RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4384
(661 letters)
>gnl|CDD|240452 cd12872, SPRY_Ash2, SPRY domain in Ash2. This SPRY domain is found
at the C-terminus of Ash2 (absent, small, or homeotic
discs 2) -like proteins, core components of all
mixed-lineage leukemia (MLL) family histone
methyltransferases. Ash2 is a member of the trithorax
group of transcriptional regulators of the Hox genes.
Recent studies show that the SPRY domain of Ash2
mediates the interaction with RbBP5 and has an important
role in regulating the methyltransferase activity of MLL
complexes. In yeast, Ash2 is involved in histone
methylation and is required for the earliest stages of
embryogenesis.
Length = 149
Score = 216 bits (553), Expect = 3e-67
Identities = 81/194 (41%), Positives = 102/194 (52%), Gaps = 48/194 (24%)
Query: 275 LRISEDRLAVTGDKGYCMVRATNYVGHGTWYWEATIEEMP-EGSATRMGWGQEYANLQTP 333
L++SEDRL VTG+KGY M RA + V G WY+E I E E R+GW + A+LQ P
Sbjct: 1 LKLSEDRLTVTGEKGYRMARANHGVREGKWYFEVKILEGGGETGHVRVGWSRREASLQAP 60
Query: 334 LGYDKFGYSWRSRKGTRFHECRGKHYSE-GYSEGDTLGFLIHLPYRNQNSYVPRTFKDKP 392
+GYDK+ Y++R + G +FH RGK Y E G+ EGD +G LI LP
Sbjct: 61 VGYDKYSYAYRDKDGEKFHLSRGKPYGEPGFKEGDVIGCLITLPK--------------- 105
Query: 393 LVKFKCHLYYEEKDKVTEALKRLQTLDQSQIVFYKNGKSQGVAFQDI-YAGYYYPCVSLH 451
I F+KNGKSQGVAF+DI G YYP VSL+
Sbjct: 106 ------------------------------IEFFKNGKSQGVAFEDIYGTGGYYPAVSLY 135
Query: 452 KNCTVSVNFGPHFK 465
TV +NFGP+F
Sbjct: 136 MGATVRLNFGPNFA 149
>gnl|CDD|238399 cd00776, AsxRS_core, Asx tRNA synthetase (AspRS/AsnRS) class II
core domain. Assignment to class II aminoacyl-tRNA
synthetases (aaRS) based upon its structure and the
presence of three characteristic sequence motifs in the
core domain. This family includes AsnRS as well as a
subgroup of AspRS. AsnRS and AspRS are homodimers,
which attach either asparagine or aspartate to the 3'OH
group of ribose of the appropriate tRNA. While archaea
lack asnRS, they possess a non-discriminating aspRS,
which can mischarge Asp-tRNA with Asn. Subsequently, a
tRNA-dependent aspartate amidotransferase converts the
bound aspartate to asparagine. The catalytic core domain
is primarily responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate.
Length = 322
Score = 166 bits (423), Expect = 2e-46
Identities = 59/170 (34%), Positives = 97/170 (57%), Gaps = 12/170 (7%)
Query: 497 YLTENSGKLKLDL---SLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCN 553
YL + S +L ++ +L +VY + P FRAE S +R HL+EF+M+EAE+AF+++ +++ +
Sbjct: 73 YLAQ-SPQLYKEMLIAALERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMAFIEDYNEVMD 131
Query: 554 TIEQFIKSVLNRVLESHEEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHG 613
IE+ IK + RVLE +EL +L PF R++Y A+ +L G
Sbjct: 132 LIEELIKYIFKRVLERCAKELELVNQLNRELLKP------LEPFPRITYDEAIELLREKG 185
Query: 614 --FDVNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661
+V LS +HE L + P+F+ ++PK +KPFYMK ++P+
Sbjct: 186 VEEEVKWGEDLSTEHERLLGEIVKGDPVFVTDYPKEIKPFYMKPDDDNPE 235
>gnl|CDD|235176 PRK03932, asnC, asparaginyl-tRNA synthetase; Validated.
Length = 450
Score = 161 bits (410), Expect = 3e-43
Identities = 67/172 (38%), Positives = 105/172 (61%), Gaps = 12/172 (6%)
Query: 497 YLTENSGKLKLD---LSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCN 553
YLT SG+L + ++L KVYT PTFRAENS +R HLAEF+MIE E+AF D + D +
Sbjct: 191 YLTV-SGQLYAEAYAMALGKVYTFGPTFRAENSNTRRHLAEFWMIEPEMAFAD-LEDNMD 248
Query: 554 TIEQFIKSVLNRVLESHEEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHG 613
E+ +K V+ VLE+ ++L + ++ +I L+ ++PF R++Y+ A+ IL + G
Sbjct: 249 LAEEMLKYVVKYVLENCPDDLEFLNRRVDKGDIERLENFIESPFPRITYTEAIEILQKSG 308
Query: 614 --FDVNPDSG--LSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661
F+ + G L +HE +L + P+F+ N+PK +K FYM+ +PD
Sbjct: 309 KKFEFPVEWGDDLGSEHERYLAEEHFKKPVFVTNYPKDIKAFYMR---LNPD 357
>gnl|CDD|223096 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation,
ribosomal structure and biogenesis].
Length = 435
Score = 148 bits (375), Expect = 1e-38
Identities = 59/169 (34%), Positives = 99/169 (58%), Gaps = 11/169 (6%)
Query: 497 YLTENSGKLKLD---LSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCN 553
YLT+ S +L + +L +V+T+ PTFRAE S +R HL+EF+M++ E+AF D ++D+ +
Sbjct: 183 YLTQ-SPQLYKEALAAALERVFTIGPTFRAEKSNTRRHLSEFWMLDPEMAFAD-LNDVMD 240
Query: 554 TIEQFIKSVLNRVLESHEEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHG 613
E+ IK + +VLE +EL + + ++L+ PF R++Y A+ IL G
Sbjct: 241 LAEELIKYLFKKVLEECADELEFLGR-----DNSELKRPESAPFPRITYKEAIEILEEKG 295
Query: 614 FDVNPDSG-LSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661
F+ L +HE +L + P+F+ N+PK +KPFYM+ ++P
Sbjct: 296 FEKVEWGDDLGTEHERYLGEEYFKPPVFVTNYPKEIKPFYMRPDPDNPG 344
>gnl|CDD|232982 TIGR00457, asnS, asparaginyl-tRNA synthetase. In a multiple
sequence alignment of representative asparaginyl-tRNA
synthetases (asnS), archaeal/eukaryotic type
aspartyl-tRNA synthetases (aspS_arch), and bacterial
type aspartyl-tRNA synthetases (aspS_bact), there is a
striking similarity between asnS and aspS_arch in gap
pattern and in sequence, and a striking divergence of
aspS_bact. Consequently, a separate model was built for
each of the three groups. This model, asnS, represents
asparaginyl-tRNA synthetases from the three domains of
life. Some species lack this enzyme and charge tRNA(asn)
by misacylation with Asp, followed by transamidation of
Asp to Asn [Protein synthesis, tRNA aminoacylation].
Length = 453
Score = 137 bits (346), Expect = 1e-34
Identities = 71/172 (41%), Positives = 100/172 (58%), Gaps = 10/172 (5%)
Query: 497 YLTENSGKLKLD---LSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCN 553
YLT SG+L L+ L+LSKVYT PTFRAE S + HL+EF+MIE E+AF N++DL
Sbjct: 194 YLTV-SGQLYLETYALALSKVYTFGPTFRAEKSNTSRHLSEFWMIEPEMAFA-NLNDLLQ 251
Query: 554 TIEQFIKSVLNRVLESHEEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHG 613
E IK ++ VLE+ +EL K + I L+ I +N F R++Y+ A+ IL
Sbjct: 252 LAETLIKYIIKAVLENCSQELKFLEKNFDKDLIKRLENIINNKFARITYTDAIEILKESD 311
Query: 614 --FDVNPDSG--LSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661
F+ G L +HE FL + P+F+ N+PK +K FYMK + +D
Sbjct: 312 KNFEYEDFWGDDLQTEHERFLAEEYFKPPVFVTNYPKDIKAFYMKLN-DDGK 362
>gnl|CDD|177867 PLN02221, PLN02221, asparaginyl-tRNA synthetase.
Length = 572
Score = 107 bits (267), Expect = 3e-24
Identities = 58/163 (35%), Positives = 94/163 (57%), Gaps = 11/163 (6%)
Query: 502 SGKLKLDL---SLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQF 558
SG+L+++ +LS VYT PTFRAENS + HLAEF+M+E E+AF D + D N E +
Sbjct: 314 SGQLQVETYACALSSVYTFGPTFRAENSHTSRHLAEFWMVEPEIAFAD-LEDDMNCAEAY 372
Query: 559 IKSVLNRVLESHEEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTIL---TRHG-- 613
+K + +L+ +++ K + I L+ + PF R++Y+ A+ +L G
Sbjct: 373 VKYMCKWLLDKCFDDMELMAKNFDSGCIDRLRMVASTPFGRITYTEAIELLEEAVAKGKE 432
Query: 614 FDVNPDSG--LSKQHELFLVKYTNNVPIFIINWPKHVKPFYMK 654
FD N + G L+ +HE +L + P+ + N+PK +K FYM+
Sbjct: 433 FDNNVEWGIDLASEHERYLTEVLFQKPLIVYNYPKGIKAFYMR 475
>gnl|CDD|215291 PLN02532, PLN02532, asparagine-tRNA synthetase.
