RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780717|ref|YP_003065130.1| zinc uptake ABC transporter
[Candidatus Liberibacter asiaticus str. psy62]
(294 letters)
>gnl|CDD|34180 COG4531, ZnuA, ABC-type Zn2+ transport system, periplasmic
component/surface adhesin [Inorganic ion transport and
metabolism].
Length = 318
Score = 242 bits (618), Expect = 1e-64
Identities = 111/313 (35%), Positives = 173/313 (55%), Gaps = 24/313 (7%)
Query: 2 KNFLIILIFLFFILSSVARAGSLQVVVSIKPIHSIVSCIMQGIGTPALLVKGASSPHEYS 61
K L+ +F + S+ A A + VV SIKP+ I S I G+G P +L+ G +SPH+YS
Sbjct: 6 KTLLLSALFALLLGSAPAAA-AAAVVTSIKPLGFIASAIADGVGEPEVLLPGGASPHDYS 64
Query: 62 LRISEAMMLENADIIFWLGAEMESFLVKPLHSLNKQSNVVTLSHSPDLHRILLRDNHSHF 121
LR S+ L++AD++ W+G ++E+FL KPL L + VVTL+ P + +L R+ H H
Sbjct: 65 LRPSDVKRLQSADLVVWVGPDLEAFLDKPLSGL-PGAKVVTLADLPGVKPLLFREAHDHE 123
Query: 122 HDSEAD--------------------DLHLWLNPLNVQYIAHVIAMELIKKDPRNKIIYE 161
+ + D+HLWL+P + +A IA +L + DP+N Y+
Sbjct: 124 EEHDHGHDHAGADHKGDHDHHHEGEYDMHLWLSPAIAKAVAAAIAKKLAELDPQNAAKYD 183
Query: 162 KNEEEFKNQLSQLDKELHSILQPVEKKKIIVFHEAYRYFASHYNLSIV-TFPMSHSVFMG 220
N ++F+ QL+ LDK++ L PV+ K VFH+AY YF + Y L + F +S V G
Sbjct: 184 ANLKDFEAQLAALDKKVGEELAPVKGKPFFVFHDAYGYFENAYGLKPLGHFTVSPEVQPG 243
Query: 221 AASLRNIRSKIISDKISCLFYGPEFDSKIIRSITNDTGVMSAILDPEGMLIAEGPELYFQ 280
A L IR+++ K +C+F P+F K++ ++ T V S LDP G I G + YF
Sbjct: 244 AKRLAEIRTQLKEQKATCVFAEPQFRPKVVETVAEGTSVRSGTLDPLGTNIKLGKDSYFN 303
Query: 281 LMRSMSNSIAKNC 293
+ +++NS +C
Sbjct: 304 FLSNLANSY-ASC 315
>gnl|CDD|29738 cd01019, ZnuA, Zinc binding protein ZnuA. These proteins have been
shown to function as initial receptors in the ABC uptake
of Zn2+. They belong to the TroA superfamily of
periplasmic metal binding proteins that share a distinct
fold and ligand binding mechanism. They are comprised
of two globular subdomains connected by a single helix
and bind their specific ligands in the cleft between
these domains. A typical TroA protein is comprised of
two globular subdomains connected by a single helix and
can bind the metal ion in the cleft between these
domains. In addition, these proteins sometimes have a
low complexity region containing a metal-binding
histidine-rich motif (repetitive HDH sequence)..
