RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4577
(384 letters)
>gnl|CDD|221499 pfam12265, CAF1C_H4-bd, Histone-binding protein RBBP4 or subunit C
of CAF1 complex. The CAF-1 complex is a conserved
heterotrimeric protein complex that promotes histone H3
and H4 deposition onto newly synthesized DNA during
replication or DNA repair; specifically it facilitates
replication-dependent nucleosome assembly with the major
histone H3 (H3.1). This domain is an alpha helix which
sits just upstream of the WD40 seven-bladed
beta-propeller in the human RbAp46 protein. RbAp46 folds
into the beta-propeller and binds histone H4 in a groove
formed between this N-terminal helix and an extended
loop inserted into blade six.
Length = 73
Score = 118 bits (299), Expect = 2e-33
Identities = 42/73 (57%), Positives = 56/73 (76%), Gaps = 1/73 (1%)
Query: 138 NEEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPDVTRPEGKDYSIHRLILGTHTSD-EQ 196
NEEY++WKKN PFLYD++ THALEWPSL+ WLPD+ + + + RL+LGT TS EQ
Sbjct: 1 NEEYELWKKNDPFLYDMLHTHALEWPSLSFDWLPDLLKGDNRYPHTQRLLLGTQTSGQEQ 60
Query: 197 NHLLIASVQLPNE 209
N+LL+A V LP++
Sbjct: 61 NYLLVAKVSLPSK 73
>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 = 46.2 bits (110), Expect = 1e-05
Identities = 27/111 (24%), Positives = 39/111 (35%), Gaps = 23/111 (20%)
Query: 242 NHEGEVNRARYMPQNPCVIATKTPSSD--VLVFDYTKHPSKPDPNGECHPDLRLRGHQKE 299
H G V + + SSD + ++D GEC L GH
Sbjct: 49 GHTGPVRDVAASADGTYLASG---SSDKTIRLWDLET--------GECV--RTLTGHTSY 95
Query: 300 GYGLSWNPSLNGYLLSASDDHTICLWDINATPKENRVIDAKTIFTGHTAVV 350
++++P L S+S D TI +WD+ T GHT V
Sbjct: 96 VSSVAFSPD-GRILSSSSRDKTIKVWDVETG-------KCLTTLRGHTDWV 138
Score = 45.4 bits (108), Expect = 2e-05
Identities = 30/110 (27%), Positives = 52/110 (47%), Gaps = 23/110 (20%)
Query: 243 HEGEVNRARYMPQNPCVIATKTPSSD--VLVFDYTKHPSKPDPNGECHPDLRLRGHQKEG 300
H GEVN + P ++++ SSD + ++D + G+C LRGH+
Sbjct: 176 HTGEVNSVAFSPDGEKLLSS---SSDGTIKLWDLST--------GKCL--GTLRGHENGV 222
Query: 301 YGLSWNPSLNGYLLSASDDHTICLWDINATPKENRVIDAKTIFTGHTAVV 350
++++P L S S+D TI +WD+ T + + + +GHT V
Sbjct: 223 NSVAFSPD-GYLLASGSEDGTIRVWDLR-TGECVQTL------SGHTNSV 264
Score = 44.2 bits (105), Expect = 5e-05
Identities = 28/108 (25%), Positives = 41/108 (37%), Gaps = 19/108 (17%)
Query: 243 HEGEVNRARYMPQNPCVIATKTPSSDVLVFDYTKHPSKPDPNGECHPDLRLRGHQKEGYG 302
H G V + P ++AT + + V+D L+GH
Sbjct: 8 HTGGVTCVAFSPDGK-LLATGSGDGTIKVWDLE----------TGELLRTLKGHTGPVRD 56
Query: 303 LSWNPSLNGYLLSASDDHTICLWDINATPKENRVIDAKTIFTGHTAVV 350
++ + YL S S D TI LWD+ T + R TGHT+ V
Sbjct: 57 VAASADGT-YLASGSSDKTIRLWDLE-TGECVR------TLTGHTSYV 96
Score = 43.1 bits (102), Expect = 1e-04
Identities = 27/108 (25%), Positives = 45/108 (41%), Gaps = 19/108 (17%)
Query: 243 HEGEVNRARYMPQNPCVIATKTPSSDVLVFDYTKHPSKPDPNGECHPDLRLRGHQKEGYG 302
H V+ + P ++++ + + V+D G+C LRGH
Sbjct: 92 HTSYVSSVAFSPDGR-ILSSSSRDKTIKVWDV--------ETGKCL--TTLRGHTDWVNS 140
