RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11818
(331 letters)
>gnl|CDD|227934 COG5647, COG5647, Cullin, a subunit of E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 773
Score = 169 bits (429), Expect = 4e-47
Identities = 86/222 (38%), Positives = 128/222 (57%), Gaps = 23/222 (10%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FY +KH+GR+L +GS ++ A F ++ I S YQ
Sbjct: 569 FYSSKHNGRKLKWYWHLGSGEVKARFNEGQKY------------------LEISTFSVYQ 610
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTKEIEPNHV 185
+ V LLFN+ E+LT+EEI T + DL R LQSL+ K +++ K + PN
Sbjct: 611 LLVFLLFNDHEELTFEEILELTKLSTDDLKRVLQSLSCAK----LVVLLKDDKLVSPNTK 666
Query: 186 FFVNDSFTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKARKRMQH 245
F+VN++F+SKL R+KI +A + E + +T V+EDR+ E++A +VRIMKARK+++H
Sbjct: 667 FYVNENFSSKLERIKINYIA-ESECMQDNLDTHETVEEDRQAELQACIVRIMKARKKLKH 725
Query: 246 NTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPEDR 287
L+ EV Q KSRF P ++K+ IE+LIE+EYL R +D
Sbjct: 726 GDLVKEVIAQHKSRFEPKVSMVKRAIETLIEKEYLERQADDE 767
Score = 60.2 bits (146), Expect = 6e-10
Identities = 24/40 (60%), Positives = 31/40 (77%)
Query: 287 RFLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
R+++EKDVFE+YYK+ LAKRLL +S S +E MIS LK
Sbjct: 454 RYVEEKDVFEKYYKKLLAKRLLNGRSASAQAELKMISMLK 493
Score = 30.9 bits (70), Expect = 1.1
Identities = 24/78 (30%), Positives = 39/78 (50%), Gaps = 4/78 (5%)
Query: 6 NNVNFGLVLRLENDL---FKFYLAKHSGRQLTLQPQMGSADLNAVFFGPRRE-EVHIFSI 61
V+ L L L KFY +KH+GR+L +GS ++ A F ++ E+ FS+
Sbjct: 549 EEVSIRLPKELVPILEGFKKFYSSKHNGRKLKWYWHLGSGEVKARFNEGQKYLEISTFSV 608
Query: 62 YPLRFYLAKHSGRQLTLQ 79
Y L +L + +LT +
Sbjct: 609 YQLLVFLLFNDHEELTFE 626
>gnl|CDD|204512 pfam10557, Cullin_Nedd8, Cullin protein neddylation domain. This
is the neddylation site of cullin proteins which are a
family of structurally related proteins containing an
evolutionarily conserved cullin domain. With the
exception of APC2, each member of the cullin family is
modified by Nedd8 and several cullins function in
Ubiquitin-dependent proteolysis, a process in which the
26S proteasome recognises and subsequently degrades a
target protein tagged with K48-linked poly-ubiquitin
chains. Cullins are molecular scaffolds responsible for
assembling the ROC1/Rbx1 RING-based E3 ubiquitin
ligases, of which several play a direct role in
tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like
protein, which was originally found to be conjugated to
Cdc53, a cullin component of the SCF
(Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in
Saccharomyces cerevisiae, and Nedd8 modification has now
emerged as a regulatory pathway of fundamental
importance for cell cycle control and for embryogenesis
in metazoans. The only identified Nedd8 substrates are
cullins. Neddylation results in covalent conjugation of
a Nedd8 moiety onto a conserved cullin lysine residue.
Length = 68
Score = 112 bits (283), Expect = 1e-31
Identities = 45/67 (67%), Positives = 53/67 (79%)
Query: 221 VDEDRKHEIEAAVVRIMKARKRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYL 280
V+EDRK EI+AA+VRIMK+RK + HN L+ EV EQLK RF PS IKKRIESLIE+EYL
Sbjct: 1 VEEDRKLEIQAAIVRIMKSRKTLSHNELVAEVIEQLKKRFPPSVADIKKRIESLIEKEYL 60
Query: 281 ARTPEDR 287
R +DR
Sbjct: 61 ERDEDDR 67
>gnl|CDD|214883 smart00884, Cullin_Nedd8, Cullin protein neddylation domain. This
is the neddylation site of cullin proteins which are a
family of structurally related proteins containing an
evolutionarily conserved cullin domain. With the
exception of APC2, each member of the cullin family is
modified by Nedd8 and several cullins function in
Ubiquitin-dependent proteolysis, a process in which the
26S proteasome recognises and subsequently degrades a
target protein tagged with K48-linked poly-ubiquitin
chains. Cullins are molecular scaffolds responsible for
assembling the ROC1/Rbx1 RING-based E3 ubiquitin
ligases, of which several play a direct role in
tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like
protein, which was originally found to be conjugated to
Cdc53, a cullin component of the SCF
(Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in
Saccharomyces cerevisiae, and Nedd8 modification has now
emerged as a regulatory pathway of fundamental
importance for cell cycle control and for embryogenesis
in metazoans. The only identified Nedd8 substrates are
cullins. Neddylation results in covalent conjugation of
a Nedd8 moiety onto a conserved cullin lysine residue.
