RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15359
(281 letters)
>gnl|CDD|238368 cd00717, URO-D, Uroporphyrinogen decarboxylase (URO-D) is a dimeric
cytosolic enzyme that decarboxylates the four acetate
side chains of uroporphyrinogen III (uro-III) to create
coproporphyrinogen III, without requiring any prosthetic
groups or cofactors. This reaction is located at the
branching point of the tetrapyrrole biosynthetic
pathway, leading to the biosynthesis of heme,
chlorophyll or bacteriochlorophyll. URO-D deficiency is
responsible for the human genetic diseases familial
porphyria cutanea tarda (fPCT) and hepatoerythropoietic
porphyria (HEP).
Length = 335
Score = 404 bits (1041), Expect = e-143
Identities = 137/245 (55%), Positives = 178/245 (72%), Gaps = 5/245 (2%)
Query: 20 LRAARGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITLQPIRRFNLD 79
LRA RGE VD+ P+W MRQAGRYLPE+RELR+K+ F +C+ PELAAE+TLQP+RRF +D
Sbjct: 1 LRALRGEPVDRPPVWFMRQAGRYLPEYRELRAKYSFLELCKNPELAAEVTLQPVRRFGVD 60
Query: 80 ASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDLKKLKTPVDVYKELNYVFEAIT 139
A+IIFSDILV +A+GM VE GPV+P P+ D+ +L P D +EL+YV+EAI
Sbjct: 61 AAIIFSDILVPLEAMGMDVEFVEGKGPVIPNPIRTEADVDRLLVP-DPEEELSYVYEAIK 119
Query: 140 LTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLLEILTNVI 199
LTR +L G+VPLIGF+GAPWTL SYMIEGGGSK +K+K +Y PE LL+ LT+
Sbjct: 120 LTRKELPGEVPLIGFAGAPWTLASYMIEGGGSKDFAKAKKMMYTDPEAFHALLDKLTDAT 179
Query: 200 VDYLVGQAKAGAQLLQLFESNAEYLDLDLFKEFALPYINTINEKVKAQLKQMNNDVPMTI 259
++YL Q +AGAQ +Q+F+S A L + F+EF LPY+ I E+VK +L VP+ +
Sbjct: 180 IEYLKAQIEAGAQAVQIFDSWAGALSPEDFEEFVLPYLKRIIEEVKKRL----PGVPVIL 235
Query: 260 FAKGA 264
FAKGA
Sbjct: 236 FAKGA 240
>gnl|CDD|233423 TIGR01464, hemE, uroporphyrinogen decarboxylase. This model
represents uroporphyrinogen decarboxylase (HemE), which
converts uroporphyrinogen III to coproporphyrinogen III.
This step takes the pathway toward protoporphyrin IX, a
common precursor of both heme and chlorophyll, rather
than toward precorrin 2 and its products [Biosynthesis
of cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 338
Score = 365 bits (938), Expect = e-127
Identities = 140/248 (56%), Positives = 180/248 (72%), Gaps = 6/248 (2%)
Query: 18 RLLRAARGEEVDKIPIWIMRQAGRYLPEFRELRSKH-DFFTICQTPELAAEITLQPIRRF 76
LRAA+GE VD+ P+W MRQAGRYLPE+RELR+K DF +C+ P+LA E+TLQPIRRF
Sbjct: 1 LFLRAAKGEVVDRPPVWFMRQAGRYLPEYRELRAKAGDFLELCRNPDLAVEVTLQPIRRF 60
Query: 77 NLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDLKKLKTPVDVYKELNYVFE 136
+DA+IIFSDILV QALG+ VE GPV+ P+ ED+++LK D EL+YV+E
Sbjct: 61 GVDAAIIFSDILVPLQALGLDVEFVEGKGPVISNPIRTAEDVERLK-EFDPESELSYVYE 119
Query: 137 AITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLLEILT 196
AI L R +L G+VPLIGF+GAPWTL SYMIEGGGSK +K+K ++Y+ PE LL LT
Sbjct: 120 AIKLLREELPGEVPLIGFAGAPWTLASYMIEGGGSKDFAKAKRFMYQEPEALHALLNKLT 179
Query: 197 NVIVDYLVGQAKAGAQLLQLFESNAEYLDLDLFKEFALPYINTINEKVKAQLKQMNNDVP 256
+ ++YLV Q KAGAQ +Q+F+S A L + F+EF LPY+ I E+VKA+L VP
Sbjct: 180 DATIEYLVEQVKAGAQAVQIFDSWAGALSPEDFEEFVLPYLAKIIEEVKARL----PGVP 235
Query: 257 MTIFAKGA 264
+ +FAKGA
Sbjct: 236 VILFAKGA 243
>gnl|CDD|234644 PRK00115, hemE, uroporphyrinogen decarboxylase; Validated.
