Query psy12449
Match_columns 102
No_of_seqs 168 out of 415
Neff 5.4
Searched_HMMs 46136
Date Fri Aug 16 19:34:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12449.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12449hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0969|consensus 99.6 1.2E-16 2.5E-21 138.9 1.2 67 36-102 997-1066(1066)
2 PTZ00166 DNA polymerase delta 99.5 3E-15 6.5E-20 133.4 3.0 66 36-102 986-1054(1054)
3 PF14260 zf-C4pol: C4-type zin 99.4 2.6E-14 5.7E-19 91.0 1.4 36 46-81 38-73 (73)
4 KOG0969|consensus 99.2 4.3E-12 9.3E-17 110.9 2.1 46 4-49 629-676 (1066)
5 PTZ00166 DNA polymerase delta 98.9 2.8E-10 6E-15 102.0 2.0 46 4-49 622-670 (1054)
6 cd05533 POLBc_delta DNA polyme 98.9 4.7E-10 1E-14 91.1 1.9 46 4-49 85-132 (393)
7 cd00145 POLBc DNA polymerase t 98.9 8.6E-10 1.9E-14 87.2 1.9 47 3-49 77-126 (323)
8 cd05538 POLBc_Pol_II_B DNA pol 98.9 6.9E-10 1.5E-14 89.1 1.3 46 4-49 56-103 (347)
9 PHA03036 DNA polymerase; Provi 98.9 7.4E-10 1.6E-14 98.9 1.5 47 4-50 634-682 (1004)
10 cd05532 POLBc_alpha DNA polyme 98.8 1.2E-09 2.6E-14 88.8 1.5 46 4-49 82-129 (400)
11 cd05534 POLBc_zeta DNA polymer 98.8 1.9E-09 4.1E-14 89.1 1.5 46 4-49 140-189 (451)
12 TIGR00592 pol2 DNA polymerase 98.7 5.3E-09 1.2E-13 94.5 2.4 47 4-50 867-915 (1172)
13 cd05536 POLBc_B3 DNA polymeras 98.7 5.2E-09 1.1E-13 84.4 1.9 46 4-49 78-126 (371)
14 PRK05761 DNA polymerase I; Rev 98.7 5.8E-09 1.3E-13 91.2 1.8 46 4-49 483-532 (787)
15 cd05530 POLBc_B1 DNA polymeras 98.6 1.1E-08 2.3E-13 83.1 2.0 45 5-49 89-137 (372)
16 COG0417 PolB DNA polymerase el 98.6 8.3E-09 1.8E-13 90.1 1.4 53 4-62 480-534 (792)
17 PHA03334 putative DNA polymera 98.6 1.7E-08 3.7E-13 92.4 2.1 42 4-45 737-780 (1545)
18 PF00136 DNA_pol_B: DNA polyme 98.4 4.5E-08 9.8E-13 80.0 0.1 46 4-49 132-180 (466)
19 KOG0968|consensus 98.4 1.5E-07 3.3E-12 85.2 2.7 55 42-96 1426-1483(1488)
20 PHA02528 43 DNA polymerase; Pr 98.3 1.3E-07 2.8E-12 83.9 0.9 32 18-49 533-564 (881)
21 cd05531 POLBc_B2 DNA polymeras 98.2 5.1E-07 1.1E-11 72.6 1.8 43 3-49 77-119 (352)
22 cd05535 POLBc_epsilon DNA poly 98.1 1.3E-06 2.7E-11 75.2 1.3 47 3-49 243-297 (621)
23 KOG0970|consensus 98.0 2.8E-06 6E-11 77.2 3.0 51 4-54 899-951 (1429)
24 KOG0968|consensus 98.0 2.2E-06 4.7E-11 78.0 2.1 45 5-49 1050-1098(1488)
25 smart00486 POLBc DNA polymeras 98.0 2.1E-06 4.4E-11 68.0 1.7 46 4-49 374-423 (471)
26 PRK05762 DNA polymerase II; Re 97.8 5.4E-06 1.2E-10 72.5 0.8 37 4-49 476-512 (786)
27 cd05537 POLBc_Pol_II DNA polym 97.8 7.1E-06 1.5E-10 66.5 1.2 37 4-49 79-115 (371)
28 PHA02523 43B DNA polymerase su 97.5 2.6E-05 5.7E-10 64.0 -0.1 37 19-61 35-71 (391)
29 KOG1798|consensus 94.4 0.035 7.6E-07 52.9 3.1 58 21-100 775-832 (2173)
30 PHA02563 DNA polymerase; Provi 46.6 7 0.00015 34.4 0.2 19 27-45 403-421 (630)
31 PF08746 zf-RING-like: RING-li 46.4 11 0.00024 21.6 1.0 21 56-76 1-21 (43)
32 KOG1973|consensus 43.8 12 0.00027 29.2 1.1 17 60-76 226-242 (274)
33 TIGR00592 pol2 DNA polymerase 42.0 6.2 0.00014 36.7 -0.9 34 4-37 583-620 (1172)
34 PF10170 C6_DPF: Cysteine-rich 37.0 17 0.00036 24.9 0.8 24 52-80 48-71 (97)
35 PF15288 zf-CCHC_6: Zinc knuck 32.1 29 0.00063 20.1 1.2 21 55-78 3-23 (40)
36 PHA02735 putative DNA polymera 22.6 30 0.00065 30.2 0.1 26 24-49 437-462 (716)
37 PF14038 YqzE: YqzE-like prote 21.8 87 0.0019 19.2 2.0 30 3-32 21-52 (54)
38 PF14952 zf-tcix: Putative tre 21.2 56 0.0012 19.3 1.1 25 55-79 13-38 (44)
39 KOG3084|consensus 20.6 43 0.00093 27.6 0.6 28 54-81 151-186 (345)
No 1
>KOG0969|consensus
Probab=99.61 E-value=1.2e-16 Score=138.91 Aligned_cols=67 Identities=54% Similarity=1.042 Sum_probs=63.3
Q ss_pred ccccccchhh---ccchhHHHhhccccccccCCccccccCCCcccceehhhhhhhhhHHHHHHhhCcCCC