Length = 633
Score = 105 bits (264), Expect = 1e-23
Identities = 60/166 (36%), Positives = 90/166 (54%), Gaps = 10/166 (6%)
Query: 497 YLTENSGKLKLD---LSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCN 553
YLT SG+L L+ +L VYT P FRA+ S HLAE +M+E E+AF + + D N
Sbjct: 373 YLTV-SGRLHLESYACALGNVYTFGPRFRADRIDSARHLAEMWMVEVEMAFSE-LEDAMN 430
Query: 554 TIEQFIKSVLNRVLESHEEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTIL---T 610
E + K + VLE+ E++ K I+ T L+ I + R+SY+ AV +L T
Sbjct: 431 CAEDYFKFLCKWVLENCSEDMKFVSKRIDKTISTRLEAIISSSLQRISYTEAVDLLKQAT 490
Query: 611 RHGFDVNPDSG--LSKQHELFLVKYTNNVPIFIINWPKHVKPFYMK 654
F+ P+ G L+ +H +L P+ I N+PK +KPFY++
Sbjct: 491 DKKFETKPEWGIALTTEHLSYLADEIYKKPVIIYNYPKELKPFYVR 536
>gnl|CDD|240414 PTZ00425, PTZ00425, asparagine-tRNA ligase; Provisional.
Length = 586
Score = 102 bits (255), Expect = 9e-23
Identities = 57/160 (35%), Positives = 92/160 (57%), Gaps = 8/160 (5%)
Query: 502 SGKLKLD---LSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQF 558
SG+L L+ S+ VYT PTFRAENS + HLAEF+MIE E+AF D ++D E +
Sbjct: 331 SGQLSLENLCSSMGDVYTFGPTFRAENSHTSRHLAEFWMIEPEIAFAD-LYDNMELAESY 389
Query: 559 IKSVLNRVLESHEEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHG--FDV 616
IK + VL ++ +++ + + + I+ L+ I D F +++Y+ + +L + F+V
Sbjct: 390 IKYCIGYVLNNNFDDIYYFEENVETGLISRLKNILDEDFAKITYTNVIDLLQPYSDSFEV 449
Query: 617 NPDSG--LSKQHELFLVKYTNNVPIFIINWPKHVKPFYMK 654
G L +HE F+ + P+ + N+PK +K FYMK
Sbjct: 450 PVKWGMDLQSEHERFVAEQIFKKPVIVYNYPKDLKAFYMK 489
>gnl|CDD|215753 pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N).
Length = 345
Score = 98.8 bits (247), Expect = 2e-22
Identities = 43/166 (25%), Positives = 71/166 (42%), Gaps = 17/166 (10%)
Query: 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESH 570
+V+ + P FR E+ ++ H EF ++ E++F+D D+ + E IK V +VL
Sbjct: 90 FDRVFQIAPCFRDEDLRTDRHPPEFTQLDLEMSFVDY-EDVMDLTEDLIKYVFKKVLGKR 148
Query: 571 EEELLTYRKLINLANITDLQCIH----DNPFIR--MSYSAAVTILTRHGFDVNPDSG--- 621
EE L +L IT + I D P +R + I F V ++G
Sbjct: 149 EELELLGIELPEFPRITYAEAIERYGSDKPDLRFGLELKDVTEIFKGSEFKVFAEAGDVV 208
Query: 622 -------LSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDP 660
S+ E L + P+F+ ++P PFYM + + P
Sbjct: 209 DKALGALRSELGEENLGDKDKDNPVFVTDFPLFEHPFYMPKDEDPP 254
>gnl|CDD|235354 PRK05159, aspC, aspartyl-tRNA synthetase; Provisional.
Length = 437
Score = 98.3 bits (246), Expect = 8e-22
Identities = 41/154 (26%), Positives = 71/154 (46%), Gaps = 13/154 (8%)
Query: 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESH 570
+V+ + P FRAE + HL E+ I+ E+ F+D+ D+ + +E ++ + V E+
Sbjct: 202 FERVFEIGPVFRAEEHNTSRHLNEYTSIDVEMGFIDDHEDVMDLLENLLRYMYEDVAENC 261
Query: 571 EEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFL 630
E+EL I L P R++Y A+ IL G +++ L + E L
Sbjct: 262 EKELELLG--IELPVPET-------PIPRITYDEAIEILKSKGNEISWGDDLDTEGERLL 312
Query: 631 VKY----TNNVPIFIINWPKHVKPFYMKRSGEDP 660
+Y + FI ++P +PFY +DP
Sbjct: 313 GEYVKEEYGSDFYFITDYPSEKRPFYTMPDEDDP 346
>gnl|CDD|178213 PLN02603, PLN02603, asparaginyl-tRNA synthetase.
Length = 565
Score = 94.3 bits (234), Expect = 4e-20
Identities = 55/153 (35%), Positives = 88/153 (57%), Gaps = 8/153 (5%)
Query: 510 SLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDL-CNTIEQFIKSVLNRVLE 568
+LS VYT PTFRAENS + HLAEF+MIE ELAF D D+ C T +++ V+ +LE
Sbjct: 320 ALSDVYTFGPTFRAENSNTSRHLAEFWMIEPELAFADLNDDMACAT--AYLQYVVKYILE 377
Query: 569 SHEEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTIL--TRHGFDVNPDSGLSKQ- 625
+ +E++ + I I L + + F+++SY+ A+ +L + F+ GL Q
Sbjct: 378 NCKEDMEFFNTWIEKGIIDRLSDVVEKNFVQLSYTDAIELLLKAKKKFEFPVKWGLDLQS 437
Query: 626 -HELFLVKYT-NNVPIFIINWPKHVKPFYMKRS 656
HE ++ + P+ I ++PK +K FYM+ +
Sbjct: 438 EHERYITEEAFGGRPVIIRDYPKEIKAFYMREN 470
>gnl|CDD|214669 smart00449, SPRY, Domain in SPla and the RYanodine Receptor.
Domain of unknown function. Distant homologues are
domains in butyrophilin/marenostrin/pyrin homologues.
Length = 122
Score = 82.0 bits (203), Expect = 1e-18
Identities = 41/166 (24%), Positives = 55/166 (33%), Gaps = 51/166 (30%)
Query: 302 GTWYWEATIEEMPEGSATRMGWGQEYANL--QTPLGYDKFGYSWRSRKGTRFHECRGKHY 359
G Y+E I + G R+G + LG DK + + G ++H G Y
Sbjct: 2 GRHYFEVEIGD---GGHWRVGVATKSVPRGYFALLGEDKGSWGYDGDGGKKYHNSTGPEY 58
Query: 360 SEGYSE-GDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTL 418
E GD +G + L
Sbjct: 59 GLPLQEPGDVIGCFLDLEAG---------------------------------------- 78
Query: 419 DQSQIVFYKNGK-SQGVAFQDIYA-GYYYPCVSLHKNCTVSVNFGP 462
I FYKNGK G+AF D+ G YP SL +V +NFGP
Sbjct: 79 ---TISFYKNGKYLHGLAFFDVKFSGPLYPAFSLGSGNSVRLNFGP 121
>gnl|CDD|240451 cd11709, SPRY, SPRY domain. SPRY domains, first identified in the
SP1A kinase of Dictyostelium and rabbit Ryanodine
receptor (hence the name), are homologous to B30.2. SPRY
domains have been identified in at least 11 protein
families, covering a wide range of functions, including
regulation of cytokine signaling (SOCS), RNA metabolism
(DDX1 and hnRNP), immunity to retroviruses (TRIM5alpha),
intracellular calcium release (ryanodine receptors or
RyR) and regulatory and developmental processes (HERC1
and Ash2L). B30.2 also contains residues in the
N-terminus that form a distinct PRY domain structure;
i.e. B30.2 domain consists of PRY and SPRY subdomains.
B30.2 domains comprise the C-terminus of three protein
families: BTNs (receptor glycoproteins of immunoglobulin
superfamily); several TRIM proteins (composed of
RING/B-box/coiled-coil or RBCC core); Stonutoxin
(secreted poisonous protein of the stonefish Synanceia
horrida). While SPRY domains are evolutionarily ancient,
B30.2 domains are a more recent adaptation where the
SPRY/PRY combination is a possible component of immune
defense. Mutations found in the SPRY-containing proteins
have shown to cause Mediterranean fever and Opitz
syndrome.
Length = 118
Score = 76.7 bits (189), Expect = 7e-17
Identities = 32/162 (19%), Positives = 56/162 (34%), Gaps = 48/162 (29%)
Query: 302 GTWYWEATIEEMPEGSATRMGWGQEYANLQTP--LGYDKFGYSWRSRKGTRFHECRGKHY 359
G WY+E ++ G ++GW + +L +G D+ + + + + H +
Sbjct: 1 GKWYYEVRVDSGNGGLI-QVGWATKSFSLDGERGVGDDEGSWGFDGSRLRKGHGGSSEPG 59
Query: 360 SEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLD 419
+ GD +G L+ LD
Sbjct: 60 GRPWKSGDVVGCLL-------------------------------------------DLD 76
Query: 420 QSQIVFYKNGKSQGVAFQDIY--AGYYYPCVSLHKNCTVSVN 459
+ F NG GVAF++++ G YP VSL V++N
Sbjct: 77 AGTLSFSLNGVDLGVAFENLFRKGGPLYPAVSLGSGQGVTIN 118
>gnl|CDD|216029 pfam00622, SPRY, SPRY domain. SPRY Domain is named from SPla and
the RYanodine Receptor. Domain of unknown function.
Distant homologues are domains in
butyrophilin/marenostrin/pyrin homologues.
