Query psy1209
Match_columns 61
No_of_seqs 104 out of 330
Neff 4.7
Searched_HMMs 46136
Date Fri Aug 16 18:25:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1209.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1209hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00217 flap endonuclease-1; 99.7 2.6E-19 5.6E-24 131.7 1.8 59 1-59 1-68 (393)
2 KOG2519|consensus 99.7 5.2E-18 1.1E-22 127.8 0.4 55 1-59 1-62 (449)
3 TIGR03674 fen_arch flap struct 99.6 1.5E-16 3.1E-21 114.8 2.6 57 1-59 1-60 (338)
4 TIGR00600 rad2 DNA excision re 99.6 1.3E-16 2.9E-21 128.7 -0.7 50 1-50 1-54 (1034)
5 PF00752 XPG_N: XPG N-terminal 99.5 9.2E-15 2E-19 88.3 0.8 40 1-40 1-45 (101)
6 smart00485 XPGN Xeroderma pigm 99.4 6.2E-14 1.3E-18 84.8 2.7 46 1-46 1-50 (99)
7 cd00128 XPG Xeroderma pigmento 99.4 8.2E-14 1.8E-18 98.2 2.1 55 1-59 1-58 (316)
8 KOG2518|consensus 97.4 8.4E-05 1.8E-09 58.1 2.0 40 1-40 1-43 (556)
9 COG0258 Exo 5'-3' exonuclease 96.8 0.00044 9.6E-09 49.1 0.9 38 20-58 10-48 (310)
10 PRK14976 5'-3' exonuclease; Pr 96.3 0.0024 5.1E-08 45.5 1.7 38 22-59 4-41 (281)
11 smart00475 53EXOc 5'-3' exonuc 96.2 0.0022 4.8E-08 45.2 1.2 34 22-59 2-35 (259)
12 cd00008 53EXOc 5'-3' exonuclea 95.9 0.0039 8.5E-08 43.1 1.3 34 22-59 2-36 (240)
13 TIGR00593 pola DNA polymerase 93.1 0.042 9.1E-07 44.8 1.2 34 24-59 2-35 (887)
14 PRK05755 DNA polymerase I; Pro 92.6 0.072 1.6E-06 42.8 1.8 35 22-59 3-37 (880)
15 PF12964 DUF3853: Protein of u 86.9 0.42 9.1E-06 30.2 1.5 31 2-32 47-90 (96)
16 KOG0365|consensus 82.5 0.84 1.8E-05 35.1 1.7 23 31-53 175-198 (423)
17 PF02739 5_3_exonuc_N: 5'-3' e 75.1 0.6 1.3E-05 30.9 -0.9 32 22-55 2-33 (169)
18 PF14419 SPOUT_MTase_2: AF2226 60.5 2.6 5.6E-05 29.1 -0.2 26 32-59 84-111 (173)
19 PF03159 XRN_N: XRN 5'-3' exon 50.3 11 0.00023 26.6 1.5 36 1-36 1-45 (237)
20 PHA00439 exonuclease 50.0 18 0.00038 26.5 2.7 36 22-57 7-45 (286)
21 PF02341 RcbX: RbcX protein; 43.5 11 0.00023 24.3 0.6 17 28-44 37-54 (111)
22 PF02743 Cache_1: Cache domain 39.2 13 0.00027 20.7 0.4 35 23-57 31-69 (81)
23 cd01455 vWA_F11C1-5a_type Von 38.1 23 0.00049 24.4 1.6 14 23-36 4-17 (191)
24 COG0467 RAD55 RecA-superfamily 37.0 57 0.0012 22.0 3.5 40 2-45 8-53 (260)
25 PF07277 SapC: SapC; InterPro 35.7 11 0.00024 26.0 -0.2 32 22-58 100-131 (221)
26 PF04435 SPK: Domain of unknow 29.6 58 0.0013 19.1 2.3 25 34-58 78-102 (109)
27 COG5029 CAL1 Prenyltransferase 26.4 49 0.0011 25.1 1.8 24 31-54 130-154 (342)
28 PF01850 PIN: PIN domain; Int 24.8 62 0.0013 18.3 1.7 12 24-35 1-12 (121)
29 PF13275 S4_2: S4 domain; PDB: 24.5 57 0.0012 18.9 1.5 14 27-40 5-18 (65)
30 KOG3456|consensus 23.2 43 0.00092 21.9 0.9 20 8-28 66-85 (120)
31 PF13073 DUF3937: Protein of u 22.3 57 0.0012 19.6 1.3 28 5-37 44-71 (73)
32 PF12760 Zn_Tnp_IS1595: Transp 22.3 54 0.0012 17.1 1.1 13 31-43 5-18 (46)
33 PF00571 CBS: CBS domain CBS d 22.0 1.2E+02 0.0027 15.1 2.6 34 22-55 8-44 (57)
34 COG1569 Predicted nucleic acid 21.4 83 0.0018 21.1 2.0 13 23-36 2-14 (142)
35 PF13470 PIN_3: PIN domain 20.3 72 0.0016 18.6 1.4 14 23-36 1-14 (119)
36 TIGR01444 fkbM_fam methyltrans 20.1 2.1E+02 0.0045 17.0 3.8 37 22-58 24-69 (143)
No 1
>PTZ00217 flap endonuclease-1; Provisional
Probab=99.75 E-value=2.6e-19 Score=131.74 Aligned_cols=59 Identities=54% Similarity=0.785 Sum_probs=53.7
Q ss_pred CcccchhhcccccCCchhhhh-------ceeEEehhhHHHHHHHHHHh--cCCcccCCCCCceeeeee
Q psy1209 1 MGILGLAKLVADVAPSSIRES-------RKICIDASMSLYQFLIAVRS--EGNQLMSVDGEPTRYSVY 59 (61)
Q Consensus 1 MGI~gL~~ll~~~a~~~i~e~-------k~vAIDAS~~iYQFl~aiR~--~G~~L~n~~G~~TsHl~~ 59 (61)
|||+||+++|++.+|.++++. |+||||||+|||||++|+|. +|.+|+|+.|++||||.+
T Consensus 1 MGI~gL~~~l~~~~p~~~~~~~l~~l~gk~vaIDa~~~lyr~~~a~~~~~~~~~l~~~~G~~t~~l~g 68 (393)
T PTZ00217 1 MGIKGLSKFLADKAPNAIKEQELKNYFGRVIAIDASMALYQFLIAIRDDSQGGNLTNEAGEVTSHISG 68 (393)
T ss_pred CChhhHHHHHhhhccccccccCHHHhCCcEEEEeHHHHHHHHHHHcccccccccchhccCCccHHHHH
Confidence 999999999999998876633 99999999999999999994 688999999999999865
No 2
>KOG2519|consensus
Probab=99.68 E-value=5.2e-18 Score=127.84 Aligned_cols=55 Identities=58% Similarity=0.821 Sum_probs=51.3
Q ss_pred CcccchhhcccccCCchhhhh-------ceeEEehhhHHHHHHHHHHhcCCcccCCCCCceeeeee
Q psy1209 1 MGILGLAKLVADVAPSSIRES-------RKICIDASMSLYQFLIAVRSEGNQLMSVDGEPTRYSVY 59 (61)
Q Consensus 1 MGI~gL~~ll~~~a~~~i~e~-------k~vAIDAS~~iYQFl~aiR~~G~~L~n~~G~~TsHl~~ 59 (61)
|||+||.+++.+.+|+++++. |+||||||||||||++++|++ +|..|++||||..
