RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7482
(327 letters)
>gnl|CDD|238121 cd00200, WD40, WD40 domain, found in a number of eukaryotic
proteins that cover a wide variety of functions
including adaptor/regulatory modules in signal
transduction, pre-mRNA processing and cytoskeleton
assembly; typically contains a GH dipeptide 11-24
residues from its N-terminus and the WD dipeptide at its
C-terminus and is 40 residues long, hence the name WD40;
between GH and WD lies a conserved core; serves as a
stable propeller-like platform to which proteins can
bind either stably or reversibly; forms a propeller-like
structure with several blades where each blade is
composed of a four-stranded anti-parallel b-sheet;
instances with few detectable copies are hypothesized to
form larger structures by dimerization; each WD40
sequence repeat forms the first three strands of one
blade and the last strand in the next blade; the last
C-terminal WD40 repeat completes the blade structure of
the first WD40 repeat to create the closed ring
propeller-structure; residues on the top and bottom
surface of the propeller are proposed to coordinate
interactions with other proteins and/or small ligands; 7
copies of the repeat are present in this alignment.
Length = 289
Score = 90.1 bits (224), Expect = 1e-20
Identities = 52/198 (26%), Positives = 94/198 (47%), Gaps = 14/198 (7%)
Query: 11 HSHTASVRSVA--ATSKLAASSGADETVVLYDMVKRKQSGALMQHEGTITCLKFTPEGSH 68
HT+ V SVA ++ +SS D+T+ ++D+ K L H + + F+P+G+
Sbjct: 90 TGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTF 149
Query: 69 LISCSDDGSIAIFRVGSWQLEKLFKKAHKGTAVNHISIHPSGKLALSVGKDKTLRTWNLV 128
+ S S DG+I ++ + + + H G VN ++ P G+ LS D T++ W+L
Sbjct: 150 VASSSQDGTIKLWDLRTGKCVATL-TGHTG-EVNSVAFSPDGEKLLSSSSDGTIKLWDLS 207
Query: 129 KGRSAYITNLSSYGVGFEN-LDSVVWSPEG-LLYAIPIQNKAVVFSVEKAGVLQTLKS-E 185
G+ G EN ++SV +SP+G LL + V+ + +QTL
Sbjct: 208 TGKCLGT------LRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHT 261
Query: 186 SKVHSVCFLNE-TTVCTG 202
+ V S+ + + + +G
Sbjct: 262 NSVTSLAWSPDGKRLASG 279
Score = 89.7 bits (223), Expect = 1e-20
Identities = 58/240 (24%), Positives = 110/240 (45%), Gaps = 16/240 (6%)
Query: 13 HTASVRSVA--ATSKLAASSGADETVVLYDMVKRKQSGALMQHEGTITCLKFTPEGSHLI 70
HT VR VA A AS +D+T+ L+D+ + L H ++ + F+P+G L
Sbjct: 50 HTGPVRDVAASADGTYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILS 109
Query: 71 SCSDDGSIAIFRVGSWQLEKLFKKAHKGTAVNHISIHPSGKLALSVGKDKTLRTWNLVKG 130
S S D +I ++ V + + + H VN ++ P G S +D T++ W+L G
Sbjct: 110 SSSRDKTIKVWDVETGKCLTTL-RGHTDW-VNSVAFSPDGTFVASSSQDGTIKLWDLRTG 167
Query: 131 RSAYITNLSSYGVGFEN-LDSVVWSPEGLLYAIPIQNKAV-VFSVEKAGVLQTLKS-ESK 187
+ + L+ G ++SV +SP+G + + ++ + L TL+ E+
Sbjct: 168 KC--VATLT----GHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENG 221
Query: 188 VHSVCFL-NETTVCTGNEESAITAYNLTDGSHLWQIKASASRIKGLVFFSIPQETTVCTG 246
