCNPSSLDVVSLSLPEFMSM-TAPDIYIVPSKLKHFCRDVGNVVVVNPG--LQAKE 539 (581)
T ss_pred CCccccccCccccceEEecchhhhcc-CCCcEEEehHHHHHHHHhcCceEEECcc--hhhhh
Confidence 73 2231 1111122333 7899999999999999999999999999 99874
No 11
>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=99.62 E-value=4.8e-15 Score=154.76 Aligned_cols=144 Identities=9% Similarity=0.047 Sum_probs=115.8
Q ss_pred CcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEEEECCEEEEEEe----hhHHHHhhhcccc
Q psy2623 512 GEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRVQYCSQEILVVR----EELLSKMCRNCIK 587 (707)
Q Consensus 512 ~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi~~~~qeIvifR----dDl~~~l~r~~i~ 587 (707)
+.-. +++.||++||+. .+||||||++.+..+- ++++++.++|||+.++++|..+..++ +|+++...
T Consensus 93 ~~i~--V~imPG~~Dp~~--~~lPQqplh~~lfp~s-~~~~~~~~vtNP~~~~i~g~~vLgtsGqni~Di~ky~~----- 162 (257)
T cd07387 93 SSVP--VDLMPGEFDPAN--HSLPQQPLHRCLFPKS-SNYSTLNLVTNPYEFSIDGVRVLGTSGQNVDDILKYSS----- 162 (257)
T ss_pred cCCe--EEECCCCCCccc--ccCCCCCCCHHHhhcc-cccCCcEEeCCCeEEEECCEEEEEECCCCHHHHHHhCC-----
Confidence 3336 999999999997 8999999998875332 35678999999999999999999999 56655432
Q ss_pred CCCCCChhHHHHHHHhcCCCCCCCCCCCcccccC-cccccccCCCCcEEEecCCCCCceeeeCC-----eEEEcCCCCcc
Q psy2623 588 FPEEGDISKHFVRTLVSQGTLVSLPLNLCPVYWS-QYGALSLYPLPDLVILGDQLNAYTIQNTD-----CIFINPVFHNT 661 (707)
Q Consensus 588 ~p~~~d~~~~lvktIL~Q~HL~Pl~~~~~Pi~w~-~D~aL~L~PlPd~liL~D~~~~f~~~y~g-----c~vvNPG~~sF 661 (707)
.+..-.+|+.+|.-|||+|..+..-|.++- -.|-+.|...||+++.|+....-...|.| |.+|+-+ +|
T Consensus 163 ----~~~~l~~me~~L~wrHlaPTaPDTL~~yP~~~~Dpfvi~~~PhVyf~Gnq~~f~t~~~~~~~~~~v~lv~vP--~F 236 (257)
T cd07387 163 ----LESRLDILERTLKWRHIAPTAPDTLWCYPFTDRDPFILEECPHVYFAGNQPKFGTKLVEGEEGQRVLLVCVP--SF 236 (257)
T ss_pred ----CCCHHHHHHHHHHhcccCCCCCCccccccCCCCCceeecCCCCEEEeCCCcceeeeEEEcCCCCeEEEEEeC--Cc
Confidence 123567899999999999999999888883 34678999999999999987554455554 9999999 99
Q ss_pred cccCeeEEEEE
Q psy2623 662 VRNAFEVEKEH 672 (707)
Q Consensus 662 ~~~~~~f~~y~ 672 (707)
++ .-+.+..+
T Consensus 237 s~-t~~~vlvd 246 (257)
T cd07387 237 SK-TGTAVLVN 246 (257)
T ss_pred Cc-CCEEEEEE
Confidence 87 55555554
No 12
>KOG2732|consensus
Probab=99.05 E-value=1.9e-08 Score=108.94 Aligned_cols=335 Identities=14% Similarity=0.165 Sum_probs=209.7
Q ss_pred hhHHHHHHHHHHHHHHHhhhccc--cCCCCCCCCcccchHHHHhhcccCCcceEEEEEEeeec-----------------
Q psy2623 274 DAKSKLFRERYNIIRQRTLRHSL--FNNINPNADSVKLDWVEYLMSLTNVNHKTVVLGMISQL----------------- 334 (707)
Q Consensus 274 ~sk~~lfr~Ry~~i~qrllR~~~--F~~~~~~~~~~klt~I~~Llg~~~~~~~~vvLG~Lsq~----------------- 334 (707)
......|-.|..-+|.|+++... .++. -+++.+|+-+...++.+|+|-|-..
T Consensus 27 ~Qy~~iY~aRL~elRp~i~~~A~k~wg~~---------~~l~~~l~l~~~~~~C~vVGTlfk~~~lKPsIl~~v~~e~~~ 97 (435)
T KOG2732|consen 27 RQYFHIYFARLKELRPRILELAQKKWGSG---------PPLKKQLDLEKGKGECWVVGTLFKAMALKPSILDEVSNEHKV 97 (435)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHhhcCCC---------CchhhheeeccCCccEEEEEehhhhcccCcHHHHHHhhhhcc
Confidence 55677888999999999998862 1111 1233444433333378888876321
Q ss_pred -----------cCCcEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEec-CceEEEEeecCCCccCccccccccCcc
Q psy2623 335 -----------KENRYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYK-DQILHVDALGFPPPEASKNSRLYFGNQ 402 (707)
Q Consensus 335 -----------~~G~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~-s~~f~v~~i~~PP~E~r~~S~~~~gn~ 402 (707)
.+.+|.|||..|+|+|.-++ .....+.-|++|.+=|... +|.|+|.-+-+|-.-++..-
T Consensus 98 ~p~~~~~~y~~ped~i~LEDe~grV~L~G~~--i~~~~~vTGvvvavlG~~~e~G~F~VeDv~fp~~~pq~~P------- 168 (435)
T KOG2732|consen 98 APDPEESNYHSPEDEIVLEDESGRVRLEGSF--ISHAVLVTGVVVAVLGKEAEAGRFLVEDVLFPGSSPQGKP------- 168 (435)
T ss_pred CCCCcccccCCccceEEEecCCceEEEEeec--ccccceeeeEEEEEecccccCceEEEEEEeccCCCccCCC-------
Confidence 13579999999999998763 2334467788888889885 68999999977754433210
Q ss_pred cccCCCCCchhhhhhHHHhhhhcCCcceEEEEeCCCCCc----hhhchhhHHHhHhhhccccC-CC------CCCCCCCC
Q psy2623 403 NIWGGPSPVSLKSVNRMTKMEKNNENAMIVILSDVHLDN----DKVRNNLCEFITSEFQGFVP-NS------TMATNPCR 471 (707)
Q Consensus 403 D~fG~~~~~~~k~~~~L~~~e~~~~~~~fVfvSD~~Lds----~~~~~~L~~~l~~lf~~~~~-~~------p~aGNF~s 471 (707)
+.. ...+-+++++|...+++ .+-++-|.++++..+..-.+ .+ .++||-.+
T Consensus 169 ----------------~~~---~~~~~~i~lVSGL~l~~~~~~~~~l~~l~D~l~g~lg~e~~~~~~~i~rliv~Gn~l~ 229 (435)
T KOG2732|consen 169 ----------------RAT---LPSQRKIALVSGLDLGGGSKNLLRLELLVDWLRGQLGNEYEQSASSIGRLIVAGNSLS 229 (435)
T ss_pred ----------------CCc---CCCCCEEEEEeccccCCCcchhHHHHHHHHHHhcccCccccccccccceEEEeccccc
Confidence 101 12334788999888775 33334444433332221111 11 23588776
Q ss_pred ccc---cccceEEeHHHHHHHhhhcc-CCCCCcCCcccc-ccccCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHH
Q psy2623 472 VQY---CSQEILVVREELLSKMCRNC-IKFPEEGDISKH-VSKNNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSE 546 (707)
Q Consensus 472 ~~y---~sqeiv~~rd~f~~km~RN~-i~fp~LadL~~~-p~l~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~ 546 (707)
-.- .++..++.+-.-. ++ .....+..|.++ ..+. ...+ .=+-||++||.. .+|||+|+-+.+...
T Consensus 230 ~~~~~~~~~~~~~~~~~~~-----~~~~~~~~v~~ld~~L~~~~-~s~~--VdimPG~~Dp~~--~~lPqqPlh~~lfp~ 299 (435)
T KOG2732|consen 230 FSIKILDSQSTSISRLTKK-----DSAASVIPVKELDNFLAQIP-ASIS--VDIMPGVNDPSN--FMLPQQPLHRCLFPK 299 (435)
T ss_pred hhhhccccceeeeeecccc-----ccccccccHHHHHHHHHhcc-ccCC--ccCCCCCCChhh--ccCCcCCcchhhhcc
Confidence 533 2333333211111 00 000011112222 2233 4446 678899999986 899999999887555
Q ss_pred hhccCCCeEEeeCCcEEEECCEEEEEEehhHHHHhhhccccCCCCCChhHHHHHHHhcCCCCCCCCCCCcccccCcc---
Q psy2623 547 FQGFVPNSTMATNPCRVQYCSQEILVVREELLSKMCRNCIKFPEEGDISKHFVRTLVSQGTLVSLPLNLCPVYWSQY--- 623 (707)
Q Consensus 547 l~~~~~n~~f~SNPcRi~~~~qeIvifRdDl~~~l~r~~i~~p~~~d~~~~lvktIL~Q~HL~Pl~~~~~Pi~w~~D--- 623 (707)
-..-...+-..|||-.+++++.+++-..-.=++.++|-... +-.-..++++|.=+|++|..+. .+|-|-
T Consensus 300 s~~~~~~~q~vTNPy~~~ld~~~vl~tSGqNvsDl~ry~~~-----~s~ld~le~tlkw~HvaPTaPD---TL~cyPfte 371 (435)
T KOG2732|consen 300 SPQSLSTLQLVTNPYEFSLDGARVLGTSGQNVSDLLRYSSK-----KSGLDALENTLKWGHVAPTAPD---TLWCYPFTE 371 (435)
T ss_pred CccccchhhcccCceEEEEcCEEEEecCCccHHHHhhhcch-----hhHHHHHhhhheeccccCCCCC---ccccccccc
Confidence 44335567789999999999999999985555555554432 1245789999999999999876 467774
Q ss_pred -cccccCCCCcEEEecCCC-CCce-eeeC--CeEEEcCCCCcccccC
Q psy2623 624 -GALSLYPLPDLVILGDQL-NAYT-IQNT--DCIFINPVFHNTVRNA 665 (707)
Q Consensus 624 -~aL~L~PlPd~liL~D~~-~~f~-~~y~--gc~vvNPG~~sF~~~~ 665 (707)
+-+.+.-.||+.+.|+.- ..+. +.-. .|.+|--. .|+|+.
T Consensus 372 kDPFv~~~~Phvy~~GNqp~f~~r~i~~~g~~~~Lv~VP--~FskT~ 416 (435)
T KOG2732|consen 372 KDPFVMDECPHVYIVGNQPKFGTRLIEGGGKNTLLVCVP--KFSKTG 416 (435)
T ss_pred CCCeeecCCCeEEEecCCCcccceeeecCCceEEEEEcc--cccccc
Confidence 458999999999999873 2222 2222 46777767 788744
No 13
>PRK04036 DNA polymerase II small subunit; Validated
Probab=98.64 E-value=6e-08 Score=111.07 Aligned_cols=119 Identities=13% Similarity=0.148 Sum_probs=81.4
Q ss_pred CCcccCCChHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCccccceeeeeccccccCCcEEEEeeeecccccccccCCC
Q psy2623 59 KKRKLCADSDAKSKLFRERYNIIRQRTLRHSLFNNINPNADSVKLDWVEYLMSLTNVNHKTVVLGMISQLKENITTSGLL 138 (707)
Q Consensus 59 ~~~sl~~~a~~k~~~fr~RY~li~qR~lRne~F~~~~~~~~~~~l~~i~~l~~~~g~~g~~~vlGmL~q~~~~~~~~~l~ 138 (707)
++.+..|++++++++||+||..+++|+.++-. .+.++.|+++.+..++.+|+|||++..+-+.
T Consensus 108 ~~~~~~~~~~~~~~~y~~R~~~L~~~l~~~~~------------~~~i~~l~~~~~~~~~~~viG~v~~~~~~~~----- 170 (504)
T PRK04036 108 GKSTCTGEVEDFVAYFRDRYEKLSKIIRGRVN------------HRPIESLKKLKRGGEEVSIIGMVSDIRSTKN----- 170 (504)
T ss_pred CcccCCCCHHHHHHHHHHHHHHHHHHHHhhcc------------cccHHHHhcCccCCceEEEEEEEEEeecccC-----
Confidence 45677899999999999999999888877432 3346667666544468999999998763111
Q ss_pred Cc--ccccchhhhhhhhhhheehhhhhhhhhhhhhccccccCCCceeeccCCCccccceeeccccccccCCCCccccccc
Q psy2623 139 GK--HQSPHLNLLCLIWVKIFICTLIFIFIILIISLCSFSFNSSQVPTDVQGPVTAFETYHNLVPLILHPVIPVSNREQN 216 (707)
Q Consensus 139 g~--~~~ed~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~ 216 (707)
|. +.|||. ||+|.+.+...... .+ .