Length = 286
Score = 223 bits (570), Expect = 4e-59
Identities = 99/281 (35%), Positives = 142/281 (50%), Gaps = 19/281 (6%)
Query: 26 VVVSIKPIHSIVSCIMQGIGTPALLVKGASSPHEYSLRISEAMMLENADIIFWLGAEMES 85
V+ SIKP+ I + IM G+G +LV +SPH+Y LR S+A L+ AD++ W+G ++E+
Sbjct: 6 VLTSIKPLGFIAAAIMGGVGEVEVLVPPGASPHDYELRPSDARKLQEADLVVWIGPDLEA 65
Query: 86 FLVKPLHSLNKQSNVVTLSHSPDLHRILLRDNHSHFHDSEAD---------------DLH 130
FL K L K+ V+TL+ DL L D SH D H
Sbjct: 66 FLDKVLQGR-KKGKVLTLAKLIDLK--TLEDGASHGDHEHDHEHAHGEHDGHEEGGLDPH 122
Query: 131 LWLNPLNVQYIAHVIAMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQPVEKKKI 190
LWL+P N +A +A +L DP N Y N E F +L++LD + L PV+ K
Sbjct: 123 LWLSPENAAEVAQAVAEKLSALDPDNAATYAANLEAFNARLAELDATIKERLAPVKTKPF 182
Query: 191 IVFHEAYRYFASHYNLSIV-TFPMSHSVFMGAASLRNIRSKIISDKISCLFYGPEFDSKI 249
VFH+AY YF Y L+ F + + GA L IR +I +C+F P+F KI
Sbjct: 183 FVFHDAYGYFEKRYGLTQAGVFTIDPEIDPGAKRLAKIRKEIKEKGATCVFAEPQFHPKI 242
Query: 250 IRSITNDTGVMSAILDPEGMLIAEGPELYFQLMRSMSNSIA 290
++ TG LDP G LI G Y +R++++S+A
Sbjct: 243 AETLAEGTGAKVGELDPLGGLIELGKNSYVNFLRNLADSLA 283
>gnl|CDD|144773 pfam01297, SBP_bac_9, Periplasmic solute binding protein family.
This family includes periplasmic solute binding proteins
such as TroA that interacts with an ATP-binding cassette
transport system in Treponema pallidum.
Length = 272
Score = 216 bits (553), Expect = 5e-57
Identities = 86/272 (31%), Positives = 128/272 (47%), Gaps = 9/272 (3%)
Query: 26 VVVSIKPIHSIVSCIMQGIGTPALLVKGASSPHEYSLRISEAMMLENADIIFWLGAEMES 85
VV SI P+ +V I LV + PH Y S+ L AD++ + GA +E
Sbjct: 1 VVASIPPLADLVKAIGGDKVEVTSLVPPGADPHTYEPTPSDIKKLAKADLVVYNGAGLEP 60
Query: 86 FLVKPLHSLNKQSNVVTLSHSPDLHRIL---LRDNHSHFHDSEADDLHLWLNPLNVQYIA 142
+L K L SL + VV LS +L + D D H+WL+P N + +A
Sbjct: 61 WLDKLLASLANKVKVVDLSEGIELLDAPGHEHDHDEHDHDDHGHGDPHIWLDPKNAKAMA 120
Query: 143 HVIAMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQPVEKKKIIVFHEAYRYFAS 202
IA L + DP N YEKN F +L +LD E+ + L P+ K++I FH+A+ YFA
Sbjct: 121 EAIADALSELDPENAATYEKNAAAFLKKLDELDAEIKAKLAPIPGKRVITFHDAFGYFAK 180
Query: 203 HYNLSIVTFPM-SHSVFMGAASLRNIRSKIISDKISCLFYGPEFDSKIIRSITNDTG--V 259
Y L + S A L + I + +F P+F K+ ++ +TG V
Sbjct: 181 AYGLEQIAILGESPESEPSPADLAELIKLIKEHNVKVIFVEPQFSPKLAETLAEETGAKV 240
Query: 260 MSAILDPEGMLIAEGPELYFQLMRSMSNSIAK 291
+ LDP G EG + Y +LMR +++A+
Sbjct: 241 VPLYLDPLGS---EGGDTYLELMRHNLDTLAE 269
>gnl|CDD|31146 COG0803, LraI, ABC-type metal ion transport system, periplasmic
component/surface adhesin [Inorganic ion transport and
metabolism].
