RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6813
(758 letters)
>gnl|CDD|238717 cd01437, parp_like, Poly(ADP-ribose) polymerase (parp) catalytic
domain catalyses the covalent attachment of ADP-ribose
units from NAD+ to itself and to a limited number of
other DNA binding proteins, which decreases their
affinity for DNA. Poly(ADP-ribose) polymerase is a
regulatory component induced by DNA damage. The
carboxyl-terminal region is the most highly conserved
region of the protein. Experiments have shown that a
carboxyl 40 kDa fragment is still catalytically active.
Poly(ADP-ribose)-like polymerases (PARPS 1-3, VPARP,
tankyrase) catalyze the addition of up to 100 ADP_ribose
units from NAD+. PARPs 1 and 2 are localized in the
nucleaus, bind DNA, and are activated by DNA damage.
VPARP is part of the vault ribonucleoprotein complex.
Tankyrases regulates telomere length through
interactions with telomere repeat binding factor 1.
Length = 347
Score = 396 bits (1019), Expect = e-132
Identities = 171/396 (43%), Positives = 238/396 (60%), Gaps = 49/396 (12%)
Query: 359 ECSLEKPVAALVELLFDEKAMTATLKEYELDMDRMPLGKLSAKHLAQGYSILNEVISVLD 418
+ L+KPV L++L+FD + M + E ++D +MPLGKLS + +GY +L E+ L
Sbjct: 1 KSKLDKPVQELIKLIFDVEMMKKAMTELKIDASKMPLGKLSKNQIQKGYEVLKEIEEALK 60
Query: 419 RNAEADVKDRLILTLTNSFYTHIPHSFGLADPPLLDNKQLVVQKMEMIDAMTQIELAYTI 478
R + + L+N FYT IPH FG++ PP++DN++L+ K E+++A+ IE+A +
Sbjct: 61 RGSSQG---SQLEELSNEFYTLIPHDFGMSKPPVIDNEELLKAKRELLEALRDIEIASKL 117
Query: 479 KQEGPSAGVHPLVNCYEKLQANIKSVDTSHPHYEIIHKYVQNTHAKTHREYSLNIEAIFE 538
++ PL YEKL+ I+ +D Y+II KY++NTHA T EY++ ++ IF
Sbjct: 118 LKDDEDDSDDPLDANYEKLKCKIEPLDKDSEEYKIIEKYLKNTHAPTT-EYTVEVQEIFR 176
Query: 539 VSRHGEDKRFKPFEKLGNKHLLWHGSRLTNFASIISKGLCIAPPEAPVTGYMFGKGIYFA 598
V R GE RFKPF+KLGN+ LLWHGSRLTNF I+S+GL IAPPEAPVTGYMFGKGIYFA
Sbjct: 177 VEREGETDRFKPFKKLGNRKLLWHGSRLTNFVGILSQGLRIAPPEAPVTGYMFGKGIYFA 236
Query: 599 DSVSKSANYCMTNSTNNVGLLLLCEVALGKVVLRYMFGKGIYFADSVSKSANYCMTNSTN 658
D SKSANYC ++++ GLLLLCEVALGK+ K A+Y M
Sbjct: 237 DMFSKSANYCHASASDPTGLLLLCEVALGKMN--------------ELKKADY-MA---- 277
Query: 659 NVGLLLLCEVALGKVVKKTQAEFVTKLPNGFHSVQGQGRNCPDPKGSIVLDNNITVPLGT 718
+LP G HSV+G G+ PDP + + + VPLG
Sbjct: 278 ------------------------KELPKGKHSVKGLGKTAPDPSEFEIDLDGVVVPLGK 313
Query: 719 LIDLPRDQAKNLSLLYNEFIVYDPAQVKIRYILKVR 754
+ P + SLLYNE+IVYD AQV+++Y+L+V+
Sbjct: 314 PV--PSGHKTDTSLLYNEYIVYDVAQVRLKYLLEVK 347
Score = 64.6 bits (158), Expect = 6e-11
Identities = 33/99 (33%), Positives = 52/99 (52%), Gaps = 6/99 (6%)
Query: 236 KFIKDAANGK--VLELIEKMNLAPWGSDDSAKHLAQGYSILNEVISVLDRNAEADVKDRL 293
K I D K + EL + P G S + +GY +L E+ L R +
Sbjct: 13 KLIFDVEMMKKAMTELKIDASKMPLGKL-SKNQIQKGYEVLKEIEEALKRGSSQG---SQ 68
Query: 294 ILTLTNSFYTHIPHSFGLADPPLLDNKQLVVQKMEMIDA 332
+ L+N FYT IPH FG++ PP++DN++L+ K E+++A
Sbjct: 69 LEELSNEFYTLIPHDFGMSKPPVIDNEELLKAKRELLEA 107
>gnl|CDD|215591 PLN03124, PLN03124, poly [ADP-ribose] polymerase; Provisional.