Length = 346
Score = 350 bits (900), Expect = e-121
Identities = 127/253 (50%), Positives = 176/253 (69%), Gaps = 6/253 (2%)
Query: 13 PLKNDRLLRAARGEEVDKIPIWIMRQAGRYLPEFRELRSKH-DFFTICQTPELAAEITLQ 71
LKNDR LRA RGE VD+ P+W+MRQAGRYLPE+R LR+K F +C+ PELAAE+TLQ
Sbjct: 2 ELKNDRFLRALRGEPVDRTPVWMMRQAGRYLPEYRALRAKAGSFLELCKNPELAAEVTLQ 61
Query: 72 PIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDLKKLKTPVDVYKEL 131
P+RR+ +DA+I+FSDIL P A+G+ ++ + GPV P+ D++KL P D ++L
Sbjct: 62 PVRRYGVDAAILFSDILTPPDAMGLDLDFEEGEGPVFDNPIRTEADVEKLPVP-DPEEDL 120
Query: 132 NYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKL 191
YV EA+ L R +L G+VPLIGF+GAPWTL +YM+EGGGSK +K+K +Y PE L
Sbjct: 121 PYVLEAVRLLRRELGGEVPLIGFAGAPWTLATYMVEGGGSKDYAKTKAMMYAEPELLHAL 180
Query: 192 LEILTNVIVDYLVGQAKAGAQLLQLFESNAEYLDLDLFKEFALPYINTINEKVKAQLKQM 251
L+ L + + YL Q +AGAQ +Q+F+S A L ++EF LPY +++ A+LK+
Sbjct: 181 LDKLADATIAYLNAQIEAGAQAVQIFDSWAGALSPADYREFVLPY----MKRIVAELKRE 236
Query: 252 NNDVPMTIFAKGA 264
+ DVP+ +F KGA
Sbjct: 237 HPDVPVILFGKGA 249
>gnl|CDD|216366 pfam01208, URO-D, Uroporphyrinogen decarboxylase (URO-D).
Length = 338
Score = 319 bits (821), Expect = e-109
Identities = 119/252 (47%), Positives = 163/252 (64%), Gaps = 11/252 (4%)
Query: 14 LKNDRLLRAARGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITLQPI 73
N+RLLRA RGE VD+ P+W+MRQAGRYLPE+R LR+ F C+ PELAAE+TLQP
Sbjct: 1 TPNERLLRALRGEPVDRTPVWLMRQAGRYLPEYRALRAGASFLEACKDPELAAEVTLQPY 60
Query: 74 RRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDLKKLKTPVDV-YKELN 132
RRF LDA+I+FSDILV +A+G V+ GPV+ P+ PED++KL+ P + + L
Sbjct: 61 RRFGLDAAILFSDILVEAEAMGCEVDFGEGEGPVVENPIRTPEDVEKLEVPDPLEDERLP 120
Query: 133 YVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLL 192
YV EAI + R +L +VPLIGF G P+TL SY++EG K K +YK PE LL
Sbjct: 121 YVLEAIRILRKELGDEVPLIGFVGGPFTLASYLVEG-----FEKFKKLMYKDPELVHALL 175
Query: 193 EILTNVIVDYLVGQAKAGAQLLQLFESNAEYLDLDLFKEFALPYINTINEKVKAQLKQMN 252
+ LT+ +++YL Q +AGA +Q+F+S A L + F+EF LPY+ I ++VKA+
Sbjct: 176 DKLTDAVIEYLKAQIEAGADAIQIFDSWAGLLSPEDFREFVLPYLKRIVDEVKAR----- 230
Query: 253 NDVPMTIFAKGA 264
P+ + G
Sbjct: 231 GPGPVILHICGN 242
>gnl|CDD|223484 COG0407, HemE, Uroporphyrinogen-III decarboxylase [Coenzyme
metabolism].