Length = 303
Score = 149 bits (378), Expect = 7e-37
Identities = 71/295 (24%), Positives = 128/295 (43%), Gaps = 9/295 (3%)
Query: 4 FLIILIFLFFILSSVARAGSLQVVVSIKPIHSIVSCIMQGIGTPALLVKGASSPHEYSLR 63
+++L +S + L+VV + PI +V I LV + PH Y
Sbjct: 13 LILLLAGCGTSAASDGDSAKLKVVTTFPPIADVVKNIAGDKVDVVSLVPPGADPHSYEPT 72
Query: 64 ISEAMMLENADIIFWLGAEMESFLVKPLHSLNKQSNVVTLSHSPDLHRILLRDNHSHFHD 123
S+ L AD+I + G +E +L K L S +K+ +V ++ + +
Sbjct: 73 PSDIAKLRKADLIVYNGLGLEPWLEKLLESADKKKVLVI-----EVSDGIELLPLPGEEE 127
Query: 124 SEADDLHLWLNPLNVQYIAHVIAMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQ 183
+D H+WL+P N + A IA L++ DP NK YEKN E + +L++LD+E + L
Sbjct: 128 EGVNDPHVWLDPKNAKIYAENIADALVELDPENKETYEKNAEAYLKKLNKLDEEAKAKLS 187
Query: 184 PV-EKKKIIVFHEAYRYFASHYNL-SIVTFPMSHSVFMGAASLRNIRSKIISDKISCLFY 241
+ ++ ++ H A+ Y A Y L + +S L + I I +F
Sbjct: 188 KIPAQRDVVTSHGAFGYLARDYGLKQVAIAGISPEAEPSPKDLAKLVDLIKKKNIKAIFV 247
Query: 242 GPEFDSKIIRSITNDTGV-MSAILDPEGMLIAEGPE-LYFQLMRSMSNSIAKNCS 294
SK ++ +TGV + +L + + + Y +M++ ++I +
Sbjct: 248 ESNVSSKSAETLAKETGVKILGLLYLDSLGDKDSKGDTYISMMKANLDTIVEGLK 302
>gnl|CDD|29736 cd01017, AdcA, Metal binding protein AcdA. These proteins have
been shown to function in the ABC uptake of Zn2+ and
Mn2+ and in competence for genetic transformation and
adhesion. The AcdA proteins belong to the TroA
superfamily of helical backbone metal receptor proteins
that share a distinct fold and ligand binding mechanism.
They are comprised of two globular subdomains connected
by a long alpha helix and they bind their ligand in the
cleft between these domains. In addition, many of these
proteins have a low complexity region containing metal
binding histidine-rich motif (repetitive HDH sequence)..
Length = 282
Score = 133 bits (337), Expect = 5e-32
Identities = 76/273 (27%), Positives = 122/273 (44%), Gaps = 12/273 (4%)
Query: 21 AGSLQVVVSIKPIHSIVSCIMQGIGTPALLVKGASSPHEYSLRISEAMMLENADIIFWLG 80
+G L+VV + P++ I L++ + PH++ + + +AD+ + G
Sbjct: 1 SGKLKVVTTFYPLYEFTKAIGGDKADVKLIIPAGTEPHDFEPSPKDIARIADADVFVYNG 60
Query: 81 AEMESFLVKPLHSL-NKQSNVVTLSHSPDLHRILLRDN---HSHFHDSEADDLHLWLNPL 136
ME++ K L SL NK+ VV S L + ++ HSH H D H+WL+P+
Sbjct: 61 LGMETWAEKVLKSLQNKKLKVVEASKGIKLLKAGGAEHDHDHSHSHHHGDYDPHVWLSPV 120
Query: 137 NVQYIAHVIAMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQPVEKKKIIVFHEA 196
I LIK DP NK YEKN + +L LD+E + L + K + H A
Sbjct: 121 LAIQQVENIKDALIKLDPDNKEYYEKNAAAYAKKLEALDQEYRAKLAKAKGKTFVTQHAA 180
Query: 197 YRYFASHYNL---SIVTFPMSHSVFMGAASLRNIRSKIISDKISCLFYGPEFDSKIIRSI 253
+ Y A Y L +IV +S V L + + + +F+ SKI ++
Sbjct: 181 FGYLARRYGLKQIAIVG--VSPEVEPSPKQLAELVEFVKKSDVKYIFFEENASSKIAETL 238
Query: 254 TNDTGVMSAILDP-EGMLIAE--GPELYFQLMR 283
+TG +L+P E + E + YF LM+
Sbjct: 239 AKETGAKLLVLNPLETLTKEEIDDGKDYFSLMK 271
>gnl|CDD|29737 cd01018, ZntC, Metal binding protein ZntC. These proteins are
predicted to function as initial receptors in ABC
transport of metal ions. They belong to the TroA
superfamily of helical backbone metal receptor proteins
that share a distinct fold and ligand binding mechanism.