T Consensus 1 MGIkgL~~v~~d~a~~~ir~~~~~~f~~kkVAID~s~~lyqfl~~v~~~----~~~~~~~~~HL~g 62 (449)
T KOG2519|consen 1 MGIKGLSKVIADVAPPCIRKNPIKFFFGKKVAIDASMWLYQFLIVVRSC----RNEAGEPTSHLMG 62 (449)
T ss_pred CCchhHHHHHHHhchHHhhhccHHHhcCceEEEecceeHhhHhhhhccc----cccCCCchHHHHH
Confidence 999999999999999999853 999999999999999999976 8999999999964
No 3
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=99.62 E-value=1.5e-16 Score=114.77 Aligned_cols=57 Identities=32% Similarity=0.497 Sum_probs=49.0
Q ss_pred CcccchhhcccccCCchhh--hhceeEEehhhHHHHHHHHHH-hcCCcccCCCCCceeeeee
Q psy1209 1 MGILGLAKLVADVAPSSIR--ESRKICIDASMSLYQFLIAVR-SEGNQLMSVDGEPTRYSVY 59 (61)
Q Consensus 1 MGI~gL~~ll~~~a~~~i~--e~k~vAIDAS~~iYQFl~aiR-~~G~~L~n~~G~~TsHl~~ 59 (61)
||| |||+||... +..++ .+|+||||||+|||||+.|+| .+|.+|+|++|++|+||.+
T Consensus 1 MGi-~l~~~~~~~-~~~l~~~~gk~vaIDas~~L~r~~~a~~~~~g~~l~~~~G~~t~~l~g 60 (338)
T TIGR03674 1 MGV-DLRDLLAKE-EIELEDLSGKVVAVDAFNALYQFLSSIRQPDGTPLMDSRGRITSHLSG 60 (338)
T ss_pred CCC-ChHHHhccC-ccCHHHhCCCEEEEeHHHHHHHHHHHHhccccchhhhccCCCcHHHHH
Confidence 999 999999822 22233 569999999999999999999 6899999999999999864
No 4
>TIGR00600 rad2 DNA excision repair protein (rad2). All proteins in this family for which functions are known are flap endonucleases that generate the 3' incision next to DNA damage as part of nucleotide excision repair. This family is related to many other flap endonuclease families including the fen1 family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.58 E-value=1.3e-16 Score=128.66 Aligned_cols=50 Identities=34% Similarity=0.474 Sum_probs=44.0
Q ss_pred CcccchhhcccccCCch-hh--hhceeEEehhhHHHHHHHHHH-hcCCcccCCC
Q psy1209 1 MGILGLAKLVADVAPSS-IR--ESRKICIDASMSLYQFLIAVR-SEGNQLMSVD 50 (61)
Q Consensus 1 MGI~gL~~ll~~~a~~~-i~--e~k~vAIDAS~~iYQFl~aiR-~~G~~L~n~~ 50 (61)
|||+|||++|++.+++. +. +||+||||||+|||||++++| .+|++++|++
T Consensus 1 MGI~GLw~ll~~~~r~v~le~l~Gk~vAIDasiWL~q~l~~vr~~~g~~l~n~h 54 (1034)
T TIGR00600 1 MGVQGLWKLLECSGRPVSPETLEGKRLAVDISIWLNQALKGVRDREGNAIKNSH 54 (1034)
T ss_pred CChhHHHHHHHHhcccccHHHhCCeEEEechHHHHHHHHHHHHhccCCccCCHH
Confidence 99999999999998773 33 669999999999999999999 7899888843
No 5
>PF00752 XPG_N: XPG N-terminal domain; InterPro: IPR006085 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. People's skin cells with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-G is one of the most rare and phenotypically heterogeneous of XP, showing anything from slight to extreme dysfunction in DNA excision repair [, ]. XP-G can be corrected by a 133 Kd nuclear protein, XPGC []. XPGC is an acidic protein that confers normal UV resistance in expressing cells []. It is a magnesium-dependent, single-strand DNA endonuclease that makes structure-specific endonucleolytic incisions in a DNA substrate containing a duplex region and single-stranded arms [, ]. XPGC cleaves one strand of the duplex at the border with the single-stranded region []. XPG belongs to a family of proteins that includes RAD2 from Saccharomyces cerevisiae (Baker's yeast) and rad13 from Schizosaccharomyces pombe (Fission yeast), which are single-stranded DNA endonucleases [, ]; mouse and human FEN-1, a structure-specific endonuclease; RAD2 from fission yeast and RAD27 from budding yeast; fission yeast exo1, a 5'-3' double-stranded DNA exonuclease that may act in a pathway that corrects mismatched base pairs; yeast DHS1, and yeast DIN7. Sequence alignment of this family of proteins reveals that similarities are largely confined to two regions. The first is located at the N-terminal extremity (N-region) and corresponds to the first 95 to 105 amino acids. The second region is internal (I-region) and found towards the C terminus; it spans about 140 residues and contains a highly conserved core of 27 amino acids that includes a conserved pentapeptide (E-A-[DE]-A-[QS]). It is possible that the conserved acidic residues are involved in the catalytic mechanism of DNA excision repair in XPG. The amino acids linking the N- and I-regions are not conserved. This entry represents the N-terminal of XPG.; GO: 0004518 nuclease activity, 0006281 DNA repair; PDB: 1A77_A 1A76_A 1MC8_B 3QEB_Z 3QEA_Z 3QE9_Y 1UL1_Z 3Q8K_A 3Q8M_A 3Q8L_A ....