V+SV F + + +G+E+ I ++L G + + + + L + P + +G
Sbjct: 222 VNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWS--PDGKRLASG 279
Score = 88.5 bits (220), Expect = 3e-20
Identities = 58/285 (20%), Positives = 126/285 (44%), Gaps = 14/285 (4%)
Query: 12 SHTASVRSVA--ATSKLAASSGADETVVLYDMVKRKQSGALMQHEGTITCLKFTPEGSHL 69
HT V VA KL A+ D T+ ++D+ + L H G + + + +G++L
Sbjct: 7 GHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYL 66
Query: 70 ISCSDDGSIAIFRVGSWQLEKLFKKAHKGTAVNHISIHPSGKLALSVGKDKTLRTWNLVK 129
S S D +I ++ + + + + H V+ ++ P G++ S +DKT++ W++
Sbjct: 67 ASGSSDKTIRLWDLETGECVRTL-TGHTS-YVSSVAFSPDGRILSSSSRDKTIKVWDVET 124
Query: 130 GRSAYITNLSSYGVGFENLDSVVWSPEGLLYAIPIQNKAV-VFSVEKAGVLQTLKS-ESK 187
G+ + V +SV +SP+G A Q+ + ++ + + TL +
Sbjct: 125 GKCLTTLRGHTDWV-----NSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGE 179
Query: 188 VHSVCFL-NETTVCTGNEESAITAYNLTDGSHLWQIKASASRIKGLVFFSIPQETTVCTG 246
V+SV F + + + + + I ++L+ G L ++ + + + F P + +G
Sbjct: 180 VNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFS--PDGYLLASG 237
Query: 247 NEESAITAYNLTDGSHLWHIKASASRIKGLASHRNHLICITSAGD 291
+E+ I ++L G + + + + LA + + + D
Sbjct: 238 SEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSAD 282
Score = 85.1 bits (211), Expect = 6e-19
Identities = 46/157 (29%), Positives = 71/157 (45%), Gaps = 9/157 (5%)
Query: 3 TLTQTFVTHSHTASVRSVAA--TSKLAASSGADETVVLYDMVKRKQSGALMQHEGTITCL 60
T HT V SVA ASS D T+ L+D+ K L H G + +
Sbjct: 124 TGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSV 183
Query: 61 KFTPEGSHLISCSDDGSIAIFRVGSWQLEKLFKKAHKGTAVNHISIHPSGKLALSVGKDK 120
F+P+G L+S S DG+I ++ + + + + H+ VN ++ P G L S +D
Sbjct: 184 AFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTL-RGHEN-GVNSVAFSPDGYLLASGSEDG 241
Query: 121 TLRTWNLVKGRSAYITNLSSYGVGFENLDSVVWSPEG 157
T+R W+L G + + V S+ WSP+G
Sbjct: 242 TIRVWDLRTGECVQTLSGHTNSVT-----SLAWSPDG 273
Score = 69.7 bits (171), Expect = 1e-13
Identities = 37/125 (29%), Positives = 59/125 (47%), Gaps = 6/125 (4%)
Query: 4 LTQTFVTHSHTASVRSVAATSKLA--ASSGADETVVLYDMVKRKQSGALMQHEGTITCLK 61
T HT V SVA + SS +D T+ L+D+ K G L HE + +
Sbjct: 169 CVATL--TGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVA 226
Query: 62 FTPEGSHLISCSDDGSIAIFRVGSWQLEKLFKKAHKGTAVNHISIHPSGKLALSVGKDKT 121
F+P+G L S S+DG+I ++ + + + + H +V ++ P GK S D T
Sbjct: 227 FSPDGYLLASGSEDGTIRVWDLRTGECVQTLS-GHTN-SVTSLAWSPDGKRLASGSADGT 284
Query: 122 LRTWN 126
+R W+
Sbjct: 285 IRIWD 289
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 73.6 bits (179), Expect = 1e-14
Identities = 77/298 (25%), Positives = 134/298 (44%), Gaps = 21/298 (7%)
Query: 13 HTASVRSVAATSK---LAASSGADETVVLYDMVKRKQSGALMQHEGTITCLKFTPEGSHL 69
H+ SV S+A + LA+ S D T+ L+D+ K L H ++ L F+P+G L
Sbjct: 154 HSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLL 213
Query: 70 I-SCSDDGSIAIFRVGSWQLEKLFKKAHKGTAVNHISIHPSGKLALSVGKDKTLRTWNLV 128