Length = 125
Score = 76.3 bits (188), Expect = 1e-16
Identities = 36/166 (21%), Positives = 54/166 (32%), Gaps = 49/166 (29%)
Query: 302 GTWYWEATIEEMPEGSATRMGWGQE--YANLQTPLGYDKFGYSWRSRKGTRFHECRGKHY 359
G Y+E ++ G R+GW + LG D+ + + G+++H + Y
Sbjct: 2 GKHYFEVEVDTGGGGH-VRVGWATKSVKKPGFRLLGDDEGSWGYDGSGGSKYHNGESEPY 60
Query: 360 SEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLD 419
+ EGD +G + L
Sbjct: 61 GLKFQEGDVIGCFLDLEEGE---------------------------------------- 80
Query: 420 QSQIVFYKNGK-SQGVAFQDIYA-GYYYPCVSLH-KNCTVSVNFGP 462
I F KNGK G F+++ G YP VSL V NFG
Sbjct: 81 ---ISFTKNGKDLGGYTFRNVEFGGPLYPAVSLGSTGEAVQFNFGQ 123
>gnl|CDD|235808 PRK06462, PRK06462, asparagine synthetase A; Reviewed.
Length = 335
Score = 78.9 bits (195), Expect = 8e-16
Identities = 50/157 (31%), Positives = 74/157 (47%), Gaps = 19/157 (12%)
Query: 510 SLSKVYTLNPTFRAEN--SKSRLHLAEFYMIEAEL--AFLDNIHDLCNTIEQFIKSVLNR 565
L K++ L+P FR E + HL EF ++ E+ A LD + DL IE IK ++
Sbjct: 101 MLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGADLDEVMDL---IEDLIKYLVKE 157
Query: 566 VLESHEEELLTY-RKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSK 624
+LE HE+EL + R L +L PF R+++ AV IL G L
Sbjct: 158 LLEEHEDELEFFGRDLPHL----------KRPFKRITHKEAVEILNEEGCRGIDLEELGS 207
Query: 625 QHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661
+ E L ++ P +II+ PK + FY + E P
Sbjct: 208 EGEKSLSEHFEE-PFWIIDIPKGSREFYDREDPERPG 243
>gnl|CDD|240453 cd12873, SPRY_DDX1, SPRY domain associated with DEAD box gene DDX1.
This SPRY domain is associated with the DEAD box gene,
DDX1, an RNA-dependent ATPase involved in HIV-1 Rev
function and virus replication. It is suggested that
DDX1 acts as a cellular cofactor by promoting
oligomerization of Rev on the Rev response element
(RRE). DDX1 RNA is overexpressed in breast cancer, data
showing a strong and independent association between
poor prognosis and deregulation of the DEAD box protein
DDX1, thus potentially serving as an effective
prognostic biomarker for early recurrence in primary
breast cancer. DDX1 also interacts with RelA and
enhances nuclear factor kappaB-mediated transcription.
DEAD-box proteins are associated with all levels of RNA
metabolism and function, and have been implicated in
translation initiation, transcription, RNA splicing,
ribosome assembly, RNA transport, and RNA decay.
Length = 155
Score = 72.2 bits (178), Expect = 6e-15
Identities = 63/198 (31%), Positives = 81/198 (40%), Gaps = 56/198 (28%)
Query: 270 DRAPQLRISEDRLAV--TGDKGYCMVRATNYV-GHGTWYWEATIEEMPEGSATRMGWGQE 326
DR L IS D L +KG+ RAT V G G +Y+E T+ + EG R+GW E
Sbjct: 5 DRDAALAISPDGLLCQSREEKGWQGCRATKGVKGKGKYYYEVTVTD--EGLC-RVGWSTE 61
Query: 327 YANLQTPLGYDKFGYSWRSRKGTRFHECRGKHYSEGYSEGDTLGFLIHLPYRNQNSYVPR 386
A+L LG DKFG+ + G + H + + Y E + +GD +G
Sbjct: 62 DASLD--LGTDKFGFGYGG-TGKKSHGRQFEDYGEPFGKGDVIG---------------- 102
Query: 387 TFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLDQSQIVFYKNGKSQGVAFQ---DIYAGY 443
C L D LD I F KNGK GVAF +
Sbjct: 103 -----------CLL-----D-----------LDNGTISFSKNGKDLGVAFDIPPKLRNQA 135
Query: 444 YYPCVSLHKNCTVSVNFG 461
+P V L KN V NFG
Sbjct: 136 LFPAVCL-KNAEVEFNFG 152
>gnl|CDD|129550 TIGR00458, aspS_nondisc, nondiscriminating aspartyl-tRNA
synthetase. In a multiple sequence alignment of
representative asparaginyl-tRNA synthetases (asnS),
archaeal/eukaryotic type aspartyl-tRNA synthetases
(aspS_arch), and bacterial type aspartyl-tRNA
synthetases (aspS_bact), there is a striking similarity
between asnS and aspS_arch in gap pattern and in
sequence, and a striking divergence of aspS_bact.
Consequently, a separate model was built for each of the
three groups. This model, aspS_arch, represents
aspartyl-tRNA synthetases from the eukaryotic cytosol
and from the Archaea. In some species, this enzyme
aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn)
is subsequently transamidated to Asn-tRNA(asn) [Protein
synthesis, tRNA aminoacylation].
Length = 428
Score = 74.9 bits (184), Expect = 3e-14
Identities = 40/151 (26%), Positives = 71/151 (47%), Gaps = 11/151 (7%)
Query: 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESH 570
+VY + P FRAE + HL E I+ E+AF D+ HD+ + +E+ + V V E
Sbjct: 199 FERVYEIGPIFRAEEHNTHRHLNEATSIDIEMAFEDH-HDVMDILEELVVRVFEDVPERC 257
Query: 571 EEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFL 630
+L T + + F+R++Y A+ + G ++ LS + E L
Sbjct: 258 AHQLETLEFKLE---------KPEGKFVRLTYDEAIEMANAKGVEIGWGEDLSTEAEKAL 308
Query: 631 VKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661
+ + + FI +WP ++PFY ++P+
Sbjct: 309 GEEMDGL-YFITDWPTEIRPFYTMPDEDNPE 338
>gnl|CDD|240465 cd12885, SPRY_RanBP_like, SPRY domain in Ran binding proteins,
SSH4, HECT E3 and SPRYD3. This family includes SPRY
domains found in Ran binding proteins (RBP or RanBPM) 9
and 10, SSH4 (suppressor of SHR3 null mutation protein
4), SPRY domain-containing protein 3 (SPRYD3) as well as
HECT, a C-terminal catalytic domain of a subclass of
ubiquitin-protein ligase (E3). RanBP9 and RanBP10 act as
androgen receptor (AR) coactivators. Both consist of the
N-terminal proline- and glutamine-rich regions, the SPRY
domain, and LisH-CTLH and CRA motifs. The SPRY domain in
SSH4 may be involved in cargo recognition, either
directly or by combination with other adaptors, possibly
leading to a higher selectivity. SPRYD3 is highly
expressed in most tissues in humans, possibly involved
in important cellular processes. HECT E3 mediates the
direct transfer of ubiquitin from E2 to substrate.
Length = 132
Score = 59.6 bits (145), Expect = 1e-10
Identities = 36/176 (20%), Positives = 60/176 (34%), Gaps = 49/176 (27%)
Query: 291 CMVRATNYV--GHGTWYWEATIEEMPEGSATRMGWGQEYANLQTPLGYDKFGYSWRSRKG 348
VRA + + +Y+E TI ++ E +G+ L G++ Y + G
Sbjct: 1 GSVRADHPIPPKVPVFYFEVTILDLGEKGIVSIGFCTSGFPLNRMPGWEDGSYGYHGDDG 60
Query: 349 TRFHEC-RGKHYSEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDK 407
+ G++Y + GD +G I+
Sbjct: 61 RVYLGGGEGENYGPPFGTGDVVGCGINFK------------------------------- 89
Query: 408 VTEALKRLQTLDQSQIVFY-KNGKSQGVAFQDIYAGYYYPCVSLH-KNCTVSVNFG 461
+ +F+ KNG+ G AF+++ G YP V L V VNFG
Sbjct: 90 -------------TGEIFFTKNGELLGTAFENVVKGRLYPTVGLGSPGVKVRVNFG 132
>gnl|CDD|238358 cd00669, Asp_Lys_Asn_RS_core, Asp_Lys_Asn_tRNA synthetase class II
core domain. This domain is the core catalytic domain of
class II aminoacyl-tRNA synthetases of the subgroup
containing aspartyl, lysyl, and asparaginyl tRNA
synthetases. It is primarily responsible for
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. Class II assignment is based upon
its structure and the presence of three characteristic
sequence motifs. Nearly all class II tRNA synthetases
are dimers and enzymes in this subgroup are homodimers.
These enzymes attach a specific amino acid to the 3' OH
group of ribose of the appropriate tRNA.
Length = 269
Score = 59.4 bits (144), Expect = 1e-09
Identities = 29/150 (19%), Positives = 54/150 (36%), Gaps = 40/150 (26%)
Query: 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESH 570
L +V+ +N FR E+ ++R H EF M++ E+AF D D+ E+ ++ + VL
Sbjct: 69 LDRVFEINRNFRNEDLRAR-HQPEFTMMDLEMAFAD-YEDVIELTERLVRHLAREVLGVT 126
Query: 571 EEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFL 630
+ L PF R++Y A+ +
Sbjct: 127 AVTYGFELEDFGL------------PFPRLTYREALERYGQ------------------- 155
Query: 631 VKYTNNVPIFIINWPKHVKPFYMKRSGEDP 660
P+F+ ++P + +P
Sbjct: 156 -------PLFLTDYPAEMHSPLASPHDVNP 178
>gnl|CDD|240464 cd12884, SPRY_hnRNP, SPRY domain in heterogeneous nuclear
ribonucleoprotein U-like (hnRNP) protein 1. This
domain, consisting of the distinct N-terminal PRY
subdomain followed by the SPRY subdomain, is found at
the C-terminus of heterogeneous nuclear
ribonucleoprotein U-like (hnRNP) protein 1 (also known
as HNRPUL1 ) which is a major constituent of nuclear
matrix or scaffold and binds directly to DNA sequences
through the N-terminal acidic region named serum amyloid
P (SAP). Its function is specifically modulated by
E1B-55kDa in adenovirus-infected cells. HNRPUL1 also
participates in ATR protein kinase signaling pathways
during adenovirus infection. Two transcript variants
encoding different isoforms have been found for this
gene. When associated with bromodomain-containing
protein 7 (BRD7), it activates transcription of
glucocorticoid-responsive promoter in the absence of
ligand-stimulation.