Length = 352
Score = 309 bits (795), Expect = e-105
Identities = 126/253 (49%), Positives = 167/253 (66%), Gaps = 5/253 (1%)
Query: 13 PLKNDRLLRAARGEEVDKIPIWIMRQAGRYLPEFRELRSK-HDFFTICQTPELAAEITLQ 71
KNDR LRA +G+ VD+ P+W+MRQAGRYLPE+R LR K F C+ PELAAE+TLQ
Sbjct: 4 MTKNDRFLRALKGKPVDRTPVWMMRQAGRYLPEYRALREKGGSFLEACKNPELAAEVTLQ 63
Query: 72 PIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDLKKLKTPVDVYKEL 131
P+RR+ LDA+I+FSDILV P+ALG V GP + +P+ ED++ L +D L
Sbjct: 64 PVRRYGLDAAILFSDILVPPEALGCEVRFGEGKGPSVLKPIRDKEDVELLVPLLDPEGRL 123
Query: 132 NYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKL 191
YV +AI L R KL G+VPLIGF+G+PWTL SY+IEGGGSK SK+K +Y P+ L
Sbjct: 124 PYVLDAIKLLREKLGGEVPLIGFAGSPWTLASYLIEGGGSKDFSKTKAMMYTEPDAVHAL 183
Query: 192 LEILTNVIVDYLVGQAKAGAQLLQLFESNAEYLDLDLFKEFALPYINTINEKVKAQLKQM 251
L+ LT+ +++YL Q +AGA +Q+F+S A L + + EF LPY+ I +VK
Sbjct: 184 LDKLTDAVIEYLKAQIEAGADAVQIFDSWAGVLSMIDYDEFVLPYMKRIVREVKEV---- 239
Query: 252 NNDVPMTIFAKGA 264
VP+ F KGA
Sbjct: 240 KGGVPVIHFCKGA 252
>gnl|CDD|215237 PLN02433, PLN02433, uroporphyrinogen decarboxylase.
Length = 345
Score = 288 bits (739), Expect = 5e-97
Identities = 105/248 (42%), Positives = 162/248 (65%), Gaps = 6/248 (2%)
Query: 19 LLRAARGEEVDKIPIWIMRQAGRYLPEFRELRSKH-DFFTICQTPELAAEITLQPIRRFN 77
LLRAARGE+V++ P+W+MRQAGRY+ E+REL K+ F +TP+LA EI+LQP R F
Sbjct: 1 LLRAARGEKVERPPVWLMRQAGRYMKEYRELCKKYPSFRERSETPDLAVEISLQPWRAFK 60
Query: 78 LDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDLKKLKTPVDVYKELNYVFEA 137
D I+FSDIL A+G+ ++ GPV+P P+ ED+K+L P+D ++L +V EA
Sbjct: 61 PDGVILFSDILTPLPAMGIPFDIVKGKGPVIPNPIRSEEDVKRLH-PLDPEEKLPFVGEA 119
Query: 138 ITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLLEILTN 197
+ + R ++ + ++GF GAPWTL +Y++EGG SK K + PE LL+ LT+
Sbjct: 120 LKILRKEVGNEAAVLGFVGAPWTLATYIVEGGSSKNYKVIKKMAFTAPEVLHALLDKLTD 179
Query: 198 VIVDYLVGQAKAGAQLLQLFESNAEYLDLDLFKEFALPYINTINEKVKAQLKQMNNDVPM 257
+++Y+ Q AGAQ++Q+F+S A +L F+EF+ PY+ EK+ ++K + DVP+
Sbjct: 180 AVIEYVDYQIDAGAQVVQIFDSWAGHLSPVDFEEFSKPYL----EKIVDEVKARHPDVPL 235
Query: 258 TIFAKGAP 265
++A G+
Sbjct: 236 ILYANGSG 243
>gnl|CDD|239548 cd03465, URO-D_like, The URO-D _like protein superfamily includes
bacterial and eukaryotic uroporphyrinogen decarboxylases
(URO-D), coenzyme M methyltransferases and other
putative bacterial methyltransferases. Uroporphyrinogen
decarboxylase (URO-D) decarboxylates the four acetate
side chains of uroporphyrinogen III (uro-III) to create
coproporphyrinogen III, an important branching point of
the tetrapyrrole biosynthetic pathway. The
methyltransferases represented here are important for
ability of methanogenic organisms to use other compounds
than carbon dioxide for reduction to methane.