I S S DG+I ++ + + +L + H + V+ S P G L S D T+R W+L
Sbjct: 214 IASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVS--SFSPDGSLLASGSSDGTIRLWDLR 271
Query: 129 KGRSAYITNLSSYGVGFENLDSVVWSPEG-LLYAIPIQNKAVVFSVEKAGVLQTLK---S 184
S T ++ SV +SP+G LL + ++ +E +L +L
Sbjct: 272 SSSSLLRTLSGHS----SSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGH 327
Query: 185 ESKVHSVCFL--NETTVCTGNEESAITAYNLTDGSHLWQIKASASRIKGLVFFSIPQETT 242
E V S+ F V G+++ I ++L G L ++ S + + F P
Sbjct: 328 EGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGH-SNVLSVSFS--PDGRV 384
Query: 243 VCTGNEESAITAYNLTDGSHLWHIKASASRIKGLASHRN--HLICITSAGDLVVWELN 298
V +G+ + + ++L+ GS L ++ SR+ L + L +S + +W+L
Sbjct: 385 VSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRLWDLK 442
Score = 61.6 bits (148), Expect = 1e-10
Identities = 51/223 (22%), Positives = 95/223 (42%), Gaps = 12/223 (5%)
Query: 1 KYTLTQTFVTHSHTASVRSVAATSKLAASSGADETVVLYDM-VKRKQSGALMQHEGTITC 59
L T HS + V S + L AS +D T+ L+D+ L H ++
Sbjct: 231 GKLLRSTLSGHS-DSVVSSFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLS 289
Query: 60 LKFTPEGSHLISCSDDGSIAIFRVGSWQLEKLFKKAHKGTAVNHISIHPSG-KLALSVGK 118
+ F+P+G L S S DG++ ++ + + +L V+ +S P G L
Sbjct: 290 VAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSD 349
Query: 119 DKTLRTWNLVKGRSAYITNLSSYGVGFENLDSVVWSPEGLLYAI-PIQNKAVVFSVEKAG 177
D T+R W+L G+ S N+ SV +SP+G + + ++ +
Sbjct: 350 DGTIRLWDLRTGKPLKTLEGHS------NVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGS 403
Query: 178 VLQTLKS-ESKVHSVCFLNET-TVCTGNEESAITAYNLTDGSH 218
+L+ L S+V S+ F + ++ +G+ ++ I ++L
Sbjct: 404 LLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRLWDLKTSLK 446
Score = 56.3 bits (134), Expect = 8e-09
Identities = 60/294 (20%), Positives = 117/294 (39%), Gaps = 19/294 (6%)
Query: 42 VKRKQSGALMQHEGTITCLKFTPEGSHLISCSDDGSIAIFRV-GSWQLEKLFKKAHKGTA 100
+ S L HE +IT + F+P+G L+S S DG+I ++ + +L K + H +
Sbjct: 53 LPDLSSLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSV 112
Query: 101 VNHISIHPSGK--LALSVGKDKTLRTWNLVKGRSAYITNLSSYGVGFENLDSVVWSPEGL 158
P G L S D T++ W+L T E++ S+ +SP+G
Sbjct: 113 SKLALSSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHS----ESVTSLAFSPDGK 168
Query: 159 LYAIPIQ--NKAVVFSVEKAGVLQTLK-SESKVHSVCF--LNETTVCTGNEESAITAYNL 213
L A ++ + L TL V S+ F + +G+ + I ++L
Sbjct: 169 LLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDL 228
Query: 214 TDGSHLWQIKASASRIKGLVFFSIPQETTVCTGNEESAITAYNL-TDGSHLWHIKASASR 272
+ G L + S F P + + +G+ + I ++L + S L + +S
Sbjct: 229 STGKLLRSTLSGHSDSVVSSFS--PDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSS 286
Query: 273 IKGLASHRNHLICITSAGD--LVVWELNEDVTREPQRVSATNDGCRFTCLAIRP 324
+ +A + + + + D + +W+L + ++ + L+ P
Sbjct: 287 VLSVAFSPDGKLLASGSSDGTVRLWDLETG--KLLSSLTLKGHEGPVSSLSFSP 338
Score = 37.4 bits (85), Expect = 0.009
Identities = 23/89 (25%), Positives = 40/89 (44%), Gaps = 2/89 (2%)