Length = 176
Score = 56.1 bits (136), Expect = 4e-09
Identities = 56/220 (25%), Positives = 82/220 (37%), Gaps = 66/220 (30%)
Query: 264 VLLALHDRAPQLRISEDRLAV---TGDKGYCM---VRATNYVGHGTWYWEATIEE----- 312
V+L ++ L+IS+D L+ T + + RAT V G +E + E
Sbjct: 1 VVLDWYNSDLHLKISKDGLSAEPLTDEGFAYLWAGARATYGVRKGKVCFEVKVLENLPVK 60
Query: 313 MPEGSAT-----RMGWGQEYANLQTPLGYDKFGYSWRSRKGTRFHECRGKHYSEGYSEGD 367
T R+GW + ++LQ LG +K Y + S G + + + Y E + EGD
Sbjct: 61 HLPTEETDPHVVRVGWSVDSSSLQ--LGEEKLSYGYGST-GKKSTNGKFEDYGEPFGEGD 117
Query: 368 TLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLDQSQIVFYK 427
+G + L E + V I F K
Sbjct: 118 VIGCYLDL----------------------------ESEPVE-------------ISFTK 136
Query: 428 NGKSQGVAFQDIYAGYY----YPCVSLHKNCTVSVNFGPH 463
NGK GVAF+ I +P + KNC V VNFG
Sbjct: 137 NGKDLGVAFR-IDKELEGKALFPHILT-KNCAVEVNFGQK 174
>gnl|CDD|215456 PLN02850, PLN02850, aspartate-tRNA ligase.
Length = 530
Score = 58.6 bits (142), Expect = 7e-09
Identities = 40/166 (24%), Positives = 70/166 (42%), Gaps = 31/166 (18%)
Query: 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAF-------LDNIHDLCNTI----EQFI 559
+V+ + P FRAE+S + HL EF ++ E+ LD + +L I +
Sbjct: 291 FRRVFEIGPVFRAEDSFTHRHLCEFTGLDLEMEIKEHYSEVLDVVDELFVAIFDGLNERC 350
Query: 560 KSVLNRVLESHEEELLTYRKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPD 619
K L + E + E L Y +R++++ + +L G +V+P
Sbjct: 351 KKELEAIREQYPFEPLKYL----------------PKTLRLTFAEGIQMLKEAGVEVDPL 394
Query: 620 SGLSKQHELFL---VKYTNNVPIFIIN-WPKHVKPFYMKRSGEDPD 661
L+ + E L VK +I++ +P V+PFY +DP
Sbjct: 395 GDLNTESERKLGQLVKEKYGTDFYILHRYPLAVRPFYTMPCPDDPK 440
>gnl|CDD|240462 cd12882, SPRY_RNF123, SPRY domain at N-terminus of ring finger
protein 123. This SPRY domain is found at the
N-terminus of RING finger protein 123 domain (also known
as E3 ubiquitin-protein ligase RNF123). The ring finger
domain motif is present in a variety of functionally
distinct proteins and known to be involved in
protein-protein and protein-DNA interactions. RNF123
displays E3 ubiquitin ligase activity toward the
cyclin-dependent kinase inhibitor p27 (Kip1).
Length = 128
Score = 50.4 bits (121), Expect = 1e-07
Identities = 22/47 (46%), Positives = 30/47 (63%), Gaps = 3/47 (6%)
Query: 418 LDQSQIVFYKNGKSQGVAFQDIYAGY---YYPCVSLHKNCTVSVNFG 461
LD+ I FY+NG+S GVAF ++ G Y+P VSL +V +NFG
Sbjct: 82 LDEGTISFYRNGRSLGVAFDNVRRGPGLAYFPAVSLSFGESVELNFG 128
>gnl|CDD|224111 COG1190, LysU, Lysyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 502
Score = 49.5 bits (119), Expect = 4e-06
Identities = 37/168 (22%), Positives = 61/168 (36%), Gaps = 28/168 (16%)
Query: 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLES- 569
+V+ + FR E H EF M+E A+ D DL + E+ IK + V +
Sbjct: 248 FERVFEIGRNFRNEGI-DTTHNPEFTMLEFYQAYAD-YEDLMDLTEELIKELAKEVNGTT 305
Query: 570 ----HEEEL--------LTYRKLINLANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVN 617
+E+ +T + D + D+ + + +HG +V
Sbjct: 306 KVTYGGQEIDFSKPFKRITMVDALKEYLGVDFDDLFDDEEAK-------ELAKKHGIEVE 358
Query: 618 PDSGLSKQH---ELF--LVKYTNNVPIFIINWPKHVKPFYMKRSGEDP 660
H ELF LV+ P F+ + P + P KR +P
Sbjct: 359 KYGTWGLGHLLNELFEELVEAKLIQPTFVTDHPVEISPL-AKRHRSNP 405
>gnl|CDD|234778 PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.
Length = 491
Score = 48.2 bits (116), Expect = 9e-06
Identities = 44/172 (25%), Positives = 68/172 (39%), Gaps = 41/172 (23%)
Query: 513 KVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEE 572
+VY + FR E H EF M+E A+ D +D+ + E+ I+ + VL + +
Sbjct: 242 RVYEIGRNFRNEGI-DTRHNPEFTMLEFYQAYAD-YNDMMDLTEELIRHLAQAVLGTTK- 298
Query: 573 ELLTYR-KLINLANITDLQCIHDNPFIRMSYSAAV-----------------TILTRHGF 614
+TY+ I+ PF R++ A+ + G
Sbjct: 299 --VTYQGTEIDF----------GPPFKRLTMVDAIKEYTGVDFDDMTDEEARALAKELGI 346
Query: 615 DVNPDSGLSK-QHELF--LV--KYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661
+V GL K +ELF V K P FI ++P + P KR EDP
Sbjct: 347 EVEKSWGLGKLINELFEEFVEPKLIQ--PTFITDYPVEISPL-AKRHREDPG 395
>gnl|CDD|240489 cd12909, SPRY_RanBP9_10, SPRY domain in Ran binding proteins 9 and
10. This family includes SPRY domain in Ran binding
protein (RBP or RanBPM) 9 and 10, and similar proteins.
RanBP9 (also known as RanBPM), a binding partner of Ran,
is a small Ras-like GTPase that exerts multiple
functions via interactions with various proteins. RanBP9
and RanBP10 also act as androgen receptor (AR)
coactivators. Both consist of the N-terminal proline-
and glutamine-rich regions, the SPRY domain, and
LisH-CTLH and CRA motifs. SPRY domain of RanBPM forms a
complex with CD39, a prototypic member of the NTPDase
family, thus down-regulating activity substantially.
RanBP10 enhances the transcriptional activity of AR in a
ligand-dependent manner and exhibits a protein
expression pattern different from RanBPM in various cell
lines. RanBP10 is highly expressed in AR-positive
prostate cancer LNCaP cells, while RanBPM is abundant in
WI-38 and MCF-7 cells.
Length = 153
Score = 41.0 bits (97), Expect = 4e-04
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 422 QIVFYKNGKSQGVAFQDIYAGYYYPCVSL-HKNCTVSVNFG 461
I + KNG + G AF+D+ YP V L V NFG
Sbjct: 112 TIFYTKNGVNLGTAFRDLPDKNLYPTVGLRTPGEHVEANFG 152
>gnl|CDD|240456 cd12876, SPRY_SOCS3, SPRY domain in the suppressor of cytokine
signaling 3 (SOCS3) family. The SPRY domain-containing
SOCS box protein family (SPSB1-4, also known as SSB-1 to
-4) is composed of a central SPRY protein interaction
domain and a C-terminal SOCS box. All four SPSB proteins
interact with c-Met, the hepatocyte growth factor
receptor, but SOCS3 regulates cellular response to a
variety of cytokines such as leukemia inhibitory factor
(LIF) and interleukin 6. SOCS3, along with SOCS1, are
expressed by immune cells and cells of the central
nervous system (CNS) and have the potential to impact
immune processes within the CNS. In non-small cell lung
cancer (NSCLC), SOCS3 is silenced and proline-rich
tyrosine kinase 2 (Pyk2) is over-expressed; it has been
suggested that SOCS3 could be an effective way to
prevent the progression of NSCLC due to its role in
regulating Pyk2 expression.