Length = 643
Score = 333 bits (855), Expect = e-104
Identities = 161/428 (37%), Positives = 232/428 (54%), Gaps = 57/428 (13%)
Query: 337 LLDVKYEDTSKSKK----VKVEPMDIECSLEKPVAALVELLFDEKAMTATLKEYELDMDR 392
L++ YED +SKK V E + + L+ VA + L+ D M + E + +
Sbjct: 265 WLEMDYEDEEESKKDKPSVSSEDKNKQSKLDPRVAQFISLICDVSMMKQQMMEIGYNARK 324
Query: 393 MPLGKLSAKHLAQGYSILNEVISVLDRNAEADVKDRLILTLTNSFYTHIPHSFGLAD--P 450
+PLGKLS + +GY +L + V+ R+ + L+ FYT IPH FG
Sbjct: 325 LPLGKLSKSTILKGYEVLKRIAEVISRSDR-----ETLEELSGEFYTVIPHDFGFKKMRQ 379
Query: 451 PLLDNKQLVVQKMEMIDAMTQIELAYTIKQEGPSAGVHPLVNCYEKLQANIKSVDTSHPH 510
+D Q + K+EM++A+ +IE+A + ++ PL Y++L ++ +DT
Sbjct: 380 FTIDTPQKLKHKLEMVEALGEIEIATKLLKDDIGEQDDPLYAHYKRLNCELEPLDTDSEE 439
Query: 511 YEIIHKYVQNTHAKTHREYSLNIEAIFEVSRHGEDKRFKPFEKLGNKHLLWHGSRLTNFA 570
+ +I KY++NTH +TH Y+L I IF+VSR GED+RF+ F N+ LLWHGSRLTN+
Sbjct: 440 FSMIAKYLENTHGQTHSGYTLEIVQIFKVSREGEDERFQKFSSTKNRMLLWHGSRLTNWT 499
Query: 571 SIISKGLCIAPPEAPVTGYMFGKGIYFADSVSKSANYCMTNSTNNVGLLLLCEVALGKVV 630
I+S+GL IAPPEAP TGYMFGKG+YFAD SKSANYC ++ N G+LLLCEVALG +
Sbjct: 500 GILSQGLRIAPPEAPSTGYMFGKGVYFADMFSKSANYCYASAANPDGVLLLCEVALGDMN 559
Query: 631 LRYMFGKGIYFADSVSKSANYCMTNSTNNVGLLLLCEVALGKVVKKTQAEFVTKLPNGFH 690
Y A+ KLP G
Sbjct: 560 ELLQAD---YNAN----------------------------------------KLPPGKL 576
Query: 691 SVQGQGRNCPDPKGSIVLDNNITVPLGTLIDLPRDQAKNLSLLYNEFIVYDPAQVKIRYI 750
S +G GR PDP + L++ + VPLG ++ P + SL YNE+IVY+ Q+++RY+
Sbjct: 577 STKGVGRTVPDPSEAKTLEDGVVVPLGKPVESPYSKG---SLEYNEYIVYNVDQIRMRYV 633
Query: 751 LKVRFNYK 758
L+V+FNYK
Sbjct: 634 LQVKFNYK 641
Score = 51.4 bits (123), Expect = 1e-06
Identities = 38/131 (29%), Positives = 58/131 (44%), Gaps = 9/131 (6%)
Query: 45 GEAKDVKLKSQEKSVFKSKSGTVKLQIKDGLAVDPDSGLAD----TTELVKYFDDRYLNA 100
K + + K + K G AV D L D +++ DD Y +A
Sbjct: 122 ANGTGEDEKEKGGDEEREKEEKIVTATKKGRAV-LDQWLPDHIKSNYHVLEEGDDVY-DA 179
Query: 101 VMGKTDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTSIGGTKVQ-DFKDVESAFDE 159
++ +T+V N FY LQVL+S KY ++ WGR+G G K+ + E A E
Sbjct: 180 MLNQTNVGDNNNKFYVLQVLESD-DGSKYMVYTRWGRVGVK-GQDKLHGPYDSREPAIRE 237
Query: 160 FDRCFEKETGN 170
F++ F +T N
Sbjct: 238 FEKKFYDKTKN 248
Score = 45.2 bits (107), Expect = 1e-04
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 7/67 (10%)
Query: 269 QGYSILNEVISVLDRNAEADVKDRLILTLTNSFYTHIPHSFGLAD--PPLLDNKQLVVQK 326
+GY +L + V+ R+ + L+ FYT IPH FG +D Q + K
Sbjct: 337 KGYEVLKRIAEVISRSDR-----ETLEELSGEFYTVIPHDFGFKKMRQFTIDTPQKLKHK 391
Query: 327 MEMIDAM 333
+EM++A+
Sbjct: 392 LEMVEAL 398
>gnl|CDD|215590 PLN03123, PLN03123, poly [ADP-ribose] polymerase; Provisional.
Length = 981
Score = 311 bits (799), Expect = 5e-93
Identities = 144/409 (35%), Positives = 226/409 (55%), Gaps = 54/409 (13%)
Query: 352 KVEPMDIECSLEKPVAALVELLFDEKAMTATLKEYELDMDRMPLGKLSAKHLAQGYSILN 411
K + +L + L+++LFD + A + E+E++M MPLGKLS ++ +G+ L
Sbjct: 624 KKAASGSKSNLAPRLVELMKMLFDVETYRAAMMEFEINMSEMPLGKLSKANIQKGFEALT 683
Query: 412 EVISVLDRNAEA-DVKDRLILTLTNSFYTHIPHSFGLADPPLLDNKQLVVQKMEMIDAMT 470
E+ ++L N + +++ L++ +N F+T IP P ++ ++ + K++M++A+
Sbjct: 684 EIQNLLKENDQDPSIRESLLVDASNRFFTLIPS----IHPHIIRDEDDLKSKVKMLEALQ 739
Query: 471 QIELAYTIKQEGPSAGVHPLVNCYEKLQANIKSVDTSHPHYEIIHKYVQNTHAKTHREYS 530
IE+A + L + Y+KL +I + Y++I KY+ THA TH ++S
Sbjct: 740 DIEIASRLVGFD-VDEDDSLDDKYKKLHCDISPLPHDSEDYKLIEKYLLTTHAPTHTDWS 798
Query: 531 LNIEAIFEVSRHGEDKRFKPF-EKLGNKHLLWHGSRLTNFASIISKGLCIAPPEAPVTGY 589
L +E +F + R GE ++ P+ EKL N+ LLWHGSRLTNF I+S+GL IAPPEAP TGY
Sbjct: 799 LELEEVFSLEREGEFDKYAPYKEKLKNRMLLWHGSRLTNFVGILSQGLRIAPPEAPATGY 858
Query: 590 MFGKGIYFADSVSKSANYCMTNSTNNVGLLLLCEVALGKVVLRYMFGKGIYFADSVSKSA 649
MFGKG+YFAD VSKSA YC T+ N VGL+LL EVALG++
Sbjct: 859 MFGKGVYFADLVSKSAQYCYTDRKNPVGLMLLSEVALGEI-------------------- 898
Query: 650 NYCMTNSTNNVGLLLLCEVALGKVVKKTQAEFVTKLPNGFHSVQGQGRNCPDPKGSIVLD 709
+ +A+++ K P G HS +G G+ P +
Sbjct: 899 --------YEL----------------KKAKYMDKPPRGKHSTKGLGKTVPQESEFVKWR 934
Query: 710 NNITVPLGTLIDLPRDQAKNLSLLYNEFIVYDPAQVKIRYILKVRFNYK 758
+++ VP G + + K L+YNE+IVY+ AQVK++++LKVRF +K
Sbjct: 935 DDVVVPCGKPVP---SKVKASELMYNEYIVYNTAQVKLQFLLKVRFKHK 980
Score = 87.2 bits (216), Expect = 2e-17
Identities = 72/296 (24%), Positives = 132/296 (44%), Gaps = 38/296 (12%)
Query: 52 LKSQEKSVFK--------SKSGTVKLQIKDGLAVDPDSGLADTTELVKYFDDRYLNAVMG 103
K ++K F + S V +++K AV SGL DT +++ Y N +
Sbjct: 467 FKKKKKLPFDKYKLEASGTSSSMVTVKVKGRSAVHEASGLQDTGHILEDGKSIY-NTTLN 525