Query: 303 LSWNPSLNGYLLSASDDHTICLWDINATPKENRVIDAKTIFTGHTAVV 350
++++P ++ S+S D TI LWD+ T K TGHT V
Sbjct: 141 VAFSPD-GTFVASSSQDGTIKLWDLR-TGKCVAT------LTGHTGEV 180
Score = 39.6 bits (93), Expect = 0.002
Identities = 18/75 (24%), Positives = 30/75 (40%), Gaps = 16/75 (21%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSW 60
V S LAS +D+ + +WDL E + GHT+ +S ++
Sbjct: 57 VAASADGTY-LASGSSDKTIRLWDLET--------------GECVRTLTGHTSYVSSVAF 101
Query: 61 NPNEPWVICSVSEDN 75
+P+ + S S D
Sbjct: 102 SPDGRILSSS-SRDK 115
Score = 39.2 bits (92), Expect = 0.002
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 8/58 (13%)
Query: 293 LRGHQKEGYGLSWNPSLNGYLLSASDDHTICLWDINATPKENRVIDAKTIFTGHTAVV 350
L+GH ++++P L + S D TI +WD+ + GHT V
Sbjct: 5 LKGHTGGVTCVAFSPD-GKLLATGSGDGTIKVWDLETG-------ELLRTLKGHTGPV 54
Score = 38.9 bits (91), Expect = 0.003
Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 8/59 (13%)
Query: 292 RLRGHQKEGYGLSWNPSLNGYLLSASDDHTICLWDINATPKENRVIDAKTIFTGHTAVV 350
L GH E ++++P LLS+S D TI LWD++ GH V
Sbjct: 172 TLTGHTGEVNSVAFSPDGEK-LLSSSSDGTIKLWDLSTG-------KCLGTLRGHENGV 222
Score = 38.5 bits (90), Expect = 0.004
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 16/79 (20%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSW 60
V +SP +LAS D + VWDL E + GHT ++ +W
Sbjct: 225 VAFSPDGY-LLASGSEDGTIRVWDLRT--------------GECVQTLSGHTNSVTSLAW 269
Query: 61 NPNEPWVICSVSEDNIMQI 79
+P+ + S S D ++I
Sbjct: 270 SPDGKRL-ASGSADGTIRI 287
Score = 37.3 bits (87), Expect = 0.008
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 16/75 (21%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSW 60
V +SP + +LA+ D + VWDL GE T GHT + D +
Sbjct: 15 VAFSPDGK-LLATGSGDGTIKVWDLET-GELLRTL-------------KGHTGPVRDVAA 59
Query: 61 NPNEPWVICSVSEDN 75
+ + + + S S D
Sbjct: 60 SADGTY-LASGSSDK 73
Score = 35.8 bits (83), Expect = 0.029
Identities = 18/79 (22%), Positives = 35/79 (44%), Gaps = 16/79 (20%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSW 60
V +SP IL+SS D+ + VWD+ + GHT ++ ++
Sbjct: 99 VAFSPDG-RILSSSSRDKTIKVWDVETGKCLTTLR--------------GHTDWVNSVAF 143
Query: 61 NPNEPWVICSVSEDNIMQI 79
+P+ + S S+D +++
Sbjct: 144 SPD-GTFVASSSQDGTIKL 161
Score = 32.7 bits (75), Expect = 0.28
Identities = 18/77 (23%), Positives = 33/77 (42%), Gaps = 15/77 (19%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSW 60
V +SP T +ASS D + +WDL + GHT +++ ++
Sbjct: 141 VAFSPDG-TFVASSSQDGTIKLWDLRTGKCVAT--------------LTGHTGEVNSVAF 185
Query: 61 NPNEPWVICSVSEDNIM 77
+P+ ++ S S+ I
Sbjct: 186 SPDGEKLLSSSSDGTIK 202
Score = 31.2 bits (71), Expect = 0.93
Identities = 20/79 (25%), Positives = 36/79 (45%), Gaps = 16/79 (20%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSW 60
V +SP E +L+SS D + +WDLS + L GH ++ ++
Sbjct: 183 VAFSPDGEKLLSSSS-DGTIKLWDLST--------------GKCLGTLRGHENGVNSVAF 227