Query: 6 QTFVTHSHTASVRSVA--ATSKLAASSGADETVVLYDMVKRKQSGALMQHEGTITCLKFT 63
+ T ++V SV+ ++ +S D TV L+D+ L H +T L F+
Sbjct: 362 KPLKTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFS 421
Query: 64 PEGSHLISCSDDGSIAIFRVGSWQLEKLF 92
P+G L S S D +I ++ + + F
Sbjct: 422 PDGKSLASGSSDNTIRLWDLKTSLKSVSF 450
>gnl|CDD|197651 smart00320, WD40, WD40 repeats. Note that these repeats are
permuted with respect to the structural repeats
(blades) of the beta propeller domain.
Length = 40
Score = 40.8 bits (96), Expect = 2e-05
Identities = 14/32 (43%), Positives = 22/32 (68%)
Query: 50 LMQHEGTITCLKFTPEGSHLISCSDDGSIAIF 81
L H G +T + F+P+G +L S SDDG+I ++
Sbjct: 8 LKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
Score = 32.7 bits (75), Expect = 0.016
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 94 KAHKGTAVNHISIHPSGKLALSVGKDKTLRTWN 126
K H G V ++ P GK S D T++ W+
Sbjct: 9 KGHTG-PVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 26.5 bits (59), Expect = 2.2
Identities = 13/40 (32%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 3 TLTQTFVTHSHTASVRSVA--ATSKLAASSGADETVVLYD 40
+ HT V SVA K AS D T+ L+D
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 39.3 bits (92), Expect = 6e-05
Identities = 14/38 (36%), Positives = 23/38 (60%)
Query: 44 RKQSGALMQHEGTITCLKFTPEGSHLISCSDDGSIAIF 81
K L H G +T + F+P+G+ L S SDDG++ ++
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 33.5 bits (77), Expect = 0.008
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 94 KAHKGTAVNHISIHPSGKLALSVGKDKTLRTWN 126
K H G V ++ P G L S D T+R W+
Sbjct: 8 KGHTG-PVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 28.1 bits (63), Expect = 0.66
Identities = 13/38 (34%), Positives = 15/38 (39%), Gaps = 2/38 (5%)
Query: 5 TQTFVTHSHTASVRSVA--ATSKLAASSGADETVVLYD 40
HT V SVA L AS D TV ++D
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
>gnl|CDD|224437 COG1520, COG1520, FOG: WD40-like repeat [Function unknown].
Length = 370
Score = 34.9 bits (80), Expect = 0.045
Identities = 14/78 (17%), Positives = 24/78 (30%), Gaps = 7/78 (8%)
Query: 201 TGNEESAITAYNLTDGSHLWQIKASA----SRIKGLVFFSIPQ---ETTVCTGNEESAIT 253
+ + + A N DG+ W K S + I + V G+ +
Sbjct: 204 SDGYDGILYALNAEDGTLKWSQKVSQTIGRTAISTTPAVDGGPVYVDGGVYAGSYGGKLL 263
Query: 254 AYNLTDGSHLWHIKASAS 271
+ G +W A S
Sbjct: 264 CLDADTGELIWSFPAGGS 281
Score = 28.7 bits (64), Expect = 4.5
Identities = 19/94 (20%), Positives = 35/94 (37%), Gaps = 2/94 (2%)
Query: 180 QTLKSESKVHSVCFLNETTVCTGNEESAITAYNLTDGSHLWQIKASASRIKGLVFFSIPQ 239
+ + S + + TV G ++ + A N G+ W + A +
Sbjct: 137 RNVGGSPYYASPPVVGDGTVYVGTDDGHLYALNADTGTLKWTYETPAPLSLSIYGSPAIA 196
Query: 240 ETTVCTGNE--ESAITAYNLTDGSHLWHIKASAS 271
TV G++ + + A N DG+ W K S +
Sbjct: 197 SGTVYVGSDGYDGILYALNAEDGTLKWSQKVSQT 230
>gnl|CDD|234163 TIGR03300, assembly_YfgL, outer membrane assembly lipoprotein YfgL.