Query: 104 KTDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTS-IGGTKVQDFKDVESAFDEFDR 162
+D++ G NS+Y LQ+++ + Y+FR WGR+G IGG K+++ + A EF R
Sbjct: 526 MSDLSTGVNSYYILQIIEEDKGSD-CYVFRKWGRVGNEKIGGNKLEEMSKSD-AIHEFKR 583
Query: 163 CFEKETGNT----SGKDAKQKLTASILRLGGDTVSDVRSHVAAAIATKAAVENMEEGGKG 218
F ++TGN K QK L D+ V KAA
Sbjct: 584 LFLEKTGNPWESWEQKTNFQKQPGKFYPL------DIDYGVNEQPKKKAASG-------- 629
Query: 219 ARAMEELKEYGIHVVPSKFIKDAANGKVLELIEKMNLAPWGSDDSAKHLAQGYSILNEVI 278
+ L + ++ F + ++E M+ P G S ++ +G+ L E+
Sbjct: 630 --SKSNLAPRLVELMKMLFDVETYRAAMMEFEINMSEMPLGK-LSKANIQKGFEALTEIQ 686
Query: 279 SVLDRNAEA-DVKDRLILTLTNSFYTHIPHSFGLADPPLLDNKQLVVQKMEMIDAM 333
++L N + +++ L++ +N F+T IP P ++ ++ + K++M++A+
Sbjct: 687 NLLKENDQDPSIRESLLVDASNRFFTLIPS----IHPHIIRDEDDLKSKVKMLEAL 738
Score = 44.8 bits (106), Expect = 2e-04
Identities = 19/39 (48%), Positives = 26/39 (66%)
Query: 1 MSKHAKPFECDYAKSNRAKCKGCKDTIIQGTLRLAVMVQ 39
M+ KP++ +YAKS+R+ CK CK I + LRL MVQ
Sbjct: 1 MAAPPKPWKAEYAKSSRSSCKTCKSPIDKDELRLGKMVQ 39
Score = 34.4 bits (79), Expect = 0.28
Identities = 12/40 (30%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 2 SKHAKPFEC--DYAKSNRAKCKGCKDTIIQGTLRLAVMVQ 39
A FE + AK++RA C+ C + I++G +R++ +
Sbjct: 99 DAAASSFEYGIEVAKTSRATCRRCSEKILKGEVRISSKPE 138
>gnl|CDD|216040 pfam00644, PARP, Poly(ADP-ribose) polymerase catalytic domain.
Poly(ADP-ribose) polymerase catalyzes the covalent
attachment of ADP-ribose units from NAD+ to itself and
to a limited number of other DNA binding proteins, which
decreases their affinity for DNA. Poly(ADP-ribose)
polymerase is a regulatory component induced by DNA
damage. The carboxyl-terminal region is the most highly
conserved region of the protein. Experiments have shown
that a carboxyl 40 kDa fragment is still catalytically
active.
Length = 206
Score = 226 bits (579), Expect = 1e-69
Identities = 109/259 (42%), Positives = 143/259 (55%), Gaps = 53/259 (20%)
Query: 497 LQANIKSVDTSHPHYEIIHKYVQNTHAKTHREYSLNIEAIFEVSRHGEDKRFKPFEKLGN 556
L+ +++ +D Y+II KY+ +TH TH L I IF V R GE RF+P +KL N
Sbjct: 1 LKCSLEPLDKDSEEYKIIEKYLLSTHDPTHG-GPLFILEIFRVQREGEWDRFQPHKKLRN 59
Query: 557 KHLLWHGSRLTNFASIISKGLCIAPPEAPVTGYMFGKGIYFADSVSKSANYCMTNSTNNV 616
+ LLWHGSRLTNFA I+S+GL IAPPEAPVTGYMFGK
Sbjct: 60 RRLLWHGSRLTNFAGILSQGLRIAPPEAPVTGYMFGK----------------------- 96
Query: 617 GLLLLCEVALGKVVLRYMFGKGIYFADSVSKSANYCMTNSTNNVGLLLLCEVALGKVVKK 676
GIYFAD SKSANYC T+ + GL+LL EVALG + +
Sbjct: 97 ---------------------GIYFADDASKSANYCPTDEAHGSGLMLLSEVALGDMNEL 135
Query: 677 TQAEFVTKLPNGFHSVQGQGRNCPDPKGSIVLDNNITVPLGTLIDLPRDQAKNLSLLYNE 736
T+A++ KLP G HSV+G G+ P V + VPLG + + LLYNE
Sbjct: 136 TKADYAEKLPPGKHSVKGLGKTAP---EDFVWLDG--VPLGKPVA---TGYDSSVLLYNE 187
Query: 737 FIVYDPAQVKIRYILKVRF 755
++VY+ QV+ +Y+L+V+F
Sbjct: 188 YVVYNVNQVRPKYLLEVKF 206
>gnl|CDD|190460 pfam02877, PARP_reg, Poly(ADP-ribose) polymerase, regulatory
domain. Poly(ADP-ribose) polymerase catalyzes the
covalent attachment of ADP-ribose units from NAD+ to
itself and to a limited number of other DNA binding
proteins, which decreases their affinity for DNA.
Poly(ADP-ribose) polymerase is a regulatory component
induced by DNA damage. The carboxyl-terminal region is
the most highly conserved region of the protein.
Experiments have shown that a carboxyl 40 kDa fragment
is still catalytically active.
Length = 130
Score = 141 bits (357), Expect = 2e-39
Identities = 49/134 (36%), Positives = 80/134 (59%), Gaps = 4/134 (2%)
Query: 362 LEKPVAALVELLFDEKAMTATLKEYELDMDRMPLGKLSAKHLAQGYSILNEVISVLDRNA 421
L PV L++L+FD K M T+KE D +MPLGKLS + + +GY +L E+ +L +
Sbjct: 1 LPPPVQDLMKLIFDVKMMKKTMKEMGYDAKKMPLGKLSKRQIQKGYEVLKEIQELLKKGK 60
Query: 422 EADVKDRLILTLTNSFYTHIPHSFGLADPPLLDNKQLVVQKMEMIDAMTQIELAYTIKQE 481
+ L+N FYT IPH FG+ PP++D ++L+ +K+EM++A+ IE+A + ++
Sbjct: 61 SG----SALEDLSNRFYTLIPHDFGMKKPPVIDTEELLKEKLEMLEALQDIEIANKLLKD 116
Query: 482 GPSAGVHPLVNCYE 495
++PL Y
Sbjct: 117 SSDEDINPLDRQYR 130
Score = 71.8 bits (177), Expect = 5e-15
Identities = 27/96 (28%), Positives = 53/96 (55%), Gaps = 6/96 (6%)
Query: 263 SAKHLAQGYSILNEVISVLDRNAEADVKDRLILTLTNSFYTHIPHSFGLADPPLLDNKQL 322
S + + +GY +L E+ +L + + L+N FYT IPH FG+ PP++D ++L
Sbjct: 38 SKRQIQKGYEVLKEIQELLKKGKSG----SALEDLSNRFYTLIPHDFGMKKPPVIDTEEL 93
Query: 323 VVQKMEMIDAMTQKLLDVKYEDTSKSKKVKVEPMDI 358
+ +K+EM++A+ +++ + S + P+D
Sbjct: 94 LKEKLEMLEALQD--IEIANKLLKDSSDEDINPLDR 127
>gnl|CDD|178669 PLN03122, PLN03122, Poly [ADP-ribose] polymerase; Provisional.