T Consensus 171 g~~~~~LED~--------------------------------sgrv~l~~~~~~~~--~~-~------------------ 197 (504)
T PRK04036 171 GHKIVELEDT--------------------------------TGTFPVLIMKDRED--LA-E------------------ 197 (504)
T ss_pred CceEEEEECC--------------------------------CCeEEEEeecchhh--hh-h------------------
Confidence 55 789999 99999987532100 00 0
Q ss_pred cchhhhhhhhhhh-cccccCCCC--eEEEEcCCCCCCC
Q psy2623 217 NIMNWLKLSSECC-RTEINSEEQ--IFSVISAFDIPQF 251 (707)
Q Consensus 217 ~~~~~~g~~~e~~-~~eg~~~~~--~f~Vi~Af~~P~~ 251 (707)
. ..++.+.++ .++|.+.++ .|.| +.+..|.+
T Consensus 198 -~--~~~lvtg~vv~v~G~~~~~g~~f~v-~~i~~p~~ 231 (504)
T PRK04036 198 -L--ADELLLDEVIGVEGTLSGDGGLIFA-DEIIRPDV 231 (504)
T ss_pred -h--hhcccCceEEEEEEEEcCCCCEEEE-EEEECCCC
Confidence 0 013344444 788877655 6888 77777764
No 14
>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=97.11 E-value=3.5e-05 Score=78.00 Aligned_cols=80 Identities=19% Similarity=0.249 Sum_probs=55.8
Q ss_pred HHhhhhcCCcceEEEE---eCCCCCchhhchhhHHHhHhhhccccCCCCCCCCCCCccccccceEEeHHHHHHHhhhccC
Q psy2623 419 MTKMEKNNENAMIVIL---SDVHLDNDKVRNNLCEFITSEFQGFVPNSTMATNPCRVQYCSQEILVVREELLSKMCRNCI 495 (707)
Q Consensus 419 L~~~e~~~~~~~fVfv---SD~~Lds~~~~~~L~~~l~~lf~~~~~~~p~aGNF~s~~y~sqeiv~~rd~f~~km~RN~i 495 (707)
...+++....+++|++ .|++-...+|+++|...+...+.++.+ ..+++|||++.+..+++.+++.|...+|+|+.+
T Consensus 69 ~~~~~~i~~~~~vvlvPg~~D~~~~~~lPq~pl~~~~~~~~~~~~~-~~~~sNP~~~~i~~~~i~~~s~d~~~~l~~~~~ 147 (209)
T PF04042_consen 69 DSFLESILPSTQVVLVPGPNDPTSSPVLPQPPLHSKLFPKLKKYSN-IHFVSNPCRISINGQEIGVTSGDILDDLRRYEI 147 (209)
T ss_dssp HHHHCCCHCCSEEEEE--TTCTT-S-SCSB----TTTTCHHCTTTT-EEE--CSEEEEETTEEEEE-SSHHHHHHHHCCE
T ss_pred HHHHhhcccccEEEEeCCCccccccCCCCCCCCCHHHHhhhhhcCc-eEEeCCCeEEEEeCCcEEEECCcHHHHHHhhcc
Confidence 4556666788999999 799988899999999844443333322 456799999999999999999999999999988
Q ss_pred CCCC
Q psy2623 496 KFPE 499 (707)
Q Consensus 496 ~fp~ 499 (707)
....
T Consensus 148 ~~~~ 151 (209)
T PF04042_consen 148 SKSS 151 (209)
T ss_dssp SHHH
T ss_pred CCCc
Confidence 7654
No 15
>PRK09453 phosphodiesterase; Provisional
Probab=96.52 E-value=0.045 Score=54.30 Aligned_cols=54 Identities=17% Similarity=0.100 Sum_probs=40.7
Q ss_pred CcEEEecCCCCCceeeeCCeEEEcCCCCccc----ccCeeEEEEEeccccceEEEeccCCCceE
Q psy2623 632 PDLVILGDQLNAYTIQNTDCIFINPVFHNTV----RNAFEVEKEHHAVSSGVWLIQSSFKPEVI 691 (707)
Q Consensus 632 Pd~liL~D~~~~f~~~y~gc~vvNPG~~sF~----~~~~~f~~y~~~~~~~~~~~~~~~~~~~~ 691 (707)
.|+++.|+++.++.....|+.++||| |.. ....+|..++ + |.|-++.--.-|||
T Consensus 119 ~d~vi~GHtH~p~~~~~~~~~~iNpG--s~~~p~~~~~~s~~il~--~--~~~~~~~~~~~~~~ 176 (182)
T PRK09453 119 GDVLVYGHTHIPVAEKQGGIILFNPG--SVSLPKGGYPASYGILD--D--NVLSVIDLEGGEVI 176 (182)
T ss_pred CCEEEECCCCCCcceEECCEEEEECC--CccccCCCCCCeEEEEE--C--CcEEEEECCCCeEE
Confidence 48999999999998888999999999 876 2235777777 2 57777655444444
No 16
>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=96.01 E-value=0.15 Score=48.75 Aligned_cols=30 Identities=17% Similarity=0.235 Sum_probs=27.2
Q ss_pred CcEEEecCCCCCceeeeCCeEEEcCCCCcccc
Q psy2623 632 PDLVILGDQLNAYTIQNTDCIFINPVFHNTVR 663 (707)
Q Consensus 632 Pd~liL~D~~~~f~~~y~gc~vvNPG~~sF~~ 663 (707)
.|+++.|+.+.++....+|+.++||| |...
T Consensus 103 ~d~vi~GHtH~~~~~~~~~~~~inpG--s~~~ 132 (155)
T cd00841 103 ADVVLYGHTHIPVIEKIGGVLLLNPG--SLSL 132 (155)
T ss_pred CCEEEECcccCCccEEECCEEEEeCC--CccC
Confidence 59999999999998888999999999 8764
No 17
>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=95.70 E-value=0.015 Score=58.67 Aligned_cols=131 Identities=13% Similarity=-0.027 Sum_probs=70.5
Q ss_pred CcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCc-EEEECCEEEEEEehhHHHHhhh------c
Q psy2623 512 GEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPC-RVQYCSQEILVVREELLSKMCR------N 584 (707)
Q Consensus 512 ~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPc-Ri~~~~qeIvifRdDl~~~l~r------~ 584 (707)
.... +++|+|+||... ... +. .........+|. .+.+.++.+.+.+-|......+ .
T Consensus 68 ~~~~--v~~v~GNHD~~~-~~~---------~~-----~~~~~~~~~~~~~~~~~~g~~~~~~HG~~~d~~~~~~~~~~~ 130 (217)
T cd07398 68 RGTR--VYYVPGNHDFLL-GDF---------FA-----EELGLILLPDPLVHLELDGKRILLEHGDQFDTDDRAYQLLRR 130 (217)
T ss_pred CCCe--EEEECCCchHHH-HhH---------HH-----HHcCCEEeccceEEEeeCCeEEEEECCCcCchhHHHHHHHHH
Confidence 4556 999999999864 111 11 112346677888 8999999999999443332211 1
Q ss_pred cccCCCC----CChhHHHHHHHhcCCCCCC--CCCCCcccccCcc----cc--cccCCCCcEEEecCCCCCceeeeCCeE
Q psy2623 585 CIKFPEE----GDISKHFVRTLVSQGTLVS--LPLNLCPVYWSQY----GA--LSLYPLPDLVILGDQLNAYTIQNTDCI 652 (707)
Q Consensus 585 ~i~~p~~----~d~~~~lvktIL~Q~HL~P--l~~~~~Pi~w~~D----~a--L~L~PlPd~liL~D~~~~f~~~y~gc~ 652 (707)
-+..+.. ..++-.....+..+..... ............+ .+ +.-..-++.+|.|+.+.+....+.+..
T Consensus 131 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~GH~H~~~~~~~~~~~ 210 (217)
T cd07398 131 LGRNPYDQLLFLNRPLNRRRGIAGGLRWSSRYLKKKVKKAVAIIDVFEEAVARLARRKGVDGVICGHTHRPALHELDGKL 210 (217)
T ss_pred HhCcHHHHHHHhcchHHHHHHHHHhhhhhhHHHHhCccchHHHHHHHHHHHHHHHHhcCCCEEEECCCCCCCeEEECCEE
Confidence 1000000 0111222222222211110 0000001111111 11 223567899999999999888899999
Q ss_pred EEcCCCCcc
Q psy2623 653 FINPVFHNT 661 (707)
Q Consensus 653 vvNPG~~sF 661 (707)
.+|+| ++
T Consensus 211 ~~n~G--~W 217 (217)
T cd07398 211 YINLG--DW 217 (217)
T ss_pred EEECC--CC
Confidence 99999 75
No 18
>PRK05340 UDP-2,3-diacylglucosamine hydrolase; Provisional
Probab=95.67 E-value=0.12 Score=53.82 Aligned_cols=143 Identities=13% Similarity=0.012 Sum_probs=80.8
Q ss_pred ceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEEEECCEEEEEEehhHH----------HHhhh
Q psy2623 514 KDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRVQYCSQEILVVREELL----------SKMCR 583 (707)
Q Consensus 514 s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi~~~~qeIvifRdDl~----------~~l~r 583 (707)
.. +++|+|++|... . +.+.+ -.+++...||..+.+.|+.+.+.+.|.+ .++-|
T Consensus 71 ~~--v~~v~GNHD~~~-~---------~~~~~-----~~g~~~l~~~~~~~~~g~~i~l~HGd~~~~~d~~y~~~r~~~r 133 (241)
T PRK05340 71 VP--CYFMHGNRDFLL-G---------KRFAK-----AAGMTLLPDPSVIDLYGQRVLLLHGDTLCTDDKAYQRFRRKVR 133 (241)
T ss_pred Ce--EEEEeCCCchhh-h---------HHHHH-----hCCCEEeCCcEEEEECCEEEEEECCcccccCCHHHHHHHHHHh
Confidence 46 899999999764 1 12221 2457888999999999999999997754 34444
Q ss_pred cccc------CCCCCChhHHHHHHHhc---CCCCCCCCCCCcccccC-cccccccCCCCcEEEecCCCCCceeeeC----
Q psy2623 584 NCIK------FPEEGDISKHFVRTLVS---QGTLVSLPLNLCPVYWS-QYGALSLYPLPDLVILGDQLNAYTIQNT---- 649 (707)
Q Consensus 584 ~~i~------~p~~~d~~~~lvktIL~---Q~HL~Pl~~~~~Pi~w~-~D~aL~L~PlPd~liL~D~~~~f~~~y~---- 649 (707)
|-.. .| .+.-..+++.+-. +.+.. -.....++..+ ....+.-+ -++.+|.|+.+.+....++
T Consensus 134 ~~~~~~~~~~~p--~~~~~~ia~~~~~~s~~~~~~-~~~~~~~~~~~~~~~~~~~~-~~~~~i~GH~H~~~~~~~~~~~~ 209 (241)
T PRK05340 134 NPWLQWLFLALP--LSIRLRIAAKMRAKSKAANQS-KSLEIMDVNPEAVAALMEKH-GVDTLIHGHTHRPAIHQLQAGGQ 209 (241)
T ss_pred CHHHHHHHHhCC--HHHHHHHHHHHHHHHHHhcCC-CcccccCCCHHHHHHHHHHh-CCCEEEECcccCcceeeccCCCc
Confidence 4321 12 1122233333322 11110 00011111111 11223333 5689999999977544432
Q ss_pred CeEEEcCCCCcccccCeeEEEEEeccccceEEEec
Q psy2623 650 DCIFINPVFHNTVRNAFEVEKEHHAVSSGVWLIQS 684 (707)
Q Consensus 650 gc~vvNPG~~sF~~~~~~f~~y~~~~~~~~~~~~~ 684 (707)
+|.-+|-| .|.. +.++.+++ .|.|-++.