Members of this protein family are YfgL, a lipoprotein
component of a complex that acts protein insertion into
the bacterial outer membrane. Other members of this
complex are NlpB, YfiO, and YaeT. This protein contains
multiple copies of a repeat that, in other contexts, are
associated with binding of the coenzyme PQQ [Protein
fate, Protein and peptide secretion and trafficking].
Length = 377
Score = 33.8 bits (78), Expect = 0.12
Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 18/77 (23%)
Query: 194 LNETTVCTGNEESAITAYNLTDGSHLWQIKASASRIKGL------VFFSIPQETTVCTGN 247
++ V + + + A +L G LW+ AS+ + G ++ + +
Sbjct: 239 VDGGQVYAVSYQGRVAALDLRSGRVLWKRDASSYQ--GPAVDDNRLYVT----------D 286
Query: 248 EESAITAYNLTDGSHLW 264
+ + A + GS LW
Sbjct: 287 ADGVVVALDRRSGSELW 303
Score = 32.6 bits (75), Expect = 0.28
Identities = 19/71 (26%), Positives = 27/71 (38%), Gaps = 12/71 (16%)
Query: 198 TVCTGNEESAITAYNLTDGSHLWQIKASASRIKGLVFFSIPQ----ETTVCTGNEESAIT 253
V G E+ + A + DG LW+ K S+ S P V T + +T
Sbjct: 107 LVFVGTEKGEVIALDAEDGKELWRAKLSSE------VLSPPLVANGLVVVRTND--GRLT 158
Query: 254 AYNLTDGSHLW 264
A + G LW
Sbjct: 159 ALDAATGERLW 169
Score = 32.2 bits (74), Expect = 0.36
Identities = 24/96 (25%), Positives = 38/96 (39%), Gaps = 11/96 (11%)
Query: 210 AYNLTDGSHLWQ----IKASASRIKGLVFFS---IPQETTVCTGNEESAITAYNLTDGSH 262
A NL G LW+ + + ++ LV + V + + + A +L G
Sbjct: 204 ALNLQTGQPLWEQRVALPKGRTELERLVDVDGDPVVDGGQVYAVSYQGRVAALDLRSGRV 263
Query: 263 LWHIKASASRIKGLASHRNHLICITSAGDLVVWELN 298
LW AS+ + G A N L + G VV L+
Sbjct: 264 LWKRDASSYQ--GPAVDDNRLYVTDADG--VVVALD 295
Score = 31.4 bits (72), Expect = 0.53
Identities = 17/64 (26%), Positives = 26/64 (40%), Gaps = 4/64 (6%)
Query: 208 ITAYNLTDGSHLWQIKASASRIKGLVFFSIPQETTVCTGNEESAITAYNLTDGSHLWHIK 267
+ A + G LW++ R+ G V V G E+ + A + DG LW K
Sbjct: 77 VVALDAETGKRLWRVDLD-ERLSGGVGAD---GGLVFVGTEKGEVIALDAEDGKELWRAK 132
Query: 268 ASAS 271
S+
Sbjct: 133 LSSE 136
>gnl|CDD|222072 pfam13360, PQQ_2, PQQ-like domain. This domain contains several
repeats of the PQQ repeat.