Probab=99.47 E-value=9.2e-15 Score=88.34 Aligned_cols=40 Identities=43% Similarity=0.615 Sum_probs=31.4
Q ss_pred CcccchhhcccccC--Cc-hhh--hhceeEEehhhHHHHHHHHHH
Q psy1209 1 MGILGLAKLVADVA--PS-SIR--ESRKICIDASMSLYQFLIAVR 40 (61)
Q Consensus 1 MGI~gL~~ll~~~a--~~-~i~--e~k~vAIDAS~~iYQFl~aiR 40 (61)
|||+|||++|++.+ +. .+. ++++||||||.|||||+.+.+
T Consensus 1 MGI~gL~~~l~~~~~v~~~~~~~l~g~~vaID~s~wl~~~~~~~~ 45 (101)
T PF00752_consen 1 MGIKGLWQLLKPAAAVRKVSLSELRGKRVAIDASCWLHQFLFSCR 45 (101)
T ss_dssp ---TTHHHHCHHHEGEEEEEGGGGTTCEEEEEHHHHHHHHHHHSB
T ss_pred CCcccHHHHHHhhccCCccCHHHhCCCEEEEEcHHHHHHHHHHhH
Confidence 99999999999987 33 232 559999999999999999987
No 6
>smart00485 XPGN Xeroderma pigmentosum G N-region. domain in nucleases
Probab=99.44 E-value=6.2e-14 Score=84.78 Aligned_cols=46 Identities=43% Similarity=0.642 Sum_probs=37.9
Q ss_pred CcccchhhcccccCCch-hh--hhceeEEehhhHHHHHHHHHH-hcCCcc
Q psy1209 1 MGILGLAKLVADVAPSS-IR--ESRKICIDASMSLYQFLIAVR-SEGNQL 46 (61)
Q Consensus 1 MGI~gL~~ll~~~a~~~-i~--e~k~vAIDAS~~iYQFl~aiR-~~G~~L 46 (61)
|||+|||++|++...+. +. .+++||||||+|||||+.+.+ +.+.++
T Consensus 1 MGI~gL~~~l~~~~~~~~i~~l~g~~vaIDa~~wl~~~~~~~~~~~~~~~ 50 (99)
T smart00485 1 MGIKGLWPLLKPVVREVPLEALRGKTLAIDASIWLYQFLTACREKLGTPL 50 (99)
T ss_pred CCHhHHHHHHHHhcccCCHHHhCCceEeccHHHHHHHHHHHHhhhhcCCC
Confidence 99999999999875542 22 569999999999999999998 555554
No 7
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=99.40 E-value=8.2e-14 Score=98.19 Aligned_cols=55 Identities=44% Similarity=0.524 Sum_probs=46.9
Q ss_pred CcccchhhcccccCCch-hh--hhceeEEehhhHHHHHHHHHHhcCCcccCCCCCceeeeee
Q psy1209 1 MGILGLAKLVADVAPSS-IR--ESRKICIDASMSLYQFLIAVRSEGNQLMSVDGEPTRYSVY 59 (61)
Q Consensus 1 MGI~gL~~ll~~~a~~~-i~--e~k~vAIDAS~~iYQFl~aiR~~G~~L~n~~G~~TsHl~~ 59 (61)
|||+|||++|++.++++ ++ ++++||||||+|||||+.++|... .+.|++|+|+.+
T Consensus 1 MGI~gL~~~l~~~~~~~~i~~l~gk~laID~~~~l~r~~~a~~~~~----~~~g~~~~~l~~ 58 (316)
T cd00128 1 MGIKGLWPLLKPVARPVHLEELRGKKVAIDASIWLYQFLKACRQEL----GSGGETTSHLQG 58 (316)
T ss_pred CchhhHHHHHHhhCCCCCHHHhCCcEEEecHHHHHHHHHHHhhhhc----cCCCCCcHHHHH
Confidence 99999999999998874 44 569999999999999999998432 278999999864
No 8
>KOG2518|consensus
Probab=97.40 E-value=8.4e-05 Score=58.07 Aligned_cols=40 Identities=25% Similarity=0.328 Sum_probs=33.7
Q ss_pred CcccchhhcccccCCch-hh--hhceeEEehhhHHHHHHHHHH
Q psy1209 1 MGILGLAKLVADVAPSS-IR--ESRKICIDASMSLYQFLIAVR 40 (61)
Q Consensus 1 MGI~gL~~ll~~~a~~~-i~--e~k~vAIDAS~~iYQFl~aiR 40 (61)
|||+||-+++.+...+. ++ ++++||||++.|||+-+.+.-
T Consensus 1 MGI~GLlp~~k~~~~~~hi~~~~g~tvavD~y~WLhrg~~~Ca 43 (556)
T KOG2518|consen 1 MGIQGLLPLLKPALKPIHISEYKGKTVAVDGYCWLHRGALACA 43 (556)
T ss_pred CCcchhHHHHHHHhhhhhHHHhcCceEEEehhhHHhhhHHhHH
Confidence 99999999999865553 44 569999999999999888764
No 9
>COG0258 Exo 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair]
Probab=96.81 E-value=0.00044 Score=49.07 Aligned_cols=38 Identities=29% Similarity=0.310 Sum_probs=30.4
Q ss_pred hhceeEEehhhHHHHHHHHHH-hcCCcccCCCCCceeeee
Q psy1209 20 ESRKICIDASMSLYQFLIAVR-SEGNQLMSVDGEPTRYSV 58 (61)
Q Consensus 20 e~k~vAIDAS~~iYQFl~aiR-~~G~~L~n~~G~~TsHl~ 58 (61)
.++.++||++.++|||+.|++ ..+++..+..| .++|+.