Q psy12449 36 SVYGFTGAQV---GKLPCQLWTQCQTCQGSLHEQVICTSRDCPIFYMRKKVQIELISQDQIIQRFGTIAW 102 (102)
Q Consensus 36 s~Yg~~ga~~---Er~~~~l~~~Cq~C~gs~~~~v~C~s~DCPVfY~R~K~~~~l~~~~~~l~~~~~~~~ 102 (102)
.+|.....++ |..|+++|++||+|+|+.|++|+|+|+||||||+|.|++++|++..+++++||...|
T Consensus 997 ~lyqk~v~~~~~lee~fsrlWt~Cqrcqgs~h~~vic~~rdCpifymr~kv~keL~~~~~~l~rf~~~~w 1066 (1066)
T KOG0969|consen 997 ELYQKQVSHVNDLEEKFSRLWTECQRCQGSLHEEVICSNRDCPIFYMRQKVRKELQEQVDRLRRFGSFAW 1066 (1066)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhheeccCCCCchhhHHHHHHHHHHHHHHHHhccccCC
Confidence 5777777777 899999999999999999999999999999999999999999999999999999998
No 2
>PTZ00166 DNA polymerase delta catalytic subunit; Provisional
Probab=99.53 E-value=3e-15 Score=133.40 Aligned_cols=66 Identities=58% Similarity=1.061 Sum_probs=61.1
Q ss_pred ccccccchhh---ccchhHHHhhccccccccCCccccccCCCcccceehhhhhhhhhHHHHHHhhCcCCC
Q psy12449 36 SVYGFTGAQV---GKLPCQLWTQCQTCQGSLHEQVICTSRDCPIFYMRKKVQIELISQDQIIQRFGTIAW 102 (102)
Q Consensus 36 s~Yg~~ga~~---Er~~~~l~~~Cq~C~gs~~~~v~C~s~DCPVfY~R~K~~~~l~~~~~~l~~~~~~~~ 102 (102)
++|....... |.++.++|++||+|+|+.|++|.|+|+||||||+|+|++++|..+++.+++|+. +|
T Consensus 986 ~~~~~~~~~~~~~e~~~~~~~~~c~~c~g~~~~~~~c~~~dc~i~y~r~k~~~~~~~~~~~~~~~~~-~~ 1054 (1054)
T PTZ00166 986 SIYGKKLAKRRHKEAEYSQLWTQCQRCQGSLHQEVICTNRDCPIFYRRKKVQKDLAELQELLSRFGL-DW 1054 (1054)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCcccCCCCchhheehhHHHHHHHHHHHHHhhcc-CC
Confidence 5676666655 999999999999999999999999999999999999999999999999999998 67
No 3
>PF14260 zf-C4pol: C4-type zinc-finger of DNA polymerase delta
Probab=99.44 E-value=2.6e-14 Score=91.04 Aligned_cols=36 Identities=53% Similarity=1.116 Sum_probs=35.0
Q ss_pred ccchhHHHhhccccccccCCccccccCCCcccceeh
Q psy12449 46 GKLPCQLWTQCQTCQGSLHEQVICTSRDCPIFYMRK 81 (102)
Q Consensus 46 Er~~~~l~~~Cq~C~gs~~~~v~C~s~DCPVfY~R~ 81 (102)
|+++.+||++|++|+|+.+.++.|+|+||||||+|+
T Consensus 38 E~~~~~l~~iC~~C~~~~~~~~~C~s~DCpV~Y~R~ 73 (73)
T PF14260_consen 38 ERRFNELWTICQSCSGSLHEEIECDSLDCPVFYERV 73 (73)
T ss_pred HHHHHHHHHHHHHhcCcCCCCCcccCCCCCcceeeC
Confidence 999999999999999999999999999999999995
No 4
>KOG0969|consensus
Probab=99.21 E-value=4.3e-12 Score=110.88 Aligned_cols=46 Identities=70% Similarity=0.987 Sum_probs=42.2
Q ss_pred hhHHHHHHHcC--cCHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 4 FGTKELKEAMT--LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
-+||+.|+.|+ +||+.+++||+|||||||.|||||||+||+..+..
T Consensus 629 ~aRKraK~dlk~ekDp~kr~vldGRQLAlKisANSvYGFTGAtvGkLP 676 (1066)
T KOG0969|consen 629 TARKRAKADLKKEKDPFKRAVLDGRQLALKISANSVYGFTGATVGKLP 676 (1066)
T ss_pred HHHHHHHHHHHhccCHHHHhhhcchhhheeecccccccccccccCccc
Confidence 47888888887 99999999999999999999999999999986665
No 5
>PTZ00166 DNA polymerase delta catalytic subunit; Provisional
Probab=98.94 E-value=2.8e-10 Score=101.97 Aligned_cols=46 Identities=67% Similarity=0.944 Sum_probs=43.1
Q ss_pred hhHHHHHHHcC--cCHHHHhhcchhhhhhhccccccccccchhh-ccch
Q psy12449 4 FGTKELKEAMT--LDEFKKKVLDGRQLALKISANSVYGFTGAQV-GKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~-Er~~ 49 (102)
.+|+++|+.|+ +||.++.+||+||+|||+.|||+||++|+.. .+.+
T Consensus 622 ~~R~~~K~~mk~~~d~~~~~~ld~rQ~AlKi~aNS~YG~~G~~~~gr~~ 670 (1054)
T PTZ00166 622 AARKKAKKEMKDEKDPLLKKVLNGRQLALKISANSVYGYTGAQVGGQLP 670 (1054)
T ss_pred HHHHHHHHHHhhCCCHHHHHHHHHHHHhhhhhccccccccccccCCccc
Confidence 57999999997 7999999999999999999999999999998 8877
No 6
>cd05533 POLBc_delta DNA polymerase type-B delta subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. Presently, no direct data is available regarding the strand specificity of DNA polymerase during DNA replication in vivo. However, mutation analysis supports the hypothesis that DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand.