Length = 815
Score = 152 bits (385), Expect = 4e-38
Identities = 108/406 (26%), Positives = 168/406 (41%), Gaps = 58/406 (14%)
Query: 360 CSLEKPVAALVELLFDEKAMTATLKEYELDMDRMPLGKLSAKHLAQGYSILNEVISVLDR 419
C L+ VA +++L ++ + E LD +P+G LS HL + +L E +
Sbjct: 453 CKLDPKVANFMKVLCSQEIYRYAMMEMGLDSPDLPMGMLSDFHLKRCEEVLLEFAEFVKS 512
Query: 420 NAEADVK-DRLILTLTNSFYT--HIPHSFGLAD-PPLLDNKQLVVQKMEMIDAMTQIELA 475
E K + + L +N +++ H F + D L D+ ++ + I+ +++
Sbjct: 513 EKETGQKAEAMWLDFSNKWFSLVHSTRPFVIRDIDELADHAASALETVRDINVASRL--- 569
Query: 476 YTIKQEGPSAGVHPLVNCYEKLQANIKSVDTSHPHYEIIHKYVQNTHAKTH---REYSLN 532
I S PL + Y+KL +I VD Y++I KY++ T+ YS++
Sbjct: 570 --IGDMTGSTLDDPLSDRYKKLGCSISPVDKESDDYKMIVKYLEKTYEPVKVGDVSYSVS 627
Query: 533 IEAIFEVSRHGEDKRFKPFEKLGNKHLLWHGSRLTNFASIISKGLCIAPPEAPVTGYMFG 592
+E IF V +KL NK LLW G+R +N ++KG A PV GYMFG
Sbjct: 628 VENIFAVESSAGPS-LDEIKKLPNKVLLWCGTRSSNLLRHLAKGFLPAVCSLPVPGYMFG 686
Query: 593 KGIYFADSVSKSANYCMTNSTNNVGLLLLCEVALGKVVLRYMFGKGIYFADSVSKSANYC 652
K I +D+ +++A Y T G L+L +LG VL
Sbjct: 687 KAIVCSDAAAEAARYGFTAVDRPEGFLVLAVASLGDEVLEL------------------- 727
Query: 653 MTNSTNNVGLLLLCEVALGKVVKKTQAEFVTKLPNGFHSVQGQGRNCPDPKGSIVLDNNI 712
E V V+G GR D ++I
Sbjct: 728 -----------------------TKPPEDVKSYEEKKVGVKGLGRKKTDESEHFKWRDDI 764
Query: 713 TVPLGTLIDLPRDQAKNLSLLYNEFIVYDPAQVKIRYILKVRFNYK 758
TVP G LI + L YNE+ VYDP QV IR+++ V++ K
Sbjct: 765 TVPCGRLIPSEHKDS---PLEYNEYAVYDPKQVSIRFLVGVKYEEK 807
Score = 39.4 bits (92), Expect = 0.009
Identities = 30/127 (23%), Positives = 58/127 (45%), Gaps = 3/127 (2%)
Query: 45 GEAKDVKLKSQEKSVFKSKSGTVKLQIKDGLAVDPDSGLADTTELVKYFDDRYLNAVMGK 104
E + + Q+ S +S + +L++ V DS L + + D N
Sbjct: 283 VEGRGIPWDKQDPSEEAIESLSAELKLYGKRGVYKDSKLQEEGGKIFEKDGILYNCAFSI 342
Query: 105 TDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTSIGGT-KVQDFKDVESAFDEFDRC 163
D+ G N + +Q++ + +L+ GR+G ++++++DV++A EF R
Sbjct: 343 CDLGRGLNEYCIMQLIT--VPDSNLHLYYKKGRVGDDPNAEERLEEWEDVDAAIKEFVRL 400
Query: 164 FEKETGN 170
FE+ TGN
Sbjct: 401 FEEITGN 407
>gnl|CDD|153428 cd08001, WGR_PARP1_like, WGR domain of poly(ADP-ribose) polymerase
1 and similar proteins. The WGR domain is found in a
variety of eukaryotic poly(ADP-ribose) polymerases
(PARPs). It has been called WGR after the most conserved
central motif of the domain. The domain typically occurs
together with a catalytic PARP domain, and is between 70
and 80 residues in length. It has been proposed to
function as a nucleic acid binding domain. PARPs
catalyze the NAD(+)-dependent synthesis of ADP-ribose
polymers and their addition to various nuclear proteins.
Higher eukaryotes contain several PARPs and and there
may be up to 17 human PARP-like proteins, with three of
them (PARP-1, PARP-2, and PARP-3) containing a WGR
domain. The synthesis of poly-ADP-ribose requires
multiple enzymatic activities for initiation,
trans-ADP-ribosylation, elongation, branching, and
release of the polymer from the enzyme. This subfamily
is composed of vertebrate PARP-1 and similar proteins,
including Arabidopsis thaliana PARP-1 and PARP-3. PARP-1
is the best-studied among the PARPs. It is a widely
expressed nuclear chromatin-associated enzyme that
possesses auto-mono-ADP-ribosylation (initiation),
elongation, and branching activities. PARP-1 is
implicated in DNA damage and cell death pathways and is
important in maintaining genomic stability and
regulating cell proliferation, differentiation, neuronal
function, inflammation, and aging.
Length = 104
Score = 96.9 bits (242), Expect = 4e-24
Identities = 32/77 (41%), Positives = 52/77 (67%), Gaps = 1/77 (1%)
Query: 99 NAVMGKTDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTSIGGTKVQDFKDVESAFD 158
+AV+G D+ G NS+YKLQ+L+ +Y++FR+WGR+GT+IGG K+++F +E A
Sbjct: 12 SAVLGLVDIQTGTNSYYKLQLLEHD-KGNRYWVFRSWGRVGTTIGGNKLEEFSSLEEAKM 70
Query: 159 EFDRCFEKETGNTSGKD 175
F+ +E++TGN
Sbjct: 71 AFEELYEEKTGNDFENR 87
>gnl|CDD|214814 smart00773, WGR, Proposed nucleic acid binding domain. This domain
is named after its most conserved central motif. It is
found in a variety of polyA polymerases as well as in
molybdate metabolism regulators (e.g. in E.coli) and
other proteins of unknown function. The domain is found
in isolation in some proteins and is between 70 and 80
residues in length. It is proposed that it may be a
nucleic acid binding domain.