Length = 234
Score = 33.1 bits (76), Expect = 0.12
Identities = 15/94 (15%), Positives = 34/94 (36%), Gaps = 5/94 (5%)
Query: 205 ESAITAYNLTDGSHLWQIKASASRIKGLVFFSIPQETTVCTGNEESAITAYNLTDGSHLW 264
+ + A + G LW++ + + G V + + + A + G LW
Sbjct: 2 DGVVAALDAATGKVLWRVDLGGTALGGGV---AVDGGRLYVATGKGELVALDAATGKLLW 58
Query: 265 HIKASASRIKGLASHRNHLICITSAGDLVVWELN 298
S I G + ++ + +A ++ L+
Sbjct: 59 RKDLS-GEILGAPTVAGGVVVVVTADG-SLYALD 90
Score = 32.0 bits (73), Expect = 0.35
Identities = 30/190 (15%), Positives = 52/190 (27%), Gaps = 21/190 (11%)
Query: 138 LSSYGVGFENLDSVVWSPEGLLYAIPIQNKAVVFSVEKAGVLQTLKSESKVHSVCFLNET 197
L +G L V G LY + + V +L ++ +
Sbjct: 16 LWRVDLGGTALGGGVAVDGGRLYVATGKGELVALDAATGKLLWRKDLSGEILGAPTVAGG 75
Query: 198 TVCTGNEESAITAYNLTDGSHLWQIKASASRIKGL-VFFSIPQETTVCTGNEESAITAYN 256
V + ++ A + G LW + S + TV G + A +
Sbjct: 76 VVVVVTADGSLYALDAETGKLLWSYQRSLPPLTLRGSSSPAIVGDTVIVGFSSGKLVALD 135
Query: 257 LTDGSHLWHIKASASRIKG--------------------LASHRNHLICITSAGDLVVWE 296
G LW +A R +S++ L+ + A V+W
Sbjct: 136 PKTGKVLWEAPVAAPRGGSEIERLVDITGTPVVDGGRVYASSYQGRLVALDLATGKVLWS 195
Query: 297 LNEDVTREPQ 306
P
Sbjct: 196 REISSINGPA 205
>gnl|CDD|220674 pfam10282, Lactonase, Lactonase, 7-bladed beta-propeller. This
entry contains bacterial 6-phosphogluconolactonases
(6PGL)YbhE-type (EC:3.1.1.31) which hydrolyse
6-phosphogluconolactone to 6-phosphogluconate. The entry
also contains the fungal muconate lactonising enzyme
carboxy-cis,cis-muconate cyclase (EC:5.5.1.5) and
muconate cycloisomerase (EC:5.5.1.1), which convert
cis,cis-muconates to muconolactones and vice versa as
part of the microbial beta-ketoadipate pathway.
Structures of proteins in this family have revealed a
7-bladed beta-propeller fold.
Length = 344
Score = 31.8 bits (73), Expect = 0.50
Identities = 15/63 (23%), Positives = 31/63 (49%), Gaps = 5/63 (7%)
Query: 58 TCLKFTPEGSHLISCS---DDGSIAIFRVG--SWQLEKLFKKAHKGTAVNHISIHPSGKL 112
+ L +P+G L + + +DG ++ FR+ + +L L + G + H+S+ P G+
Sbjct: 40 SYLAVSPDGKTLYAVNETGEDGGVSAFRIDPDTGKLTLLNQVPTGGASPCHLSVDPDGRF 99
Query: 113 ALS 115
Sbjct: 100 LFV 102
>gnl|CDD|115119 pfam06442, DHFR_2, R67 dihydrofolate reductase. R67
dihydrofolate reductase is a plasmid encoded enzyme
that provides resistance to the antibacterial drug
trimethoprim. The R67 dihydrofolate reductase does not
share significant similarity to the chromosomal encoded
dihydrofolate reductase.