They are comprised of two globular subdomains connected
by a long alpha helix and bind their specific ligands in
the cleft between these domains. In addition, many of
these proteins possess a metal-binding histidine-rich
motif (repetitive HDH sequence)..
Length = 266
Score = 123 bits (309), Expect = 7e-29
Identities = 68/250 (27%), Positives = 110/250 (44%), Gaps = 9/250 (3%)
Query: 23 SLQVVVSIKPIHSIVSCIMQGIGTPALLVKGASSPHEYSLRISEAMMLENADIIFWLGAE 82
V VSI+P V I +LV S+PH Y + + L AD+ F +G
Sbjct: 2 KPTVAVSIEPQKYFVEKIAGDTVDVVVLVPPGSNPHTYEPKPQQMKKLSEADLYFRIGLG 61
Query: 83 MESFLVKPLHSLNKQSNVVTLSHSPDLHRILLRDNHSHFHDSEAD------DLHLWLNPL 136
E ++ S N + VV +S L I + D+H H H D H+WL+P
Sbjct: 62 FEEVWLERFRSNNPKMQVVNMSKGITL--IPMADHHHHHHGEHEHHHHGNYDPHIWLSPA 119
Query: 137 NVQYIAHVIAMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQPVEKKKIIVFHEA 196
N + +A I L + DP+N Y+ N + +L LD E+ +IL ++++ +V+H A
Sbjct: 120 NAKIMAENIYEALAELDPQNATYYQANLDALLAELDALDSEIRTILSKLKQRAFMVYHPA 179
Query: 197 YRYFASHYNLSIVTFPMSHSVFMGAASLRNIRSKIISDKISCLFYGPEFDSKIIRSITND 256
+ YFA Y L+ + A L+ + + +F P+F +K +I +
Sbjct: 180 WGYFARDYGLTQIPIEEEG-KEPSPADLKRLIDLAKEKGVRVVFVQPQFSTKSAEAIARE 238
Query: 257 TGVMSAILDP 266
G +DP
Sbjct: 239 IGAKVVTIDP 248
>gnl|CDD|29740 cd01137, PsaA, Metal binding protein PsaA. These proteins have
been shown to function as initial receptors in ABC
transport of Mn2+ and as surface adhesins in some
eubacterial species. They belong to the TroA
superfamily of periplasmic metal binding proteins that
share a distinct fold and ligand binding mechanism. A
typical TroA protein is comprised of two globular
subdomains connected by a single helix and can bind the
metal ion in the cleft between these domains. In
addition, these proteins sometimes have a low complexity
region containing a metal-binding histidine-rich motif
(repetitive HDH sequence)..