Length = 187
Score = 40.7 bits (96), Expect = 8e-04
Identities = 46/197 (23%), Positives = 70/197 (35%), Gaps = 61/197 (30%)
Query: 269 HDRAPQLRISEDRLAVTGDKGY----CMVRATNYVGHGT-WYWEATIEEMPEGSATRMGW 323
D++P + +SED V Y VR + + G YWE + G++ +G
Sbjct: 7 DDKSPSVVLSEDNREVYFHPDYSCGTAAVRGSKPLTEGGQHYWEIKMLSPVYGTSMMVGI 66
Query: 324 GQEYANLQTP-------LGYDK--FGYSWRSRKGTRFHECRGKHYSEGYSEGDTLGFLIH 374
G + A+L LG D+ +G S+ KG +H + Y+E
Sbjct: 67 GTDDADLHAYRYEFCSLLGLDEESWGLSY---KGLLWHNGESRPYTE------------- 110
Query: 375 LPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLDQSQIVFYKNGKSQGV 434
+ NQ + + HL + + FYKNGK GV
Sbjct: 111 -KFGNQGTII------------GVHL----------------DMWSGTLTFYKNGKPLGV 141
Query: 435 AFQDI--YAGYYYPCVS 449
AF + YP VS
Sbjct: 142 AFTGLQNDGKKLYPMVS 158
>gnl|CDD|214584 smart00249, PHD, PHD zinc finger. The plant homeodomain (PHD)
finger is a C4HC3 zinc-finger-like motif found in
nuclear proteins thought to be involved in epigenetics
and chromatin-mediated transcriptional regulation. The
PHD finger binds two zinc ions using the so-called
'cross-brace' motif and is thus structurally related to
the RING finger and the FYVE finger. It is not yet
known if PHD fingers have a common molecular function.
Several reports suggest that it can function as a
protein-protein interacton domain and it was recently
demonstrated that the PHD finger of p300 can cooperate
with the adjacent BROMO domain in nucleosome binding in
vitro. Other reports suggesting that the PHD finger is
a ubiquitin ligase have been refuted as these domains
were RING fingers misidentified as PHD fingers.
Length = 47
Score = 36.8 bits (85), Expect = 0.001
Identities = 9/36 (25%), Positives = 16/36 (44%), Gaps = 3/36 (8%)
Query: 11 LFCANCKCWFHESCISYQIGKLVPFMMNYVFICKNC 46
L C C W+H++C+ L+ + + C C
Sbjct: 15 LQCDGCDRWYHQTCLGP---PLLEEEPDGKWYCPKC 47
>gnl|CDD|240469 cd12889, SPRY_PRY_TRIM67_9, PRY/SPRY domain in tripartite
motif-containing proteins, TRIM9 and TRIM67. This
domain, consisting of the distinct N-terminal PRY
subdomain followed by the SPRY subdomain, is found at
the C-terminus of TRIM9 proteins. TRIM9 protein is
expressed mainly in the cerebral cortex, and functions
as an E3 ubiquitin ligase. It has been shown that TRIM9
is localized to the neurons in the normal human brain
and its immunoreactivity in affected brain areas in
Parkinson's disease and dementia with Lewy bodies is
severely decreased, possibly playing an important role
in the regulation of neuronal function and participating
in pathological process of Lewy body disease through its
ligase. TRIM67 negatively regulates Ras activity via
degradation of 80K-H , leading to neural
differentiation, including neuritogenesis.
Length = 172
Score = 39.6 bits (93), Expect = 0.001
Identities = 18/45 (40%), Positives = 29/45 (64%), Gaps = 2/45 (4%)
Query: 418 LDQSQIVFYKNGKSQG-VAFQDIYAGYYYPCVSLHKNCTVSVNFG 461
LD+ + FY N + QG VAF ++ G +YP SL++N V+++ G
Sbjct: 125 LDRGTLSFYVNDEPQGPVAFTNLP-GLFYPAFSLNRNVQVTLHTG 168
>gnl|CDD|173592 PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Provisional.
Length = 550
Score = 41.1 bits (96), Expect = 0.002
Identities = 19/71 (26%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 504 KLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVL 563
++ L + +V+ + P FR+ENS + HL EF ++ E+ ++ +++ + E +
Sbjct: 272 QMVLQGDVPRVFEVGPVFRSENSNTHRHLTEFVGLDVEMRINEHYYEVLDLAESLFNYIF 331
Query: 564 NRVLESHEEEL 574
R L +H +EL
Sbjct: 332 ER-LATHTKEL 341
>gnl|CDD|201356 pfam00628, PHD, PHD-finger. PHD folds into an interleaved type
of Zn-finger chelating 2 Zn ions in a similar manner to
that of the RING and FYVE domains. Several PHD fingers
have been identified as binding modules of methylated
histone H3.
Length = 51
Score = 34.8 bits (80), Expect = 0.008
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 2/38 (5%)
Query: 11 LFCANCKCWFHESCISYQIGKLVPFMMNYVFICKNCSN 48
L C C WFH +C+ + + + C C
Sbjct: 15 LLCDGCDRWFHLACLGPPLEPEE--IPEGEWYCPECKP 50
>gnl|CDD|240461 cd12881, SPRY_HERC1, SPRY domain in HERC1. This SPRY domain is
found in the HERC1, a large protein related to
chromosome condensation regulator RCC1. It is widely
expressed in many tissues, playing an important role in
intracellular membrane trafficking in the cytoplasm as
well as Golgi apparatus. HERC1 also interacts with
tuberous sclerosis 2 (TSC2, tuberin), which suppresses
cell growth, and results in the destabilization of TSC2.
However, the biological function of HERC1 has yet to be
defined.
Length = 160
Score = 35.8 bits (83), Expect = 0.025
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 418 LDQSQIVFYKNGKSQGVAFQDIYAGYYYPCVS 449
+++ + F KNG+ GVAF+D+ + YPCV
Sbjct: 114 MEERTLSFGKNGEEPGVAFEDVDSTELYPCVM 145
>gnl|CDD|203581 pfam07108, PipA, PipA protein. This family consists of several
Salmonella PipA (pathogenicity island-encoded protein A)
and related phage sequences. PipA is thought to
contribute to enteric but not to systemic salmonellosis.
The family carries a highly conserved HEXXH sequence
motif along with several highly conserved glutamic acid
residues which might be indicative of the family being a
metallo-peptidase.
Length = 200
Score = 36.4 bits (84), Expect = 0.026
Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 15/75 (20%)
Query: 523 AENSKSRLH---LAEFYM-----IEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEEL 574
A NS +L LAE+++ I+ ++ D+I+ C L+ +LE +
Sbjct: 25 ATNSDFKLEPECLAEYFISGPGGIDPDIEIDDDIYQEC-------YKELSTILEDAYTQS 77
Query: 575 LTYRKLINLANITDL 589
T+R+L+N A +L
Sbjct: 78 GTFRRLMNYAYDKEL 92
>gnl|CDD|187539 cd05228, AR_FR_like_1_SDR_e, uncharacterized subgroup of aldehyde
reductase and flavonoid reductase related proteins,
extended (e) SDRs. This subgroup contains proteins of
unknown function related to aldehyde reductase and
flavonoid reductase of the extended SDR-type. Aldehyde
reductase I (aka carbonyl reductase) is an NADP-binding
SDR; it has an NADP-binding motif consensus that is
slightly different from the canonical SDR form and lacks
the Asn of the extended SDR active site tetrad. Aldehyde
reductase I catalyzes the NADP-dependent reduction of
ethyl 4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 318
Score = 36.9 bits (86), Expect = 0.028
Identities = 35/128 (27%), Positives = 47/128 (36%), Gaps = 24/128 (18%)
Query: 166 DMGIQSSGSNKGRGAKRKMP----GETGVVSKRGRGAGGDAAVPKLPAHGYPLDHPFNKD 221
D G S+G + K+P G T V R G AA+ K +
Sbjct: 172 DEGPTSTGLDVLDYLNGKLPAYPPGGTSFVDVRDVAEGHIAAMEK------------GRR 219
Query: 222 GYRYILAEPDPHAPFRQEFDESTETAGKP-----IPGWLYRTLAPSHVLLA-LHDRAPQL 275
G RYIL + F+Q F+ E G IP WL + +A L A L + P L
Sbjct: 220 GERYILG--GENLSFKQLFETLAEITGVKPPRRTIPPWLLKAVAALSELKARLTGKPPLL 277
Query: 276 RISEDRLA 283
R+
Sbjct: 278 TPRTARVL 285
>gnl|CDD|232998 TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukaryotic and
non-spirochete bacterial. This model represents the
lysyl-tRNA synthetases that are class II amino-acyl tRNA
synthetases. It includes all eukaryotic and most
bacterial examples of the enzyme, but not archaeal or
spirochete forms [Protein synthesis, tRNA
aminoacylation].
Length = 496
Score = 37.0 bits (86), Expect = 0.035
Identities = 43/171 (25%), Positives = 68/171 (39%), Gaps = 32/171 (18%)
Query: 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLES- 569
KVY + FR E + H EF MIE A+ D DL + E K + +L +
Sbjct: 240 FEKVYEIGRNFRNEGVDTT-HNPEFTMIEFYQAYAD-YEDLMDLTENLFKFLAQELLGTT 297
Query: 570 ----HEEEL--------LTYR---KLINLANITDLQCIHDNPFIRMSYSAAVTILTRHGF 614
E E+ +T K ++ D + D + A + + G
Sbjct: 298 KITYGELEIDFKKPFKRITMVEAIKKYDMETGIDFDDLKD-------FETAKALAKKIGI 350
Query: 615 DVNPDSGLSKQH---ELF--LVKYTNNVPIFIINWPKHVKPFYMKRSGEDP 660
+V S L+ H ELF +++T P FI ++P + P KR+ +P
Sbjct: 351 EVAEKS-LTLGHILNELFEQFLEHTLIQPTFITHYPAEISPL-AKRNPSNP 399
>gnl|CDD|240466 cd12886, SPRY_like, SPRY domain-like in bacteria. This family
contains SPRY-like domains that are found only in
bacterial and are mostly uncharacterized. SPRY domains,
first identified in the SP1A kinase of Dictyostelium and
rabbit Ryanodine receptor (hence the name), are
homologous to B30.2. SPRY domains have been identified
in at least 11 eukaryotic protein families, covering a
wide range of functions, including regulation of
cytokine signaling (SOCS), RNA metabolism (DDX1 and
hnRNP), immunity to retroviruses (TRIM5alpha),
intracellular calcium release (ryanodine receptors or
RyR) and regulatory and developmental processes (HERC1
and Ash2L).