T Consensus 10 ~~~l~~IDg~~~lyr~~~a~~~~~~~~~g~~~~-~~~~~~ 48 (310)
T COG0258 10 SGKLLLIDGSSLLYRALHALPQPLGNPLGDPTG-AVSGFL 48 (310)
T ss_pred cCcEEEEechHHHHHHHHhcchhcCCCCCCCcc-HHHHHH
Confidence 458999999999999999999 55666666666 666654
No 10
>PRK14976 5'-3' exonuclease; Provisional
Probab=96.27 E-value=0.0024 Score=45.54 Aligned_cols=38 Identities=21% Similarity=0.294 Sum_probs=31.7
Q ss_pred ceeEEehhhHHHHHHHHHHhcCCcccCCCCCceeeeee
Q psy1209 22 RKICIDASMSLYQFLIAVRSEGNQLMSVDGEPTRYSVY 59 (61)
Q Consensus 22 k~vAIDAS~~iYQFl~aiR~~G~~L~n~~G~~TsHl~~ 59 (61)
+.++||+++.+|++..|.-.++..++|++|+.|+++.+
T Consensus 4 ~~lliDg~~~~~ra~~a~~~~~~~l~~~~G~~t~a~~g 41 (281)
T PRK14976 4 KALLIDGNSLIFRSYYATLKQGPKLKNNKGLPTNAIHT 41 (281)
T ss_pred cEEEEeCcHHHHHHHHccCccCCCccCCCCCCchHHHH
Confidence 56899999999998888754456799999999998754
No 11
>smart00475 53EXOc 5'-3' exonuclease.
Probab=96.19 E-value=0.0022 Score=45.22 Aligned_cols=34 Identities=24% Similarity=0.309 Sum_probs=29.2
Q ss_pred ceeEEehhhHHHHHHHHHHhcCCcccCCCCCceeeeee
Q psy1209 22 RKICIDASMSLYQFLIAVRSEGNQLMSVDGEPTRYSVY 59 (61)
Q Consensus 22 k~vAIDAS~~iYQFl~aiR~~G~~L~n~~G~~TsHl~~ 59 (61)
+.++||+++.+|++..|++ .|+|++|+.|+++.+
T Consensus 2 ~lllIDg~~~i~R~~~a~~----~l~~~~G~~t~a~~g 35 (259)
T smart00475 2 KLLLVDGSSLAFRAYFALP----PLKNSKGEPTNAVYG 35 (259)
T ss_pred cEEEEeCcHHHHHHHHCCC----cccCCCCCcccHHHH
Confidence 4589999999999999984 389999999998764
No 12
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=95.89 E-value=0.0039 Score=43.12 Aligned_cols=34 Identities=29% Similarity=0.301 Sum_probs=27.3
Q ss_pred ceeEEehhhHHHHHHHHHHhcCCcccCC-CCCceeeeee
Q psy1209 22 RKICIDASMSLYQFLIAVRSEGNQLMSV-DGEPTRYSVY 59 (61)
Q Consensus 22 k~vAIDAS~~iYQFl~aiR~~G~~L~n~-~G~~TsHl~~ 59 (61)
+.++||+++.+||+..|++ .+.++ +|+.|+++.+
T Consensus 2 ~~llIDg~~l~yr~~~a~~----~~~~~~~g~~t~ai~g 36 (240)
T cd00008 2 RLLLIDGSSLAYRAYFALP----PLKNSPKGLPTNAVYG 36 (240)
T ss_pred cEEEEEChHHHHHHHHCCC----CcCCCCCCcCchHHHH
Confidence 4689999999999999986 23444 8999998754
No 13
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.12 E-value=0.042 Score=44.80 Aligned_cols=34 Identities=24% Similarity=0.348 Sum_probs=29.1
Q ss_pred eEEehhhHHHHHHHHHHhcCCcccCCCCCceeeeee
Q psy1209 24 ICIDASMSLYQFLIAVRSEGNQLMSVDGEPTRYSVY 59 (61)
Q Consensus 24 vAIDAS~~iYQFl~aiR~~G~~L~n~~G~~TsHl~~ 59 (61)
+.||++..+|++..|++. .+|+|++|+.|+++.+
T Consensus 2 ~lIDg~~l~~Ra~~a~~~--~~l~~~~G~~t~av~G 35 (887)
T TIGR00593 2 LLIDGHSLAFRAYFALKN--KPLTNSKGEPTNAVYG 35 (887)
T ss_pred EEEeCcHHHHHHHHCCCc--ccCcCCCCCEecHHHH
Confidence 689999999999999852 2599999999998764
No 14
>PRK05755 DNA polymerase I; Provisional
Probab=92.57 E-value=0.072 Score=42.81 Aligned_cols=35 Identities=29% Similarity=0.258 Sum_probs=29.9
Q ss_pred ceeEEehhhHHHHHHHHHHhcCCcccCCCCCceeeeee
Q psy1209 22 RKICIDASMSLYQFLIAVRSEGNQLMSVDGEPTRYSVY 59 (61)
Q Consensus 22 k~vAIDAS~~iYQFl~aiR~~G~~L~n~~G~~TsHl~~ 59 (61)
+.++||+++.+|++..|. +..++|++|..|+++.+
T Consensus 3 ~~~liDg~~~~~r~~~a~---~~~~~~~~g~~~~a~~g 37 (880)
T PRK05755 3 TLLLIDGSSLLFRAFYAL---LPTLRNSDGLPTGAVYG 37 (880)
T ss_pred eEEEEeCcHHHHHHHHCC---CCcccCCCCCcccHHHH
Confidence 467999999999999987 46789999999988754
No 15
>PF12964 DUF3853: Protein of unknown function (DUF3853); InterPro: IPR024363 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=86.89 E-value=0.42 Score=30.22 Aligned_cols=31 Identities=45% Similarity=0.717 Sum_probs=25.0
Q ss_pred cccchhhcccccCCch--hh-hh----------ceeEEehhhHH
Q psy1209 2 GILGLAKLVADVAPSS--IR-ES----------RKICIDASMSL 32 (61)
Q Consensus 2 GI~gL~~ll~~~a~~~--i~-e~----------k~vAIDAS~~i 32 (61)
|++||.+++.+.-|.+ ++ +| |+|-||+-++|
T Consensus 47 G~~GlAklfgcSv~Ta~RiK~sG~id~AI~Q~Gr~IivD~~~aL 90 (96)
T PF12964_consen 47 GLKGLAKLFGCSVPTANRIKKSGKIDPAITQIGRKIIVDADKAL 90 (96)
T ss_pred hHHHHHHHhCCCchhHHHHHhcCCccHHHHHcCCEEEEeHHHHH
Confidence 8999999999887764 33 22 99999999887