Probab=98.90 E-value=4.7e-10 Score=91.09 Aligned_cols=46 Identities=72% Similarity=1.004 Sum_probs=41.9
Q ss_pred hhHHHHHHHcC--cCHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 4 FGTKELKEAMT--LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
..|+++|+.|+ .||.++.+||.+|+|+|+.+||+||+.|+..-+.+
T Consensus 85 ~~R~~~K~~mk~~~d~~~~~~ld~~Q~AlKi~~NS~YG~~G~~~~r~~ 132 (393)
T cd05533 85 AARKRAKKDLKEETDPFKKAVLDGRQLALKISANSVYGFTGATVGKLP 132 (393)
T ss_pred HHHHHHHHHHhhCCCHHHHHHHHHHHHhhheeeeecccccccccCCcc
Confidence 57889999997 79999999999999999999999999999986666
No 7
>cd00145 POLBc DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA. DNA-directed DNA polymerases are multifunctional with both synthetic (polymerase) and degradative modes (exonucleases) and play roles in the processes of DNA replication, repair, and recombination. DNA-dependent DNA polymerases can be classified in six main groups based upon their phylogenetic relationships with E. coli polymerase I (class A), E. coli polymerase II (class B), E. coli polymerase III (class C), euryarchaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB, and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family B DNA polymerases include E. coli DNA polymerase II, some eubacterial phage DNA polymerases, nuclear replicative DNA polymerases (alpha, delta, epsilon, and zeta), and eukaryotic viral and plasmid-borne enzymes. DNA polymerase is
Probab=98.86 E-value=8.6e-10 Score=87.18 Aligned_cols=47 Identities=36% Similarity=0.420 Sum_probs=42.0
Q ss_pred hhhHHHHHHHcC---cCHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 3 KFGTKELKEAMT---LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 3 ~~~r~~~k~~~~---~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
-..|+++|+.|+ .||.++..||.+|+|+|+.+||+||+.|+..-+++
T Consensus 77 l~~R~~~K~~mk~~~~~~~~~~~~d~~Q~AlKi~~NS~YG~~G~~~~r~~ 126 (323)
T cd00145 77 LNFRDEAKKRMKAAKLAPEERVLYDNRQQALKVLANSFYGYLGAKFFRFY 126 (323)
T ss_pred HHHHHHHHHHHhhCcCCHHHHHHHHHHhhhhheeeecceeecccccccCC
Confidence 357899999997 45999999999999999999999999999987666
No 8
>cd05538 POLBc_Pol_II_B DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as repair of DNA damaged by UV irradiation or oxidation has been proved by genetic studies. DNA polymerase III is the main enzyme responsible for replication of the bacterial chromosome; however, In vivo studies have also shown that Pol II is able to participate in chromosomal DNA replication with larger role in lagging-strand replication.
Probab=98.86 E-value=6.9e-10 Score=89.06 Aligned_cols=46 Identities=22% Similarity=0.315 Sum_probs=41.8
Q ss_pred hhHHHHHHHcC--cCHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 4 FGTKELKEAMT--LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
.+|+++|+.|+ +||..+..||.+|+|+|+.+||+||++|+...+++
T Consensus 56 ~~R~~~K~~~k~~~~~~~~~~~d~~Q~AlKi~~NS~YG~lG~~~~r~~ 103 (347)
T cd05538 56 ELRLAAKESARAAARPAERDAFKAKQAAFKVLINSFYGYLGTGLHAFS 103 (347)
T ss_pred HHHHHHHHHHhcCCChHHHHHHHHHHHHHhhhhhhchhhhcCCCCCCC
Confidence 57888999997 78999999999999999999999999999886666
No 9
>PHA03036 DNA polymerase; Provisional
Probab=98.85 E-value=7.4e-10 Score=98.91 Aligned_cols=47 Identities=30% Similarity=0.376 Sum_probs=43.5
Q ss_pred hhHHHHHHHcC--cCHHHHhhcchhhhhhhccccccccccchhhccchh
Q psy12449 4 FGTKELKEAMT--LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLPC 50 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~~ 50 (102)
.+|+++|+.|+ +||.++.+||++|+|+|+.+||+||++|+...++++
T Consensus 634 ~~Rk~~Kk~mK~~~d~~e~~~lD~rQlAlKI~aNS~YG~~G~~~~rly~ 682 (1004)
T PHA03036 634 EERARYKKLLKEATSSVEKAIYDSMQYTYKIVANSVYGLMGFRNSALYS 682 (1004)
T ss_pred HHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHHhcccccccccCccccC
Confidence 57899999997 899999999999999999999999999999988883
No 10
>cd05532 POLBc_alpha DNA polymerase type-B alpha subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase (Pol) alpha is almost exclusively required for the initiation of DNA replication and the priming of Okazaki fragments during elongation. In most organisms no specific repair role, other than check point control, has been assigned to this enzyme. Pol alpha contains both polymerase and exonuclease domains, but lacks exonuclease activity suggesting that the exonuclease domain may be for structural purposes only.
Probab=98.82 E-value=1.2e-09 Score=88.82 Aligned_cols=46 Identities=41% Similarity=0.494 Sum_probs=42.2
Q ss_pred hhHHHHHHHcC--cCHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 4 FGTKELKEAMT--LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
..|+.+|+.|+ +||.++.+||.+|+|+|+.+||+||+.|+...+++
T Consensus 82 ~~R~~~K~~~k~~~d~~~~~~~d~~Q~alKi~~NS~YG~~g~~~~r~~ 129 (400)
T cd05532 82 ERRRQVKKLMKSEKDPDKKAQLDIRQLALKLTANSMYGCLGFSYSRFY 129 (400)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHhhccccccccccccc
Confidence 57899999997 79999999999999999999999999999886666
No 11
>cd05534 POLBc_zeta DNA polymerase type-B zeta subfamily catalytic domain. DNA polymerase (Pol) zeta is a member of the eukaryotic B-family of DNA polymerases and distantly related to DNA Pol delta. Pol zeta plays a major role in translesion replication and the production of either spontaneous or induced mutations. Apart from its role in translesion replication, Pol zeta also appears to be involved in somatic hypermutability in B lymphocytes, an important element for the production of high affinity antibodies in response to an antigen.