Length = 128
Score = 34.4 bits (79), Expect = 0.051
Identities = 38/171 (22%), Positives = 51/171 (29%), Gaps = 54/171 (31%)
Query: 302 GTWYWEATIEEMPEGSATRMGWGQEYANLQTPLGYDK--FGYSWRSRKGTR-FHECRGKH 358
G WYWE T+ SA +G L LG + +GYS G
Sbjct: 1 GKWYWEVTVVSSTSSSAAGIGVAPAAVTLNNGLGIELSSYGYSLGVSSGNTYSGGSTVAS 60
Query: 359 YSEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTL 418
+ G++ GD +G AL L
Sbjct: 61 FGAGFTAGDVIGV---------------------------------------ALD----L 77
Query: 419 DQSQIVFYKNGKSQGVAFQDIYA------GYYYPCVSLHKNC--TVSVNFG 461
D +I FYKNG QG YP V+ + + + NFG
Sbjct: 78 DAGKIWFYKNGVWQGSGSPAPGTNPAFAGTQVYPAVTGGSSTGGSFTANFG 128
>gnl|CDD|240458 cd12878, SPRY2_RyR, SPRY domain 2 (SPRY2) of ryanodine receptor
(RyR). This SPRY domain (SPRY2) is the second of three
structural repeats in all three isoforms of the
ryanodine receptor (RyR), which are the major Ca2+
release channels in the membranes of sarcoplasmic
reticulum (SR). There are three RyR genes in mammals;
the skeletal RyR1, the cardiac RyR2 and the brain RyR3.
The three SPRY domains are located in the N-terminal
part of the cytoplasmic region of the RyRs, The SPRY2
domain has been shown to bind to the dihydropryidine
receptor (DHPR) II-III loop and the ASI region of RyR1.
Length = 133
Score = 33.8 bits (78), Expect = 0.089
Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 10/80 (12%)
Query: 299 VGHGTWYWEA---TIEEMPEGSATRMGWGQEYANLQTPLGYDKFGYSWRSRKGTRFHECR 355
V G WY+E T M R+GW + LG D Y++ ++H+
Sbjct: 11 VTSGKWYFEFEVLTSGYM------RVGWARPGFRPDLELGSDDLSYAFDGFLARKWHQ-G 63
Query: 356 GKHYSEGYSEGDTLGFLIHL 375
+ + + + GD +G ++ L
Sbjct: 64 SESFGKQWQPGDVVGCMLDL 83
>gnl|CDD|238398 cd00775, LysRS_core, Lys_tRNA synthetase (LysRS) class II core
domain. Class II LysRS is a dimer which attaches a
lysine to the 3' OH group of ribose of the appropriate
tRNA. Its assignment to class II aaRS is based upon its
structure and the presence of three characteristic
sequence motifs in the core domain. It is found in
eukaryotes as well as some prokaryotes and archaea.
However, LysRS belongs to class I aaRS's in some
prokaryotes and archaea. The catalytic core domain is
primarily responsible for the ATP-dependent formation of
the enzyme bound aminoacyl-adenylate.
Length = 329
Score = 33.3 bits (77), Expect = 0.37
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 2/63 (3%)
Query: 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESH 570
+VY + FR E H EF MIE A+ D +D+ + E ++ ++
Sbjct: 76 FERVYEIGRNFRNE-GIDLTHNPEFTMIEFYEAYAD-YNDMMDLTEDLFSGLVKKINGKT 133
Query: 571 EEE 573
+ E
Sbjct: 134 KIE 136
>gnl|CDD|226850 COG4427, COG4427, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 350
Score = 31.7 bits (72), Expect = 1.1
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 604 AAVTILTRHGFDVNPDSGLSKQHELFLVKYT 634
A V I+ R G D+ P S L L+ Y
Sbjct: 190 ATVEIIERAGCDLAPLDPTSPDDRLRLLSYI 220
>gnl|CDD|232984 TIGR00462, genX, EF-P lysine aminoacylase GenX. Many Gram-negative
bacteria have a protein closely homologous to the
C-terminal region of lysyl-tRNA synthetase (LysS).
Multiple sequence alignment of these proteins with the
homologous regions of collected LysS proteins shows that
these proteins form a distinct set rather than just
similar truncations of LysS. The protein is termed GenX
after its designation in E. coli. Interestingly, genX
often is located near a homolog of
lysine-2,3-aminomutase. Its function is unknown [Unknown
function, General].
Length = 290
Score = 31.4 bits (72), Expect = 1.5
Identities = 27/139 (19%), Positives = 47/139 (33%), Gaps = 19/139 (13%)
Query: 513 KVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEE 572
++ + FR R H EF M+E D HDL + +E ++ +L
Sbjct: 62 PIFQICKVFRNGER-GRRHNPEFTMLEWYRPGFD-YHDLMDEVEALLQELLGDPFA--PA 117
Query: 573 ELLTYRKL-INLANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLV 631
E L+Y++ + A I L S + HG + + +L
Sbjct: 118 ERLSYQEAFLRYAGIDPLTA---------SLAELQAAAAAHGIRASEEDDRDDLLDLLFS 168
Query: 632 -----KYTNNVPIFIINWP 645
P F+ ++P
Sbjct: 169 EKVEPHLGFGRPTFLYDYP 187
>gnl|CDD|227470 COG5141, COG5141, PHD zinc finger-containing protein [General
function prediction only].
Length = 669
Score = 31.1 bits (70), Expect = 2.0
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 13/72 (18%)
Query: 5 NFNLIELFCANCKCWFHESCISYQIGKLVPFMMNYVFICKNCSNTGLESFKKNQAMFPQM 64
N N I +FC C+ H+SC Y I F+ ++C+ C + + Q
Sbjct: 206 NSNAI-VFCDGCEICVHQSC--YGI----QFLPEGFWLCRKC------IYGEYQIRCCSF 252
Query: 65 CITAIGNLMQTS 76
C ++ G QTS
Sbjct: 253 CPSSDGAFKQTS 264
>gnl|CDD|238391 cd00768, class_II_aaRS-like_core, Class II tRNA amino-acyl
synthetase-like catalytic core domain. Class II amino
acyl-tRNA synthetases (aaRS) share a common fold and
generally attach an amino acid to the 3' OH of ribose of
the appropriate tRNA. PheRS is an exception in that it
attaches the amino acid at the 2'-OH group, like class I
aaRSs. These enzymes are usually homodimers. This domain
is primarily responsible for ATP-dependent formation of
the enzyme bound aminoacyl-adenylate. The substrate
specificity of this reaction is further determined by
additional domains. Intererestingly, this domain is also
found is asparagine synthase A (AsnA), in the accessory
subunit of mitochondrial polymerase gamma and in the
bacterial ATP phosphoribosyltransferase regulatory
subunit HisZ.
Length = 211
Score = 30.2 bits (68), Expect = 2.6
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 513 KVYTLNPTFRAE-NSKSRLHLAEFYMIEAELAFLD 546
++ + P FR E + + EF +E E+ D
Sbjct: 77 RLAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGED 111
>gnl|CDD|218305 pfam04877, Hairpins, HrpZ. HrpZ from the plant pathogen
Pseudomonas syringae binds to lipid bilayers and forms a
cation-conducting pore in vivo. This pore-forming
activity may allow nutrient release or delivery of
virulence factors during bacterial colonisation of host
plants. The family of hairpinN proteins, Harpin, has
been merged into this family. HrpN is a virulence
determinant which elicits lesion formation in
Arabidopsis and tobacco and triggers systemic resistance
in Arabidopsis.
Length = 277
Score = 30.2 bits (68), Expect = 2.9
Identities = 30/128 (23%), Positives = 46/128 (35%), Gaps = 33/128 (25%)
Query: 78 KEGNPRFTFSKE-----KEIIPFIEAHWDGMTTTPRRVTQSWHLTILRALAKETNVLFTC 132
+ + +FSK+ KEI F++ D + + SW L KE N
Sbjct: 152 SDSSGT-SFSKDDMPMLKEIAQFMD---DYPEQFGKPDSGSW----ANEL-KEDN--GLT 200
Query: 133 NESQEQYGLIDKDLAHIKPNYEQMIKGGHIKVTDMGIQSSGSNKGRGAKRKMPGETGVVS 192
Q+ K L +I +G Q SG+ G+ G+TG +
Sbjct: 201 GAETAQF---RKALD--------IIGSA------LGQQQSGAGGLPGSNGNGNGDTGQAT 243
Query: 193 KRGRGAGG 200
+ RG GG
Sbjct: 244 LQDRGQGG 251
>gnl|CDD|219611 pfam07859, Abhydrolase_3, alpha/beta hydrolase fold. This
catalytic domain is found in a very wide range of
enzymes.
Length = 207
Score = 29.9 bits (68), Expect = 3.7
Identities = 15/43 (34%), Positives = 18/43 (41%), Gaps = 12/43 (27%)
Query: 256 YRTLAPSH-----------VLLALHDRAPQLRISEDRLAVTGD 287
YR LAP H L L + A +L R+AV GD
Sbjct: 37 YR-LAPEHPFPAAIEDAYAALRWLAEHAWELGADPSRIAVAGD 78
>gnl|CDD|176103 cd08411, PBP2_OxyR, The C-terminal substrate-binding domain of the
LysR-type transcriptional regulator OxyR, a member of
the type 2 periplasmic binding fold protein superfamily.
OxyR senses hydrogen peroxide and is activated through
the formation of an intramolecular disulfide bond. The
OxyR activation induces the transcription of genes
necessary for the bacterial defense against oxidative
stress. The OxyR of LysR-type transcriptional regulator
family is composed of two functional domains joined by a
linker helix involved in oligomerization: an N-terminal
HTH (helix-turn-helix) domain, which is responsible for
the DNA-binding specificity, and a C-terminal
substrate-binding domain, which is structurally
homologous to the type 2 periplasmic binding proteins.