No 16
>KOG0365|consensus
Probab=82.47 E-value=0.84 Score=35.09 Aligned_cols=23 Identities=43% Similarity=0.813 Sum_probs=21.0
Q ss_pred HHHHHHHHHH-hcCCcccCCCCCc
Q psy1209 31 SLYQFLIAVR-SEGNQLMSVDGEP 53 (61)
Q Consensus 31 ~iYQFl~aiR-~~G~~L~n~~G~~ 53 (61)
-|||||+.++ +||.-.++.+||+
T Consensus 175 ~l~~fL~slK~~dGgFrmh~~GE~ 198 (423)
T KOG0365|consen 175 KLYQFLFSLKDPDGGFRMHVEGEV 198 (423)
T ss_pred HHHHHHHHhcCCCCCeEeecCCcc
Confidence 4899999999 9999999999996
No 17
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=75.08 E-value=0.6 Score=30.94 Aligned_cols=32 Identities=31% Similarity=0.511 Sum_probs=24.3
Q ss_pred ceeEEehhhHHHHHHHHHHhcCCcccCCCCCcee
Q psy1209 22 RKICIDASMSLYQFLIAVRSEGNQLMSVDGEPTR 55 (61)
Q Consensus 22 k~vAIDAS~~iYQFl~aiR~~G~~L~n~~G~~Ts 55 (61)
+.+-||++..+|+.-.|... .+|.|++|+.|+
T Consensus 2 ~llLIDg~~l~~Ra~~a~~~--~~l~~~~G~~t~ 33 (169)
T PF02739_consen 2 KLLLIDGNSLLFRAYYALPK--DPLRNSDGEPTN 33 (169)
T ss_dssp EEEEEEHHHHHHHCCCCCTT--ST-BETTSEB-H
T ss_pred eEEEEechHHHHHHHHhhcc--CCCcCCCCCChH
Confidence 45778999999988777754 578999998886
No 18
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP
Probab=60.54 E-value=2.6 Score=29.14 Aligned_cols=26 Identities=27% Similarity=0.418 Sum_probs=20.1
Q ss_pred HHHHHHHHHhcCCcc--cCCCCCceeeeee
Q psy1209 32 LYQFLIAVRSEGNQL--MSVDGEPTRYSVY 59 (61)
Q Consensus 32 iYQFl~aiR~~G~~L--~n~~G~~TsHl~~ 59 (61)
|||+... +.+.+| +|.+|+..||.--
T Consensus 84 lYQ~vRd--R~~~~lIvtdPkG~~is~vk~ 111 (173)
T PF14419_consen 84 LYQVVRD--RKGEPLIVTDPKGDPISEVKD 111 (173)
T ss_pred HHHHHHh--cCCCeEEEECCCCCcHHHHHH
Confidence 8898766 466666 8999999988643
No 19
>PF03159 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: IPR004859 Signatures of this entry align residues towards the N terminus of several proteins with multiple functions. The members of this family all appear to possess 5'-3' exonuclease activity 3.1.11 from EC. Thus, the aligned region may be necessary for 5'-3' exonuclease function.; GO: 0003676 nucleic acid binding, 0004527 exonuclease activity, 0005622 intracellular; PDB: 2Y35_A 3PIE_B 3PIF_C 3FQD_A.
Probab=50.30 E-value=11 Score=26.62 Aligned_cols=36 Identities=22% Similarity=0.437 Sum_probs=26.7
Q ss_pred CcccchhhcccccCCchhh---hh------ceeEEehhhHHHHHH
Q psy1209 1 MGILGLAKLVADVAPSSIR---ES------RKICIDASMSLYQFL 36 (61)
Q Consensus 1 MGI~gL~~ll~~~a~~~i~---e~------k~vAIDAS~~iYQFl 36 (61)
|||.||+..|.+.-|.+++ +. --+=||....||+..
T Consensus 1 MGVp~f~~wl~~ryp~~~~~~~~~~~~~~~D~LYiDmN~IIH~~~ 45 (237)
T PF03159_consen 1 MGVPGFFRWLSERYPLIVRPISENSIPSEFDNLYIDMNGIIHNCI 45 (237)
T ss_dssp --CCHHHHHHHHHSGGGEEEECTTTSEE-ESEEEEETHHHHHHHH
T ss_pred CCHHHHHHHHHHhCCcceeeccccCCCCcCCEEEEEcchhhhHhc
Confidence 9999999999998887654 12 456788999999864
No 20
>PHA00439 exonuclease
Probab=50.00 E-value=18 Score=26.50 Aligned_cols=36 Identities=11% Similarity=0.290 Sum_probs=28.3
Q ss_pred ceeEEehhhHHHHHHHHHH---hcCCcccCCCCCceeee
Q psy1209 22 RKICIDASMSLYQFLIAVR---SEGNQLMSVDGEPTRYS 57 (61)
Q Consensus 22 k~vAIDAS~~iYQFl~aiR---~~G~~L~n~~G~~TsHl 57 (61)
+.+.||++..+|+--.|.- .-+.+++|++|..|+=+
T Consensus 7 ~llLIDG~~l~fRA~~A~~~~~~~~~~l~~~~G~~t~A~ 45 (286)
T PHA00439 7 GVLVMDGDYLVFQAMAAAEVETDWGEDIWTLECDHAKAR 45 (286)
T ss_pred cEEEEeCcHHHHHHHHccCcccccCCCCCCCCCeeccHH
Confidence 5678999999999888872 22456889999998743
No 21
>PF02341 RcbX: RbcX protein; InterPro: IPR003435 The RbcX protein has been identified as having a possible chaperonin-like function []. The rbcX gene is juxtaposed to and cotranscribed with rbcL and rbcS encoding RubisCO in Anabaena sp. (strain CA / ATCC 33047). RbcX has been shown to possess a chaperonin-like function assisting correct folding of RubisCO in Escherichia coli expression studies and is needed for RubisCO to reach its maximal activity [].; PDB: 2PEM_B 2PEI_L 2PEK_A 2Z46_E 2Z44_A 2PEJ_F 2PEN_D 2PEQ_B 2Z45_A 3Q20_A ....