T Consensus 210 ~~~~~~lg--dw~~-~~~~~~~~----~~~~~~~~ 237 (241)
T PRK05340 210 PATRIVLG--DWHE-QGSVLKVD----ADGVELIP 237 (241)
T ss_pred ceEEEEeC--CCCC-CCeEEEEE----CCceEEEe
Confidence 35789999 9974 67777666 34455543
No 19
>COG0622 Predicted phosphoesterase [General function prediction only]
Probab=95.23 E-value=0.14 Score=51.03 Aligned_cols=136 Identities=13% Similarity=0.090 Sum_probs=84.4
Q ss_pred eEEEEeCCCCCchhhchhhHHHhHhhhccccCCCCCCCCCCCccccccceEEeHHHHHHHhhhccCCCCCcCCccccccc
Q psy2623 430 MIVILSDVHLDNDKVRNNLCEFITSEFQGFVPNSTMATNPCRVQYCSQEILVVREELLSKMCRNCIKFPEEGDISKHVSK 509 (707)
Q Consensus 430 ~fVfvSD~~Lds~~~~~~L~~~l~~lf~~~~~~~p~aGNF~s~~y~sqeiv~~rd~f~~km~RN~i~fp~LadL~~~p~l 509 (707)
++.++||-|.+.....+.+.. ...+..+....||++..-.- +. . +..- +
T Consensus 3 ~ilviSDtH~~~~~~~~~~~~----~~~~~~d~vih~GD~~~~~~-----------~~-----------~---l~~~--~ 51 (172)
T COG0622 3 KILVISDTHGPLRAIEKALKI----FNLEKVDAVIHAGDSTSPFT-----------LD-----------A---LEGG--L 51 (172)
T ss_pred EEEEEeccCCChhhhhHHHHH----hhhcCCCEEEECCCcCCccc-----------hH-----------H---hhcc--c
Confidence 578889999887644444333 33333444566799885210 00 0 1110 1
Q ss_pred cCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEEEECCEEEEEEehhHHHHhhhccccCC
Q psy2623 510 NNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRVQYCSQEILVVREELLSKMCRNCIKFP 589 (707)
Q Consensus 510 ~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi~~~~qeIvifRdDl~~~l~r~~i~~p 589 (707)
..+ ++.|=|++|-.. .. .. ....-.+...+.+|++.|..... . +
T Consensus 52 ---~~~--i~~V~GN~D~~~-~~----~~------------------~p~~~~~~~~g~ki~l~HGh~~~--~------~ 95 (172)
T COG0622 52 ---AAK--LIAVRGNCDGEV-DQ----EE------------------LPEELVLEVGGVKIFLTHGHLYF--V------K 95 (172)
T ss_pred ---ccc--eEEEEccCCCcc-cc----cc------------------CChhHeEEECCEEEEEECCCccc--c------c
Confidence 235 899999999755 11 11 22345678899999999865543 1 1
Q ss_pred CCCChhHHHHHHHhcCCCCCCCCCCCcccccCcccccccCCCCcEEEecCCCCCceeeeCCeEEEcCCCCccc
Q psy2623 590 EEGDISKHFVRTLVSQGTLVSLPLNLCPVYWSQYGALSLYPLPDLVILGDQLNAYTIQNTDCIFINPVFHNTV 662 (707)
Q Consensus 590 ~~~d~~~~lvktIL~Q~HL~Pl~~~~~Pi~w~~D~aL~L~PlPd~liL~D~~~~f~~~y~gc~vvNPG~~sF~ 662 (707)
.+....+.+++..- .|++|-|+++.+...+..|+.++||| |-.
T Consensus 96 ~~~~~l~~la~~~~----------------------------~Dvli~GHTH~p~~~~~~~i~~vNPG--S~s 138 (172)
T COG0622 96 TDLSLLEYLAKELG----------------------------ADVLIFGHTHKPVAEKVGGILLVNPG--SVS 138 (172)
T ss_pred cCHHHHHHHHHhcC----------------------------CCEEEECCCCcccEEEECCEEEEcCC--CcC
Confidence 11122344444322 49999999999998899999999999 654
No 20
>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=93.80 E-value=0.28 Score=50.64 Aligned_cols=132 Identities=12% Similarity=0.078 Sum_probs=75.1
Q ss_pred EEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEEEECCEEEEEEehhHH----------HHhhhcccc
Q psy2623 518 FLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRVQYCSQEILVVREELL----------SKMCRNCIK 587 (707)
Q Consensus 518 fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi~~~~qeIvifRdDl~----------~~l~r~~i~ 587 (707)
+++|||+||... . +.+. + .-++++..||..+...++.+.+.+-|.+ .++.||-..
T Consensus 71 v~~v~GNHD~~~-~---------~~~~----~-~~gi~~l~~~~~~~~~g~~ill~HGd~~~~~d~~y~~~r~~~r~~~~ 135 (231)
T TIGR01854 71 CYFMHGNRDFLI-G---------KRFA----R-EAGMTLLPDPSVIDLYGQKVLLMHGDTLCTDDTAYQAFRAKVHQPWL 135 (231)
T ss_pred EEEEcCCCchhh-h---------HHHH----H-HCCCEEECCCEEEEECCEEEEEEcCccccCCCHHHHHHHHHHhCHHH
Confidence 999999999754 1 1121 1 2357889999999999999999995533 223233210
Q ss_pred ------CCCCCChhHHHHHHHhc---CCCCC-CCC-CCCcccccCcccccccCCCCcEEEecCCCCCceeeeC----CeE
Q psy2623 588 ------FPEEGDISKHFVRTLVS---QGTLV-SLP-LNLCPVYWSQYGALSLYPLPDLVILGDQLNAYTIQNT----DCI 652 (707)
Q Consensus 588 ------~p~~~d~~~~lvktIL~---Q~HL~-Pl~-~~~~Pi~w~~D~aL~L~PlPd~liL~D~~~~f~~~y~----gc~ 652 (707)
.| .+.-..+++.+-+ |.+.+ |.. ....|- .....+.-+ -+|++|-|+.+.+....++ ++.
T Consensus 136 ~~~~~~l~--~~~r~~l~~~~~~~s~~~~~~~~~~~~~~~~~--~~~~~~~~~-~~~~~i~GHtH~~~~~~~~~~~~~~~ 210 (231)
T TIGR01854 136 QRLFLHLP--LAVRVKLARKIRAESRADKQMKSQDIMDVNPA--EVAAVMRRY-GVDRLIHGHTHRPAIHPLQADGQPAT 210 (231)
T ss_pred HHHHHhCC--HHHHHHHHHHHHHHHHHhcCCCcchhhCCCHH--HHHHHHHHc-CCCEEEECCccCcceeecccCCCccE
Confidence 11 0112223333322 22221 110 011110 112222223 5689999999987665655 789
Q ss_pred EEcCCCCcccccCeeEEEEE
Q psy2623 653 FINPVFHNTVRNAFEVEKEH 672 (707)
Q Consensus 653 vvNPG~~sF~~~~~~f~~y~ 672 (707)
-+|-| .|.. ..++.+++
T Consensus 211 ~~~lg--dW~~-~~~~~~~~ 227 (231)
T TIGR01854 211 RIVLG--DWYR-QGSILRVD 227 (231)
T ss_pred EEEEC--CCcc-CCeEEEEc
Confidence 99999 9974 56666655
No 21
>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=93.76 E-value=0.11 Score=49.00 Aligned_cols=34 Identities=21% Similarity=0.114 Sum_probs=29.3
Q ss_pred cCCCCcEEEecCCCCCceeeeCCeEEEcCCCCcccc
Q psy2623 628 LYPLPDLVILGDQLNAYTIQNTDCIFINPVFHNTVR 663 (707)
Q Consensus 628 L~PlPd~liL~D~~~~f~~~y~gc~vvNPG~~sF~~ 663 (707)
...-+++++.|+.+.++....+|+.++||| |+..
T Consensus 106 ~~~~~~~~~~GH~H~~~~~~~~~~~~~~~G--s~~~ 139 (156)
T PF12850_consen 106 SRENVDLVLHGHTHRPQVFKIGGIHVINPG--SIGG 139 (156)
T ss_dssp HHTTSSEEEESSSSSEEEEEETTEEEEEE---GSSS
T ss_pred cccCCCEEEcCCcccceEEEECCEEEEECC--cCCC
Confidence 366689999999999999889999999999 8875
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=88.69 E-value=1 Score=44.94 Aligned_cols=45 Identities=16% Similarity=0.166 Sum_probs=35.3
Q ss_pred CcEEEecCCCCCceeeeCCeEEEcCCCCccccc--------CeeEEEEEeccccceE
Q psy2623 632 PDLVILGDQLNAYTIQNTDCIFINPVFHNTVRN--------AFEVEKEHHAVSSGVW 680 (707)
Q Consensus 632 Pd~liL~D~~~~f~~~y~gc~vvNPG~~sF~~~--------~~~f~~y~~~~~~~~~ 680 (707)
+|+++-|+++.++...++|++++||| |.... .-+|..++ ++.+-|
T Consensus 107 ~dvii~GHTH~p~~~~~~g~~viNPG--Sv~~~~~~~~~~~~~syail~--~~~~~~ 159 (178)
T cd07394 107 VDILISGHTHKFEAFEHEGKFFINPG--SATGAFSPLDPNVIPSFVLMD--IQGSKV 159 (178)
T ss_pred CCEEEECCCCcceEEEECCEEEEECC--CCCCCCCCCCCCCCCeEEEEE--ecCCeE
Confidence 39999999999998889999999999 98621 23777777 554544
No 23
>COG2908 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=87.87 E-value=0.68 Score=48.32 Aligned_cols=142 Identities=12% Similarity=0.025 Sum_probs=88.3
Q ss_pred CcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEEEECCEEEEEEehhHHHHhhhccccC--C
Q psy2623 512 GEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRVQYCSQEILVVREELLSKMCRNCIKF--P 589 (707)
Q Consensus 512 ~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi~~~~qeIvifRdDl~~~l~r~~i~~--p 589 (707)
+.++ .+++||++|-- +-+.+.+..+.+.++..|+.+.++|..+++.+-|.+--.-++--.+ .
T Consensus 66 ~G~~--v~~i~GN~Dfl--------------l~~~f~~~~g~~~l~~~~~~~~l~g~~~Ll~HGD~f~t~~~~y~~~r~~ 129 (237)
T COG2908 66 KGTR--VYYIHGNHDFL--------------LGKRFAQEAGGMTLLPDPIVLDLYGKRILLAHGDTFCTDDRAYQWFRYK 129 (237)
T ss_pred cCCe--EEEecCchHHH--------------HHHHHHhhcCceEEcCcceeeeecCcEEEEEeCCcccchHHHHHHHHHH
Confidence 5589 99999999932 2344555677899999999999999999999966542211111100 0
Q ss_pred CC------------CChhHHHHHHHhcCCCCCCCC----CCCcccccCcccccccCCCCcEEEecCCCCCceeeeCCeEE
Q psy2623 590 EE------------GDISKHFVRTLVSQGTLVSLP----LNLCPVYWSQYGALSLYPLPDLVILGDQLNAYTIQNTDCIF 653 (707)
Q Consensus 590 ~~------------~d~~~~lvktIL~Q~HL~Pl~----~~~~Pi~w~~D~aL~L~PlPd~liL~D~~~~f~~~y~gc~v 653 (707)
.+ ...-.++++.+.+++...+-. ....-+....--..------|.||-|+.+.+=....+|++=
T Consensus 130 ~~~~~~~~lflnl~l~~R~ri~~k~r~~s~~~k~~~~~~~~i~d~~~~~v~~~~~~~~vd~vI~GH~Hr~ai~~i~~~~y 209 (237)
T COG2908 130 VHWAWLQLLFLNLPLRVRRRIAYKIRSLSSWAKKKVKKAVNIMDVNPAAVADEARRHGVDGVIHGHTHRPAIHNIPGITY 209 (237)
T ss_pred cccHHHHHHHHHhHHHHHHHHHHHHHHhhHHhHHhhhhHHHHHHhhHHHHHHHHHHcCCCEEEecCcccHhhccCCCceE
Confidence 00 012367778887777222221 01111111110011112234788999998766667889999
Q ss_pred EcCCCCcccccCeeEEEEE
Q psy2623 654 INPVFHNTVRNAFEVEKEH 672 (707)
Q Consensus 654 vNPG~~sF~~~~~~f~~y~ 672 (707)
+|-| +|. ...|+....
T Consensus 210 i~lG--dW~-~~~s~~~v~ 225 (237)
T COG2908 210 INLG--DWV-SEGSILEVD 225 (237)
T ss_pred EecC--cch-hcceEEEEe
Confidence 9999 998 688887766
No 24
>PHA02546 47 endonuclease subunit; Provisional
Probab=85.53 E-value=2.4 Score=46.62 Aligned_cols=52 Identities=15% Similarity=0.123 Sum_probs=36.1
Q ss_pred cceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEEEECCEEEEE
Q psy2623 513 EKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRVQYCSQEILV 572 (707)
Q Consensus 513 ~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi~~~~qeIvi 572 (707)
... +++||||||... .. ..++.-+.. +.+..+++++...|..+.+.+..+.+
T Consensus 76 gi~--v~~I~GNHD~~~-~~-~~~~~~~~~----ll~~~~~v~v~~~~~~v~i~g~~i~~ 127 (340)
T PHA02546 76 GIT--LHVLVGNHDMYY-KN-TIRPNAPTE----LLGQYDNITVIDEPTTVDFDGCSIDL 127 (340)
T ss_pred CCe--EEEEccCCCccc-cc-ccccCchHH----HHhhCCCEEEeCCceEEEECCEEEEE
Confidence 346 999999999854 22 122222222 23457899999999999999988775
No 25
>cd07400 MPP_YydB Bacillus subtilis YydB and related proteins, metallophosphatase domain. YydB (BSU40220) is an uncharacterized Bacillus subtilis protein that belongs to the following Bacillus subtilis gene cluster yydB-yydC-yydD-yydG-yydH-yydI-yydJ. YydB 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 productiv
Probab=80.21 E-value=3.1 Score=39.08 Aligned_cols=27 Identities=22% Similarity=0.224 Sum_probs=22.4
Q ss_pred CCcEEEecCCCCCceee----eCCeEEEcCC
Q psy2623 631 LPDLVILGDQLNAYTIQ----NTDCIFINPV 657 (707)
Q Consensus 631 lPd~liL~D~~~~f~~~----y~gc~vvNPG 657 (707)
-+++++-|+.+.++... ..+..++|+|
T Consensus 113 ~~~~~l~GH~H~~~~~~~~~~~~~~~~~~aG 143 (144)
T cd07400 113 GVDLVLHGHKHVPYVGNISNAGGGLVVIGAG 143 (144)
T ss_pred CCCEEEECCCCCcCeeeccCCCCCEEEEecC
Confidence 35889999999887766 6789999999
No 26
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=78.38 E-value=21 Score=37.26 Aligned_cols=41 Identities=15% Similarity=0.093 Sum_probs=28.1
Q ss_pred CCCcEEEecCCCCCc-eeeeCCeEEEcCCCCcccccCeeEEEEE
Q psy2623 630 PLPDLVILGDQLNAY-TIQNTDCIFINPVFHNTVRNAFEVEKEH 672 (707)
Q Consensus 630 PlPd~liL~D~~~~f-~~~y~gc~vvNPG~~sF~~~~~~f~~y~ 672 (707)
-.|-+-+-|+.++.- .-+..++.++||| ++....|.+....