Query: 61 NPNEPWVICSVSEDNIMQI 79
+P+ + S SED +++
Sbjct: 228 SPDGYL-LASGSEDGTIRV 245
Score = 28.8 bits (65), Expect = 4.0
Identities = 6/30 (20%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 50 GHTAKISDFSWNPNEPWVICSVSEDNIMQI 79
GHT ++ +++P+ + + S D +++
Sbjct: 7 GHTGGVTCVAFSPDGKL-LATGSGDGTIKV 35
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 41.2 bits (97), Expect = 2e-05
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 293 LRGHQKEGYGLSWNPSLNGYLLSASDDHTICLWD 326
L+GH ++++P L S SDD T+ +WD
Sbjct: 7 LKGHTGPVTSVAFSPD-GNLLASGSDDGTVRVWD 39
Score = 31.2 bits (71), Expect = 0.056
Identities = 9/37 (24%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 43 ELLFIHGGHTAKISDFSWNPNEPWVICSVSEDNIMQI 79
+LL GHT ++ +++P+ + S S+D +++
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNL-LASGSDDGTVRV 37
Score = 30.4 bits (69), Expect = 0.10
Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 1 VQWSPHNETILASSGTDRRLHVWD 24
V +SP +LAS D + VWD
Sbjct: 17 VAFSPDG-NLLASGSDDGTVRVWD 39
>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 = 15/34 (44%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 293 LRGHQKEGYGLSWNPSLNGYLLSASDDHTICLWD 326
L+GH ++++P YL S SDD TI LWD
Sbjct: 8 LKGHTGPVTSVAFSPDGK-YLASGSDDGTIKLWD 40
Score = 29.6 bits (67), Expect = 0.22
Identities = 10/39 (25%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 41 PPELLFIHGGHTAKISDFSWNPNEPWVICSVSEDNIMQI 79
ELL GHT ++ +++P+ ++ S S+D +++
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLA-SGSDDGTIKL 38
Score = 29.6 bits (67), Expect = 0.23
Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 1 VQWSPHNETILASSGTDRRLHVWD 24
V +SP LAS D + +WD
Sbjct: 18 VAFSPDG-KYLASGSDDGTIKLWD 40
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 43.5 bits (101), Expect = 1e-04
Identities = 17/79 (21%), Positives = 34/79 (43%), Gaps = 14/79 (17%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSW 60
+ +SP + + + S D + +WDL + L GHT +S ++
Sbjct: 161 LAFSPDGKLLASGSSLDGTIKLWDLRT--------------GKPLSTLAGHTDPVSSLAF 206
Query: 61 NPNEPWVICSVSEDNIMQI 79
+P+ +I S S D +++
Sbjct: 207 SPDGGLLIASGSSDGTIRL 225
Score = 40.8 bits (94), Expect = 9e-04
Identities = 54/335 (16%), Positives = 115/335 (34%), Gaps = 53/335 (15%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSW 60
+ +SP E +L S +D + +WDL ++G + + G H + +S +
Sbjct: 71 IAFSPDGE-LLLSGSSDGTIKLWDL------------DNGEKLIKSLEGLHDSSVSKLAL 117
Query: 61 -NPNEPWVICSVSE-DNIMQILSVVCVEPFDDAVEERVINEEYKIWKKNTPFLYDLVMTH 118
+P+ ++ + S D +++ + + + + ++ + L +
Sbjct: 118 SSPDGNSILLASSSLDGTVKLWDL------------STPGKLIRTLEGHSESVTSLAFSP 165
Query: 119 ALEWPSLTAQWLPDVTRVINEEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPD-----V 173
+ + + + K+W T + H P + + PD
Sbjct: 166 DGKLLASGSSLDGTI--------KLWDLRTGKPLSTLAGH--TDPVSSLAFSPDGGLLIA 215
Query: 174 TRPEGKDYSIHRLILGTHTSDEQNHLLIASVQLPNEDAQFDASNYDTDKGDFGGFGSVSG 233