Probab=43.47 E-value=11 Score=24.28 Aligned_cols=17 Identities=35% Similarity=0.577 Sum_probs=13.7
Q ss_pred hhhHHHHHHHHHH-hcCC
Q psy1209 28 ASMSLYQFLIAVR-SEGN 44 (61)
Q Consensus 28 AS~~iYQFl~aiR-~~G~ 44 (61)
++.|+|+|+..-. +||.
T Consensus 37 ~~~wL~~F~~~~~~~DGd 54 (111)
T PF02341_consen 37 AYIWLYNFLSRNPLQDGD 54 (111)
T ss_dssp HHHHHHHHHHHSTCSSHH
T ss_pred HHHHHHHHHhcCCCccHH
Confidence 4799999999877 6663
No 22
>PF02743 Cache_1: Cache domain; InterPro: IPR004010 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins, including the animal dihydropyridine-sensitive voltage-gated Ca2+ channel; alpha-2delta subunit, and various bacterial chemotaxis receptors. The name Cache comes from CAlcium channels and CHEmotaxis receptors. This domain consists of an N-terminal part with three predicted strands and an alpha-helix, and a C-terminal part with a strand dyad followed by a relatively unstructured region. The N-terminal portion of the (unpermuted) Cache domain contains three predicted strands that could form a sheet analogous to that present in the core of the PAS domain structure. Cache domains are particularly widespread in bacteria, with Vibrio cholerae. The animal calcium channel alpha-2delta subunits might have acquired a part of their extracellular domains from a bacterial source []. The Cache domain appears to have arisen from the GAF-PAS fold despite their divergent functions [].; GO: 0016020 membrane; PDB: 3C8C_A 3LIB_D 3LIA_A 3LI8_A 3LI9_A.
Probab=39.16 E-value=13 Score=20.71 Aligned_cols=35 Identities=17% Similarity=0.330 Sum_probs=21.0
Q ss_pred eeEEehhh-HHHHHHHHHH--hcCC-cccCCCCCceeee
Q psy1209 23 KICIDASM-SLYQFLIAVR--SEGN-QLMSVDGEPTRYS 57 (61)
Q Consensus 23 ~vAIDAS~-~iYQFl~aiR--~~G~-~L~n~~G~~TsHl 57 (61)
.+++|.++ +|.+++..++ ..|. -+.|++|++..|=
T Consensus 31 vv~~di~l~~l~~~i~~~~~~~~g~~~ivd~~G~ii~hp 69 (81)
T PF02743_consen 31 VVGIDISLDQLSEIISNIKFGNNGYAFIVDKNGTIIAHP 69 (81)
T ss_dssp EEEEEEEHHHHHHHHTTSBBTTTBEEEEEETTSBBCE-S
T ss_pred EEEEEeccceeeeEEEeeEECCCEEEEEEECCCCEEEeC
Confidence 34556554 3455555555 3343 5689999999884
No 23
>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=38.08 E-value=23 Score=24.43 Aligned_cols=14 Identities=43% Similarity=0.736 Sum_probs=12.1
Q ss_pred eeEEehhhHHHHHH
Q psy1209 23 KICIDASMSLYQFL 36 (61)
Q Consensus 23 ~vAIDAS~~iYQFl 36 (61)
.+|+|.|-++|.|.
T Consensus 4 ~lavDlSgSM~~~~ 17 (191)
T cd01455 4 KLVVDVSGSMYRFN 17 (191)
T ss_pred EEEEECcHhHHHHh
Confidence 58999999999874
No 24
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=36.98 E-value=57 Score=22.04 Aligned_cols=40 Identities=25% Similarity=0.429 Sum_probs=27.0
Q ss_pred cccchhhcccccCCchhhhhceeEE------ehhhHHHHHHHHHHhcCCc
Q psy1209 2 GILGLAKLVADVAPSSIRESRKICI------DASMSLYQFLIAVRSEGNQ 45 (61)
Q Consensus 2 GI~gL~~ll~~~a~~~i~e~k~vAI------DAS~~iYQFl~aiR~~G~~ 45 (61)
||.||-+++.. .+.+++.+.| .=++..+||+...-+.|.+
T Consensus 8 GI~glD~~l~G----G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~ 53 (260)
T COG0467 8 GIPGLDEILGG----GLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEP 53 (260)
T ss_pred CCcchHHHhcC----CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCc
Confidence 78888888872 2333444554 4478899999988755653
No 25
>PF07277 SapC: SapC; InterPro: IPR010836 This family contains a number of bacterial SapC proteins approximately 250 residues long. In Campylobacter fetus, SapC forms part of a paracrystalline surface layer (S-layer) that confers serum resistance [].
Probab=35.70 E-value=11 Score=26.00 Aligned_cols=32 Identities=41% Similarity=0.704 Sum_probs=25.7
Q ss_pred ceeEEehhhHHHHHHHHHHhcCCcccCCCCCceeeee
Q psy1209 22 RKICIDASMSLYQFLIAVRSEGNQLMSVDGEPTRYSV 58 (61)
Q Consensus 22 k~vAIDAS~~iYQFl~aiR~~G~~L~n~~G~~TsHl~ 58 (61)
..|+||-..-... ..+|.+|-|++|+.|.+|.