T Consensus 174 fqP~l~i~GHIHEs~G~d~iG~TivVNPG--~~~~g~yA~i~l~ 215 (226)
T COG2129 174 FQPLLGLHGHIHESRGIDKIGNTIVVNPG--PLGEGRYALIELE 215 (226)
T ss_pred hCCceEEEeeecccccccccCCeEEECCC--CccCceEEEEEec
Confidence 345677778887432 2368899999999 9876555554443
No 27
>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=74.22 E-value=21 Score=30.96 Aligned_cols=64 Identities=20% Similarity=0.296 Sum_probs=44.9
Q ss_pred EEEEEeeec---cCC--cEEeecCCceEEEEeeccccC----CCccCcCeEEEEEeEecC--ceEEEEeecCCCc
Q psy2623 326 VVLGMISQL---KEN--RYFLEDPTGIVQLDLSQTSYH----PGLYTENCIVLVEGHYKD--QILHVDALGFPPP 389 (707)
Q Consensus 326 vvLG~Lsq~---~~G--~~~LED~tg~i~Ldls~a~~~----~g~f~p~~iVLveG~f~s--~~f~v~~i~~PP~ 389 (707)
.+.|+++.. +.| -+-|||.+|.+.+-+-...+. ...+.++.+|+++|.... +.+.+..+-.|..
T Consensus 3 ~i~GiI~~v~~TK~g~~~~~leD~~G~~Ev~~F~~~~~~~~~~~~l~~d~~v~v~g~v~~~~~~l~~~~I~~~~~ 77 (79)
T cd04490 3 SIIGMVNDVRSTKNGHRIVELEDTTGRITVLLTKDKEELFEEAEDILPDEVIGVSGTVSKDGGLIFADEIFRPDV 77 (79)
T ss_pred EEEEEEeEEEEcCCCCEEEEEECCCCEEEEEEeCchhhhhhhhhhccCCCEEEEEEEEecCCCEEEEEEeEcCCC
Confidence 344555433 344 368899999999988876665 356799999999999952 2466777766643
No 28
>cd07385 MPP_YkuE_C Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain. YkuE is an uncharacterized Bacillus subtilis protein with a C-terminal metallophosphatase domain and an N-terminal twin-arginine (RR) motif. An RR-signal peptide derived from the Bacillus subtilis YkuE protein can direct Tat-dependent secretion of agarase in Streptomyces lividans. This is an indication that YkuE is transported by the Bacillus subtilis Tat (Twin-arginine translocation) pathway machinery. YkuE 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-dia
Probab=74.17 E-value=9.6 Score=38.41 Aligned_cols=110 Identities=15% Similarity=0.001 Sum_probs=56.9
Q ss_pred ceEEEEeCCCCCchhhchhhHHHhHhhhccccCCCCCCCCCCCccccccceEEeHHHHHHHhhhccCCCCCcCCcccccc
Q psy2623 429 AMIVILSDVHLDNDKVRNNLCEFITSEFQGFVPNSTMATNPCRVQYCSQEILVVREELLSKMCRNCIKFPEEGDISKHVS 508 (707)
Q Consensus 429 ~~fVfvSD~~Lds~~~~~~L~~~l~~lf~~~~~~~p~aGNF~s~~y~sqeiv~~rd~f~~km~RN~i~fp~LadL~~~p~ 508 (707)
-+++++||+|++.....+.+.+.+..+-+...+...++|+......... +.+. .+ +.+
T Consensus 2 ~~i~~~sDlH~~~~~~~~~~~~~~~~~~~~~~d~vl~~GD~~~~~~~~~------~~~~-----------~~--l~~--- 59 (223)
T cd07385 2 LRIAHLSDLHLGPFVSRERLERLVEKINALKPDLVVLTGDLVDGSVDVL------ELLL-----------EL--LKK--- 59 (223)
T ss_pred CEEEEEeecCCCccCCHHHHHHHHHHHhccCCCEEEEcCcccCCcchhh------HHHH-----------HH--Hhc---
Confidence 3689999999987554445555333222222223445699886432211 1111 01 111
Q ss_pred ccCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCC-cEEEECCEEEEEE
Q psy2623 509 KNNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNP-CRVQYCSQEILVV 573 (707)
Q Consensus 509 l~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNP-cRi~~~~qeIvif 573 (707)
+. .... .++|||+||........ ..+.++ . .++++..|. ..+...+.++.++
T Consensus 60 l~-~~~~--v~~v~GNHD~~~~~~~~--------~~~~l~-~-~~v~~L~~~~~~~~~~~~~i~i~ 112 (223)
T cd07385 60 LK-APLG--VYAVLGNHDYYSGDEEN--------WIEALE-S-AGITVLRNESVEISVGGATIGIA 112 (223)
T ss_pred cC-CCCC--EEEECCCcccccCchHH--------HHHHHH-H-cCCEEeecCcEEeccCCeEEEEE
Confidence 11 2234 88999999987511111 022232 1 345555555 4566667788776
No 29
>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=71.08 E-value=8.6 Score=37.00 Aligned_cols=30 Identities=20% Similarity=0.241 Sum_probs=26.7
Q ss_pred CCcEEEecCCCCCceeeeCCeEEEcCCCCccc
Q psy2623 631 LPDLVILGDQLNAYTIQNTDCIFINPVFHNTV 662 (707)
Q Consensus 631 lPd~liL~D~~~~f~~~y~gc~vvNPG~~sF~ 662 (707)
-.|+++.|+++.++...++|++++||| |-.
T Consensus 106 ~~d~vi~GHtH~~~~~~~~~~~~iNpG--s~~ 135 (158)
T TIGR00040 106 GVDVLIFGHTHIPVAEELRGILLINPG--SLT 135 (158)
T ss_pred CCCEEEECCCCCCccEEECCEEEEECC--ccc
Confidence 348999999999988889999999999 865
No 30
>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=70.56 E-value=32 Score=32.72 Aligned_cols=61 Identities=21% Similarity=0.335 Sum_probs=41.2
Q ss_pred cceEEEEEEee-----eccCC---cEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEe-cCceEEEEee
Q psy2623 322 NHKTVVLGMIS-----QLKEN---RYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHY-KDQILHVDAL 384 (707)
Q Consensus 322 ~~~~vvLG~Ls-----q~~~G---~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f-~s~~f~v~~i 384 (707)
++.+-+-|++. ..+++ .|.|.|....+++.-.... ...|.++.-|+++|.| .++.|+++++
T Consensus 50 ~~~vrv~G~V~~gSv~~~~~~~~~~F~i~D~~~~i~V~Y~G~~--Pd~F~eg~~VVv~G~~~~~g~F~A~~l 119 (131)
T PF03100_consen 50 GRKVRVGGLVVEGSVEYDPDGNTLTFTITDGGKEIPVVYTGPL--PDLFREGQGVVVEGRLGEDGVFEATEL 119 (131)
T ss_dssp TSEEEEEEEEECTTEEE-TTSSEEEEEEE-SS-EEEEEEES----CTT--TTSEEEEEEEECCTSEEEEEEE
T ss_pred CceEEEeeEEccCCEEEcCCCCEEEEEEEECCcEEEEEECCCC--CccccCCCeEEEEEEECCCCEEEEEEE
Confidence 36788889885 22223 4888899877766655544 3468999999999999 7899999987
No 31
>cd08165 MPP_MPPE1 human MPPE1 and related proteins, metallophosphatase domain. MPPE1 is a functionally uncharacterized metallophosphatase domain-containing protein. The MPPE1 gene is located on chromosome 18 and is a candidate susceptibility gene for Bipolar disorder. MPPE1 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
Probab=70.02 E-value=5.9 Score=38.58 Aligned_cols=26 Identities=12% Similarity=0.107 Sum_probs=17.9
Q ss_pred EEEecCCCCCCCCCCcccCCCccHHHHHHhhc
Q psy2623 518 FLIVPKIYVEGTVTSKVLSPALPKFITSEFQG 549 (707)
Q Consensus 518 fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~ 549 (707)
+++|||+||.+. .. +++.....++++
T Consensus 79 i~~v~GNHD~~~-~~-----~~~~~~~~~~~~ 104 (156)
T cd08165 79 LHVVVGNHDIGF-HY-----EMTTYKLERFEK 104 (156)
T ss_pred EEEEcCCCCcCC-CC-----ccCHHHHHHHHH
Confidence 899999999976 22 345555555553
No 32
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=65.21 E-value=14 Score=41.08 Aligned_cols=59 Identities=31% Similarity=0.403 Sum_probs=41.1
Q ss_pred cccCCCC--cEEEecCCCCCceeeeCCeEEEcCCCCcccccC-------eeEEEEEeccccc-eEEEeccCCC
Q psy2623 626 LSLYPLP--DLVILGDQLNAYTIQNTDCIFINPVFHNTVRNA-------FEVEKEHHAVSSG-VWLIQSSFKP 688 (707)
Q Consensus 626 L~L~PlP--d~liL~D~~~~f~~~y~gc~vvNPG~~sF~~~~-------~~f~~y~~~~~~~-~~~~~~~~~~ 688 (707)
+...|.+ |.+-||+.+.+..+...+..++.|| |-.+-+ ..+.. ..++.| .|.+..-+-|
T Consensus 194 ~~~~~~~~~~YvALGHiH~~~~~~~~~~~i~y~G--S~~~~~f~E~~~~k~~~~--v~~~~~~~~~~~~~~~~ 262 (390)
T COG0420 194 LSLLPKGGFDYVALGHIHKRQVIPKEDPPIVYPG--SPERYSFGEEGERKGVVL--VEFSGGKLWRFEELFVP 262 (390)
T ss_pred cccccCCCcceEEcCCcccccccCCCCCceecCC--CceecchhHcCCcccEEE--EEecCCceeeecccccc
Confidence 6788888 9999999999888776665668999 876432 11121 246777 6777665555
No 33
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=63.42 E-value=59 Score=31.81 Aligned_cols=62 Identities=19% Similarity=0.398 Sum_probs=45.2
Q ss_pred CcceEEEEEEeeec---c-CC---cEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEecC-ceEEEEee
Q psy2623 321 VNHKTVVLGMISQL---K-EN---RYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYKD-QILHVDAL 384 (707)
Q Consensus 321 ~~~~~vvLG~Lsq~---~-~G---~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~s-~~f~v~~i 384 (707)
.++.+-+-|++... . ++ .|.|.|....+++.-. +.-...|.+|.-|+++|.|.+ ++|+++++
T Consensus 50 ~g~~vrvgG~V~~gSi~~~~~~~~~F~ltD~~~~i~V~Y~--G~lPd~F~eg~~VVv~G~~~~~g~F~A~~v 119 (148)
T PRK13254 50 AGRRFRLGGLVEKGSVQRGDGLTVRFVVTDGNATVPVVYT--GILPDLFREGQGVVAEGRLQDGGVFVADEV 119 (148)
T ss_pred CCCeEEEeEEEecCcEEeCCCCEEEEEEEeCCeEEEEEEC--CCCCccccCCCEEEEEEEECCCCeEEEEEE
Confidence 34789999999431 1 22 4788888766655544 333456899999999999985 59999998
No 34
>PF14582 Metallophos_3: Metallophosphoesterase, calcineurin superfamily; PDB: 1UF3_B 2YVT_A.
Probab=60.69 E-value=8.1 Score=40.46 Aligned_cols=43 Identities=16% Similarity=0.174 Sum_probs=27.6
Q ss_pred ccCCCCcEEEecCCCCCc-eeeeCCeEEEcCCCCcccccCeeEEEE
Q psy2623 627 SLYPLPDLVILGDQLNAY-TIQNTDCIFINPVFHNTVRNAFEVEKE 671 (707)
Q Consensus 627 ~L~PlPd~liL~D~~~~f-~~~y~gc~vvNPG~~sF~~~~~~f~~y 671 (707)
--.-.|++++.|+.+..- ......++||||| ||..++|+.+-.