Length = 287
Score = 120 bits (302), Expect = 5e-28
Identities = 67/285 (23%), Positives = 122/285 (42%), Gaps = 19/285 (6%)
Query: 16 SSVARAGSLQVVVSIKPIHSIVSCIMQGIGTPAL----LVKGASSPHEYSLRISEAMMLE 71
S A L+VV + SI++ I + I + +V + PHEY S+ L
Sbjct: 10 SPATAASKLKVVATF----SILADIARNIAGDRVNVTSIVPPGADPHEYEPTPSDIKKLS 65
Query: 72 NADIIFWLGAEMESFLVKPLHSLNKQSNVVTLSHSPDLHRILLRDNHSHFHDSEADDLHL 131
AD+I + G +E +L + + + K VV +S D + H D H
Sbjct: 66 KADLILYNGLNLEPWLERLVKNAGKDVPVVAVSEGIDPIPL------EEGHYKGKPDPHA 119
Query: 132 WLNPLNVQYIAHVIAMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQ--PVEKKK 189
W++P N IA L + DP N Y+KN +K +L LD+ + P EK+K
Sbjct: 120 WMSPKNAIIYVKNIAKALSEADPANAETYQKNAAAYKAKLKALDEWAKAKFATIPAEKRK 179
Query: 190 IIVFHEAYRYFASHYNL-SIVTFPMSHSVFMGAASLRNIRSKIISDKISCLFYGPEFDSK 248
++ A+ YFA Y L +P++ + + ++ +K+ +F + +
Sbjct: 180 LVTSEGAFSYFAKAYGLKEAYLWPINTEEEGTPKQVATLIEQVKKEKVPAVFVESTVNDR 239
Query: 249 IIRSITNDTGV-MSAILDPEGMLIAEGP-ELYFQLMRSMSNSIAK 291
+++ + +TG + L + + GP + Y +M ++I +
Sbjct: 240 LMKQVAKETGAKIGGQLYTDSLSEKGGPADTYLDMMEHNLDTIVE 284
>gnl|CDD|29748 cd01145, TroA_c, Periplasmic binding protein TroA_c. These
proteins are predicted to function as initial receptors
in the ABC metal ion uptake in eubacteria and archaea.
They belong to the TroA superfamily of helical backbone
metal receptor proteins that share a distinct fold and
ligand binding mechanism. A typical TroA protein is
comprised of two globular subdomains connected by a
single helix and can bind their ligands in the cleft
between these domains..
Length = 203
Score = 80.5 bits (198), Expect = 5e-16
Identities = 47/193 (24%), Positives = 88/193 (45%), Gaps = 14/193 (7%)
Query: 24 LQVVVSIKPIHSIVSCIMQGIGTPALLVKGASSPHEYSLRISEAMMLENADIIFWLGAEM 83
L VVV+ + +V + + L PH+Y L+ S+ + AD++ G E+
Sbjct: 3 LNVVVTFPDLKDLVREVAGDAVIVSALTPPGVDPHQYQLKPSDIAKMRKADLVVTSGHEL 62
Query: 84 ESFLVKPLHSLNKQSNV-------VTLSHSPDLHRILLRDNHSHFHDSEADDLHLWLNPL 136
E F K L L+ S V + S + + + D H + H+WL+P
Sbjct: 63 EGFEPK-LAELSSNSKVQPGIKILIEDSDTVGMVDRAMGDYHGK------GNPHVWLDPN 115
Query: 137 NVQYIAHVIAMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQPVEKKKIIVFHEA 196
N +A +A LI+ DP + Y++N F +L++L +E + ++ +++ +H +
Sbjct: 116 NAPALAKALADALIELDPSEQEEYKENLRVFLAKLNKLLREWERQFEGLKGIQVVAYHPS 175
Query: 197 YRYFASHYNLSIV 209
Y+Y A + +V
Sbjct: 176 YQYLADWLGIEVV 188
>gnl|CDD|29735 cd01016, TroA, Metal binding protein TroA. These proteins have been
shown to function as initial receptors in ABC transport
of Zn2+ and possibly Fe3+ in many eubacterial species.
The TroA proteins belong to the TroA superfamily of
periplasmic metal binding proteins that share a distinct
fold and ligand binding mechanism. A typical TroA
protein is comprised of two globular subdomains
connected by a single helix and can bind the metal ion
in the cleft between these domains. In addition, these
proteins sometimes have a low complexity region
containing a metal-binding histidine-rich motif
(repetitive HDH sequence)..