Probab=98.78 E-value=1.9e-09 Score=89.14 Aligned_cols=46 Identities=43% Similarity=0.651 Sum_probs=40.7
Q ss_pred hhHHHHHHHcC--c-CHHHHhhcchhhhhhhccccccccccchhh-ccch
Q psy12449 4 FGTKELKEAMT--L-DEFKKKVLDGRQLALKISANSVYGFTGAQV-GKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~--~-~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~-Er~~ 49 (102)
..|+++|+.|+ + ++.++.+||.+|+|+|+.+||+||++|+.. .+++
T Consensus 140 ~~R~~~K~~mk~~~~~~~~~~~ld~~Q~AlKi~~NS~YGy~G~~~~gr~~ 189 (451)
T cd05534 140 DTRIMVKKAMKKYKDDKKLQRILDARQLALKLLANVTYGYTAASFSGRMP 189 (451)
T ss_pred HHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHhhccccccccccccccc
Confidence 57899999997 3 488999999999999999999999999986 5665
No 12
>TIGR00592 pol2 DNA polymerase (pol2). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.72 E-value=5.3e-09 Score=94.52 Aligned_cols=47 Identities=36% Similarity=0.401 Sum_probs=43.4
Q ss_pred hhHHHHHHHcC--cCHHHHhhcchhhhhhhccccccccccchhhccchh
Q psy12449 4 FGTKELKEAMT--LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLPC 50 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~~ 50 (102)
..|+++|+.|+ .||.++..||.+|+|||+.|||+||+.|+..-++|+
T Consensus 867 ~~R~~~K~~mk~~~~~~~~~~~d~~Q~AlKi~aNS~YG~lG~~~~r~~~ 915 (1172)
T TIGR00592 867 ERRKEVKKLMKQDLNPDLRLQYDIRQKALKLTANSMYGCLGYSKSRFYA 915 (1172)
T ss_pred HHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHhhhccccccccccccccC
Confidence 57899999997 799999999999999999999999999999977773
No 13
>cd05536 POLBc_B3 DNA polymerase type-B B3 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some members of the archaea also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no specific function(s) has been assigned for different members of the archaea type B DNA polymerases. Phylogenetic analyses of eubacterial, archaeal, and eukaryotic family B DNA polymerases are support independent gene duplications during the evolution of archaeal and eukaryotic family B DNA polymerases. Structural comparison of the thermostable DNA polymerase type B to its mesostable homolog suggests several adaptations to high temperature such as shorter loops, disulfide bridges, and increasing electrostatic interaction at subdomain interfaces.
Probab=98.71 E-value=5.2e-09 Score=84.36 Aligned_cols=46 Identities=37% Similarity=0.460 Sum_probs=40.3
Q ss_pred hhHHHHHHHcC---cCHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 4 FGTKELKEAMT---LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~---~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
..|+++|+.|+ +++.++..||.+|+|+|+.+||+||+.|+..-+++
T Consensus 78 ~~R~~~K~~mk~~~~~~~~~~~~d~~Q~AlKi~~NS~YG~~g~~~~r~~ 126 (371)
T cd05536 78 EERRRIKEKMKKLDPESEEYKLLDERQRAIKILANSFYGYMGWANARWY 126 (371)
T ss_pred HHHHHHHHHHhhCCCcHHHHHHHHHHHHHHHHHHhccccccccccccCC
Confidence 57899999997 34478999999999999999999999999876665
No 14
>PRK05761 DNA polymerase I; Reviewed
Probab=98.69 E-value=5.8e-09 Score=91.20 Aligned_cols=46 Identities=33% Similarity=0.243 Sum_probs=41.0
Q ss_pred hhHHHHHHHcC----cCHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 4 FGTKELKEAMT----LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~----~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
..|+++|+.|+ .||.++.+||++|+|+|+.+||+||++|+..-+++
T Consensus 483 ~~R~~~k~~~~~~~~~~~~~~~~ld~~Q~AlKi~~NS~YGy~G~~~~r~~ 532 (787)
T PRK05761 483 DFRVKIYKKKAKDPNLDEERRAWYDVVQRALKVFLNASYGVFGAENFKLY 532 (787)
T ss_pred HHHHHHHHHhhccCCCCHHHHHHHHHHHHhheeeeecccccccccCCCCC
Confidence 46888888886 36889999999999999999999999999987777
No 15
>cd05530 POLBc_B1 DNA polymerase type-B B1 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some archaeal members also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no specific function(s) has been assigned for different members of the archaea type B DNA polymerases. Phylogenetic analyses of eubacterial, archaeal, and eukaryotic family B DNA polymerases are support independent gene duplications during the evolution of archaeal and eukaryotic family B DNA polymerases.
Probab=98.65 E-value=1.1e-08 Score=83.06 Aligned_cols=45 Identities=27% Similarity=0.189 Sum_probs=37.0
Q ss_pred hHHHHHHHc-C--c-CHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 5 GTKELKEAM-T--L-DEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 5 ~r~~~k~~~-~--~-~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
.|+.+++.| + + ||.++.+||++|+|||+.+||+||+.|+..-+++
T Consensus 89 ~R~~~~k~~~k~~~~d~~~~~~ld~~Q~alKi~~NS~YG~~g~~~~~~~ 137 (372)
T cd05530 89 LRVKIYKKKAKDKSLDEEMRQWYDVVQSAMKVFINASYGVFGAENFPLY 137 (372)
T ss_pred HHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHHHHhccccccccccCCCC
Confidence 566665444 3 3 8999999999999999999999999999875555
No 16
>COG0417 PolB DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]
Probab=98.64 E-value=8.3e-09 Score=90.10 Aligned_cols=53 Identities=43% Similarity=0.682 Sum_probs=47.7
Q ss_pred hhHHHHHHHcC--cCHHHHhhcchhhhhhhccccccccccchhhccchhHHHhhccccccc
Q psy12449 4 FGTKELKEAMT--LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLPCQLWTQCQTCQGS 62 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~~~l~~~Cq~C~gs 62 (102)
..|.++|+.|+ +++.++.+||++|+|+|+.+||+||+.|+..-+++ |..|+.+
T Consensus 480 ~~R~~~K~~~k~~~~~~e~~~~d~rQ~AlKvl~NS~YGy~G~~~~rf~------~~e~a~~ 534 (792)
T COG0417 480 DRRDEIKKKMKKEKDPSERKLLDGRQLALKVLANSFYGYLGYSNSRFY------CIECAES 534 (792)
T ss_pred HHHHHHHHHhcccCChHHHHHHHHHHHHHHHHHhhccccccccCCccC------CHHHHHH
Confidence 46889999997 78889999999999999999999999999999998 7888763
No 17
>PHA03334 putative DNA polymerase catalytic subunit; Provisional
Probab=98.60 E-value=1.7e-08 Score=92.40 Aligned_cols=42 Identities=33% Similarity=0.248 Sum_probs=38.0
Q ss_pred hhHHHHHHHcC--cCHHHHhhcchhhhhhhccccccccccchhh
Q psy12449 4 FGTKELKEAMT--LDEFKKKVLDGRQLALKISANSVYGFTGAQV 45 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~ 45 (102)
.+|+++|+.|| +||.++.+||++|+||||++||+||++|...