As also observed in the periplasmic binding proteins,
the C-terminal domain of the bacterial transcriptional
repressor undergoes a conformational change upon
substrate binding which in turn changes the DNA binding
affinity of the repressor. The C-terminal domain also
contains the redox-active cysteines that mediate the
redox-dependent conformational switch. Thus, the
interaction between the OxyR-tetramer and DNA is notably
different between the oxidized and reduced forms. The
structural topology of this substrate-binding domain is
most similar to that of the type 2 periplasmic binding
proteins (PBP2), which are responsible for the uptake of
a variety of substrates such as phosphate, sulfate,
polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis.
Length = 200
Score = 29.4 bits (67), Expect = 4.4
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 10/36 (27%)
Query: 251 IPGWLYRTLAP---SHVLLALHDRAPQLR--ISEDR 281
IP T+AP +L AL P+LR + ED+
Sbjct: 8 IP-----TIAPYLLPRLLPALRQAYPKLRLYLREDQ 38
>gnl|CDD|240480 cd12900, SPRY_PRY_Btn_TRIMs, PRY/SPRY domain in butyrophilins and
butyrophilins-like proteins, pyrin, as well as
tripartite motif-containing proteins (TRIM4, 5, 6, 11,
21, 22, 27, 30, 34, 38, 58, 60, 68, 75). This domain,
consisting of the distinct N-terminal PRY subdomain
followed by the SPRY subdomain, is found at the
C-terminus of pyrin, several tripartite motif-containing
proteins (TRIMs), as well as butyrophilin (Btns) and
butyrophilin-like (Btnl) family members, with the
exception of Btnl2. Btn and Btnl family members are
novel regulators of immune responses, with many of the
genes located within the MHC. They are implicated in
T-cell inhibition and modulation of epithelial cell-T
cell interactions. Expression of TRIM4 (also known as
ring finger protein 87 or RNF87) genes, including that
of CHCHD2 and PKIB, differs significantly in
Huntington's disease (HD), a prototypical genetic
disorder with delayed clinical onset, despite ubiquitous
expression of the mutated gene during development.
TRIM5-alpha is a cytoplasmic protein that recognizes the
incoming capsid (CA) protein of retroviruses and
potently inhibits virus infection in a species-specific
manner; it recognizes and interacts directly with HIV
CA, thus disrupting the ordered process of viral
uncoating, and subsequent reverse transcription and
virus replication, while species-specific differences
are determined by sequence variations within the
C-terminal B30.2/PRYSPRY domain. TRIM6 regulates the
transcriptional activity of proto-oncogene product Myc
during the maintenance of ES cell pluripotency,
suggesting that TRIM6 functions as a novel regulator for
Myc-mediated transcription in ES cells. TRIM11 is
involved in the function and development of the nervous
system and is overexpressed in high-grade gliomas and
promotes proliferation, invasion, migration and glial
tumor growth. TRIM21 (also known as RO52, SSA1 or RNF81)
is a major autoantigen in autoimmune diseases such as
rheumatoid arthritis, systemic lupus erythematosus, and
Sjorgen's syndrome. TRIM21 interacts with connexin 43
(Cx43) providing mechanisms for down-regulation of gap
junction (GJ) intercellular communication thus impacting
a variety of physiological processes. Expression of the
TRIM34 gene is up-regulated by interferon and is mapped
to chromosome 11p15, where it resides within a TRIM gene
cluster. TRIM30 alpha negatively regulates Toll-like
receptor (TLR)-mediated NF-kappa B activation by
targeting degradation of adaptors TAB2 and TAB3 that are
in complex with kinase TAK1. TRIM5 gene's closest human
paralogs are TRIM6, TRIM22 and TRIM34. It has also been
shown that the RBCC domains of TRIM6, 21 and 34 can
functionally replace the corresponding domains of
TRIM5alpha with respect to inhibition of HIV-1 infection
through binding of the chimeras to HIV-1 capsid
complexes. TRIM27 (also known as Ret finger protein, RFP
or RNF76) negatively regulates CD4 T-cells by
ubiquitinating and inhibiting the class II
phosphatidylinositol 3 kinase C2beta (PI3K-C2beta), a
kinase critical for KCa3.1 channel activation. It is
also a specific binding partner for NOD2, the
nucleotide-binding domain and leucine-rich repeat
containing gene family (NLR) member 2 involved in
mediating antimicrobial responses. It negatively
regulates NOD2-mediated signaling by degrading NOD2, and
therefore a potential target for therapeutic
intervention in NOD2-associated diseases such as
early-onset sarcoidosis and Blau syndrome. TRIM38
negatively regulates Toll-like receptor 3
(TLR3)-mediated type I interferon signaling by targeting
TIR domain-containing adaptor inducing IFN-beta (TRIF).
TRIM60 (also known as RNF33 or ring finger protein 33)
interacts with kinesin-2 family members 3A (KIF3A) and
3B (KIF3B) motor proteins known to transport cargos
along the microtubule, possibly contributing to
kinesin-dependent mobilization of specific cargos along
the microtubule. TRIM68 regulates ligand-dependent
transcription of androgen receptor in prostate cancer
cells; its overexpression causes an increase in
prostate-specific antigen (PSA), a reliable diagnostic
marker for prostate cancer, making TRIM68 a likely novel
diagnostic tool and a potentially therapeutic target.
The PRY/SPRY domain of pyrin, which is mutated in
familial Mediterranean fever patients, interacts with
inflammasome components and inhibits proIL-1beta
processing.
Length = 173
Score = 29.0 bits (66), Expect = 4.7
Identities = 19/74 (25%), Positives = 25/74 (33%), Gaps = 20/74 (27%)
Query: 273 PQLRISEDRLAVT-GDK------------GYCMVRATNYVGHGTWYWEATIEEMPE---- 315
P L +SEDR +V GD Y V + G YWE + + E
Sbjct: 14 PNLILSEDRRSVRYGDTRQDLPDNPERFDSYPCVLGSPGFTSGRHYWEVEVGDKTEWALG 73
Query: 316 ---GSATRMGWGQE 326
S +R G
Sbjct: 74 VCRESVSRKGKVPL 87
>gnl|CDD|238400 cd00777, AspRS_core, Asp tRNA synthetase (aspRS) class II core
domain. Class II assignment is based upon its structure
and the presence of three characteristic sequence
motifs. AspRS is a homodimer, which attaches a specific
amino acid to the 3' OH group of ribose of the
appropriate tRNA. The catalytic core domain is primarily
responsible for the ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. AspRS in this family
differ from those found in the AsxRS family by a GAD
insert in the core domain.
Length = 280
Score = 29.5 bits (67), Expect = 5.6
Identities = 29/97 (29%), Positives = 43/97 (44%), Gaps = 29/97 (29%)
Query: 521 FRAENSKS-RLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRK 579
FR E+ ++ R EF I+ E++F+D D+ + IE +K V VL EL T
Sbjct: 79 FRDEDLRADRQ--PEFTQIDIEMSFVDQ-EDIMSLIEGLLKYVFKEVLG---VELTT--- 129
Query: 580 LINLANITDLQCIHDNPFIRMSYSAAVTILTRHGFDV 616
PF RM+Y+ A + R+GF
Sbjct: 130 ----------------PFPRMTYAEA---MERYGFKF 147
>gnl|CDD|235394 PRK05297, PRK05297, phosphoribosylformylglycinamidine synthase;
Provisional.
Length = 1290
Score = 29.8 bits (68), Expect = 6.7
Identities = 11/19 (57%), Positives = 13/19 (68%), Gaps = 2/19 (10%)
Query: 132 CNESQEQYGL-ID-KDLAH 148
CNESQE+Y L I +DL
Sbjct: 539 CNESQERYVLAIAPEDLEL 557
>gnl|CDD|173700 cd05609, STKc_MAST, Catalytic domain of the Protein
Serine/Threonine Kinase, Microtubule-associated
serine/threonine kinase. Serine/Threonine Kinases
(STKs), Microtubule-associated serine/threonine (MAST)
kinase subfamily, MAST, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The MAST kinase subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein STKs, protein tyrosine kinases, RIO kinases,
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. MAST kinases contain an
N-terminal domain of unknown function, a central
catalytic domain, and a C-terminal PDZ domain that
mediates protein-protein interactions. There are four
mammalian MAST kinases, named MAST1-MAST4. MAST1 is also
referred to as syntrophin-associated STK (SAST), while
MAST2 is also called MAST205. MAST kinases are
cytoskeletal associated kinases of unknown function that
are also expressed at neuromuscular junctions and
postsynaptic densities. MAST1, MAST2, and MAST3 bind and
phosphorylate the tumor suppressor PTEN, and may
contribute to the regulation and stabilization of PTEN.
MAST2 is involved in the regulation of the Fc-gamma
receptor of the innate immune response in macrophages,
and may also be involved in the regulation of the Na+/H+
exchanger NHE3.
Length = 305
Score = 29.4 bits (66), Expect = 6.8
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 3/35 (8%)
Query: 139 YGLIDKDLAHIKPNYEQMIKGGHIKVTDMGIQSSG 173
YG++ +DL KP+ + GHIK+TD G+ G
Sbjct: 120 YGIVHRDL---KPDNLLITSMGHIKLTDFGLSKIG 151
>gnl|CDD|240463 cd12883, SPRY_RING, SPRY domain at N-terminus of Really Interesting
New Gene (RING) finger domain. This SPRY domain is
found at the N-terminus of RING finger domains which are
present in a variety of functionally distinct proteins
and known to be involved in protein-protein and
protein-DNA interactions. RING-finger domain is a type
of Zn-finger that binds two Zn atoms and is identified
in proteins with a wide range of functions such as viral
replication, signal transduction, and development.