T Consensus 202 Ik~~~P~ivl~Ghihe~~~~e~lG~TlVVNPG--sL~~G~yAvI~l 245 (255)
T PF14582_consen 202 IKTYNPDIVLCGHIHESHGKESLGKTLVVNPG--SLAEGDYAVIDL 245 (255)
T ss_dssp HHHH--SEEEE-SSS-EE--EEETTEEEEE----BGGGTEEEEEET
T ss_pred HHhcCCcEEEecccccchhhHHhCCEEEecCc--ccccCceeEEEe
Confidence 334468898999988654 3478899999999 999887776643
No 35
>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=59.93 E-value=7 Score=39.86 Aligned_cols=35 Identities=11% Similarity=0.045 Sum_probs=28.6
Q ss_pred cccCCCCcEEEecCCCCCceeeeCCeEEEcCCCCccc
Q psy2623 626 LSLYPLPDLVILGDQLNAYTIQNTDCIFINPVFHNTV 662 (707)
Q Consensus 626 L~L~PlPd~liL~D~~~~f~~~y~gc~vvNPG~~sF~ 662 (707)
+.-+|-+++++-|+.+..+...++|.+++|.| +..
T Consensus 177 l~~~~~v~~v~~GH~H~~~~~~~~g~~~~~~g--s~~ 211 (240)
T cd07402 177 LARHPNVRAILCGHVHRPIDGSWGGIPLLTAP--STC 211 (240)
T ss_pred HhcCCCeeEEEECCcCchHHeEECCEEEEEcC--cce
Confidence 34456779999999998888889999998888 654
No 36
>PRK11340 phosphodiesterase YaeI; Provisional
Probab=57.89 E-value=9.1 Score=40.62 Aligned_cols=119 Identities=9% Similarity=0.004 Sum_probs=58.5
Q ss_pred CcceEEEEeCCCCCchhhchhhHHHhHhhhccccCCCCCCCCCCCccccccceEEeHHHHHHHhhhccCCCCCcCCcccc
Q psy2623 427 ENAMIVILSDVHLDNDKVRNNLCEFITSEFQGFVPNSTMATNPCRVQYCSQEILVVREELLSKMCRNCIKFPEEGDISKH 506 (707)
Q Consensus 427 ~~~~fVfvSD~~Lds~~~~~~L~~~l~~lf~~~~~~~p~aGNF~s~~y~sqeiv~~rd~f~~km~RN~i~fp~LadL~~~ 506 (707)
+.-+++++||+|++...+.+.+.+.+..+-+...+.+.++|++...... .+ . +.+. +. +.+.
T Consensus 48 ~~~rI~~lSDlH~~~~~~~~~l~~~v~~i~~~~pDlVli~GD~~d~~~~-~~---~-~~~~-----------~~--L~~L 109 (271)
T PRK11340 48 APFKILFLADLHYSRFVPLSLISDAIALGIEQKPDLILLGGDYVLFDMP-LN---F-SAFS-----------DV--LSPL 109 (271)
T ss_pred CCcEEEEEcccCCCCcCCHHHHHHHHHHHHhcCCCEEEEccCcCCCCcc-cc---H-HHHH-----------HH--HHHH
Confidence 3477999999998754444445552222222222234456998752110 01 1 1111 00 2211
Q ss_pred ccccCCcceeEEEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCC-cEEEECCEEEEEEe-hhH
Q psy2623 507 VSKNNGEKDIIFLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNP-CRVQYCSQEILVVR-EEL 577 (707)
Q Consensus 507 p~l~~~~s~~~fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNP-cRi~~~~qeIvifR-dDl 577 (707)
. .... .++|+|+||-.. .. .-.+.+.+.+++ -++++..|- ..|...+..+.++- +|.
T Consensus 110 ---~-~~~p--v~~V~GNHD~~~-~~-----~~~~~~~~~l~~--~gi~lL~n~~~~i~~~~~~i~i~G~~d~ 168 (271)
T PRK11340 110 ---A-ECAP--TFACFGNHDRPV-GT-----EKNHLIGETLKS--AGITVLFNQATVIATPNRQFELVGTGDL 168 (271)
T ss_pred ---h-hcCC--EEEecCCCCccc-Cc-----cchHHHHHHHHh--cCcEEeeCCeEEEeeCCcEEEEEEecch
Confidence 1 2235 899999999753 11 001223333332 245666554 46666777775553 554
No 37
>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=54.43 E-value=11 Score=39.81 Aligned_cols=43 Identities=21% Similarity=0.291 Sum_probs=29.1
Q ss_pred cccCccccccc---CCCCcEEEecCCCCCceeeeCCeEEEcCCCCccc
Q psy2623 618 VYWSQYGALSL---YPLPDLVILGDQLNAYTIQNTDCIFINPVFHNTV 662 (707)
Q Consensus 618 i~w~~D~aL~L---~PlPd~liL~D~~~~f~~~y~gc~vvNPG~~sF~ 662 (707)
..|+.+..+.+ |+-.++++-|+.+.......+|+..+..| +-.
T Consensus 200 ~~~~~~~~~~ll~~~~~V~~v~~GH~H~~~~~~~~gi~~~~~~--a~~ 245 (267)
T cd07396 200 LLWNHEEVLSILRAYGCVKACISGHDHEGGYAQRHGIHFLTLE--GMV 245 (267)
T ss_pred cccCHHHHHHHHHhCCCEEEEEcCCcCCCCccccCCeeEEEec--hhh
Confidence 34554444333 35567788899987766678999888877 554
No 38
>COG3111 Periplasmic protein with OB-fold [Function unknown]
Probab=49.77 E-value=81 Score=30.02 Aligned_cols=69 Identities=19% Similarity=0.302 Sum_probs=52.0
Q ss_pred cchHHHHhhcccCCcceEEEEEEeeecc-CCcEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEecCc
Q psy2623 308 KLDWVEYLMSLTNVNHKTVVLGMISQLK-ENRYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYKDQ 377 (707)
Q Consensus 308 klt~I~~Llg~~~~~~~~vvLG~Lsq~~-~G~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~s~ 377 (707)
+.++++..+.-. .+..+.+=|.|.+.- +..|+.-|-+|.|.+++....+..-..+|..-|-.+|++..+
T Consensus 44 ~~~TV~~Ak~~~-Dda~V~l~GnIv~qi~~D~y~FrD~sGeI~VeIdd~~w~g~tv~P~dkV~I~GevDk~ 113 (128)
T COG3111 44 KVTTVDQAKTLH-DDAWVSLEGNIVRQIGDDRYVFRDASGEINVDIDDKVWNGQTVTPKDKVRIQGEVDKD 113 (128)
T ss_pred ceeEHHHhhccc-cCCeEEEEeeEEEeeCCceEEEEcCCccEEEEecccccCCcccCcccEEEEEeEEcCC
Confidence 344455444322 246888889886655 456889999999999999988877778999999999999644
No 39
>COG1409 Icc Predicted phosphohydrolases [General function prediction only]
Probab=49.64 E-value=15 Score=38.15 Aligned_cols=43 Identities=16% Similarity=0.028 Sum_probs=26.6
Q ss_pred eEEEEeCCCCC--chhhchhhHHHhHhhhccccCCCCCCCCCCCc
Q psy2623 430 MIVILSDVHLD--NDKVRNNLCEFITSEFQGFVPNSTMATNPCRV 472 (707)
Q Consensus 430 ~fVfvSD~~Ld--s~~~~~~L~~~l~~lf~~~~~~~p~aGNF~s~ 472 (707)
+++-+||+|++ .....+-+...+.++-....+...++|+.+..
T Consensus 2 ~i~~isD~H~~~~~~~~~~~~~~~~~~i~~~~~D~~v~tGDl~~~ 46 (301)
T COG1409 2 RIAHISDLHLGALGVDSEELLEALLAAIEQLKPDLLVVTGDLTND 46 (301)
T ss_pred eEEEEecCcccccccchHHHHHHHHHHHhcCCCCEEEEccCcCCC
Confidence 46788999999 56665666664443322222334556998875
No 40
>PRK13159 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=49.37 E-value=1.1e+02 Score=30.33 Aligned_cols=73 Identities=12% Similarity=0.221 Sum_probs=47.2
Q ss_pred hHHHHhhcccCCcceEEEEEEee-----eccCC---cEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEecCceEEE
Q psy2623 310 DWVEYLMSLTNVNHKTVVLGMIS-----QLKEN---RYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYKDQILHV 381 (707)
Q Consensus 310 t~I~~Llg~~~~~~~~vvLG~Ls-----q~~~G---~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~s~~f~v 381 (707)
++-+-+-+....++++-+=||+. +..++ .|-+-|....+++.-. +.-..+|.+|.=|+++|.+.+++|++
T Consensus 39 tpsEv~~~~~~~~~~~RlGG~V~~GSv~r~~~~~~v~F~vtD~~~~v~V~Y~--GilPDlFrEGqgVVaeG~~~~g~F~A 116 (155)
T PRK13159 39 TPSQVRAGAAAGYQQFRLGGMVKAGSIQRAADSLKVSFTVIDKNAATQVEYT--GILPDLFRDNQSVIANGRMQGGRFVA 116 (155)
T ss_pred CHHHHhcCCcccCCeEEEccEEecCcEEEcCCCcEEEEEEEcCCcEEEEEEc--cCCCccccCCCeEEEEEEEcCCEEEE
Confidence 33333333333446777778763 22222 3566676666655433 33446789999999999999999999
Q ss_pred Eee
Q psy2623 382 DAL 384 (707)
Q Consensus 382 ~~i 384 (707)
+++
T Consensus 117 ~~v 119 (155)
T PRK13159 117 NEV 119 (155)
T ss_pred eEE
Confidence 998
No 41
>KOG3325|consensus
Probab=47.96 E-value=16 Score=35.80 Aligned_cols=37 Identities=22% Similarity=0.429 Sum_probs=27.7
Q ss_pred cEEEecCCCCCceeeeCCeEEEcCCCCcccccCeeEEEEE
Q psy2623 633 DLVILGDQLNAYTIQNTDCIFINPVFHNTVRNAFEVEKEH 672 (707)
Q Consensus 633 d~liL~D~~~~f~~~y~gc~vvNPG~~sF~~~~~~f~~y~ 672 (707)
|+|+.|..+.--+.+-+||-++||| |-. +.|+-..-+
T Consensus 109 DILl~G~Th~f~Aye~eg~ffvnPG--SaT-GAfn~~~t~ 145 (183)
T KOG3325|consen 109 DILLTGHTHKFEAYEHEGKFFVNPG--SAT-GAFNVSDTD 145 (183)
T ss_pred cEEEeCCceeEEEEEeCCcEEeCCC--ccc-CCCcccccC
Confidence 8999999976555567999999999 875 565543333
No 42
>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=46.11 E-value=1e+02 Score=28.39 Aligned_cols=67 Identities=15% Similarity=0.278 Sum_probs=44.4
Q ss_pred cchHHHHhhcccCCcceEEEEEEeeecc-CCcEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEec
Q psy2623 308 KLDWVEYLMSLTNVNHKTVVLGMISQLK-ENRYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYK 375 (707)
Q Consensus 308 klt~I~~Llg~~~~~~~~vvLG~Lsq~~-~G~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~ 375 (707)
..++++.++. ...+..+++=|-|.+.- +.+|...|.+|.|.+.+....+..--++|+.-|=+.|+..
T Consensus 21 ~~~TV~~a~~-~~Dd~~V~L~G~Iv~~l~~d~Y~F~D~TG~I~VeId~~~w~g~~vt~~~~Vri~GeVD 88 (103)
T PF04076_consen 21 TVTTVAQAKN-AKDDTPVTLEGNIVKQLGDDKYLFRDATGEIEVEIDDDVWRGQTVTPDDKVRISGEVD 88 (103)
T ss_dssp ----HHHHTT-S-SSEEEEEEEEEEEEEETTEEEEEETTEEEEEE--GGGSTT----TTSEEEEEEEEE
T ss_pred CeEeHHHHhh-CcCCCeEEEEEEEEEEecCCEEEEECCCCcEEEEEChhhcCCcccCCCCEEEEEEEEe
Confidence 4456666653 34567899999976554 5568889999999999998876655578888888889996
No 43
>cd00840 MPP_Mre11_N Mre11 nuclease, N-terminal metallophosphatase domain. Mre11 (also known as SbcD in Escherichia coli) is a subunit of the MRX protein complex. This complex includes: Mre11, Rad50, and Xrs2/Nbs1, and plays a vital role in several nuclear processes including DNA double-strand break repair, telomere length maintenance, cell cycle checkpoint control, and meiotic recombination, in eukaryotes. During double-strand break repair, the MRX complex is required to hold the two ends of a broken chromosome together. In vitro studies show that Mre11 has 3'-5' exonuclease activity on dsDNA templates and endonuclease activity on dsDNA and ssDNA templates. In addition to the N-terminal phosphatase domain, the eukaryotic MRE11 members of this family have a C-terminal DNA binding domain (not included in this alignment model). MRE11-like proteins are found in prokaryotes and archaea was well as in eukaryotes. Mre11 belongs to the metallophosphatase (MPP) superfamily. MPPs are functi
Probab=44.75 E-value=15 Score=36.81 Aligned_cols=74 Identities=16% Similarity=0.038 Sum_probs=0.0
Q ss_pred eEEEEeCCCCCchhhchh-----------hHHHhHhhhccccCCCCCCCCCCCccccccceEEeHHHHHHHhhhccCCCC
Q psy2623 430 MIVILSDVHLDNDKVRNN-----------LCEFITSEFQGFVPNSTMATNPCRVQYCSQEILVVREELLSKMCRNCIKFP 498 (707)
Q Consensus 430 ~fVfvSD~~Lds~~~~~~-----------L~~~l~~lf~~~~~~~p~aGNF~s~~y~sqeiv~~rd~f~~km~RN~i~fp 498 (707)
+|+++||+|++....... |...+...-+...+.+.++|++....-.+......-.++.