+ + L G + + V + D AS + G + S
Sbjct: 216 SGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLASG--SSDGTIRLWDLRSS 273
Query: 234 KIEIEIKINHEGEVNRARYMPQNPCVIATKTPSSDVLVFDYTKHPSKPDPNGECHPDLRL 293
+ H V + P + ++A+ + V ++D G+ L L
Sbjct: 274 SSLLRTLSGHSSSVLSVAFSP-DGKLLASGSSDGTVRLWDLE--------TGKLLSSLTL 324
Query: 294 RGHQKEGYGLSWNPSLNGYLLSASDDHTICLWDIN 328
+GH+ LS++P + + SDD TI LWD+
Sbjct: 325 KGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLR 359
Score = 40.1 bits (92), Expect = 0.002
Identities = 56/333 (16%), Positives = 112/333 (33%), Gaps = 66/333 (19%)
Query: 7 NETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSWNPNEPW 66
N +LASS D + +WDLS G+ T + GH+ ++ +++P+
Sbjct: 123 NSILLASSSLDGTVKLWDLSTPGKLIRTLE-------------GHSESVTSLAFSPDGKL 169
Query: 67 VICSVSEDNIMQILSVVCVEPFDDAVEERVINEEYKIWKKNTPFLYDLVMTHALEWPSLT 126
+ S D + K+W T + H P +
Sbjct: 170 LASGSSLDGTI------------------------KLWDLRTGKPLSTLAGH--TDPVSS 203
Query: 127 AQWLPDVTRVI-----NEEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPD--VTRPEGK 179
+ PD +I + ++W +T L L T + S+ + + PD +
Sbjct: 204 LAFSPDGGLLIASGSSDGTIRLWDLSTGKL--LRSTLSGHSDSVVSSFSPDGSLLASGSS 261
Query: 180 DYSIHRLILGTHTSDEQ----NHLLIASVQLPNEDAQFDASNYDTDKGDFGGFGSVSGKI 235
D +I L + +S + + + SV + + + D + +
Sbjct: 262 DGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLW--DLETGKLL 319
Query: 236 EIEIKINHEGEVNRARYMPQNPCVIATKTPSSDVLVFDYTKHPSKPDPNGECHPDLRLRG 295
HEG V+ + P +++ + + ++D L+
Sbjct: 320 SSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKP-----------LKTLE 368
Query: 296 HQKEGYGLSWNPSLNGYLLSASDDHTICLWDIN 328
+S++P + S S D T+ LWD++
Sbjct: 369 GHSNVLSVSFSPDGR-VVSSGSTDGTVRLWDLS 400
Score = 38.1 bits (87), Expect = 0.007
Identities = 25/122 (20%), Positives = 45/122 (36%), Gaps = 17/122 (13%)
Query: 230 SVSGKIEIEIKINHEGEVNRARYMPQNPCVIATKTPSSDVLVFDYTKHPSKPDPNGECHP 289
+ + H V+ + P +IA+ + + ++D + G+
Sbjct: 184 DLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLS--------TGKLLR 235
Query: 290 DLRLRGHQKEGYGLSWNPSLNGYLLSASDDHTICLWDINATPKENRVIDAKTIFTGHTAV 349
L GH S++P L S S D TI LWD+ ++ R +GH++
Sbjct: 236 ST-LSGHSDSVVS-SFSPD-GSLLASGSSDGTIRLWDLRSSSSLLR------TLSGHSSS 286
Query: 350 VE 351
V
Sbjct: 287 VL 288
Score = 36.2 bits (82), Expect = 0.026
Identities = 19/107 (17%), Positives = 34/107 (31%), Gaps = 10/107 (9%)
Query: 232 SGKIEIEIKINHEGEVNRARYMPQNPCVIATKTPSSDVLVFDYTKHPSKPDPNGECHPDL 291
+ I H V + P + + + + ++D P
Sbjct: 143 TPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGK----------PLS 192
Query: 292 RLRGHQKEGYGLSWNPSLNGYLLSASDDHTICLWDINATPKENRVID 338
L GH L+++P + S S D TI LWD++ +
Sbjct: 193 TLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLS 239
Score = 30.8 bits (68), Expect = 1.2
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 290 DLRLRGHQKEGYGLSWNPSLNGYLLSASDDHTICLWDINATPKENRVID 338
L LRGH+ ++++P LLS S D TI LWD++ K + ++