Length = 84
Score = 71.9 bits (177), Expect = 1e-15
Identities = 27/72 (37%), Positives = 44/72 (61%), Gaps = 3/72 (4%)
Query: 99 NAVMGKTDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTSIGGTKVQDFKDVESAFD 158
+ + TD+A+ N FY +Q+L+ Y ++R WGRIGT G TK++ F +E A
Sbjct: 7 DVYLNFTDLASNNNKFYIIQLLEDD--FGGYSVYRRWGRIGTK-GQTKLKTFDSLEDAIK 63
Query: 159 EFDRCFEKETGN 170
EF++ F+++T N
Sbjct: 64 EFEKLFKEKTKN 75
>gnl|CDD|218579 pfam05406, WGR, WGR domain. This domain is found in a variety of
polyA polymerases as well as the E. coli molybdate
metabolism regulator and other proteins of unknown
function. I have called this domain WGR after the most
conserved central motif of the domain. The domain is
found in isolation in proteins such as Rhizobium
radiobacter ych and is between 70 and 80 residues in
length. I propose that this may be a nucleic acid
binding domain.
Length = 83
Score = 70.8 bits (174), Expect = 4e-15
Identities = 27/77 (35%), Positives = 42/77 (54%), Gaps = 3/77 (3%)
Query: 94 DDRYLNAVMGKTDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTSIGGTKVQDFKDV 153
+A + TD+ N FY++QVL++ Y L R WGRIGT G +K++ F +
Sbjct: 1 GGEIYDATLNLTDIDRNSNKFYEIQVLETL--FGNYSLTRRWGRIGTR-GQSKLKSFDSL 57
Query: 154 ESAFDEFDRCFEKETGN 170
E A EF++ F ++T
Sbjct: 58 EEAIKEFEKLFAEKTKK 74
>gnl|CDD|153426 cd07997, WGR_PARP, WGR domain of poly(ADP-ribose) polymerases. The
WGR domain is found in a variety of eukaryotic
poly(ADP-ribose) polymerases (PARPs). It has been called
WGR after the most conserved central motif of the
domain. The domain typically occurs together with a
catalytic PARP domain, and is between 70 and 80 residues
in length. It has been proposed to function as a nucleic
acid binding domain. PARPs catalyze the NAD(+)-dependent
synthesis of ADP-ribose polymers and their addition to
various nuclear proteins and histones. Higher eukaryotes
contain several PARPs and there may be up to 17 human
PARP-like proteins, with three of them (PARP-1, PARP-2,
and PARP-3) containing a WGR domain. The synthesis of
poly-ADP-ribose requires multiple enzymatic activities
for initiation, trans-ADP-ribosylation, elongation,
branching, and release of the polymer from the enzyme.
Poly-ADP-ribosylation was thought to be a reversible
post-translational covalent modification that serves as
a regulatory mechanism for protein substrates. However,
it is now known that it plays important roles in many
cellular processes including maintenance of genomic
stability, transcriptional regulation, energy
metabolism, cell death and survival, among others.
Length = 102
Score = 67.7 bits (166), Expect = 7e-14
Identities = 29/72 (40%), Positives = 46/72 (63%), Gaps = 2/72 (2%)
Query: 99 NAVMGKTDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTSIGGTKVQDFKDVESAFD 158
+A + +TD++ N FYK+Q+L+SK Y LF WGR+G G +++ F +ESA
Sbjct: 11 DATLNQTDISNNNNKFYKIQILESK-GPNTYALFTRWGRVGER-GQSQLTPFGSLESAIK 68
Query: 159 EFDRCFEKETGN 170
EF++ F+ +TGN
Sbjct: 69 EFEKKFKDKTGN 80
>gnl|CDD|238651 cd01341, ADP_ribosyl, ADP_ribosylating enzymes catalyze the
transfer of ADP_ribose from NAD+ to substrates.
Bacterial toxins are cytoplasmic and catalyze the
transfer of a single ADP_ribose unit to eukaryotic
elongation factor 2, halting protein synthesis and
killing the cell. Poly(ADP-ribose) polymerases (PARPS
1-3, VPARP, tankyrase) catalyze the addition of up to
100 ADP_ribose units from NAD+. PARPs 1 and 2 are
localized in the nucleaus, bind DNA, and are activated
by DNA damage. VPARP is part of the vault
ribonucleoprotein complex. Tankyrases regulates telomere
length in part through poy(ADP_ribosylation) of telomere
repeat binding factor 1 (TRF1). Poly(ADP-ribose)
polymerase catalyses the covalent attachment of
ADP-ribose units from NAD+ to itself and to a limited
number of other DNA binding proteins, which decreases
their affinity for DNA. Poly(ADP-ribose) polymerase is a
regulatory component induced by DNA damage. The
carboxyl-terminal region is the most highly conserved
region of the protein. Experiments have shown that a
carboxyl 40 kDa fragment is still catalytically active.
Length = 137
Score = 67.2 bits (164), Expect = 3e-13
Identities = 48/194 (24%), Positives = 69/194 (35%), Gaps = 62/194 (31%)
Query: 560 LWHGSRLTNFASIISKGLCIAPPEAPVTGYMFGKGIYFADSVSKSANYCMTNSTNNV--- 616
L+HGS N SI+ GL A + G MFGKGIY A ++SKS Y + +V
Sbjct: 2 LFHGSPPGNVISILKLGLRPASYGVLLNGGMFGKGIYSAPNISKSNGYSVGCDGQHVFQN 61
Query: 617 GLLLLCEVALGKVVLRYMFGKGIYFADSVSKSANYCMTNSTNNVGLLLLCEVALGKVVKK 676
G +C L V ++ LG +
Sbjct: 62 GKPKVCGREL--CVFGFLT----------------------------------LGVMSGA 85
Query: 677 TQAEFVTKLPNGFHSVQGQGRNCPDPKGSIVLDNNITVPLGTLIDLPRDQAKNLSLLYNE 736
T+ P RN G+ V +DL ++ LL E
Sbjct: 86 TEESSRVLFP----------RNFRGATGAEV------------VDLLVAMCRDALLLPRE 123
Query: 737 FIVYDP-AQVKIRY 749
+I+++P +QV IRY
Sbjct: 124 YIIFEPYSQVSIRY 137
>gnl|CDD|189650 pfam00645, zf-PARP, Poly(ADP-ribose) polymerase and DNA-Ligase
Zn-finger region. Poly(ADP-ribose) polymerase is an
important regulatory component of the cellular response
to DNA damage. The amino-terminal region of
Poly(ADP-ribose) polymerase consists of two PARP-type
zinc fingers. This region acts as a DNA nick sensor.