Length = 330
Score = 132 bits (335), Expect = 9e-37
Identities = 76/261 (29%), Positives = 118/261 (45%), Gaps = 31/261 (11%)
Query: 20 LRAARGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITLQPIRRFNLD 79
A GE+ D++P+ + EF + K +++T PEL AE + ++F D
Sbjct: 1 AAALNGEKPDRVPVGPLLHG--GAAEFIGISLK-EYYTD---PELGAEAQIALYKKFGPD 54
Query: 80 ASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDLKKLKTPVDVYK--ELNYVFEA 137
A +FSD+ V +A G + P + PL+ E+ P D L + EA
Sbjct: 55 AIKVFSDLFVEAEAFGAEIRYPEDDTPSVEGPLIEDEEEDDDLLPPDPGDSPRLPELLEA 114
Query: 138 ITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLLEILTN 197
I L + +L +VP+IG G P+TL S ++ G SK + LY PE KLLE T
Sbjct: 115 IRLLKEELGDRVPVIGAVGGPFTLASLLM--GASKFLM----LLYTDPELVHKLLEKCTE 168
Query: 198 VIVDYLVGQAKAGAQLLQLFESNAEYLDL--DLFKEFALPYINTINEKVKAQLKQMNNDV 255
I+ Y +AGA + + + A L + FKEF+LPY+ + + +KA
Sbjct: 169 FIIRYADALIEAGADGIYISDPWASSSILSPEDFKEFSLPYLKKVFDAIKA------LGG 222
Query: 256 PMTIFAKGAPKQGHNCYNYSN 276
P+ HNC + +
Sbjct: 223 PVIH---------HNCGDTAP 234
>gnl|CDD|238261 cd00465, URO-D_CIMS_like, The URO-D_CIMS_like protein superfamily
includes bacterial and eukaryotic uroporphyrinogen
decarboxylases (URO-D), coenzyme M methyltransferases
and other putative bacterial methyltransferases, as well
as cobalamine (B12) independent methionine synthases.
Despite their sequence similarities, members of this
family have clearly different functions.
Uroporphyrinogen decarboxylase (URO-D) decarboxylates
the four acetate side chains of uroporphyrinogen III
(uro-III) to create coproporphyrinogen III, an important
branching point of the tetrapyrrole biosynthetic
pathway. The methyltransferases represented here are
important for ability of methanogenic organisms to use
other compounds than carbon dioxide for reduction to
methane, and methionine synthases transfer a methyl
group from a folate cofactor to L-homocysteine in a
reaction requiring zinc.
Length = 306
Score = 127 bits (320), Expect = 7e-35
Identities = 53/237 (22%), Positives = 82/237 (34%), Gaps = 34/237 (14%)
Query: 32 PIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITLQPIRRFNLDASII-FSDILVI 90
P+ Q G S + E + LD + D+L +
Sbjct: 1 PVQCEGQTGIMEASETMAIS--EEPGETSKAEWGITLVEPE--EIPLDVIPVHEDDVLKV 56
Query: 91 PQALGMVVEMKPAVGPVLPEPLVIPEDLKKLKTPVDVYKELNYVFEAITLTRHKLEGKVP 150
QALG + P +PE + E IT R E P
Sbjct: 57 AQALGEWAFRYYSQAPSVPEIDE-----------EEDPFREAPALEHITAVRSLEE--FP 103
Query: 151 LIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLLEILTNVIVDYLVGQAKAG 210
G +G P+T + + G + LY+ PE +L+E LT I++Y +AG
Sbjct: 104 TAGAAGGPFTFTHHSMSMGDALMA------LYERPEAMHELIEYLTEFILEYAKTLIEAG 157
Query: 211 AQLLQLFESNAEYLDLDL----FKEFALPYINTINEKVKAQLKQMNNDVPMTIFAKG 263
A+ LQ+ E ++ L FK+FALP K + +VP+ +
Sbjct: 158 AKALQIHEPAFSQINSFLGPKMFKKFALPAYK------KVAEYKAAGEVPIVHHSCY 208
>gnl|CDD|235753 PRK06252, PRK06252, methylcobalamin:coenzyme M methyltransferase;
Validated.