Length = 276
Score = 77.2 bits (190), Expect = 4e-15
Identities = 55/258 (21%), Positives = 101/258 (39%), Gaps = 16/258 (6%)
Query: 24 LQVVVSIKPIHSIVSCIMQGIGTPALLVKGASSPHEYSLRISEAMMLENADIIFWLGAEM 83
VV + I V I L+ PH Y + L+NAD++F+ G +
Sbjct: 2 PNVVTTTGMIADAVENIGGDHVEVTGLMGPGVDPHLYKATAGDVEKLQNADVVFYNGLHL 61
Query: 84 ESFLVKPLHSLNKQSNVVTLSHSPDLHRILLRDNHSHFHDSEADDLHLWLNPLNVQYIAH 143
E + L L +V+ L + D +++L + + D H+W + +Y
Sbjct: 62 EGKMSDVLSKLGSSKSVIALEDTLDRSQLILDEEEGTY------DPHIWFDVKLWKYAVK 115
Query: 144 VIAMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQ--PVEKKKIIVFHEAYRYFA 201
+A L +K P +K ++ N E + +L LD + P +++ ++ H+A+ YF
Sbjct: 116 AVAEVLSEKLPEHKDEFQANSEAYVEELDSLDAYAKKKIAEIPEQQRVLVTAHDAFGYFG 175
Query: 202 SHYNLSIVTFP-MSHSVFMGAASLRNIRSKIISDKISCLFYGPEFDSKIIRSITNDTGVM 260
Y + +S G + + I+ KI +F + K I ++
Sbjct: 176 RAYGFEVKGLQGISTDSEAGLRDINELVDLIVERKIKAIFVESSVNQKSIEALQ------ 229
Query: 261 SAILDPEGMLIAEGPELY 278
+ G + G ELY
Sbjct: 230 -DAVKARGHDVQIGGELY 246
>gnl|CDD|29739 cd01020, TroA_b, Metal binding protein TroA_b. These proteins are
predicted to function as initial receptors in ABC
transport of metal ions. They belong to the TroA
superfamily of helical backbone metal receptor proteins
that share a distinct fold and ligand binding mechanism.
A typical TroA protein is comprised of two globular
subdomains connected by a single helix and can bind the
metal ion in the cleft between these domains. In
addition, these proteins sometimes have a low complexity
region containing a metal-binding histidine-rich motif
(repetitive HDH sequence)..
Length = 264
Score = 71.5 bits (175), Expect = 3e-13
Identities = 45/239 (18%), Positives = 88/239 (36%), Gaps = 20/239 (8%)
Query: 22 GSLQVVVSIKPIHSIVSCIMQGIGTPALLVKGAS-SPHEYSLRISEAMMLENADIIFWLG 80
G + VV S S+ + ++ PH++ ++A + ADI+ + G
Sbjct: 1 GKINVVASTNFWGSVAEAVGGDHVEVTSIITNPDVDPHDFEPTPTDAAKVSTADIVVYNG 60
Query: 81 AEMESFLVKPLHSLNKQSNVVTLSHSPDLHRILLRDNHSHFHDSEADDLHLWLNPLNVQY 140
+ ++ K L I++ + D E D+ HLW +P +
Sbjct: 61 GGYDPWMTKLLA--------------DTKDVIVIAADLDGHDDKEGDNPHLWYDPETMSK 106
Query: 141 IAHVIAMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQPVEKKKIIVFHEAYRYF 200
+A+ +A L+K DP NK Y+ N ++F L L ++ + + + + Y
Sbjct: 107 VANALADALVKADPDNKKYYQANAKKFVASLKPLAAKIAELSAKYKGAPVAATEPVFDYL 166
Query: 201 ASHYNLSIVTFPMSHSVFMG-----AASLRNIRSKIISDKISCLFYGPEFDSKIIRSIT 254
+ T + A + ++ I + +I L P+ S +IT
Sbjct: 167 LDALGMKERTPKGYTATTESETEPSPADIAAFQNAIKNRQIDALIVNPQQASSATTNIT 225
>gnl|CDD|38741 KOG3533, KOG3533, KOG3533, Inositol 1,4,5-trisphosphate receptor
[Signal transduction mechanisms].