Length = 81
Score = 55.0 bits (133), Expect = 1e-09
Identities = 15/30 (50%), Positives = 20/30 (66%)
Query: 11 DYAKSNRAKCKGCKDTIIQGTLRLAVMVQI 40
+YAKS RA CK CK+ I +G LR+ +V
Sbjct: 1 EYAKSGRASCKKCKEKIAKGELRIGKVVPS 30
>gnl|CDD|153424 cd07994, WGR, WGR domain. The WGR domain is found in a variety of
eukaryotic poly(ADP-ribose) polymerases (PARPs) as well
as the putative Escherichia coli molybdate metabolism
regulator and related bacterial proteins, a small family
of bacterial DNA ligases, and various other bacterial
proteins of unknown function. It has been called WGR
after the most conserved central motif of the domain.
The domain occurs in single-domain proteins and in a
variety of domain architectures, and is between 70 and
80 residues in length. It has been proposed to function
as a nucleic acid binding domain.
Length = 73
Score = 51.5 bits (123), Expect = 2e-08
Identities = 24/61 (39%), Positives = 41/61 (67%), Gaps = 1/61 (1%)
Query: 110 GKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTSIGGTKVQDFKDVESAFDEFDRCFEKETG 169
G N +YKLQ+L+ + +Y++FR++GR+GT IG TK++ E A + F + +E++TG
Sbjct: 10 GSNKYYKLQLLEDD-KENRYWVFRSYGRVGTVIGSTKLEQMPSKEEAEEHFMKLYEEKTG 68
Query: 170 N 170
Sbjct: 69 K 69
>gnl|CDD|153430 cd08003, WGR_PARP2_like, WGR domain of poly(ADP-ribose)
polymerases. The WGR domain is found in a variety of
eukaryotic poly(ADP-ribose) polymerases (PARPs). It has
been called WGR after the most conserved central motif
of the domain. The domain typically occurs together with
a catalytic PARP domain, and is between 70 and 80
residues in length. It has been proposed to function as
a nucleic acid binding domain. PARPs catalyze the
NAD(+)-dependent synthesis of ADP-ribose polymers and
their addition to various nuclear proteins. Higher
eukaryotes contain several PARPs and and there may be up
to 17 human PARP-like proteins, with three of them
(PARP-1, PARP-2, and PARP-3) containing a WGR domain.
The synthesis of poly-ADP-ribose requires multiple
enzymatic activities for initiation,
trans-ADP-ribosylation, elongation, branching, and
release of the polymer from the enzyme. This subfamily
is composed of human PARP-2 and similar proteins.
Similar to PARP-1, PARP-2 is ubiquitously expressed and
its activity is induced by DNA strand breaks. It also
plays a role in cell differentiation, cell death, and
maintaining genomic stability. Studies on mice deficient
with PARP-2 shows that it is important in fat storage, T
cell maturation, and spermatogenesis.
Length = 103
Score = 48.9 bits (117), Expect = 3e-07
Identities = 23/80 (28%), Positives = 42/80 (52%), Gaps = 4/80 (5%)
Query: 93 FDDRYLNAVMGKTDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTSIGGTKVQDF-K 151
DD Y +A++ +T++ N +Y +Q+L+ K Y ++ WGR+G G + +
Sbjct: 6 GDDVY-DAMLNQTNIQQNNNKYYIIQLLEDDAEK-IYSVWFRWGRVG-KKGQSSLVPCGS 62
Query: 152 DVESAFDEFDRCFEKETGNT 171
D+E A F++ F +T N
Sbjct: 63 DLEQAKSLFEKKFLDKTKNE 82
>gnl|CDD|153429 cd08002, WGR_PARP3_like, WGR domain of poly(ADP-ribose) polymerase
3 and similar proteins. The WGR domain is found in a
variety of eukaryotic poly(ADP-ribose) polymerases
(PARPs). It has been called WGR after the most conserved
central motif of the domain. The domain typically occurs
together with a catalytic PARP domain, and is between 70
and 80 residues in length. It has been proposed to
function as a nucleic acid binding domain. PARPs
catalyze the NAD(+)-dependent synthesis of ADP-ribose
polymers and their addition to various nuclear proteins.
Higher eukaryotes contain several PARPs and and there
may be up to 17 human PARP-like proteins, with three of
them (PARP-1, PARP-2, and PARP-3) containing a WGR
domain. The synthesis of poly-ADP-ribose requires
multiple enzymatic activities for initiation,
trans-ADP-ribosylation, elongation, branching, and
release of the polymer from the enzyme. This subfamily
is composed of human PARP-3 and similar proteins,
including Arabidopsis thaliana PARP-2. PARP-3 displays a
tissue-specific expression, with highest amounts found
in the nuclei of epithelial cells of prostate ducts,
salivary glands, liver, pancreas, and in the neurons of
terminal ganglia. Unlike PARP-1 and PARP-2, PARP-3
activity is not induced by DNA strand breaks. However,
it co-localizes with Polycomb group bodies and is part
of complexes making up DNA-PKcs, DNA ligases III and IV,
Ku70, and Ku80. PARP-3 is a nuclear protein that may be
involved in transcriptional control and responses to DNA
damage.
Length = 100
Score = 46.2 bits (110), Expect = 2e-06
Identities = 23/78 (29%), Positives = 46/78 (58%), Gaps = 6/78 (7%)
Query: 94 DDRYLNAVMGKTDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTSIGGTKVQDF-KD 152
D+ Y + ++ +T++ N FY +Q+L+S ++YY++ WGR+G G K++
Sbjct: 6 DEDY-DCMLNQTNIGHNNNKFYVIQLLESG---KEYYVWNRWGRVGEK-GQNKLKGPWDS 60
Query: 153 VESAFDEFDRCFEKETGN 170
+E A +F++ F+ +T N
Sbjct: 61 LEGAIKDFEKKFKDKTKN 78
>gnl|CDD|238718 cd01438, tankyrase_like, Tankyrases interact with the telomere
reverse transcriptase complex (TERT). Tankyrase 1
poly-ADP-ribosylates Telomere Repeat Binding Factor 1
(TRF1) while Tankyrase 2 can poly-ADP-ribosylate itself
or TRF1. The tankyrases also contain multiple ankyrin
repeats that mediate protein-protein interaction
(binding TRF1 and insulin-responsive aminopeptidase) and
may function as a complex. Overexpression of Tank1
promotes increased telomere length when overexpressed,
while overexpressed Tank2 has been shown to promote PARP
cleavage- independent cell death (necrosis).