Length = 339
Score = 83.8 bits (208), Expect = 1e-18
Identities = 71/255 (27%), Positives = 122/255 (47%), Gaps = 47/255 (18%)
Query: 16 NDRLLRAARGEEVDKIP---------IWIMRQAGRYLPEFRELRSKHDFFTICQTPELAA 66
+RLL A +G+EVD++P + +M G Y PE + D PE A
Sbjct: 6 KERLLNALKGKEVDRVPVICVTQTGTVELMDITGAYWPE-----AHSD-------PEKMA 53
Query: 67 EITLQPIRRFNLDASIIFSDILVIPQALGMVVEM-----KPAV--GPV--LPEPLVIPED 117
++ + +A + + V +A+G V+M +P+V P+ E +P+D
Sbjct: 54 DLAIAGYEVAGFEAVRVPFCMTVEAEAMGCEVDMGTKDRQPSVTKYPIKKDVEYRKLPDD 113
Query: 118 -LKKLKTPVDVYKELNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSK 176
L++ + P V EAI + + K+ +VP+I P +L S ++ G K K
Sbjct: 114 LLEEGRIPT--------VLEAIKILKEKVGEEVPIIAGLTGPISLASSLM---GPKNFLK 162
Query: 177 SKHWLYKYPEESKKLLEILTNVIVDYLVGQAKAGAQLLQLFESNA--EYLDLDLFKEFAL 234
WL K PE + + L+ +T+ ++Y Q +AGA ++ + + +A E L +F+EF L
Sbjct: 163 ---WLIKKPELAHEFLDFVTDFCIEYAKAQLEAGADVICIADPSASPELLGPKMFEEFVL 219
Query: 235 PYINTINEKVKAQLK 249
PY+N I ++VK
Sbjct: 220 PYLNKIIDEVKGLPT 234
>gnl|CDD|239423 cd03307, Mta_CmuA_like, MtaA_CmuA_like family. MtaA/CmuA, also
MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M
isozymes, are methylcobamide:Coenzyme M
methyltransferases, which play a role in metabolic
pathways of methane formation from various substrates,
such as methylated amines and methanol. Coenzyme M,
2-mercaptoethylsulfonate or CoM, is methylated during
methanogenesis in a reaction catalyzed by three
proteins. A methyltransferase methylates the corrinoid
cofactor, which is bound to a second polypeptide, a
corrinoid protein. The methylated corrinoid protein then
serves as a substrate for MT2-A and related enzymes,
which methylate CoM.
Length = 326
Score = 80.8 bits (200), Expect = 1e-17
Identities = 64/243 (26%), Positives = 106/243 (43%), Gaps = 31/243 (12%)
Query: 20 LRAARGEEVDKIPIW---------IMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 70
L A G+ VD++P+ +M G Y PE + D E A++
Sbjct: 1 LAALNGQPVDRVPVICPTQTGTVELMEATGAYWPE-----AHSD-------AEKMADLAA 48
Query: 71 QPIRRFNLDASIIFSDILVIPQALGMVVEM-KPAVGP-VLPEPLVIPEDLKKLKTPVDVY 128
+A + + V +ALG V+ + P V P ED++KL
Sbjct: 49 AGHEVAGFEAVRVPFCMTVEAEALGCEVDWGTKDIQPSVTSHPFKKLEDVEKLPDDFLER 108
Query: 129 KELNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEES 188
+ V EAI + + K +VP+IG P +L S++ G + K WL K PE+
Sbjct: 109 GRIPTVLEAIKILKEKYGEEVPVIGGMTGPASLASHLA---GVENFLK---WLIKKPEKV 162
Query: 189 KKLLEILTNVIVDYLVGQAKAGAQLLQLFESNA--EYLDLDLFKEFALPYINTINEKVKA 246
++ LE LT ++Y Q +AGA ++ + + A E + + ++EFALPY I +++
Sbjct: 163 REFLEFLTEACIEYAKAQLEAGADIITIADPTASPELISPEFYEEFALPYHKKIVKELHG 222
Query: 247 QLK 249
Sbjct: 223 CPT 225
>gnl|CDD|130530 TIGR01463, mtaA_cmuA, methyltransferase, MtaA/CmuA family. This
subfamily is closely related to, yet is distinct from,
uroporphyrinogen decarboxylase (EC 4.1.1.37). It
includes two isozymes from Methanosarcina barkeri of
methylcobalamin--coenzyme M methyltransferase. It also
includes a chloromethane utilization protein, CmuA,
which transfers the methyl group of chloromethane to a
corrinoid protein.