Length = 2706
Score = 31.1 bits (70), Expect = 0.37
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 170 QLSQLDKELHSILQPVEKKKIIVFHEAYRYFASH 203
QL++ +KEL L+P ++KK + EA Y+A H
Sbjct: 2140 QLARHNKELQIWLKPSDEKKDDLTREALNYYAEH 2173
>gnl|CDD|164574 CHL00198, accA, acetyl-CoA carboxylase carboxyltransferase alpha
subunit; Provisional.
Length = 322
Score = 30.9 bits (70), Expect = 0.40
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 146 AMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQPVEK 187
EL K P+N + + F+ +L L KE+ L P+++
Sbjct: 22 VEELSKLAPKNDKVINNKLKSFQRKLRILKKEIFYSLTPLQR 63
>gnl|CDD|73072 cd02666, Peptidase_C19J, A subfamily of Peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyze bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome..
Length = 343
Score = 30.0 bits (67), Expect = 0.79
Identities = 23/121 (19%), Positives = 40/121 (33%), Gaps = 2/121 (1%)
Query: 83 MESFLVKPLHSLNKQSNVVTLSHSPDLHRILLR--DNHSHFHDSEADDLHLWLNPLNVQY 140
E FL + K +V L DL+ L R D S + + L +
Sbjct: 165 TERFLSLLVDVGKKGREIVVLLEPKDLYDALDRYFDYDSLTKLPQRSQVQAQLAQPLQRE 224
Query: 141 IAHVIAMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQPVEKKKIIVFHEAYRYF 200
+ + EL + + + + + Q EL + +EK+ + YR
Sbjct: 225 LISMDRYELPSSIDDIDELIREAIQSESSLVRQAQNELAELKHEIEKQFDDLKSYGYRLH 284
Query: 201 A 201
A
Sbjct: 285 A 285
>gnl|CDD|146070 pfam03251, Tymo_45kd_70kd, Tymovirus 45/70Kd protein. Tymoviruses
are single stranded RNA viruses. This family includes a
protein of unknown function that has been named based on
its molecular weight. Tymoviruses such as the ononis
yellow mosaic tymovirus encode only three proteins. Of
these two are overlapping this protein overlaps a larger
ORF that is thought to be the polymerase.
Length = 458
Score = 28.5 bits (64), Expect = 1.9
Identities = 13/38 (34%), Positives = 15/38 (39%), Gaps = 3/38 (7%)
Query: 90 PLHSLNKQSNVVTLSHSPD---LHRILLRDNHSHFHDS 124
P+H L K S V LHR L H H+S
Sbjct: 158 PVHELPKPSTPVLQPRRSPRKQLHRPLSLPRSLHLHNS 195
>gnl|CDD|39667 KOG4466, KOG4466, KOG4466, Component of histone deacetylase complex
(breast carcinoma metastasis suppressor 1 protein in
human) [Cell cycle control, cell division, chromosome
partitioning, Transcription].
Length = 291
Score = 28.4 bits (63), Expect = 2.4
Identities = 11/38 (28%), Positives = 19/38 (50%)
Query: 146 AMELIKKDPRNKIIYEKNEEEFKNQLSQLDKELHSILQ 183
A E + K E E+ +K++L+QL +L + Q
Sbjct: 19 ANEESEMSNLEKQFSELKEQMYKDKLAQLQAQLEELGQ 56
>gnl|CDD|35801 KOG0581, KOG0581, KOG0581, Mitogen-activated protein kinase kinase
(MAP2K) [Signal transduction mechanisms].