Length = 223
Score = 48.0 bits (114), Expect = 6e-06
Identities = 32/91 (35%), Positives = 44/91 (48%), Gaps = 18/91 (19%)
Query: 556 NKHLLWHGSRLTNFASIISKGLCIAPPEAPVTGYMFGKGIYFADSVSKSANY-------- 607
N+ +L+HGS N +II KG G MFG GIYFA++ SKS Y
Sbjct: 88 NERMLFHGSPFIN--AIIHKGF---DERHAYIGGMFGAGIYFAENSSKSNQYVYGIGGGT 142
Query: 608 -CMTNSTNNVGL----LLLCEVALGKVVLRY 633
C T+ + + +L C V LGK L++
Sbjct: 143 GCPTHKDRSCYVCHRQMLFCRVTLGKSFLQF 173
Score = 45.3 bits (107), Expect = 4e-05
Identities = 27/75 (36%), Positives = 36/75 (48%), Gaps = 13/75 (17%)
Query: 634 MFGKGIYFADSVSKSANY---------CMTNSTNNVGL----LLLCEVALGKVVKKTQAE 680
MFG GIYFA++ SKS Y C T+ + + +L C V LGK + A
Sbjct: 117 MFGAGIYFAENSSKSNQYVYGIGGGTGCPTHKDRSCYVCHRQMLFCRVTLGKSFLQFSAM 176
Query: 681 FVTKLPNGFHSVQGQ 695
+ P G HSV G+
Sbjct: 177 KMAHAPPGHHSVIGR 191
>gnl|CDD|153425 cd07996, WGR_MMR_like, WGR domain of molybdate metabolism regulator
and related proteins. The WGR domain is found in the
putative Escherichia coli molybdate metabolism regulator
and related bacterial proteins, as well as in various
other bacterial proteins of unknown function. It has
been called WGR after the most conserved central motif
of the domain. The domain appears to occur in
single-domain proteins and in a variety of domain
architectures, together with ATP-dependent DNA ligase
domains, WD40 repeats, leucine-rich repeats, and other
domains. It has been proposed to function as a nucleic
acid binding domain.
Length = 74
Score = 36.8 bits (86), Expect = 0.003
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 131 LFRAWGRIGTSIGGTKVQDFKDVESAFDEFDR 162
L R WGRIGT G ++ + F E A ++
Sbjct: 31 LVRRWGRIGTK-GQSRTKTFDSEEEALKAAEK 61
>gnl|CDD|238719 cd01439, TCCD_inducible_PARP_like, Poly(ADP-ribose) polymerases
catalyse the covalent attachment of ADP-ribose units
from NAD+ to itself and to a limited number of other DNA
binding proteins, which decreases their affinity for
DNA. Poly(ADP-ribose) polymerase is a regulatory
component induced by DNA damage. The carboxyl-terminal
region is the most highly conserved region of the
protein. 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD)
causes pleotropic effects in mammalian species through
modulating gene expression. TCCD indicible PARP
(TiPARP) is a target of TCDD that may contribute to
multiple responses to TCDD by modulating protein
function through poly ADP-ribosylation.
Length = 121
Score = 35.4 bits (82), Expect = 0.021
Identities = 14/31 (45%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 588 GYMFGKGIYFADSVSKSANYCMTNSTNNVGL 618
G M+GKG YFA + S S Y S GL
Sbjct: 28 GTMYGKGSYFAKNASYSHQYS-KKSPKADGL 57
>gnl|CDD|226352 COG3831, COG3831, Uncharacterized conserved protein [Function
unknown].
Length = 85
Score = 34.3 bits (79), Expect = 0.028
Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 8/58 (13%)
Query: 105 TDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGRIGTSIGGTKVQDFKDVESAFDEFDR 162
D FY +++ +++ R WGRIGT G ++++ F D A +
Sbjct: 8 IDEKRNMAKFYAVEIEGAELT-------RNWGRIGT-KGQSQIKSFDDSADAEKAALK 57
>gnl|CDD|220168 pfam09298, DUF1969, Domain of unknown function (DUF1969). The
N-terminal domain of fumarylacetoacetate hydrolase is
functionally uncharacterized, and adopts a structure
consisting of an SH3-like barrel.
Length = 101
Score = 29.8 bits (68), Expect = 1.2
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 9/82 (10%)
Query: 137 RIGTSIGGTKVQDFKDVESA--FDEF---DRCFEKETGNT---SGKDAKQKLTASILRLG 188
RIG +IG +V D +E+A FD F + T N G+ A + A + L
Sbjct: 17 RIGVAIG-DQVLDLAALEAAGLFDGALGAAGVFAQPTLNAFMALGRPAWSAVRARLQELL 75
Query: 189 GDTVSDVRSHVAAAIATKAAVE 210
+SD ++ A+ +A VE
Sbjct: 76 SRELSDNQALREPALVPQADVE 97
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 31.4 bits (72), Expect = 1.3
Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 13/80 (16%)
Query: 204 ATKAAVENMEEGGKGARAMEELKEYGIHV-------VPSKFIKDAANGKVLELIEKMNLA 256
ATKA V + E EELK G+ V ++F + L ++ L+
Sbjct: 158 ATKAFVLSFSEA-----LREELKGTGVKVTAVCPGPTRTEFFDAKGSDVYLLSPGELVLS 212
Query: 257 PWGSDDSA-KHLAQGYSILN 275
P ++A K L +G +
Sbjct: 213 PEDVAEAALKALEKGKREII 232
>gnl|CDD|220483 pfam09940, DUF2172, Domain of unknown function (DUF2172). This
domain, found in various hypothetical prokaryotic
proteins, has no known function. An aminopeptidase
domain is conserved within the family, but its relevance
has not been established yet.
Length = 384
Score = 31.5 bits (72), Expect = 1.5
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 381 ATLKEYELDMDRMPLGKLSAKHLAQGYSILNEVISVLDRNA 421
T EY D + +S + L +++L EVI VL+ N
Sbjct: 270 GTYPEYHTSADNLDF--ISPEGLEGSFAVLLEVIEVLENNR 308
Score = 29.9 bits (68), Expect = 5.1
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 263 SAKHLAQGYSILNEVISVLDRNA 285
S + L +++L EVI VL+ N
Sbjct: 286 SPEGLEGSFAVLLEVIEVLENNR 308
>gnl|CDD|129260 TIGR00156, TIGR00156, TIGR00156 family protein. As of the last
revision, this family consists only of two proteins from
Escherichia coli and one from the related species
Haemophilus influenzae [Hypothetical proteins,
Conserved].
Length = 126
Score = 29.5 bits (66), Expect = 2.7
Identities = 12/57 (21%), Positives = 22/57 (38%), Gaps = 8/57 (14%)
Query: 50 VKLKSQEKSVFKSKSGTVKLQIK----DGLAVDPDSGLADTTELVKYFDDRYLNAVM 102
+ ++ VF+ KSG + + I +G V P D + D + A +
Sbjct: 67 ISHIGDDRYVFRDKSGEINVVIPAAVWNGREVQPK----DMVNISGSLDKKSAPAEV 119
>gnl|CDD|193522 cd05644, M28_like_3, M28 Zn-Peptidases. Peptidase family M28 (also
called aminopeptidase Y family), uncharacterized
subfamily. The M28 family contains aminopeptidases as
well as carboxypeptidases. They typically have
co-catalytic zinc ions; each zinc ion is tetrahedrally
co-ordinated, with three amino acid ligands plus
activated water; one aspartate residue binds both metal
ions. Proteins in this subfamily conserve some of the
metal-coordinating residues of the typically
co-catalytic M28 family, and appear to bind a single
metal (Zn) ion.