Length = 340
Score = 74.5 bits (183), Expect = 2e-15
Identities = 58/233 (24%), Positives = 97/233 (41%), Gaps = 33/233 (14%)
Query: 18 RLLRAARGEEVDKIP---------IWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEI 68
RL A G+ VD +P +MR+ G PE H + E A +
Sbjct: 8 RLFAAVTGQTVDDVPPCVPTQTLTTELMRECGATWPE------AH------RDGEAMAHL 55
Query: 69 TLQPIRRFNLDASIIFSDILVIPQALGMVVEM-KPAVGPVLPEPLVI-PEDLKKLKTPVD 126
+ +F +A D+ + +G ++ A V P D + + +
Sbjct: 56 AIAAYEKFGGEAVRPPFDLTTEAECVGCELDYGPYAQPSVTKHPTPTNLADYRYPENYLL 115
Query: 127 VYKELNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPE 186
+ V EAI + R + P+IG G P+TL MI G S+ +S W+ P+
Sbjct: 116 KPGRIPVVLEAIKILRERYGDTHPIIGPMGGPFTLAQLMI--GVSEFLS----WISTDPD 169
Query: 187 ESKKLLEILTNVIVDYLVGQAKAGAQLLQLFESNAEYLDL---DLFKEFALPY 236
+K +LE+ + ++ Y +AGA ++ + + A DL + +KEF LPY
Sbjct: 170 YAKAVLELALDFVIAYAKAMVEAGADVIAIADPFASS-DLISPETYKEFGLPY 221
>gnl|CDD|239365 cd03067, PDI_b_PDIR_N, PDIb family, PDIR subfamily, N-terminal
TRX-like b domain; composed of proteins similar to human
PDIR (for Protein Disulfide Isomerase Related). PDIR is
composed of three redox active TRX (a) domains and an
N-terminal redox inactive TRX-like (b) domain. Similar
to PDI, it is involved in oxidative protein folding in
the endoplasmic reticulum (ER) through its isomerase and
chaperone activities. These activities are lower
compared to PDI, probably due to PDIR acting only on a
subset of proteins. PDIR is preferentially expressed in
cells actively secreting proteins and its expression is
induced by stress. Similar to PDI, the isomerase and
chaperone activities of PDIR are independent; CXXC
mutants lacking isomerase activity retain chaperone
activity. The TRX-like b domain of PDIR is critical for
its chaperone activity.
Length = 112
Score = 29.4 bits (66), Expect = 0.93
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 185 PEESKKLLEILTNVIVDYLVGQAKAGAQLLQLFESNAE 222
++ KKLL NV+V Y AK+ LL+L A+
Sbjct: 9 HKDFKKLLRTRNNVLVLY-SKSAKSAEALLKLLSDVAQ 45
>gnl|CDD|215817 pfam00248, Aldo_ket_red, Aldo/keto reductase family. This family
includes a number of K+ ion channel beta chain
regulatory domains - these are reported to have
oxidoreductase activity.