T Consensus 737 ~~RK~~Kk~MKk~kDp~er~iLD~rQlALKVtANSvYGytG~~c 780 (1545)
T PHA03334 737 SMRTEYKGAMKQAKDPKLKSYHNQLQNEMKICANSHYGVAPHAC 780 (1545)
T ss_pred HHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHhhcCcchhHH
Confidence 35889999997 8999999999999999999999999998743
No 18
>PF00136 DNA_pol_B: DNA polymerase family B Several related DNA polymerases were too dissimilar to be included.; InterPro: IPR006134 DNA is the biological information that instructs cells how to exist in an ordered fashion: accurate replication is thus one of the most important events in the life cycle of a cell. This function is performed by DNA- directed DNA-polymerases 2.7.7.7 from EC) by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA, using a complementary DNA chain as a template. Small RNA molecules are generally used as primers for chain elongation, although terminal proteins may also be used for the de novo synthesis of a DNA chain. Even though there are 2 different methods of priming, these are mediated by 2 very similar polymerases classes, A and B, with similar methods of chain elongation. A number of DNA polymerases have been grouped under the designation of DNA polymerase family B. Six regions of similarity (numbered from I to VI) are found in all or a subset of the B family polymerases. The most conserved region (I) includes a conserved tetrapeptide with two aspartate residues. Its function is not yet known, however, it has been suggested that it may be involved in binding a magnesium ion. All sequences in the B family contain a characteristic DTDS motif, and possess many functional domains, including a 5'-3' elongation domain, a 3'-5' exonuclease domain [], a DNA binding domain, and binding domains for both dNTP's and pyrophosphate []. This domain of DNA polymerase B appears to consist of more than one activities, possibly including elongation, DNA-binding and dNTP binding [].; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 1QHT_A 1NOY_A 1NOZ_B 2CW7_A 2CW8_A 1WNS_A 2XHB_A 2VWK_A 2VWJ_A 1TGO_A ....
Probab=98.42 E-value=4.5e-08 Score=80.01 Aligned_cols=46 Identities=46% Similarity=0.586 Sum_probs=38.8
Q ss_pred hhHHHHHHHcC--cCHHH-Hhhcchhhhhhhccccccccccchhhccch
Q psy12449 4 FGTKELKEAMT--LDEFK-KKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~-~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
..|+.+|+.|+ .|+.. +.+||.+|+|+|+.+||+||+.|+..-+++
T Consensus 132 ~~R~~~K~~~~~~~~~~~~~~~~d~~Q~a~Ki~~NS~YG~~g~~~~r~~ 180 (466)
T PF00136_consen 132 EKRKEIKKLMKKAKDPDEEYAILDARQLALKIIANSFYGYLGAKNSRFY 180 (466)
T ss_dssp HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHTTHHHHHTSTTSTT-
T ss_pred HHHHHHhhhhhhhccchhhHHHHHHHHHhhcccceeeEeecCccccchh
Confidence 46888898886 56655 999999999999999999999999875555
No 19
>KOG0968|consensus
Probab=98.39 E-value=1.5e-07 Score=85.23 Aligned_cols=55 Identities=36% Similarity=0.695 Sum_probs=46.2
Q ss_pred chhhccchhHHHhhccccccccC---CccccccCCCcccceehhhhhhhhhHHHHHHh
Q psy12449 42 GAQVGKLPCQLWTQCQTCQGSLH---EQVICTSRDCPIFYMRKKVQIELISQDQIIQR 96 (102)
Q Consensus 42 ga~~Er~~~~l~~~Cq~C~gs~~---~~v~C~s~DCPVfY~R~K~~~~l~~~~~~l~~ 96 (102)
+-++|+.+++|.++|++|+|+.. ..|.|.|++|||||.|.|+++++....+.+.+
T Consensus 1426 ~~~l~re~~~L~~iCr~Cs~~~~~~~~~v~C~S~~C~V~y~r~k~er~l~~qae~~~k 1483 (1488)
T KOG0968|consen 1426 GRELERERSQLITICRSCSGSSQRDGQVVKCNSLTCPVFYTRSKVERYLRAQAETAHK 1483 (1488)
T ss_pred HHHHHHHHHHHHHHHhhcCCcccccccccccccccCchhhhHHHHHHHHHhhHHHHHH
Confidence 34448999999999999999653 47999999999999999999999965555544
No 20
>PHA02528 43 DNA polymerase; Provisional
Probab=98.34 E-value=1.3e-07 Score=83.94 Aligned_cols=32 Identities=28% Similarity=0.245 Sum_probs=28.9
Q ss_pred HHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 18 FKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 18 ~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
.++.++|.+|+|+||.+||+||+.|+..-++|
T Consensus 533 ~~~~~~d~~Q~A~KI~~NS~YG~lG~~~~r~y 564 (881)
T PHA02528 533 KEIALCNTIQMARKILINSLYGALGNEHFRYY 564 (881)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhccCcCccCC
Confidence 45789999999999999999999999997776
No 21
>cd05531 POLBc_B2 DNA polymerase type-B B2 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some archaeal members also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no specific function(s) has been assigned for different members of the archaea type B DNA polymerases. Phylogenetic analyses of eubacterial, archaeal, and eukaryotic family B DNA polymerases are support independent gene duplications during the evolution of archaeal and eukaryotic family B DNA polymerases.