Length = 415
Score = 30.6 bits (70), Expect = 3.4
Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 381 ATLKEYELDMDRMPLGKLSAKHLAQGYSILNEVISVLDRNA 421
EY D + ++ + LA + ++ EVI VL+ N
Sbjct: 303 GEYPEYHTSADDLDF--VTPEGLAGSFEVVREVIEVLENNR 341
Score = 29.5 bits (67), Expect = 7.1
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 263 SAKHLAQGYSILNEVISVLDRNA 285
+ + LA + ++ EVI VL+ N
Sbjct: 319 TPEGLAGSFEVVREVIEVLENNR 341
>gnl|CDD|235319 PRK04914, PRK04914, ATP-dependent helicase HepA; Validated.
Length = 956
Score = 30.6 bits (70), Expect = 4.0
Identities = 24/101 (23%), Positives = 35/101 (34%), Gaps = 23/101 (22%)
Query: 364 KPVAALVELLFDEKAMTA----TLKEYELDMDRMPLGKLSAKHLAQGYSILNEVIS---- 415
+PVA V+ L + ++ L E + D PL + + + + E+IS
Sbjct: 349 RPVADAVQALLAGEKLSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLD 408
Query: 416 ------VLDRNAEADVKDRLILTLTNSFYTHIPHSFGLADP 450
VL RN A VK F H L P
Sbjct: 409 RHGTGRVLFRNTRAAVK---------GFPKRELHPIPLPLP 440
>gnl|CDD|109916 pfam00878, CIMR, Cation-independent mannose-6-phosphate receptor
repeat. The cation-independent mannose-6-phosphate
receptor contains 15 copies of a repeat.
Length = 145
Score = 28.9 bits (65), Expect = 5.5
Identities = 10/42 (23%), Positives = 18/42 (42%)
Query: 693 QGQGRNCPDPKGSIVLDNNITVPLGTLIDLPRDQAKNLSLLY 734
G CP ++D N + LG + P+ + ++ L Y
Sbjct: 97 LGGAPGCPPAAAVCLVDKNKSKNLGVVQSSPQWENGSIQLSY 138
>gnl|CDD|130884 TIGR01825, gly_Cac_T_rel, pyridoxal phosphate-dependent
acyltransferase, putative. This model represents an
enzyme subfamily related to three known enzymes; it
appears closest to glycine C-acteyltransferase, shows no
overlap with it in species distribution, and may share
that function. The three closely related enzymes are
glycine C-acetyltransferase (2-amino-3-ketobutyrate
coenzyme A ligase), 5-aminolevulinic acid synthase, and
8-amino-7-oxononanoate synthase. All transfer the
R-group (acetyl, succinyl, or 6-carboxyhexanoyl) from
coenzyme A to an amino acid (Gly, Gly, Ala,
respectively), with release of CO2 for the latter two
reactions.
Length = 385
Score = 29.4 bits (66), Expect = 6.7
Identities = 33/130 (25%), Positives = 54/130 (41%), Gaps = 19/130 (14%)
Query: 26 TIIQGTLRLAVMVQINARIGEAKDVKLKSQEKSVFKSKSGTVKLQIKDGL-AVDPDSG-- 82
+II G LRL A K + ++ + ++ S KL + DG+ ++D D
Sbjct: 129 SIIDG-LRLT-----KATKKIYKHADMDDLDRVLRENPSYGKKLIVTDGVFSMDGDVAPL 182
Query: 83 -----LADTTELVKYFDDRYLNAVMGKTDVAAGKNSFYKLQVLKSKIHKEKYYLFRAWGR 137
LA+ V Y DD + + VMG+ G + L+ K+ + L +A G
Sbjct: 183 PEIVELAERYGAVTYVDDAHGSGVMGEA--GRGTVHHFGLE---DKVDIQVGTLSKAIGV 237
Query: 138 IGTSIGGTKV 147
+G G K
Sbjct: 238 VGGYAAGHKE 247
>gnl|CDD|148565 pfam07015, VirC1, VirC1 protein. This family consists of several
bacterial VirC1 proteins. In Agrobacterium tumefaciens,
a cis-active 24-base-pair sequence adjacent to the right
border of the T-DNA, called overdrive, stimulates tumour
formation by increasing the level of T-DNA processing.
It is thought that the virC operon which enhances T-DNA
processing probably does so because the VirC1 protein
interacts with overdrive. It has now been shown that the
virC1 gene product binds to overdrive but not to the
right border of T-DNA.
Length = 231
Score = 29.1 bits (65), Expect = 8.4
Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 18/96 (18%)
Query: 355 PMDIECSLEKPVAALVELLFDEKAM--TATLKEYELDMDRMPLGKL-SAKHLAQGYSILN 411
P+DI+ +L ++ELL E TA L++ R+P+G+L S++ +L
Sbjct: 117 PLDIDEALAT-YRYVIELLLTENLAIPTAILRQ------RVPVGRLTSSQRFC--SDML- 166
Query: 412 EVISVLD-----RNAEADVKDRLILTLTNSFYTHIP 442
E + V D R+A A +K+R +L +T + IP
Sbjct: 167 EQLPVFDCPMHERDAFAAMKERGMLHITLENLSQIP 202
>gnl|CDD|139909 PRK13849, PRK13849, putative crown gall tumor protein VirC1;
Provisional.
Length = 231
Score = 29.0 bits (65), Expect = 8.6
Identities = 29/95 (30%), Positives = 48/95 (50%), Gaps = 16/95 (16%)
Query: 355 PMDIECSLEKPVAALVELLFDEKAM--TATLKEYELDMDRMPLGKLSAKHLAQGYSILNE 412
P+DI+ +L ++ELL E TA L++ R+P+G+L+ A +L E
Sbjct: 117 PLDIDEALST-YRYVIELLLSENLAIPTAILRQ------RVPVGRLTTSQRAM-SDML-E 167
Query: 413 VISVLD-----RNAEADVKDRLILTLTNSFYTHIP 442
+ V+D R+A A +K+R +L LT + P
Sbjct: 168 SLPVVDSPMHERDAFAAMKERGMLHLTLLNLSTDP 202
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.317 0.134 0.382
Gapped
Lambda K H
0.267 0.0741 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 37,467,305
Number of extensions: 3683132
Number of successful extensions: 3277
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3236
Number of HSP's successfully gapped: 52
Length of query: 758
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 654
Effective length of database: 6,324,786
Effective search space: 4136410044
Effective search space used: 4136410044
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 63 (28.0 bits)