T Consensus 1 ~i~~~sD~Hlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~i~~~GD~~~~~~~~~~~~~~~~~~~----------- 69 (223)
T cd00840 1 RFLHTADWHLGKPLKGLSRDRRREDQFEAFEEIVELAIEEKVDFVLIAGDLFDSNNPSPEALELLIEAL----------- 69 (223)
T ss_pred CeEEeccccCCccccCcCcccchHHHHHHHHHHHHHHHhcCCCEEEECCcccCCCCCCHHHHHHHHHHH-----------
Q ss_pred CcCCccccccccCC--cceeEEEEecCCCC
Q psy2623 499 EEGDISKHVSKNNG--EKDIIFLIVPKIYV 526 (707)
Q Consensus 499 ~LadL~~~p~l~~~--~s~~~fVfVPG~~D 526 (707)
..+ . ... ++++||+||
T Consensus 70 ---------~~~-~~~~~~--v~~~~GNHD 87 (223)
T cd00840 70 ---------RRL-KEAGIP--VFIIAGNHD 87 (223)
T ss_pred ---------HHH-HHCCCC--EEEecCCCC
No 44
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=43.66 E-value=16 Score=38.55 Aligned_cols=31 Identities=10% Similarity=0.205 Sum_probs=24.3
Q ss_pred ccCCCCcEEEecCCCCCceeeeCCeEE-EcCC
Q psy2623 627 SLYPLPDLVILGDQLNAYTIQNTDCIF-INPV 657 (707)
Q Consensus 627 ~L~PlPd~liL~D~~~~f~~~y~gc~v-vNPG 657 (707)
.=||-+++++-|+.+..+...++|+.+ .+|+
T Consensus 191 ~~~~~v~~vl~GH~H~~~~~~~~gi~~~~~ps 222 (275)
T PRK11148 191 AKFPNVKAILCGHIHQELDLDWNGRRLLATPS 222 (275)
T ss_pred hcCCCceEEEecccChHHhceECCEEEEEcCC
Confidence 345667889999999988888999976 4655
No 45
>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=43.51 E-value=25 Score=36.63 Aligned_cols=27 Identities=7% Similarity=-0.151 Sum_probs=20.7
Q ss_pred CCcEEEecCCCCCceeeeCCeEEEcCC
Q psy2623 631 LPDLVILGDQLNAYTIQNTDCIFINPV 657 (707)
Q Consensus 631 lPd~liL~D~~~~f~~~y~gc~vvNPG 657 (707)
-.++++-|+.+......+.|.+.+..+
T Consensus 206 ~V~~v~~GH~H~~~~~~~~g~~~~~~~ 232 (262)
T cd07395 206 GVKAVFSGHYHRNAGGRYGGLEMVVTS 232 (262)
T ss_pred CceEEEECccccCCceEECCEEEEEcC
Confidence 467889999986666778898766666
No 46
>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=43.42 E-value=36 Score=35.46 Aligned_cols=39 Identities=10% Similarity=0.071 Sum_probs=28.9
Q ss_pred CCCcEEEecCCCCCceeeeCCeEEEcCCCCcccccCeeEEEE
Q psy2623 630 PLPDLVILGDQLNAYTIQNTDCIFINPVFHNTVRNAFEVEKE 671 (707)
Q Consensus 630 PlPd~liL~D~~~~f~~~y~gc~vvNPG~~sF~~~~~~f~~y 671 (707)
--|.+.+-|+.+... .+..+|.|+||| ++..+.+....+
T Consensus 178 ~~P~l~i~GHih~~~-~~~g~t~vvNpg--~~~~g~~a~i~~ 216 (224)
T cd07388 178 HNPLVVLVGGKGQKH-ELLGASWVVVPG--DLSEGRYALLDL 216 (224)
T ss_pred hCCCEEEEcCCceeE-EEeCCEEEECCC--cccCCcEEEEEe
Confidence 358899999887433 367899999999 998775554443
No 47
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=42.58 E-value=26 Score=36.89 Aligned_cols=34 Identities=6% Similarity=0.027 Sum_probs=21.4
Q ss_pred EEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcE
Q psy2623 518 FLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCR 562 (707)
Q Consensus 518 fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcR 562 (707)
+++|+||||... . +. .+..+ + ...+++...+|..
T Consensus 78 v~~i~GNHD~~~-~--~~---~~~~l---~--~~~~v~i~~~~~~ 111 (253)
T TIGR00619 78 IVVISGNHDSAQ-R--LS---AAKKL---L--IELGVFVVGFPVG 111 (253)
T ss_pred EEEEccCCCChh-h--cc---cchhH---H--HhCCeEEEEeccc
Confidence 899999999864 1 11 12222 1 1368888888764
No 48
>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=42.31 E-value=1.2e+02 Score=29.10 Aligned_cols=68 Identities=16% Similarity=0.243 Sum_probs=52.5
Q ss_pred cchHHHHhhcccCCcceEEEEEEeeeccCC-cEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEecC
Q psy2623 308 KLDWVEYLMSLTNVNHKTVVLGMISQLKEN-RYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYKD 376 (707)
Q Consensus 308 klt~I~~Llg~~~~~~~~vvLG~Lsq~~~G-~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~s 376 (707)
..++++..+.. ..|..+.+=|-|.+.-.+ +|...|.+|.|.+.+....+..--+.|+.-|=..|+...
T Consensus 44 ~~~tV~~a~~~-~Ddt~V~L~G~Iv~~l~~d~Y~F~D~TG~I~VeId~~~w~G~~v~p~d~V~I~GeVDk 112 (126)
T TIGR00156 44 KKMTVDFAKSM-HDGASVTLRGNIISHIGDDRYVFRDKSGEINVVIPAAVWNGREVQPKDMVNISGSLDK 112 (126)
T ss_pred ceEeHHHHhhC-CCCCEEEEEEEEEEEeCCceEEEECCCCCEEEEECHHHcCCCcCCCCCEEEEEEEECC
Confidence 35667776643 345789999999777655 488899999999999887775545788888888899974
No 49
>COG2332 CcmE Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]
Probab=41.28 E-value=1.2e+02 Score=29.80 Aligned_cols=72 Identities=15% Similarity=0.248 Sum_probs=43.8
Q ss_pred HHhhcccCCcceEEEEEEeeec---c--CC-cEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEecC-ceEEEEee
Q psy2623 313 EYLMSLTNVNHKTVVLGMISQL---K--EN-RYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYKD-QILHVDAL 384 (707)
Q Consensus 313 ~~Llg~~~~~~~~vvLG~Lsq~---~--~G-~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~s-~~f~v~~i 384 (707)
+-+-+...+.+++-+=||+..- + ++ ++-.+..++...+...-.+.-..+|-+|+-|+++|.+.+ ++|++.++
T Consensus 42 el~~~~~~~G~rlR~GGlV~~GSv~R~~~~~~v~F~vtD~~~~v~V~Y~GiLPDLFREGQgVVa~G~~~~~~~f~A~~v 120 (153)
T COG2332 42 ELLEGKVETGQRLRLGGLVEAGSVQRDPGSLKVSFVVTDGNKSVTVSYEGILPDLFREGQGVVAEGQLQGGGVFEAKEV 120 (153)
T ss_pred HhccccccCCcEEEEeeeEeeceEEecCCCcEEEEEEecCCceEEEEEeccCchhhhcCCeEEEEEEecCCCEEEeeeh
Confidence 3333444445788888887321 1 22 222222233333333444444577999999999999976 79999987
No 50
>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=39.91 E-value=47 Score=27.11 Aligned_cols=50 Identities=28% Similarity=0.350 Sum_probs=34.9
Q ss_pred EEEEEeeec-cCC----cEEeecCCceEEEEeeccc--cCCCccCcCeEEEEEeEec
Q psy2623 326 VVLGMISQL-KEN----RYFLEDPTGIVQLDLSQTS--YHPGLYTENCIVLVEGHYK 375 (707)
Q Consensus 326 vvLG~Lsq~-~~G----~~~LED~tg~i~Ldls~a~--~~~g~f~p~~iVLveG~f~ 375 (707)
.|.|++... +.+ .+.|+|.+|.+.+.+-... .....+.+|.+|.++|...
T Consensus 2 ~v~G~V~~~~~~~~~~~~~~l~D~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~ 58 (75)
T PF01336_consen 2 TVEGRVTSIRRSGGKIVFFTLEDGTGSIQVVFFNEEYERFREKLKEGDIVRVRGKVK 58 (75)
T ss_dssp EEEEEEEEEEEEETTEEEEEEEETTEEEEEEEETHHHHHHHHTS-TTSEEEEEEEEE
T ss_pred EEEEEEEEEEcCCCCEEEEEEEECCccEEEEEccHHhhHHhhcCCCCeEEEEEEEEE
Confidence 466777666 332 2678999999999888721 1123468999999999985
No 51
>PF00149 Metallophos: Calcineurin-like phosphoesterase; InterPro: IPR004843 This domain is found in a diverse range of phosphoesterases [], including protein phosphoserine phosphatases, nucleotidases, sphingomyelin phosphodiesterases and 2'-3' cAMP phosphodiesterases, as well as nucleases such as bacterial SbcD or yeast MRE11. The most conserved regions in this domain centre around the metal chelating residues.; GO: 0016787 hydrolase activity; PDB: 2IAE_C 3DW8_F 3FGA_C 2IE4_C 2NYM_C 2NYL_C 3K7V_C 2NPP_C 2IE3_C 3K7W_C ....
Probab=39.46 E-value=19 Score=32.50 Aligned_cols=42 Identities=17% Similarity=0.054 Sum_probs=23.4
Q ss_pred eEEEEeCCCCCchhhc---hhhHHHhHhhhccccCCCCCCCCCCCccc
Q psy2623 430 MIVILSDVHLDNDKVR---NNLCEFITSEFQGFVPNSTMATNPCRVQY 474 (707)
Q Consensus 430 ~fVfvSD~~Lds~~~~---~~L~~~l~~lf~~~~~~~p~aGNF~s~~y 474 (707)
+|+++||+|.+..... ..+.. .......+...++|+.+....
T Consensus 2 ri~~isD~H~~~~~~~~~~~~~~~---~~~~~~~d~ii~~GD~~~~~~ 46 (200)
T PF00149_consen 2 RILVISDLHGGYDDDSDAFRKLDE---IAAENKPDFIIFLGDLVDGGN 46 (200)
T ss_dssp EEEEEEBBTTTHHHHCHHHHHHHH---HHHHTTTSEEEEESTSSSSSS
T ss_pred eEEEEcCCCCCCcchhHHHHHHHH---HhccCCCCEEEeecccccccc
Confidence 6899999999876552 11111 011222222445699987543
No 52
>cd07410 MPP_CpdB_N Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain. CpdB is a bacterial periplasmic protein with an N-terminal metallophosphatase domain and a C-terminal 3'-nucleotidase domain. This alignment model represents the N-terminal metallophosphatase domain, which has 2',3'-cyclic phosphodiesterase activity, hydrolyzing the 2',3'-cyclic phosphates of adenosine, guanosine, cytosine and uridine to yield nucleoside and phosphate. CpdB also hydrolyzes the chromogenic substrates p-nitrophenyl phosphate (PNPP), bis(PNPP) and p-nitrophenyl phosphorylcholine (NPPC). CpdB is thought to play a scavenging role during RNA hydrolysis by converting the non-transportable nucleotides produced by RNaseI to nucleosides which can easily enter a cell for use as a carbon source. This family also includes YfkN, a Bacillus subtilis nucleotide phosphoesterase with two copies of each of the metallophosphatase and 3'-nucleotidase domains. The N-terminal metallophos
Probab=37.37 E-value=63 Score=34.12 Aligned_cols=54 Identities=17% Similarity=0.213 Sum_probs=42.6
Q ss_pred CCCCcEEEecCCCCCcee-eeCCeEEEcCCCCcccccCeeEEEEEeccccceEEEecc
Q psy2623 629 YPLPDLVILGDQLNAYTI-QNTDCIFINPVFHNTVRNAFEVEKEHHAVSSGVWLIQSS 685 (707)
Q Consensus 629 ~PlPd~liL~D~~~~f~~-~y~gc~vvNPG~~sF~~~~~~f~~y~~~~~~~~~~~~~~ 685 (707)
.|-.|+++-||++..+.. .++++.++++| ++.+ ......+.-...+|.|-|.+.