Probab=98.22 E-value=5.1e-07 Score=72.65 Aligned_cols=43 Identities=26% Similarity=0.251 Sum_probs=35.0
Q ss_pred hhhHHHHHHHcCcCHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 3 KFGTKELKEAMTLDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 3 ~~~r~~~k~~~~~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
...|+++|+.|+.++. .|.+|.|+|+.+||+||++|+..-+++
T Consensus 77 ~~~R~~~K~~~k~~~~----~d~~q~AlKi~~NS~YGylG~~~~~f~ 119 (352)
T cd05531 77 LERRLEYKRLKKEEDP----YAGRQKALKWILVTSFGYLGYKNAKFG 119 (352)
T ss_pred HHHHHHHHHHhhcCCC----chHHHhhheeeeecccccccccccccC
Confidence 3578999999983221 299999999999999999999886555
No 22
>cd05535 POLBc_epsilon DNA polymerase type-B epsilon subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase (Pol) epsilon has been proposed to play a role in elongation of the leading strand during DNA replication. Pol epsilon might also have a role in DNA repair. The structure of pol epsilon is characteristic of this family with the exception that it contains a large c-terminal domain with an unclear function. Phylogenetic analyses indicate that Pol epsilon is the ortholog to the archaeal Pol B3 rather than to Pol alpha, delta, or zeta. This might be because pol epsilon is ancestral to both archaea and eukaryotes DNA polymerases type B.
Probab=98.07 E-value=1.3e-06 Score=75.25 Aligned_cols=47 Identities=30% Similarity=0.234 Sum_probs=36.2
Q ss_pred hhhHHHHHHHcC-cCH-------HHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 3 KFGTKELKEAMT-LDE-------FKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 3 ~~~r~~~k~~~~-~~~-------~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
|...+.++++.+ .|+ .+-.++|.+|+|+|+++||+||+.|+...+||
T Consensus 243 k~~k~~~~~~~~~~~~~~~~~a~~~~~lyDs~Q~A~KiIlNSfYGYlG~~gsRwY 297 (621)
T cd05535 243 KVWKKKLEAAKAAGDAAEIKEAKKMVVLYDSLQLAHKCILNSFYGYVMRKGSRWY 297 (621)
T ss_pred HHHHHHHhhhhccCChhHHHHHHHHHHHHHHHHHHHHHHHhhccCccCcCCcccC
Confidence 444555555544 332 24468999999999999999999999998888
No 23
>KOG0970|consensus
Probab=98.04 E-value=2.8e-06 Score=77.24 Aligned_cols=51 Identities=39% Similarity=0.437 Sum_probs=44.9
Q ss_pred hhHHHHHHHcC--cCHHHHhhcchhhhhhhccccccccccchhhccchhHHHh
Q psy12449 4 FGTKELKEAMT--LDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLPCQLWT 54 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~~~l~~ 54 (102)
..||++|..|| .+|..+.-+|.||.|||.+|||+||=.|...-|.|++...
T Consensus 899 erRk~VK~lMK~~~tp~~~~q~DIRQqALKLTANSMYGCLGf~~SRFyAkpLA 951 (1429)
T KOG0970|consen 899 ERRKEVKKLMKQELTPEKRKQLDIRQQALKLTANSMYGCLGFVNSRFYAKPLA 951 (1429)
T ss_pred HHHHHHHHHHhcCCCHHHHHhhhHHHHHHhhhhccchhhcccccchhhhhhHH
Confidence 46999999998 7999999999999999999999999999999777664433
No 24
>KOG0968|consensus
Probab=98.03 E-value=2.2e-06 Score=77.97 Aligned_cols=45 Identities=42% Similarity=0.665 Sum_probs=39.7
Q ss_pred hHHHHHHHcC---cCHHHHhhcchhhhhhhccccccccccchhh-ccch
Q psy12449 5 GTKELKEAMT---LDEFKKKVLDGRQLALKISANSVYGFTGAQV-GKLP 49 (102)
Q Consensus 5 ~r~~~k~~~~---~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~-Er~~ 49 (102)
.|-.+|.+|| .+..++++||+||||||..||-.|||+.|.+ .|-.
T Consensus 1050 tRiMVKkaMK~~~~~~~L~RiLnaRQLALKLiANVTYGYTsA~FSGRMP 1098 (1488)
T KOG0968|consen 1050 TRIMVKKAMKRTKDNKKLKRILNARQLALKLIANVTYGYTSANFSGRMP 1098 (1488)
T ss_pred HHHHHHHHHHHhcchHHHHHHhhhHHHHHHHHhhccccccccccCCCCc
Confidence 5777888887 4788999999999999999999999999998 6655
No 25
>smart00486 POLBc DNA polymerase type-B family. DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), DNA polymerases in archaea, DNA polymerase II in e. coli, mitochondrial DNA polymerases and and virus DNA polymerases
Probab=98.03 E-value=2.1e-06 Score=67.98 Aligned_cols=46 Identities=52% Similarity=0.655 Sum_probs=39.2
Q ss_pred hhHHHHHHHcC--cCH--HHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 4 FGTKELKEAMT--LDE--FKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~--~~~--~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
..|..+|+.|+ .|+ .++..||.+|+|+|+.+||+||+.|+..-+.+
T Consensus 374 ~~R~~~K~~~~~~~~~~~~~~~~~d~~q~a~K~~~Ns~yG~~g~~~~~~~ 423 (471)
T smart00486 374 DKRKEIKKLMKKEKDESEELKKLLDSRQLALKLTANSVYGYLGFTNSRLY 423 (471)
T ss_pred HHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhcccccccccccccCc
Confidence 57888998886 333 48999999999999999999999999886555
No 26
>PRK05762 DNA polymerase II; Reviewed
Probab=97.82 E-value=5.4e-06 Score=72.51 Aligned_cols=37 Identities=30% Similarity=0.345 Sum_probs=30.9
Q ss_pred hhHHHHHHHcCcCHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 4 FGTKELKEAMTLDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
..|+++|+.|+. .+|+|+|+.+||+||+.|+..-+++
T Consensus 476 ~~R~~~K~~~~~---------~~q~a~Ki~~Ns~YG~~g~~~~r~~ 512 (786)
T PRK05762 476 EGRDEAKREMNK---------PLSQAIKIIMNAFYGVLGSSGCRFF 512 (786)
T ss_pred HHHHHHHHHHHH---------HHHHHHHhhhhhccccccccccccc
Confidence 357777777654 8999999999999999999886666
No 27
>cd05537 POLBc_Pol_II DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as repair of DNA damaged by UV irradiation or oxidation has been proven by genetic studies. DNA polymerase III is the main enzyme responsible for replication of the bacterial chromosome; however, In vivo studies have also shown that Pol II is able to participate in chromosomal DNA replication with larger role in lagging-strand replication.