T Consensus 100 ~~v~iD~~s~~v~-----~~~G~~LFd~~G~~T~~l~ 131 (221)
T PF07277_consen 100 LVVCIDEDSPLVS-----EDEGEPLFDEDGEPTEYLQ 131 (221)
T ss_pred eEEEEECCCCCcC-----CCCCccCcCCCCCcCHHHH
Confidence 8899998765421 4789999999999998774
No 26
>PF04435 SPK: Domain of unknown function (DUF545) ; InterPro: IPR006570 SPK is a domain of unknown function found in SET and PHD domain containing proteins and protein kinases.
Probab=29.57 E-value=58 Score=19.12 Aligned_cols=25 Identities=20% Similarity=0.418 Sum_probs=21.3
Q ss_pred HHHHHHHhcCCcccCCCCCceeeee
Q psy1209 34 QFLIAVRSEGNQLMSVDGEPTRYSV 58 (61)
Q Consensus 34 QFl~aiR~~G~~L~n~~G~~TsHl~ 58 (61)
+|+..+|..|.--.|.+|.+++.-+
T Consensus 78 ~fl~~L~~~a~v~lD~~~rI~~Y~s 102 (109)
T PF04435_consen 78 EFLKELRKHADVELDEKGRIIKYKS 102 (109)
T ss_pred HHHHHHHhCcEEEEcCCCCEEEEEe
Confidence 7999999988877899999998754
No 27
>COG5029 CAL1 Prenyltransferase, beta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=26.42 E-value=49 Score=25.14 Aligned_cols=24 Identities=25% Similarity=0.487 Sum_probs=21.2
Q ss_pred HHHHHHHHHH-hcCCcccCCCCCce
Q psy1209 31 SLYQFLIAVR-SEGNQLMSVDGEPT 54 (61)
Q Consensus 31 ~iYQFl~aiR-~~G~~L~n~~G~~T 54 (61)
.||+|++... +||.--.|..||+-
T Consensus 130 ~l~~fi~~lk~pdGsF~~~~~gevD 154 (342)
T COG5029 130 SLASFISGLKNPDGSFRSDLEGEVD 154 (342)
T ss_pred HHHHHHHhccCCCCceecccCCcch
Confidence 6899999998 99998888889874
No 28
>PF01850 PIN: PIN domain; InterPro: IPR002716 The PilT protein, N-terminal domain (PIN) is a compact domain of about 100 amino acids. The domain has two nearly invariant aspartates and forms a coiled-coil with other monomer units to polymerise a pilus fibre []. The function of the PIN domain is unknown but a role in signalling appears likely given the presence of this domain in some bacterial plasmid stability proteins and Dis3 from yeast that is implicated in mitotic control [].; PDB: 3TND_G 2H1O_B 2BSQ_B 2H1C_A 2FE1_A 3ZVK_C 1V8P_F 1V8O_C 3H87_A 1O4W_A ....
Probab=24.85 E-value=62 Score=18.31 Aligned_cols=12 Identities=25% Similarity=0.396 Sum_probs=9.0
Q ss_pred eEEehhhHHHHH
Q psy1209 24 ICIDASMSLYQF 35 (61)
Q Consensus 24 vAIDAS~~iYQF 35 (61)
+-+|+|.|++=|
T Consensus 1 i~lDTsili~~~ 12 (121)
T PF01850_consen 1 ILLDTSILIALL 12 (121)
T ss_dssp EEE-HHHHHHHH
T ss_pred EEEcChhhcccc
Confidence 468999999877
No 29
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=24.52 E-value=57 Score=18.88 Aligned_cols=14 Identities=21% Similarity=0.159 Sum_probs=8.8
Q ss_pred ehhhHHHHHHHHHH
Q psy1209 27 DASMSLYQFLIAVR 40 (61)
Q Consensus 27 DAS~~iYQFl~aiR 40 (61)
|.++-|+|||+..-
T Consensus 5 ~e~I~L~qlLK~~g 18 (65)
T PF13275_consen 5 TEYITLGQLLKLAG 18 (65)
T ss_dssp -S---HHHHHHHHT
T ss_pred CCcEEHHHHHhHcC
Confidence 45889999999976
No 30
>KOG3456|consensus
Probab=23.24 E-value=43 Score=21.93 Aligned_cols=20 Identities=25% Similarity=0.645 Sum_probs=14.7
Q ss_pred hcccccCCchhhhhceeEEeh
Q psy1209 8 KLVADVAPSSIRESRKICIDA 28 (61)
Q Consensus 8 ~ll~~~a~~~i~e~k~vAIDA 28 (61)
+||+|.-|..+ ++|.||.|.