Length = 277
Score = 29.6 bits (67), Expect = 1.5
Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 7/62 (11%)
Query: 118 LKKLKTP-VDVY-----KELNYVFEAI-TLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGG 170
LK+L T +D+Y + E + L K EGK+ IG S + +E G
Sbjct: 91 LKRLGTDYLDLYLLHWPDPSLPIEETLEALEELKKEGKIRHIGVSNFSVEQLREALEHGK 150
Query: 171 SK 172
Sbjct: 151 VP 152
>gnl|CDD|222154 pfam13470, PIN_3, PIN domain. Members of this family of bacterial
domains are predicted to be RNases (from similarities to
5'-exonucleases).
Length = 86
Score = 27.1 bits (61), Expect = 2.9
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 196 TNVIVDYLVGQAKAGAQLLQLFESN 220
TNV++ L+ + A A LL L +
Sbjct: 6 TNVLLSALLSREGASALLLDLALAG 30
>gnl|CDD|220817 pfam10593, Z1, Z1 domain. This uncharacterized domain was
identified by Iyer and colleagues. It is found
associated with a helicase domain of superfamily type
II.
Length = 231
Score = 28.8 bits (65), Expect = 3.2
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 9/39 (23%)
Query: 223 YLDL-------DLFKEFALPYINTINEKVKAQLKQMNND 254
Y DL DL++ F +I E+++ QLK+M
Sbjct: 174 YEDLCRLYMTEDLYEWFR--HIAEAEEELREQLKRMAEA 210
>gnl|CDD|236600 PRK09636, PRK09636, RNA polymerase sigma factor SigJ; Provisional.
Length = 293
Score = 28.7 bits (65), Expect = 3.6
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 104 VGPVLPEPLVIPED 117
VGP LPEP+V D
Sbjct: 80 VGPWLPEPVVEELD 93
>gnl|CDD|217909 pfam04121, Nup84_Nup100, Nuclear pore protein 84 / 107. Nup84p
forms a complex with five proteins, of which Nup120p,
Nup85p, Sec13p, and a Sec13p homologues. This Nup84p
complex in conjunction with Sec13-type proteins is
required for correct nuclear pore biogenesis.
Length = 685
Score = 28.5 bits (64), Expect = 4.2
Identities = 12/54 (22%), Positives = 23/54 (42%)
Query: 171 SKTMSKSKHWLYKYPEESKKLLEILTNVIVDYLVGQAKAGAQLLQLFESNAEYL 224
+ S W K E SK +++ N +V + + + QL+E + Y+
Sbjct: 570 LNSESNLPSWESKLQEFSKTTRKLIYNFLVFKPLTENEDDEDYEQLYELRSLYI 623
>gnl|CDD|227824 COG5537, IRR1, Cohesin [Cell division and chromosome partitioning].
Length = 740
Score = 27.9 bits (62), Expect = 7.0
Identities = 13/52 (25%), Positives = 19/52 (36%)
Query: 173 TMSKSKHWLYKYPEESKKLLEILTNVIVDYLVGQAKAGAQLLQLFESNAEYL 224
S HW Y + K L L N + + G +Q ++S E L
Sbjct: 97 REILSVHWFEDYMKNLSKFLNSLINFDLSCCGCLTRVGNFDVQDYDSTYETL 148
>gnl|CDD|197998 smart00930, NIL, This domain is found at the C-terminus of ABC
transporter proteins involved in D-methionine transport
as well as a number of ferredoxin-like proteins. This
domain is likely to act as a substrate binding domain.
The domain has been named after a conserved sequence in
some members of the family.
Length = 76
Score = 25.5 bits (57), Expect = 8.4
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 7/41 (17%)
Query: 67 EITLQPI-----RRFNLDASIIFSDILVI-PQALG-MVVEM 100
E +P+ R F +D +I+ +I I G +VVE+
Sbjct: 12 ESADEPLISQLAREFGVDVNILHGNIERIQGGPFGSLVVEL 52
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
0.319 0.137 0.399
Gapped
Lambda K H
0.267 0.0829 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,854,662
Number of extensions: 1468615
Number of successful extensions: 1252
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1220
Number of HSP's successfully gapped: 32
Length of query: 281
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 185
Effective length of database: 6,679,618
Effective search space: 1235729330
Effective search space used: 1235729330
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 (21.7 bits)
S2: 58 (25.9 bits)