Length = 78
Score = 28.9 bits (64), Expect = 0.82
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 5/45 (11%)
Query: 44 RKQSGALMQHEGTIT---CLKFTPEGSHLISCSDDGSIAIFRVGS 85
RK+SGA Q G I C TPEG + S S GS+ I+ V +
Sbjct: 31 RKKSGAAWQ--GQIVGWYCTTLTPEGYAVESESHPGSVQIYPVAA 73
>gnl|CDD|199834 cd10276, BamB_YfgL, Beta-barrel assembly machinery (Bam) complex
component B and related proteins. BamB (YflG) is a
non-essential component of the beta-barrel assembly
machinery (Bam), a multi-subunit complex that inserts
proteins with beta-barrel topology into the outer
membrane. BamB has been found to interact with BamA,
which in turn binds and stabilizes pre-folded
beta-barrel proteins; it has been suggested that BamB
participates in the stabilization.
Length = 358
Score = 30.8 bits (70), Expect = 1.1
Identities = 15/67 (22%), Positives = 23/67 (34%), Gaps = 5/67 (7%)
Query: 208 ITAYNLTDGSHLWQIKASASRIKGLVFFSIPQETTVCTGNEESAITAYNLTDGSHLWHIK 267
+ A + G LW KAS S V G+ E ++ + + G LW
Sbjct: 229 LVALDFESGQFLWSRKASGGTS-----TSTDANGRVYVGDGEGSLYCLDASTGDELWSQT 283
Query: 268 ASASRIK 274
R+
Sbjct: 284 VLLGRVL 290
Score = 28.8 bits (65), Expect = 3.9
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 8/69 (11%)
Query: 208 ITAYNLTDGSHLWQIKASASRIKGLVFFSIP---QETTVCTGNEESAITAYNLTDGSHLW 264
++A+N T G +W+ S G F + G E + A + DGS LW
Sbjct: 50 VSAFNATTGKIIWETSLS-----GKGFLGGTPAVGNGKIFVGTESGYLYALDAKDGSELW 104
Query: 265 HIKASASRI 273
+ S S++
Sbjct: 105 RTEVSDSQL 113
>gnl|CDD|143486 cd06811, PLPDE_III_yhfX_like, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzyme yhfX. This subfamily is composed
of the uncharacterized protein yhfX from Escherichia
coli K-12 and similar bacterial proteins. These proteins
are homologous to bacterial alanine racemases (AR),
which are fold type III PLP-dependent enzymes containing
an N-terminal PLP-binding TIM-barrel domain and a
C-terminal beta-sandwich domain. AR exists as homodimers
with active sites that lie at the interface between the
TIM barrel domain of one subunit and the beta-sandwich
domain of the other subunit. It catalyzes the
interconversion between L- and D-alanine, which is an
essential component of the peptidoglycan layer of
bacterial cell walls. Members of this subfamily may act
as PLP-dependent enzymes.
Length = 382
Score = 29.9 bits (68), Expect = 1.6
Identities = 14/36 (38%), Positives = 16/36 (44%), Gaps = 8/36 (22%)
Query: 5 TQTFVTHSHTASVRSVAATSKLAASSGADETVVLYD 40
TQ FVT S A V +A SG V +YD
Sbjct: 352 TQIFVTRSDVALVSGIA--------SGKPRLVGIYD 379
>gnl|CDD|143301 cd05893, Ig_Palladin_C, C-terminal immunoglobulin (Ig)-like domain
of palladin. Ig_Palladin_C: C-terminal immunoglobulin
(Ig)-like domain of palladin. Palladin belongs to the
palladin-myotilin-myopalladin family. Proteins belonging
to this family contain multiple Ig-like domains and
function as scaffolds, modulating actin cytoskeleton.
Palladin binds to alpha-actinin ezrin,
vasodilator-stimulated phosphoprotein VASP, SPIN90 (DIP,
mDia interacting protein), and Src. Palladin also binds
F-actin directly, via its Ig3 domain. Palladin is
expressed as several alternatively spliced isoforms,
having various combinations of Ig-like domains, in a
cell-type-specific manner. It has been suggested that
palladin's different Ig-like domains may be specialized
for distinct functions.