T Consensus 216 ~~~vD~IlgGHsH~~~~~~~~~~~~v~q~g--~~g~-~vg~l~l~~~~~~~~~~i~~~ 270 (277)
T cd07410 216 VPGIDAILTGHQHRRFPGPTVNGVPVVQPG--NWGS-HLGVIDLTLEKDDGKWKVTDA 270 (277)
T ss_pred CCCCcEEEeCCCccccccCCcCCEEEEcCC--hhhC-EEEEEEEEEEEcCCEEEEEec
Confidence 367799999999987776 78999999999 8875 566666665566799988754
No 53
>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=37.27 E-value=31 Score=33.37 Aligned_cols=27 Identities=22% Similarity=0.338 Sum_probs=23.5
Q ss_pred CCcEEEecCCCCCcee-eeCCeEEEcCC
Q psy2623 631 LPDLVILGDQLNAYTI-QNTDCIFINPV 657 (707)
Q Consensus 631 lPd~liL~D~~~~f~~-~y~gc~vvNPG 657 (707)
-|++++-|+.+.++.. .+.+++++|||
T Consensus 161 ~~~~~l~GH~H~~~~~~~~~~~~~~n~G 188 (188)
T cd07392 161 QPLLCICGHIHESRGVDKIGNTLVVNPG 188 (188)
T ss_pred CCcEEEEeccccccceeeeCCeEEecCC
Confidence 5899999999988744 68999999998
No 54
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=35.10 E-value=37 Score=38.46 Aligned_cols=49 Identities=16% Similarity=0.221 Sum_probs=27.7
Q ss_pred ccCCCCcEEEecCCCCCceeeeCCeEEEcCCCCcccccCeeEEEEEeccccceEEE
Q psy2623 627 SLYPLPDLVILGDQLNAYTIQNTDCIFINPVFHNTVRNAFEVEKEHHAVSSGVWLI 682 (707)
Q Consensus 627 ~L~PlPd~liL~D~~~~f~~~y~gc~vvNPG~~sF~~~~~~f~~y~~~~~~~~~~~ 682 (707)
.+.|--|.+-|||-|.+-.+. ...++.=|| |-. .++|.--. -.-|||++
T Consensus 216 ~~f~~~dYvALGHlH~~Q~v~-~~~~vrYsG--Spl--~~sFsE~~--~~K~v~lV 264 (407)
T PRK10966 216 QAFPPADYIALGHIHRAQKVG-GTEHIRYSG--SPI--PLSFDELG--KSKSVHLV 264 (407)
T ss_pred HHCCccCeeeccccccCcCCC-CCCcEEEcC--CCC--CCCccccC--CCCeEEEE
Confidence 344446889999998665441 223566677 664 35554433 12455544
No 55
>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=33.68 E-value=35 Score=35.53 Aligned_cols=38 Identities=8% Similarity=-0.064 Sum_probs=23.2
Q ss_pred eEEEEeCCCCCchhhchhhHHHhHhhhcc-ccCCCCCCCCCCCc
Q psy2623 430 MIVILSDVHLDNDKVRNNLCEFITSEFQG-FVPNSTMATNPCRV 472 (707)
Q Consensus 430 ~fVfvSD~~Lds~~~~~~L~~~l~~lf~~-~~~~~p~aGNF~s~ 472 (707)
+++.+||+| ++..-++++.+ ..+. -.+....+|+++..
T Consensus 6 kIl~iSDiH-gn~~~le~l~~----~~~~~~~D~vv~~GDl~~~ 44 (224)
T cd07388 6 YVLATSNPK-GDLEALEKLVG----LAPETGADAIVLIGNLLPK 44 (224)
T ss_pred EEEEEEecC-CCHHHHHHHHH----HHhhcCCCEEEECCCCCCC
Confidence 578889999 44444455544 3322 23335567999973
No 56
>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=32.53 E-value=28 Score=34.35 Aligned_cols=12 Identities=25% Similarity=0.096 Sum_probs=11.4
Q ss_pred EEEecCCCCCCC
Q psy2623 518 FLIVPKIYVEGT 529 (707)
Q Consensus 518 fVfVPG~~Dp~~ 529 (707)
+++||||||.+.
T Consensus 90 ~~~v~GNHD~g~ 101 (171)
T cd07384 90 VYYVPGNHDIGY 101 (171)
T ss_pred EEEECCccccCC
Confidence 999999999987
No 57
>PRK13150 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=31.48 E-value=1.7e+02 Score=29.05 Aligned_cols=60 Identities=22% Similarity=0.336 Sum_probs=40.4
Q ss_pred ceEEEEEEee-----eccCC---cEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEec-CceEEEEee
Q psy2623 323 HKTVVLGMIS-----QLKEN---RYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYK-DQILHVDAL 384 (707)
Q Consensus 323 ~~~vvLG~Ls-----q~~~G---~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~-s~~f~v~~i 384 (707)
.++-+-|++. +..+| .|-+.|....+.+. -.+.-..+|.+|.=|+++|.+. +++|+++++
T Consensus 58 ~~iRvgG~V~~GSv~r~~~~~~v~F~vtD~~~~v~V~--Y~GilPDlFrEG~gVVveG~~~~~g~F~A~ev 126 (159)
T PRK13150 58 QRLRVGGMVMPGSVRRDPDSLKVNFSLYDAEGSVTVS--YEGILPDLFREGQGVVVQGTLEKGNHVLAHEV 126 (159)
T ss_pred CEEEEeeEEeCCcEEECCCCcEEEEEEEcCCcEEEEE--EeccCCccccCCCeEEEEEEECCCCEEEEeEE
Confidence 4566666663 22223 35666766655443 3334456789999999999997 589999988
No 58
>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=30.22 E-value=1.9e+02 Score=25.22 Aligned_cols=52 Identities=21% Similarity=0.339 Sum_probs=38.2
Q ss_pred EEEEEEeeeccC-C---cEEeecCCceEEEEeecccc-----CCCccCcCeEEEEEeEecC
Q psy2623 325 TVVLGMISQLKE-N---RYFLEDPTGIVQLDLSQTSY-----HPGLYTENCIVLVEGHYKD 376 (707)
Q Consensus 325 ~vvLG~Lsq~~~-G---~~~LED~tg~i~Ldls~a~~-----~~g~f~p~~iVLveG~f~s 376 (707)
+.++|.+...++ + .|-|+|.||.++...-.... ....+.+|.+|-+.|....
T Consensus 2 v~~vG~V~~~~~~~~~~~~tL~D~TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~ 62 (95)
T cd04478 2 VTLVGVVRNVEEQSTNITYTIDDGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKS 62 (95)
T ss_pred EEEEEEEEeeeEcccEEEEEEECCCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcc
Confidence 567888877775 3 36789999998877764332 2344788999999999963
No 59
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=30.16 E-value=1.9e+02 Score=25.94 Aligned_cols=64 Identities=19% Similarity=0.171 Sum_probs=43.2
Q ss_pred HHHhhcccCCcceEEEEEEeeeccC---CcEEee--cCCceEEEEeeccccC--C-CccCcCeEEEEEeEec
Q psy2623 312 VEYLMSLTNVNHKTVVLGMISQLKE---NRYFLE--DPTGIVQLDLSQTSYH--P-GLYTENCIVLVEGHYK 375 (707)
Q Consensus 312 I~~Llg~~~~~~~~vvLG~Lsq~~~---G~~~LE--D~tg~i~Ldls~a~~~--~-g~f~p~~iVLveG~f~ 375 (707)
|+.++++...-+.++|-|.++.... |++|++ |.+..+...+-..... . ..+.+|+-|++.|..+
T Consensus 11 ik~~le~~~~~~~vwV~GEIs~~~~~~~gh~YftLkD~~a~i~~~~~~~~~~~i~~~~l~~G~~V~v~g~~~ 82 (99)
T PF13742_consen 11 IKDLLERDPPLPNVWVEGEISNLKRHSSGHVYFTLKDEEASISCVIFRSRARRIRGFDLKDGDKVLVRGRVS 82 (99)
T ss_pred HHHHHhcCCCcCCEEEEEEEeecEECCCceEEEEEEcCCcEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEE
Confidence 5556655422368999999987754 777775 7776666655443321 1 3479999999999875
No 60
>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=29.79 E-value=49 Score=30.80 Aligned_cols=26 Identities=23% Similarity=0.575 Sum_probs=22.4
Q ss_pred CcEEEecCCCCCc-ee----eeCCeEEEcCC
Q psy2623 632 PDLVILGDQLNAY-TI----QNTDCIFINPV 657 (707)
Q Consensus 632 Pd~liL~D~~~~f-~~----~y~gc~vvNPG 657 (707)
|++++-|+.+.++ .. +..|+.++||+
T Consensus 105 ~~~~i~GH~H~~~~~~~~~~~~~~t~~in~~ 135 (135)
T cd07379 105 PKLHVFGHIHEGYGAERVLDTDGETLFVNAS 135 (135)
T ss_pred CcEEEEcCcCCcCceeEecccCCCEEEEeCC
Confidence 6999999999887 34 67999999996
No 61
>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=29.07 E-value=29 Score=35.38 Aligned_cols=43 Identities=5% Similarity=-0.095 Sum_probs=26.7
Q ss_pred eEEEEeCCCCCchhhchhhHHHhHhhhccccC----CCCCCCCCCCc
Q psy2623 430 MIVILSDVHLDNDKVRNNLCEFITSEFQGFVP----NSTMATNPCRV 472 (707)
Q Consensus 430 ~fVfvSD~~Lds~~~~~~L~~~l~~lf~~~~~----~~p~aGNF~s~ 472 (707)
+|++++|++.....+.+.+...+.++.+.... ....+|+.+..
T Consensus 2 ~~~~~~D~q~~~~~~~~~~~~~~~~i~~~~~~~~~d~iv~~GDl~~~ 48 (214)
T cd07399 2 TLAVLPDTQYYTESYPEVFDAQTDWIVDNAEALNIAFVLHLGDIVDD 48 (214)
T ss_pred EEEEecCCCcCCcCCHHHHHHHHHHHHHHHHHcCCCEEEECCCccCC
Confidence 68999999987665555565555444443322 23345988853
No 62
>PRK10053 hypothetical protein; Provisional
Probab=27.86 E-value=2.5e+02 Score=26.98 Aligned_cols=68 Identities=13% Similarity=0.214 Sum_probs=51.0
Q ss_pred chHHHHhhcccCCcceEEEEEEeeeccCC-cEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEecCc
Q psy2623 309 LDWVEYLMSLTNVNHKTVVLGMISQLKEN-RYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYKDQ 377 (707)
Q Consensus 309 lt~I~~Llg~~~~~~~~vvLG~Lsq~~~G-~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~s~ 377 (707)
+++++..+. ...|..+++=|-|.+.-.+ +|...|-+|.|.+++....+..--+.|+--|-..|++..+
T Consensus 49 ~~tV~~a~~-~~Dd~~V~L~G~Iv~~lg~d~Y~F~D~tG~I~VeID~~~w~G~~v~p~~kV~I~GevDk~ 117 (130)
T PRK10053 49 KMTVEQAKT-MHDGATVSLRGNLIDHKGDDRYVFRDKSGEINVIIPAAVFDGREVQPDQMININGSLDKK 117 (130)
T ss_pred eEEHHHhhc-CcCCCeEEEEEEEEEEeCCceEEEECCCCcEEEEeCHHHcCCCcCCCCCEEEEEEEECCC
Confidence 445666654 2335788889988666544 5888999999999999887755557888888888999743
No 63
>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=24.81 E-value=2.1e+02 Score=23.71 Aligned_cols=51 Identities=25% Similarity=0.260 Sum_probs=34.0
Q ss_pred EEEEEEeeecc---CCc--EEeecCCceEEEEeeccccC--CCccCcCeEEEEEeEec
Q psy2623 325 TVVLGMISQLK---ENR--YFLEDPTGIVQLDLSQTSYH--PGLYTENCIVLVEGHYK 375 (707)
Q Consensus 325 ~vvLG~Lsq~~---~G~--~~LED~tg~i~Ldls~a~~~--~g~f~p~~iVLveG~f~ 375 (707)
+++.|+++..+ .|. +-|+|.++.+.+.+-...+. ...+.++..|+++|...