Length = 364
Score = 27.6 bits (61), Expect = 4.0
Identities = 16/74 (21%), Positives = 33/74 (44%), Gaps = 12/74 (16%)
Query: 157 KIIYEKNEEEFKNQLSQLDKELHSILQPVEKKKIIVFHEAYRYFASHYNLSIVTFPMSHS 216
K+I + + Q+ + EL IL+ + I+ F+ A ++++ +SI
Sbjct: 110 KVILLNIDPALQKQILR---EL-EILRSCQSPYIVGFYGA--FYSNGEEISICM------ 157
Query: 217 VFMGAASLRNIRSK 230
+M SL +I +
Sbjct: 158 EYMDGGSLDDILKR 171
>gnl|CDD|31181 COG0839, NuoJ, NADH:ubiquinone oxidoreductase subunit 6 (chain J)
[Energy production and conversion].
Length = 166
Score = 27.5 bits (61), Expect = 4.9
Identities = 11/44 (25%), Positives = 24/44 (54%)
Query: 6 IILIFLFFILSSVARAGSLQVVVSIKPIHSIVSCIMQGIGTPAL 49
+I F++ + +A A +L VV++ P++S + + + AL
Sbjct: 2 MIETLAFYLFAVLAIAFALGVVLAKNPVYSALYLALTLLSIAAL 45
>gnl|CDD|146639 pfam04108, APG17, Autophagy protein Apg17. Apg17 is required for
activating Apg1 protein kinases.
Length = 410
Score = 27.3 bits (61), Expect = 5.4
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 5/42 (11%)
Query: 147 MELIKKDPRN--KIIYEKNEEEFKNQLSQLDK---ELHSILQ 183
+ L+ K R+ I E + F + +QLD L S L
Sbjct: 53 LRLLYKIVRSTALIRTEWGQSVFVDLQNQLDAADARLESTLD 94
>gnl|CDD|36238 KOG1020, KOG1020, KOG1020, Sister chromatid cohesion protein
SCC2/Nipped-B [Chromatin structure and dynamics, Cell
cycle control, cell division, chromosome partitioning,
Replication, recombination and repair].
Length = 1692
Score = 26.9 bits (59), Expect = 6.4
Identities = 27/146 (18%), Positives = 47/146 (32%), Gaps = 11/146 (7%)
Query: 155 RNKIIYEKNEEEFKNQLSQLDKELHSILQPVEKKKIIVFHEA---YRYFASHYNLS-IVT 210
E E K LS++ + S P + +A Y A + S
Sbjct: 756 LAYEKVITVENELKYILSKIKDKEKSGRGPKLNSRFADDDDAKLIVFYLAHARSFSQSFD 815
Query: 211 FPMSHSVFMGAASLRNIRSK------IISDKISCLFYGPEFDSKII-RSITNDTGVMSAI 263
+ + + + +R+K +I + + P+ + R + V A
Sbjct: 816 PYLKLILSVLGENAIALRTKALKCLSMIVEADPSVLSRPDVQEAVHGRLNDSSASVREAA 875
Query: 264 LDPEGMLIAEGPELYFQLMRSMSNSI 289
LD G + PEL FQ + I
Sbjct: 876 LDLVGRFVLSIPELIFQYYDQIIERI 901
>gnl|CDD|30582 COG0233, Frr, Ribosome recycling factor [Translation, ribosomal
structure and biogenesis].
Length = 187
Score = 26.7 bits (59), Expect = 7.3
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 146 AMELIKKDPRNKIIYE----KNEEEFKNQLSQLDKELHSILQPVEKK 188
A + IKK ++K I E K EEE + + K++ +L+ EK+
Sbjct: 137 ANDKIKKLEKDKEISEDEVKKAEEEIQKLTDEYIKKIDELLKDKEKE 183
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.322 0.136 0.392
Gapped
Lambda K H
0.267 0.0717 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,535,589
Number of extensions: 189334
Number of successful extensions: 724
Number of sequences better than 10.0: 1
Number of HSP's gapped: 701
Number of HSP's successfully gapped: 29
Length of query: 294
Length of database: 6,263,737
Length adjustment: 93
Effective length of query: 201
Effective length of database: 4,254,100
Effective search space: 855074100
Effective search space used: 855074100
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 (21.9 bits)
S2: 57 (25.8 bits)