Sbjct: 58 SLLLRGHEDSITSIAFSPD-GELLLSGSSDGTIKLWDLDNGEKLIKSLE 105
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 41.9 bits (98), Expect = 4e-04
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSW 60
+Q++P ILAS D + VW++ ++S ++ +D I GH KIS W
Sbjct: 80 LQFNPCFSEILASGSEDLTIRVWEIPH--NDESVKEIKDP----QCILKGHKKKISIIDW 133
Query: 61 NPNEPWVICSVSEDNIMQI 79
NP +++CS D+ + I
Sbjct: 134 NPMNYYIMCSSGFDSFVNI 152
Score = 36.5 bits (84), Expect = 0.022
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 289 PDLRLRGHQKEGYGLSWNPSLNGYLLSASDDHTICLWDINATPKE-NRVIDAKTIFTGH 346
P ++L+GH L +NP + L S S+D TI +W+I + + D + I GH
Sbjct: 66 PVIKLKGHTSSILDLQFNPCFSEILASGSEDLTIRVWEIPHNDESVKEIKDPQCILKGH 124
Score = 33.4 bits (76), Expect = 0.23
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 289 PDLRLRGHQKEGYGLSWNPSLNGYLLSASD-DHTICLWDINATPKENRVIDAKTI 342
P L+GH+K+ + WNP +N Y++ +S D + +WDI + ++ K +
Sbjct: 117 PQCILKGHKKKISIIDWNP-MNYYIMCSSGFDSFVNIWDIENEKRAFQINMPKKL 170
Score = 29.1 bits (65), Expect = 4.0
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDL 25
+ W+P N I+ SSG D +++WD+
Sbjct: 131 IDWNPMNYYIMCSSGFDSFVNIWDI 155
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 34.9 bits (80), Expect = 0.069
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 289 PDLRLRGHQKEGYGLSWNPSLNGYLLSASDDHTICLWDIN 328
P + L+GH K+ +S++PS L SA D + +WD+
Sbjct: 117 PIVHLQGHTKKVGIVSFHPSAMNVLASAGADMVVNVWDVE 156
Score = 30.2 bits (68), Expect = 2.2
Identities = 29/123 (23%), Positives = 53/123 (43%), Gaps = 31/123 (25%)
Query: 1 VQWSPHNETILASSGTDRRLHVWDLSKIGEEQSTEDAEDGPPELLFIHGGHTAKISDFSW 60
V + P +LAS+G D ++VWD+ + G+ H+ +I+ W
Sbjct: 131 VSFHPSAMNVLASAGADMVVNVWDVER-GKAVEVIKC-------------HSDQITSLEW 176
Query: 61 NPNEPWVICSVSEDNIMQIL-----SVVC-VEPFDDAVEERVINEEYKIWKKNTPFLYDL 114
N + ++C+ S+D + I+ ++V VE A +R +W K DL
Sbjct: 177 NLDGS-LLCTTSKDKKLNIIDPRDGTIVSSVEAHASAKSQRC------LWAKRK----DL 225
Query: 115 VMT 117
++T
Sbjct: 226 IIT 228
>gnl|CDD|143450 cd07132, ALDH_F3AB, Aldehyde dehydrogenase family 3 members A1, A2,
and B1 and related proteins. NAD(P)+-dependent,
aldehyde dehydrogenase, family 3 members A1 and B1
(ALDH3A1, ALDH3B1, EC=1.2.1.5) and fatty aldehyde
dehydrogenase, family 3 member A2 (ALDH3A2, EC=1.2.1.3),
and similar sequences are included in this CD. Human
ALDH3A1 is a homodimer with a critical role in cellular
defense against oxidative stress; it catalyzes the
oxidation of various cellular membrane lipid-derived
aldehydes. Corneal crystalline ALDH3A1 protects the
cornea and underlying lens against UV-induced oxidative
stress. Human ALDH3A2, a microsomal homodimer, catalyzes
the oxidation of long-chain aliphatic aldehydes to fatty
acids. Human ALDH3B1 is highly expressed in the kidney
and liver and catalyzes the oxidation of various medium-
and long-chain saturated and unsaturated aliphatic
aldehydes.