T Consensus 66 ~LI~e~Pp~e~-d~RVV~CdG 85 (120)
T KOG3456|consen 66 ELISEVPPIEV-DGRVVACDG 85 (120)
T ss_pred hhhhcCChhhc-cceEEEecC
Confidence 67777666544 679999985
No 31
>PF13073 DUF3937: Protein of unknown function (DUF3937)
Probab=22.33 E-value=57 Score=19.61 Aligned_cols=28 Identities=29% Similarity=0.408 Sum_probs=15.6
Q ss_pred chhhcccccCCchhhhhceeEEehhhHHHHHHH
Q psy1209 5 GLAKLVADVAPSSIRESRKICIDASMSLYQFLI 37 (61)
Q Consensus 5 gL~~ll~~~a~~~i~e~k~vAIDAS~~iYQFl~ 37 (61)
+.|+-+--.+|+.+ +.|=..+++|||-+
T Consensus 44 e~Wktilld~P~gI-----LVilGaiaLY~FTK 71 (73)
T PF13073_consen 44 EIWKTILLDAPEGI-----LVILGAIALYDFTK 71 (73)
T ss_pred hhHhHHhhcCCccc-----hhhhhHHHHHHhhc
Confidence 45554444455532 23334789999964
No 32
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=22.31 E-value=54 Score=17.08 Aligned_cols=13 Identities=23% Similarity=0.600 Sum_probs=10.8
Q ss_pred HHHHHHHHHH-hcC
Q psy1209 31 SLYQFLIAVR-SEG 43 (61)
Q Consensus 31 ~iYQFl~aiR-~~G 43 (61)
.-++||..+| ++|
T Consensus 5 ~c~~~l~~~RW~~g 18 (46)
T PF12760_consen 5 ACREYLEEIRWPDG 18 (46)
T ss_pred HHHHHHHHhcCCCC
Confidence 3578999999 887
No 33
>PF00571 CBS: CBS domain CBS domain web page. Mutations in the CBS domain of Swiss:P35520 lead to homocystinuria.; InterPro: IPR000644 CBS (cystathionine-beta-synthase) domains are small intracellular modules, mostly found in two or four copies within a protein, that occur in a variety of proteins in bacteria, archaea, and eukaryotes [, ]. Tandem pairs of CBS domains can act as binding domains for adenosine derivatives and may regulate the activity of attached enzymatic or other domains []. In some cases, CBS domains may act as sensors of cellular energy status by being activated by AMP and inhibited by ATP []. In chloride ion channels, the CBS domains have been implicated in intracellular targeting and trafficking, as well as in protein-protein interactions, but results vary with different channels: in the CLC-5 channel, the CBS domain was shown to be required for trafficking [], while in the CLC-1 channel, the CBS domain was shown to be critical for channel function, but not necessary for trafficking []. Recent experiments revealing that CBS domains can bind adenosine-containing ligands such ATP, AMP, or S-adenosylmethionine have led to the hypothesis that CBS domains function as sensors of intracellular metabolites [, ]. Crystallographic studies of CBS domains have shown that pairs of CBS sequences form a globular domain where each CBS unit adopts a beta-alpha-beta-beta-alpha pattern []. Crystal structure of the CBS domains of the AMP-activated protein kinase in complexes with AMP and ATP shows that the phosphate groups of AMP/ATP lie in a surface pocket at the interface of two CBS domains, which is lined with basic residues, many of which are associated with disease-causing mutations []. In humans, mutations in conserved residues within CBS domains cause a variety of human hereditary diseases, including (with the gene mutated in parentheses): homocystinuria (cystathionine beta-synthase); Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase); retinitis pigmentosa (IMP dehydrogenase-1); congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members).; GO: 0005515 protein binding; PDB: 3JTF_A 3TE5_C 3TDH_C 3T4N_C 2QLV_C 3OI8_A 3LV9_A 2QH1_B 1PVM_B 3LQN_A ....
Probab=22.04 E-value=1.2e+02 Score=15.08 Aligned_cols=34 Identities=24% Similarity=0.283 Sum_probs=25.8
Q ss_pred ceeEEehhhHHHHHHHHHHhcC---CcccCCCCCcee
Q psy1209 22 RKICIDASMSLYQFLIAVRSEG---NQLMSVDGEPTR 55 (61)
Q Consensus 22 k~vAIDAS~~iYQFl~aiR~~G---~~L~n~~G~~Ts 55 (61)
..+.++.+..+.+.+..+++.+ -++.|++|+...
T Consensus 8 ~~~~v~~~~~l~~~~~~~~~~~~~~~~V~d~~~~~~G 44 (57)
T PF00571_consen 8 PPITVSPDDSLEEALEIMRKNGISRLPVVDEDGKLVG 44 (57)
T ss_dssp SSEEEETTSBHHHHHHHHHHHTSSEEEEESTTSBEEE
T ss_pred CCEEEcCcCcHHHHHHHHHHcCCcEEEEEecCCEEEE
Confidence 4567888999999999999544 366888877654
No 34
>COG1569 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=21.35 E-value=83 Score=21.12 Aligned_cols=13 Identities=31% Similarity=0.501 Sum_probs=10.5
Q ss_pred eeEEehhhHHHHHH
Q psy1209 23 KICIDASMSLYQFL 36 (61)
Q Consensus 23 ~vAIDAS~~iYQFl 36 (61)
||.||.+.|| .||
T Consensus 2 kVViDTNV~i-saL 14 (142)
T COG1569 2 KVVIDTNVWI-SAL 14 (142)
T ss_pred eEEEEhhHHH-HHH
Confidence 6899999998 444
No 35
>PF13470 PIN_3: PIN domain
Probab=20.26 E-value=72 Score=18.63 Aligned_cols=14 Identities=14% Similarity=0.501 Sum_probs=11.4
Q ss_pred eeEEehhhHHHHHH
Q psy1209 23 KICIDASMSLYQFL 36 (61)
Q Consensus 23 ~vAIDAS~~iYQFl 36 (61)
||-||+++++-.++
T Consensus 1 RVvlDTNVli~~ll 14 (119)
T PF13470_consen 1 RVVLDTNVLISALL 14 (119)
T ss_pred CEEEEechhHHHHh
Confidence 57899999996666
No 36
>TIGR01444 fkbM_fam methyltransferase, FkbM family. Members of this family are characterized by two well-conserved short regions separated by a variable in both sequence and length. The first of the two regions is found in a large number of proteins outside this subfamily, a number of which have been characterized as methyltransferases. One member of the present family, FkbM, was shown to be required for a specific methylation in the biosynthesis of the immunosuppressant FK506 in Streptomyces strain MA6548.
Probab=20.10 E-value=2.1e+02 Score=16.96 Aligned_cols=37 Identities=19% Similarity=0.140 Sum_probs=27.4
Q ss_pred ceeEEehhhHHHHHHHHHH-hcC--------CcccCCCCCceeeee
Q psy1209 22 RKICIDASMSLYQFLIAVR-SEG--------NQLMSVDGEPTRYSV 58 (61)
Q Consensus 22 k~vAIDAS~~iYQFl~aiR-~~G--------~~L~n~~G~~TsHl~ 58 (61)
+.+|||++-..|+.+.... ..| ..+.|.+|+.+.+..
T Consensus 24 ~v~~~E~~~~~~~~l~~~~~~n~~~~v~~~~~al~~~~g~~~~~~~ 69 (143)
T TIGR01444 24 RVIAFEPLPDAYEILEENVKLNNLPNVVLLNAAVGDRDGELEFNVS 69 (143)
T ss_pred EEEEEecCHHHHHHHHHHHHHcCCCcEEEEEeeeeCCCCeEEEEEC
Confidence 7999999999999888765 433 245677777766643
Done!