Length = 121
Score = 28.1 bits (63), Expect = 6.9
Identities = 18/80 (22%), Positives = 36/80 (45%), Gaps = 8/80 (10%)
Query: 302 GTWYWEATIEEMPEGSATRMGWGQEYANLQTPLGY----DKFGYSWR-SRKGTRFHECRG 356
G WY+E T+ + G ++GW + + GY D++ +++ R+ ++
Sbjct: 1 GVWYYEVTV--LTSG-VMQIGWATKDSKFLNHEGYGIGDDEYSFAYDGCRQLIWYNAESR 57
Query: 357 KHYSEGYSEGDTLGFLIHLP 376
H + GD +G L+ L
Sbjct: 58 PHTHPRWKPGDVVGCLLDLD 77
>gnl|CDD|226630 COG4150, CysP, ABC-type sulfate transport system, periplasmic
component [Inorganic ion transport and metabolism].
Length = 341
Score = 29.0 bits (65), Expect = 7.4
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 588 DLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLVKYTNNVPIF 640
D++ I NP + S +A T L G G + E F+ K+ NV +F
Sbjct: 149 DVKLIFPNP--KTSGNARYTYLAAWGAADEAFGGDKAKTEEFMTKFLKNVEVF 199
>gnl|CDD|238803 cd01569, PBEF_like, pre-B-cell colony-enhancing factor (PBEF)-like.
The mammalian members of this group of nicotinate
phosphoribosyltransferases (NAPRTases) were originally
identified as genes whose expression is upregulated upon
activation in lymphoid cells. In general, nicotinate
phosphoribosyltransferase catalyses the formation of
NAMN and PPi from 5-phosphoribosy -1-pyrophosphate
(PRPP) and nicotinic acid, this is the first, and also
rate limiting, reaction in the NAD salvage synthesis.
Length = 407
Score = 29.2 bits (66), Expect = 7.4
Identities = 15/37 (40%), Positives = 19/37 (51%)
Query: 201 DAAVPKLPAHGYPLDHPFNKDGYRYILAEPDPHAPFR 237
D A AH D PFN+DG+R+IL D + P
Sbjct: 61 DEAEAVFEAHFGMNDLPFNEDGWRHILELHDGYLPIE 97
>gnl|CDD|176054 cd08409, C2B_Synaptotagmin-15, C2 domain second repeat present in
Synaptotagmin 15. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. It is thought to be involved in
the trafficking and exocytosis of secretory vesicles in
non-neuronal tissues and is Ca2+ independent. Human
synaptotagmin 15 has 2 alternatively spliced forms that
encode proteins with different C-termini. The larger,
SYT15a, contains a N-terminal TM region, a putative
fatty-acylation site, and 2 tandem C terminal C2
domains. The smaller, SYT15b, lacks the C-terminal
portion of the second C2 domain. Unlike most other
synaptotagmins it is nearly absent in the brain and
rather is found in the heart, lungs, skeletal muscle,
and testis. Previously all synaptotagmins were thought
to be calcium sensors in the regulation of
neurotransmitter release and hormone secretion, but it
has been shown that not all of them bind calcium. Of
the 17 identified synaptotagmins only 8 bind calcium
(1-3, 5-7, 9, 10). The function of the two C2 domains
that bind calcium are: regulating the fusion step of
synaptic vesicle exocytosis (C2A) and binding to
phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the
absence of calcium ions and to phosphatidylinositol
bisphosphate (PIP2) in their presence (C2B). C2B also
regulates also the recycling step of synaptic vesicles.
C2 domains fold into an 8-standed beta-sandwich that can
adopt 2 structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the second C2
repeat, C2B, and has a type-I topology.
Length = 137
Score = 28.1 bits (63), Expect = 7.7
Identities = 14/71 (19%), Positives = 29/71 (40%), Gaps = 15/71 (21%)
Query: 53 SFKKNQAMFPQMCITAIGNLMQTSIKEGNPR--------FTFSKEKEIIPFIEAHWDGMT 104
SFK ++ ++MQ+ + F +++ KE+ HW+ M
Sbjct: 71 SFKVTSRQLDTASLSL--SVMQSGGVRKSKLLGRVVLGPFMYARGKEL-----EHWNDML 123
Query: 105 TTPRRVTQSWH 115
+ P+ + + WH
Sbjct: 124 SKPKELIKRWH 134
>gnl|CDD|223251 COG0173, AspS, Aspartyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 585
Score = 29.5 bits (67), Expect = 7.8
Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 27/86 (31%)
Query: 534 EFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLANITDLQCIH 593
EF I+ E++F+D D+ IE+ ++ V V I L
Sbjct: 231 EFTQIDLEMSFVDE-EDVMELIEKLLRYVFKEVKG------------IEL---------- 267
Query: 594 DNPFIRMSYSAAVTILTRHGFDVNPD 619
PF RM+Y+ A + R+G D PD
Sbjct: 268 KTPFPRMTYAEA---MRRYGSD-KPD 289
>gnl|CDD|240460 cd12880, SPRYD7, SPRY domain-containing protein 7. This family
contains SPRY domain-containing protein 7 (also known as
SPRY domain-containing protein 7 or CLL deletion region
gene 6 protein homolog or CLLD6 or chronic lymphocytic
leukemia deletion region gene 6 protein homolog). In
humans, CLLD6 is highly expressed in heart, skeletal
muscle, and testis as well as cancer cell lines. It also
has cross-species conservation, suggesting that it is
likely to carry out important cellular processes.
Length = 160
Score = 28.4 bits (64), Expect = 8.7
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 417 TLDQSQIVFYKNGKSQGVAFQDIYAGYYYPCVSLHKNCTVSVNFGPHFKHALP 469
T D ++ FY NGK+ I G YP V + + V F +F+H P
Sbjct: 97 TYDHVELNFYLNGKNLECPITGI-RGTVYPVVYVDDGAILDVIFD-NFEHPPP 147
>gnl|CDD|225178 COG2269, COG2269, Truncated, possibly inactive, lysyl-tRNA
synthetase (class II) [Translation, ribosomal structure
and biogenesis].
Length = 322
Score = 28.8 bits (65), Expect = 8.8
Identities = 31/139 (22%), Positives = 47/139 (33%), Gaps = 21/139 (15%)
Query: 513 KVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEE 572
++ L FR E RLH EF M+E D + L N ++ L VLE E
Sbjct: 91 PIFQLGKVFRNE-EMGRLHNPEFTMLEWYRVGCD-YYRLMNEVDDL----LQLVLECVEA 144
Query: 573 ELLTYRKL-INLANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLV 631
E L+Y++ + I L + + G D +L V
Sbjct: 145 ERLSYQEAFLRYLGIDPLS---------ADKTELREAAAKLGLSAATDEDWDTLLQLLFV 195
Query: 632 -----KYTNNVPIFIINWP 645
P F+ ++P
Sbjct: 196 EGVEPNLGKERPTFLYHFP 214
>gnl|CDD|235313 PRK04813, PRK04813, D-alanine--poly(phosphoribitol) ligase subunit
1; Provisional.
Length = 503
Score = 29.1 bits (66), Expect = 9.2
Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 8/70 (11%)
Query: 548 IHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN-----ITDLQCIHDNPFI---R 599
I D+ TIE+F ++ + + E LTY +L ++ I L+ +P I
Sbjct: 1 IMDIIETIEEFAQTQPDFPAYDYLGEKLTYGQLKEDSDALAAFIDSLKLPDKSPIIVFGH 60
Query: 600 MSYSAAVTIL 609
MS T L
Sbjct: 61 MSPEMLATFL 70
>gnl|CDD|176047 cd08402, C2B_Synaptotagmin-1, C2 domain second repeat present in
Synaptotagmin 1. Synaptotagmin is a
membrane-trafficking protein characterized by a
N-terminal transmembrane region, a linker, and 2
C-terminal C2 domains. Synaptotagmin 1, a member of the
class 1 synaptotagmins, is located in the brain and
endocranium and localized to the synaptic vesicles and
secretory granules. It functions as a Ca2+ sensor for
fast exocytosis. It, like synaptotagmin-2, has an
N-glycosylated N-terminus. Synaptotagmin 4, a member of
class 4 synaptotagmins, is located in the brain. It
functions are unknown. It, like synaptotagmin-11, has an
Asp to Ser substitution in its C2A domain. Previously
all synaptotagmins were thought to be calcium sensors in
the regulation of neurotransmitter release and hormone
secretion, but it has been shown that not all of them
bind calcium. Of the 17 identified synaptotagmins only
8 bind calcium (1-3, 5-7, 9, 10). The function of the
two C2 domains that bind calcium are: regulating the
fusion step of synaptic vesicle exocytosis (C2A) and
binding to phosphatidyl-inositol-3,4,5-triphosphate
(PIP3) in the absence of calcium ions and to
phosphatidylinositol bisphosphate (PIP2) in their
presence (C2B). C2B also regulates also the recycling
step of synaptic vesicles. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the second C2
repeat, C2B, and has a type-I topology.
Length = 136
Score = 27.8 bits (62), Expect = 9.4
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 99 HWDGMTTTPRRVTQSWH 115
HW M +PRR WH
Sbjct: 117 HWSDMLASPRRPIAQWH 133
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
0.320 0.136 0.426
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 33,681,546
Number of extensions: 3272088
Number of successful extensions: 2859
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2807
Number of HSP's successfully gapped: 76
Length of query: 661
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 558
Effective length of database: 6,369,140
Effective search space: 3553980120
Effective search space used: 3553980120
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 62 (27.6 bits)