Probab=97.81 E-value=7.1e-06 Score=66.54 Aligned_cols=37 Identities=27% Similarity=0.277 Sum_probs=29.0
Q ss_pred hhHHHHHHHcCcCHHHHhhcchhhhhhhccccccccccchhhccch
Q psy12449 4 FGTKELKEAMTLDEFKKKVLDGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 4 ~~r~~~k~~~~~~~~~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
..|+++|+.|+ +.+|+|||+.+||+||+.|+..-+++
T Consensus 79 ~~R~~~K~~~~---------~~~q~AlKi~~Ns~YG~~g~~~~r~~ 115 (371)
T cd05537 79 AARDEAKREKN---------APLSQAIKIIMNSFYGVLGSTGCRFF 115 (371)
T ss_pred HHHHHHHHhcc---------HHHHHhHhhheecceeeccccccccc
Confidence 45677776642 24799999999999999999886665
No 28
>PHA02523 43B DNA polymerase subunit B; Provisional
Probab=97.46 E-value=2.6e-05 Score=64.03 Aligned_cols=37 Identities=24% Similarity=0.171 Sum_probs=32.0
Q ss_pred HHhhcchhhhhhhccccccccccchhhccchhHHHhhcccccc
Q psy12449 19 KKKVLDGRQLALKISANSVYGFTGAQVGKLPCQLWTQCQTCQG 61 (102)
Q Consensus 19 ~~~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~~~l~~~Cq~C~g 61 (102)
..+.+|.+|.|+||.+||+||+.||..-|+| +.+|+.
T Consensus 35 ~~a~~~~~q~AiKIlmNSfYGylG~~~~R~y------d~e~A~ 71 (391)
T PHA02523 35 EEQKRNTNQLNRKILINSLYGALGNNWFRYF------DLRNAE 71 (391)
T ss_pred HHHHHhcchHHHHHHHHhhhhhhcCCCceec------CHHHHH
Confidence 3567899999999999999999999998888 666665
No 29
>KOG1798|consensus
Probab=94.38 E-value=0.035 Score=52.89 Aligned_cols=58 Identities=22% Similarity=0.356 Sum_probs=47.0
Q ss_pred hhcchhhhhhhccccccccccchhhccchhHHHhhccccccccCCccccccCCCcccceehhhhhhhhhHHHHHHhhCcC
Q psy12449 21 KVLDGRQLALKISANSVYGFTGAQVGKLPCQLWTQCQTCQGSLHEQVICTSRDCPIFYMRKKVQIELISQDQIIQRFGTI 100 (102)
Q Consensus 21 ~~ld~~q~a~K~~~ns~Yg~~ga~~Er~~~~l~~~Cq~C~gs~~~~v~C~s~DCPVfY~R~K~~~~l~~~~~~l~~~~~~ 100 (102)
-++|+-|||=|.+.||||||-+-...||| ..+-+| |.|-.. -+.++.+++++++.|.|
T Consensus 775 VlYdSLQLAHKcILNSFYGYVMRKGsRWY------SMEMAG-----Ivc~TG-----------AnIIq~AR~lVEriGrP 832 (2173)
T KOG1798|consen 775 VLYDSLQLAHKCILNSFYGYVMRKGSRWY------SMEMAG-----IVCLTG-----------ANIIQMARELVERIGRP 832 (2173)
T ss_pred EehHhHHHHHHHHHhhhhhhhhccccchh------eeehhh-----eeeccc-----------hHHHHHHHHHHHHhCCC
Confidence 57899999999999999999998889999 344443 456433 36788999999999875
No 30
>PHA02563 DNA polymerase; Provisional
Probab=46.62 E-value=7 Score=34.40 Aligned_cols=19 Identities=26% Similarity=0.342 Sum_probs=17.4
Q ss_pred hhhhhccccccccccchhh
Q psy12449 27 QLALKISANSVYGFTGAQV 45 (102)
Q Consensus 27 q~a~K~~~ns~Yg~~ga~~ 45 (102)
++..|+..||+||..|..-
T Consensus 403 ~~i~KLlLNSLYGKfg~~p 421 (630)
T PHA02563 403 NMLAKLMLNSLYGKFALNP 421 (630)
T ss_pred HHHHHHHHhcccchhhcCc
Confidence 4799999999999999887
No 31
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=46.38 E-value=11 Score=21.60 Aligned_cols=21 Identities=29% Similarity=0.944 Sum_probs=9.7
Q ss_pred ccccccccCCccccccCCCcc
Q psy12449 56 CQTCQGSLHEQVICTSRDCPI 76 (102)
Q Consensus 56 Cq~C~gs~~~~v~C~s~DCPV 76 (102)
|..|..-....+.|.+.||++
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~ 21 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNV 21 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--
T ss_pred CcccchhHeeeccCCCCccCc
Confidence 455666556778999999988
No 32
>KOG1973|consensus
Probab=43.79 E-value=12 Score=29.22 Aligned_cols=17 Identities=35% Similarity=0.661 Sum_probs=14.8
Q ss_pred ccccCCccccccCCCcc
Q psy12449 60 QGSLHEQVICTSRDCPI 76 (102)
Q Consensus 60 ~gs~~~~v~C~s~DCPV 76 (102)
+.++++=|.|+|.|||+
T Consensus 226 qvsyg~Mi~CDn~~C~~ 242 (274)
T KOG1973|consen 226 QVSYGKMIGCDNPGCPI 242 (274)
T ss_pred ccccccccccCCCCCCc
Confidence 56778889999999995
No 33
>TIGR00592 pol2 DNA polymerase (pol2). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=42.02 E-value=6.2 Score=36.74 Aligned_cols=34 Identities=29% Similarity=0.203 Sum_probs=29.3
Q ss_pred hhHHHHHHHcC----cCHHHHhhcchhhhhhhcccccc
Q psy12449 4 FGTKELKEAMT----LDEFKKKVLDGRQLALKISANSV 37 (102)
Q Consensus 4 ~~r~~~k~~~~----~~~~~~~~ld~~q~a~K~~~ns~ 37 (102)
.+|+.++..|+ -||.....+|.+|+|||+.+|-.