Length = 443
Score = 29.9 bits (68), Expect = 2.5
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 13/63 (20%)
Query: 47 IHGGHTAKISDFSWNPNEPWVICSVSE-DNIMQ------ILSVVCVEPFDDAVEERVINE 99
GG T + + P V+ V D +MQ IL +V V D+A+E IN
Sbjct: 300 AIGGQTDEKERYI----APTVLTDVKPSDPVMQEEIFGPILPIVTVNNLDEAIE--FINS 353
Query: 100 EYK 102
K
Sbjct: 354 REK 356
>gnl|CDD|232802 TIGR00057, TIGR00057, tRNA threonylcarbamoyl adenosine modification
protein, Sua5/YciO/YrdC/YwlC family. Has paralogs, but
YrdC called a tRNA modification protein. Ref 2 authors
say probably heteromultimeric complex. Paralogs may mean
its does the final binding to the tRNA [Protein
synthesis, tRNA and rRNA base modification].
Length = 201
Score = 29.2 bits (66), Expect = 3.1
Identities = 8/40 (20%), Positives = 15/40 (37%)
Query: 129 WLPDVTRVINEEYKIWKKNTPFLYDLVMTHALEWPSLTAQ 168
+ V ++ ++ KK P LV+ E P +
Sbjct: 68 EIEKYAYVPDDAKRLMKKFWPGPLTLVLKKTPEIPRRVSG 107
>gnl|CDD|185145 PRK15223, PRK15223, pilin outer membrane usher protein SafC;
Provisional.
Length = 836
Score = 29.6 bits (66), Expect = 3.3
Identities = 18/45 (40%), Positives = 22/45 (48%)
Query: 290 DLRLRGHQKEGYGLSWNPSLNGYLLSASDDHTICLWDINATPKEN 334
D R R + YGLSW S+ G LS + + LW A KEN
Sbjct: 515 DWRNRPGHDDSYGLSWGTSIGGGSLSLNWNQNRTLWRNGAHRKEN 559
>gnl|CDD|215506 PLN02937, PLN02937, Putative isoaspartyl peptidase/L-asparaginase.
Length = 414
Score = 28.7 bits (64), Expect = 6.1
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 214 DASNYDTDKGDFGGFGSVSG 233
DAS D D G FG G+V G
Sbjct: 87 DASIMDGDSGAFGAVGAVPG 106
>gnl|CDD|237956 PRK15398, PRK15398, aldehyde dehydrogenase EutE; Provisional.
Length = 465
Score = 28.7 bits (65), Expect = 6.2
Identities = 10/33 (30%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 61 NPNEPWVICSVSEDNIMQILSVVCVEPFDDAVE 93
+ N P+V + +M +L VV V+ D+A+
Sbjct: 351 DANHPFV----VTELMMPVLPVVRVKDVDEAIA 379
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 0.134 0.418
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: 19,867,766
Number of extensions: 1900131
Number of successful extensions: 1462
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1437
Number of HSP's successfully gapped: 48
Length of query: 384
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 285
Effective length of database: 6,546,556
Effective search space: 1865768460
Effective search space used: 1865768460
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 (21.6 bits)
S2: 60 (26.9 bits)