Length = 75
Score = 27.7 bits (61), Expect = 2.2
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 298 NEDVTREPQRVSATNDGCRFTCLAIRP 324
NE +T RVS D C + CL I+
Sbjct: 21 NESLTHNTDRVSMHQDNCGYICLLIQG 47
>gnl|CDD|225333 COG2706, COG2706, 3-carboxymuconate cyclase [Carbohydrate transport
and metabolism].
Length = 346
Score = 28.8 bits (65), Expect = 4.3
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 59 CLKFTPEGSHLISCSDDGS--IAIFRVGSWQLEKLFKKAH--KGTAVNHISIHPSGKLA 113
FTP+G +L+ D G+ I ++ + +L A G HI HP+GK A
Sbjct: 149 SANFTPDGRYLVVP-DLGTDRIFLYDLDDGKLTP-ADPAEVKPGAGPRHIVFHPNGKYA 205
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 28.9 bits (65), Expect = 4.6
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 10/71 (14%)
Query: 187 KVHSVCFLN-------ETTVCTGNEESAIT--AYNLTDGSHLWQIKASASRIKGLVFFSI 237
K+H + LN E + T N++S T +LT + S+ +KGL FS
Sbjct: 494 KIHGI-LLNNTDYQEFEQKIDTFNKKSLSTEINESLTLINKFGAEPKSSLNLKGLSLFSE 552
Query: 238 PQETTVCTGNE 248
P++ + + E
Sbjct: 553 PEQEKINSEEE 563
>gnl|CDD|130875 TIGR01816, sdhA_forward, succinate dehydrogenase, flavoprotein
subunit, E. coli/mitochondrial subgroup. Succinate
dehydrogenase and fumarate reductase are homologous
enzymes reversible in principle but favored under
different circumstances. This model represents a
narrowly defined clade of the succinate dehydrogenase
flavoprotein subunit as found in mitochondria, in
Rickettsia, in E. coli and other Proteobacteria, and in
a few other lineages. However, This model excludes all
known fumarate reductases. It also excludes putative
succinate dehydrogenases that appear to diverged before
the split between E. coli succinate dehydrogenase and
fumarate reductase [Energy metabolism, TCA cycle].
Length = 565
Score = 27.8 bits (62), Expect = 9.1
Identities = 22/82 (26%), Positives = 32/82 (39%), Gaps = 18/82 (21%)
Query: 178 VLQTLKSESKVHSVCFLNETTV---------CTGNEESAITAYNLTDGS-HLWQIKAS-- 225
+L TL ++ F NE C G + AY L G H ++ KA
Sbjct: 121 ILHTLYQQNLKADTSFFNEYFALDLLMEDGECRG-----VIAYCLETGEIHRFRAKAVVL 175
Query: 226 ASRIKGLVFFSIPQETTVCTGN 247
A+ G ++FS T TG+
Sbjct: 176 ATGGYGRIYFSTTNAHT-LTGD 196
>gnl|CDD|182084 PRK09800, PRK09800, putative hypoxanthine oxidase; Provisional.
Length = 956
Score = 27.9 bits (62), Expect = 9.3
Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 19/56 (33%)
Query: 238 PQETTVCTGNEESAITAYNLTDGSHL---------WHIKASASRIKGLASHRNHLI 284
P ET +C + DG L WH++ +R+ G+ H+ H+I
Sbjct: 392 PTETHIC----------FTRMDGDRLVIHASTQVPWHLRRQVARLVGMKQHKVHVI 437
>gnl|CDD|184694 PRK14468, PRK14468, ribosomal RNA large subunit methyltransferase
N; Provisional.
Length = 343
Score = 27.5 bits (61), Expect = 9.4
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 255 YNLTDG--SHLWHIKASASRIKGLASHRN 281
Y + G HLW + A ++GL SH N
Sbjct: 251 YTMLKGVNDHLWQAELLADLLRGLVSHVN 279
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
0.316 0.129 0.381
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,349,894
Number of extensions: 1371761
Number of successful extensions: 1068
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1028
Number of HSP's successfully gapped: 43
Length of query: 327
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 230
Effective length of database: 6,635,264
Effective search space: 1526110720
Effective search space used: 1526110720
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.5 bits)