T Consensus 583 sEr~lL~~fl~~~~~~DPDii~g~n~~qfdlkvl~nR~ 620 (1172)
T TIGR00592 583 TERALIKKFMAKVKKIDPDEIVGHDYQQRALKVLANRI 620 (1172)
T ss_pred CHHHHHHHHHHHHHhcCCCEEEEEcccCccHHHHHHHH
Confidence 47888888886 49999999999999999999843
No 34
>PF10170 C6_DPF: Cysteine-rich domain; InterPro: IPR018785 This entry represents the N-terminal approximately 100 amino acids of a family of proteins found in a range of organisms, including human, chicken and Drosophila [, , ]. It contains between six and eight highly conserved cysteine residues and a characteristic DPF sequence motif. One member is putatively named as receptor for egg jelly protein but this could not confirmed.
Probab=36.96 E-value=17 Score=24.89 Aligned_cols=24 Identities=33% Similarity=1.034 Sum_probs=17.6
Q ss_pred HHhhccccccccCCccccccCCCccccee
Q psy12449 52 LWTQCQTCQGSLHEQVICTSRDCPIFYMR 80 (102)
Q Consensus 52 l~~~Cq~C~gs~~~~v~C~s~DCPVfY~R 80 (102)
|-+.|-.|. ...|.+.||.+||.+
T Consensus 48 LGa~CS~C~-----~~VC~~~~CSlFYtk 71 (97)
T PF10170_consen 48 LGAPCSICG-----KPVCVGQDCSLFYTK 71 (97)
T ss_pred ECccccccC-----CceEcCCCccEEeeC
Confidence 334455555 347999999999987
No 35
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=32.11 E-value=29 Score=20.10 Aligned_cols=21 Identities=29% Similarity=0.893 Sum_probs=15.0
Q ss_pred hccccccccCCccccccCCCcccc
Q psy12449 55 QCQTCQGSLHEQVICTSRDCPIFY 78 (102)
Q Consensus 55 ~Cq~C~gs~~~~v~C~s~DCPVfY 78 (102)
-|..|..-.|.. +|+.||+|.
T Consensus 3 kC~~CG~~GH~~---t~k~CP~~~ 23 (40)
T PF15288_consen 3 KCKNCGAFGHMR---TNKRCPMYC 23 (40)
T ss_pred cccccccccccc---cCccCCCCC
Confidence 377887655544 689999975
No 36
>PHA02735 putative DNA polymerase type B; Provisional
Probab=22.59 E-value=30 Score=30.18 Aligned_cols=26 Identities=38% Similarity=0.427 Sum_probs=19.5
Q ss_pred chhhhhhhccccccccccchhhccch
Q psy12449 24 DGRQLALKISANSVYGFTGAQVGKLP 49 (102)
Q Consensus 24 d~~q~a~K~~~ns~Yg~~ga~~Er~~ 49 (102)
.++-+-|||..||+||.+-...|++.
T Consensus 437 ek~g~lyKIvLNS~YGKtcQttekr~ 462 (716)
T PHA02735 437 EKKGLLLKIVLNSMYGKTCQTTEKRH 462 (716)
T ss_pred hhcchhhhhhhhhhcccccCCchhhh
Confidence 34556799999999999876665443
No 37
>PF14038 YqzE: YqzE-like protein
Probab=21.80 E-value=87 Score=19.22 Aligned_cols=30 Identities=23% Similarity=0.194 Sum_probs=20.6
Q ss_pred hhhHHHHHHHcC--cCHHHHhhcchhhhhhhc
Q psy12449 3 KFGTKELKEAMT--LDEFKKKVLDGRQLALKI 32 (102)
Q Consensus 3 ~~~r~~~k~~~~--~~~~~~~~ld~~q~a~K~ 32 (102)
|.+|++.|+.-| .+|...+-...-++|++.
T Consensus 21 keERk~~k~~rK~~k~p~~~rWFG~iP~~~~l 52 (54)
T PF14038_consen 21 KEERKERKEERKEEKEPFSYRWFGMIPYSLSL 52 (54)
T ss_pred HHHHHHHHHHHHhcCCcHHHHHHhHHHHHHHH
Confidence 567777776655 788777777666666653
No 38
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=21.22 E-value=56 Score=19.33 Aligned_cols=25 Identities=20% Similarity=0.717 Sum_probs=17.8
Q ss_pred hcccccc-ccCCccccccCCCcccce
Q psy12449 55 QCQTCQG-SLHEQVICTSRDCPIFYM 79 (102)
Q Consensus 55 ~Cq~C~g-s~~~~v~C~s~DCPVfY~ 79 (102)
.|.+|.- ..+....|-|..||.-|.
T Consensus 13 kCp~CGt~NG~R~~~CKN~~C~~~~~ 38 (44)
T PF14952_consen 13 KCPKCGTYNGTRGLSCKNKSCPQVFN 38 (44)
T ss_pred cCCcCcCccCcccccccCCccchhhh
Confidence 4777765 224568899999998554
No 39
>KOG3084|consensus
Probab=20.55 E-value=43 Score=27.64 Aligned_cols=28 Identities=25% Similarity=0.776 Sum_probs=19.4
Q ss_pred hhcccccccc-C----CccccccCCCc---ccceeh
Q psy12449 54 TQCQTCQGSL-H----EQVICTSRDCP---IFYMRK 81 (102)
Q Consensus 54 ~~Cq~C~gs~-~----~~v~C~s~DCP---VfY~R~ 81 (102)
.-|..|.+.. + ....|.+-+|| +.|.|+
T Consensus 151 kFCp~CG~~tkp~e~g~k~~Cs~~~C~~~n~~yPr~ 186 (345)
T KOG3084|consen 151 KFCPGCGSPTKPEEAGTKLQCSDETCPSCNVIYPRT 186 (345)
T ss_pred ccCcccCCCcccccCCccceeecccCCcCCeeccCC
Confidence 3499998854 2 33589888898 566664
Done!