T Consensus 2 ~~v~g~v~~i~~tk~g~~~~~L~D~~~~i~~~~f~~~~~~~~~~l~~g~~v~v~g~v~ 59 (78)
T cd04489 2 VWVEGEISNLKRPSSGHLYFTLKDEDASIRCVMWRSNARRLGFPLEEGMEVLVRGKVS 59 (78)
T ss_pred EEEEEEEecCEECCCcEEEEEEEeCCeEEEEEEEcchhhhCCCCCCCCCEEEEEEEEE
Confidence 34556665543 342 36789999888776644332 34578999999999875
No 64
>PRK13165 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=24.47 E-value=2.9e+02 Score=27.49 Aligned_cols=60 Identities=18% Similarity=0.323 Sum_probs=39.9
Q ss_pred ceEEEEEEee-----eccCC---cEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEecC-ceEEEEee
Q psy2623 323 HKTVVLGMIS-----QLKEN---RYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYKD-QILHVDAL 384 (707)
Q Consensus 323 ~~~vvLG~Ls-----q~~~G---~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~s-~~f~v~~i 384 (707)
.++-+-|++. +..++ .|-+-|....+.+. -.+.-..+|.+|.=|+++|.+.+ ++|+++++
T Consensus 58 ~~iRvgG~V~~GSi~r~~~~l~v~F~vtD~~~~v~V~--Y~GilPDlFrEG~gVVveG~~~~~g~F~A~~v 126 (160)
T PRK13165 58 QRLRVGGMVMPGSVQRDPNSLKVSFTLYDAGGSVTVT--YEGILPDLFREGQGIVAQGVLEEGNHIEAKEV 126 (160)
T ss_pred CEEEEeeEEeCCcEEECCCCeEEEEEEEcCCeEEEEE--EcccCCccccCCCeEEEEEEECCCCeEEEEEE
Confidence 5666777773 22222 35555665554443 33444567899999999999974 79999988
No 65
>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=23.90 E-value=2.7e+02 Score=27.02 Aligned_cols=43 Identities=9% Similarity=0.093 Sum_probs=26.3
Q ss_pred EEEecCCCCCCCCCCcccCCCccHHHHHHhhccCCCeEEeeCCcEEEECCEEEEEEe
Q psy2623 518 FLIVPKIYVEGTVTSKVLSPALPKFITSEFQGFVPNSTMATNPCRVQYCSQEILVVR 574 (707)
Q Consensus 518 fVfVPG~~Dp~~~~~~LPrpplP~~~~~~l~~~~~n~~f~SNPcRi~~~~qeIvifR 574 (707)
++.|+|++|... ...+.. .. ...........+.+.+..|.+.+
T Consensus 72 ~~~v~GNHD~~~-~~~~~~----------~~---~~~~~~~~~~~~~~~~~~i~l~H 114 (168)
T cd07390 72 KHLIKGNHDSSL-ERKLLA----------FL---LKFESVLQAVRLKIGGRRVYLSH 114 (168)
T ss_pred eEEEeCCCCchh-hhcccc----------cc---cccceeeeEEEEEECCEEEEEEe
Confidence 899999999865 211111 00 01123344467788889999987
No 66
>TIGR00583 mre11 DNA repair protein (mre11). All proteins in this family for which functions are known are subunits of a nuclease complex made up of multiple proteins including MRE11 and RAD50 homologs. The functions of this nuclease complex include recombinational repair and non-homolgous end joining. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). The proteins in this family are distantly related to proteins in the SbcCD complex of bacteria.
Probab=23.73 E-value=94 Score=35.34 Aligned_cols=31 Identities=26% Similarity=0.340 Sum_probs=23.0
Q ss_pred CCcEEEecCCCCCcee----eeCCeEEEcCCCCcccc
Q psy2623 631 LPDLVILGDQLNAYTI----QNTDCIFINPVFHNTVR 663 (707)
Q Consensus 631 lPd~liL~D~~~~f~~----~y~gc~vvNPG~~sF~~ 663 (707)
--|.+++|+.|.+... ..++..++.|| |-.+
T Consensus 228 ~fDYValGHiH~~~~~p~~~~~~~~~V~ypG--S~v~ 262 (405)
T TIGR00583 228 FFDLVIWGHEHECLPDPVYNPSDGFYVLQPG--STVA 262 (405)
T ss_pred cCcEEEecccccccccccccCCCCceEEECC--Cccc
Confidence 3599999999876532 23577999999 8653
No 67
>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=23.37 E-value=80 Score=33.15 Aligned_cols=31 Identities=16% Similarity=0.169 Sum_probs=21.3
Q ss_pred cccCCCCcEEEecCCCCCce---eeeCCe---EEEcCC
Q psy2623 626 LSLYPLPDLVILGDQLNAYT---IQNTDC---IFINPV 657 (707)
Q Consensus 626 L~L~PlPd~liL~D~~~~f~---~~y~gc---~vvNPG 657 (707)
|.=+ -+++++-|+.+.... +.|+|+ .|.||.
T Consensus 194 l~~~-~v~~vl~GH~H~~~~~~p~h~~~~~~~~~~~p~ 230 (256)
T cd07401 194 LKKY-NVTAYLCGHLHPLGGLEPVHYAGHPYALITNPK 230 (256)
T ss_pred HHhc-CCcEEEeCCccCCCcceeeeecCCceEEEeCCC
Confidence 3335 378889999986555 567775 666777
No 68
>COG5416 Uncharacterized integral membrane protein [Function unknown]
Probab=21.49 E-value=40 Score=30.59 Aligned_cols=27 Identities=22% Similarity=0.362 Sum_probs=21.3
Q ss_pred hhhh-hhhhhhhccccccCCCceeeccC
Q psy2623 161 LIFI-FIILIISLCSFSFNSSQVPTDVQ 187 (707)
Q Consensus 161 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 187 (707)
.|+. ++++++-+...+.|+++||+|+=
T Consensus 26 vi~~gilillLllifav~Nt~~V~~~~l 53 (98)
T COG5416 26 VIIVGILILLLLLIFAVINTDSVEFNYL 53 (98)
T ss_pred HHHHHHHHHHHHHHHHHhccCceEEEee
Confidence 4554 77777888888999999999953
No 69
>cd07383 MPP_Dcr2 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain. DCR2 phosphatase (Dosage-dependent Cell Cycle Regulator 2) functions together with DCR1 (Gid8) in a common pathway to accelerate initiation of DNA replication in Saccharomyces cerevisiae. Genetic analysis suggests that DCR1 functions upstream of DCR2. DCR2 interacts with and dephosphorylates Sic1, an inhibitor of mitotic cyclin/cyclin-dependent kinase complexes, which may serve to trigger the initiation of cell division. DCR2 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 (PAP
Probab=21.23 E-value=71 Score=31.87 Aligned_cols=32 Identities=6% Similarity=-0.099 Sum_probs=23.3
Q ss_pred cCCCCcEEEecCCCC-CceeeeCCeEEEcCCCCccc
Q psy2623 628 LYPLPDLVILGDQLN-AYTIQNTDCIFINPVFHNTV 662 (707)
Q Consensus 628 L~PlPd~liL~D~~~-~f~~~y~gc~vvNPG~~sF~ 662 (707)
-.+-.++++-|+.+. -|+..+.|+ .+||| +..
T Consensus 161 ~~~~v~~v~~GH~H~~~~~~~~~~i-~l~~g--~~~ 193 (199)
T cd07383 161 ERGDVKGVFCGHDHGNDFCGRYNGI-WLCYG--RGT 193 (199)
T ss_pred HcCCeEEEEeCCCCCcceecccCCE-EEeCC--CCC
Confidence 456678999999986 566555555 59999 653
No 70
>TIGR01732 tiny_TM_bacill conserved hypothetical tiny transmembrane protein. This model represents a family of hypothetical proteins, half of which are 40 residues or less in length. Members are found only in spore-forming species. A Gly-rich variable region is followed by a strongly conserved, highly hydrophobic region, predicted to form a transmembrane helix, ending with an invariant Gly. The consensus for this stretch is FALLVVFILLIIV.
Probab=21.10 E-value=50 Score=22.96 Aligned_cols=17 Identities=29% Similarity=0.678 Sum_probs=12.9
Q ss_pred hhhhhhhhhhhhccccc
Q psy2623 160 TLIFIFIILIISLCSFS 176 (707)
Q Consensus 160 ~~~~~~~~~~~~~~~~~ 176 (707)
-++..||.|||..|+|+
T Consensus 10 livVLFILLIIiga~~~ 26 (26)
T TIGR01732 10 LIVVLFILLVIVGAAFV 26 (26)
T ss_pred HHHHHHHHHHHhheeeC
Confidence 45667888999888874
No 71
>PRK09968 serine/threonine-specific protein phosphatase 2; Provisional
Probab=21.00 E-value=1.4e+02 Score=30.64 Aligned_cols=34 Identities=15% Similarity=0.155 Sum_probs=28.1
Q ss_pred CCCcEEEecCCCCCceeeeCCeEEEcCCCCcccccC
Q psy2623 630 PLPDLVILGDQLNAYTIQNTDCIFINPVFHNTVRNA 665 (707)
Q Consensus 630 PlPd~liL~D~~~~f~~~y~gc~vvNPG~~sF~~~~ 665 (707)
+-.+++|.|+++.++....++.+++||| |...+.
T Consensus 178 ~~~~~vv~GHTh~~~~~~~~~~i~IDtG--s~~gG~ 211 (218)
T PRK09968 178 NGADYFIFGHMMFDNIQTFANQIYIDTG--SPKSGR 211 (218)
T ss_pred CCCCEEEECCCCcCcceeECCEEEEECC--CCCCCc
Confidence 3458999999998888888999999999 876433
No 72
>KOG2947|consensus
Probab=20.58 E-value=76 Score=33.76 Aligned_cols=121 Identities=19% Similarity=0.240 Sum_probs=75.7
Q ss_pred cchHHHHhhcccCCcceEEEEEEeeeccCCcEEeecCCceEEEEeeccccCCCccCcCeEEEEEeEecCc--eEEEEeec
Q psy2623 308 KLDWVEYLMSLTNVNHKTVVLGMISQLKENRYFLEDPTGIVQLDLSQTSYHPGLYTENCIVLVEGHYKDQ--ILHVDALG 385 (707)
Q Consensus 308 klt~I~~Llg~~~~~~~~vvLG~Lsq~~~G~~~LED~tg~i~Ldls~a~~~~g~f~p~~iVLveG~f~s~--~f~v~~i~ 385 (707)
.+.++..+||. ..-++|+|+....=++.|+|+... .+|++.+.|.+.- +|-+-|++ -.+++. +++-.+ .
T Consensus 46 NvcTvlrlLG~-----~cef~Gvlsr~~~f~~lLddl~~r-gIdishcpftd~~-pp~ssiI~-~r~s~trTil~~dk-s 116 (308)
T KOG2947|consen 46 NVCTVLRLLGA-----PCEFFGVLSRGHVFRFLLDDLRRR-GIDISHCPFTDHS-PPFSSIII-NRNSGTRTILYCDK-S 116 (308)
T ss_pred hHHHHHHHhCC-----chheeeecccchhHHHHHHHHHhc-CCCcccCccccCC-CCcceEEE-ecCCCceEEEEecC-C
Confidence 46778889983 567999999888777788888765 7899999887653 66666666 455432 232222 2
Q ss_pred CCCccC---ccccccccCcccccCCCCCchhhhhhHHHhhhh-cCCcceEEEEeCC
Q psy2623 386 FPPPEA---SKNSRLYFGNQNIWGGPSPVSLKSVNRMTKMEK-NNENAMIVILSDV 437 (707)
Q Consensus 386 ~PP~E~---r~~S~~~~gn~D~fG~~~~~~~k~~~~L~~~e~-~~~~~~fVfvSD~ 437 (707)
.|.... ++..+..+|+..|=+-+.....|+...+.++.+ ..++.+|++--|+
T Consensus 117 ~p~vT~~dF~kvdl~qy~WihfE~Rnp~etlkM~~~I~~~N~r~pe~qrI~vSvd~ 172 (308)
T KOG2947|consen 117 LPDVTATDFEKVDLTQYGWIHFEARNPSETLKMLQRIDAHNTRQPEEQRIRVSVDV 172 (308)
T ss_pred CccccHHHhhhcccceeeeEEEecCChHHHHHHHHHHHHhhcCCCccceEEEEEEe
Confidence 333221 123335678888877665555666555555543 2344777766555
No 73
>cd07391 MPP_PF1019 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain. This family includes bacterial and archeal proteins homologous to PF1019, an uncharacterized Pyrococcus furiosus protein. 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 pro
Probab=20.53 E-value=74 Score=31.14 Aligned_cols=18 Identities=28% Similarity=0.556 Sum_probs=13.6
Q ss_pred CcEEEecCCCCCceeeeC
Q psy2623 632 PDLVILGDQLNAYTIQNT 649 (707)
Q Consensus 632 Pd~liL~D~~~~f~~~y~ 649 (707)
.|++|+|+.++.+.+..+
T Consensus 123 ~~~~i~GH~HP~~~~~~~ 140 (172)
T cd07391 123 AELVIIGHEHPAIRLRDG 140 (172)
T ss_pred CCEEEEccCCCcEEEEcC
Confidence 378899999988876544
Done!