Length = 68
Score = 108 bits (273), Expect = 5e-30
Identities = 44/67 (65%), Positives = 53/67 (79%)
Query: 221 VDEDRKHEIEAAVVRIMKARKRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYL 280
V+EDRK EI+AA+VRIMK+RK + H+ L++EV EQLK RF PS IKKRIESLIEREYL
Sbjct: 1 VEEDRKLEIQAAIVRIMKSRKTLSHSELVSEVIEQLKKRFKPSVSDIKKRIESLIEREYL 60
Query: 281 ARTPEDR 287
R +D
Sbjct: 61 ERDEDDP 67
>gnl|CDD|216175 pfam00888, Cullin, Cullin family.
Length = 603
Score = 111 bits (278), Expect = 4e-27
Identities = 49/128 (38%), Positives = 63/128 (49%), Gaps = 23/128 (17%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FY KHSGR+LT +G +L A F + + + VSTYQ
Sbjct: 499 FYSKKHSGRKLTWLHSLGRGELKAEFN---------------------DKTYELTVSTYQ 537
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTKEIEPNHV 185
M VLLLFN++E+LT EE+ T + + L R LQSL K I PK +E PN V
Sbjct: 538 MAVLLLFNDQEELTVEELSEATGLSDDLLRRTLQSLLKAKVLLLTKI--PKGEEFSPNTV 595
Query: 186 FFVNDSFT 193
F +N FT
Sbjct: 596 FSLNSDFT 603
Score = 72.7 bits (178), Expect = 4e-14
Identities = 23/40 (57%), Positives = 33/40 (82%)
Query: 287 RFLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
+++++KDVFE++Y++ LAKRLL S SDD+EK MI KLK
Sbjct: 381 KYIEDKDVFEKFYRKMLAKRLLNGTSASDDAEKKMIEKLK 420
Score = 39.1 bits (91), Expect = 0.003
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 22 KFYLAKHSGRQLTLQPQMGSADLNAVFFGP 51
+FY KHSGR+LT +G +L A F
Sbjct: 498 EFYSKKHSGRKLTWLHSLGRGELKAEFNDK 527
>gnl|CDD|214545 smart00182, CULLIN, Cullin.
Length = 143
Score = 76.2 bits (188), Expect = 5e-17
Identities = 27/39 (69%), Positives = 38/39 (97%)
Query: 288 FLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
++Q+KDVFE+YYK+HLAKRL+L++S SDD+E+NMI+KLK
Sbjct: 1 YIQDKDVFEKYYKKHLAKRLILNRSASDDAEENMITKLK 39
Score = 37.3 bits (87), Expect = 0.002
Identities = 14/27 (51%), Positives = 19/27 (70%)
Query: 22 KFYLAKHSGRQLTLQPQMGSADLNAVF 48
+FYLAKHSGR+LT +G ++ A F
Sbjct: 117 EFYLAKHSGRKLTWLHSLGRGEVKANF 143
Score = 37.3 bits (87), Expect = 0.003
Identities = 14/27 (51%), Positives = 18/27 (66%)
Query: 65 RFYLAKHSGRQLTLQPQMGSADLNAVF 91
FYLAKHSGR+LT +G ++ A F
Sbjct: 117 EFYLAKHSGRKLTWLHSLGRGEVKANF 143
>gnl|CDD|224477 COG1561, COG1561, Uncharacterized stress-induced protein [Function
unknown].
Length = 290
Score = 30.7 bits (70), Expect = 1.1
Identities = 22/93 (23%), Positives = 40/93 (43%), Gaps = 14/93 (15%)
Query: 210 SEPERRETRSKVDEDRKHEIEAAVVRIMKARKR---------MQHNTLITEVTEQLKSRF 260
+ E E ++ +E A+ +++ R+R +Q I E+ E+++S
Sbjct: 118 AIEEEEEDLEALEALILAALEEALDDLIEMREREGAALKADLLQRLDAIEELVEKVESLM 177
Query: 261 LPSPVIIKKRIESLIER--EYLARTPEDRFLQE 291
P I++ E L+ R E + EDR QE
Sbjct: 178 ---PEILEWYRERLVARLNEAQDQLDEDRLEQE 207
>gnl|CDD|216741 pfam01853, MOZ_SAS, MOZ/SAS family. This region of these proteins
has been suggested to be homologous to
acetyltransferases.
Length = 189
Score = 29.9 bits (68), Expect = 1.3
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 8/55 (14%)
Query: 128 VLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTKEIEP 182
+LL + K+T +E+ T I D+I LQSL M I+Y K + I
Sbjct: 141 LLLEHRDEHKITIKELSKMTGITVEDIISTLQSLNM--------IKYYKGQHIIC 187
>gnl|CDD|149775 pfam08822, DUF1804, Protein of unknown function (DUF1804). This
family of bacterial protein is uncharacterized.
Length = 165
Score = 28.9 bits (65), Expect = 2.1
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 8/46 (17%)
Query: 139 TYEEIQSETDIPERDLIRALQSLA-----MGKASQRILIRYPKTKE 179
T +E+Q + D+P D + L SLA AS+R+L P+T +
Sbjct: 82 TMDELQEDEDLPPSDKAKLLASLADSFSKTVAASKRVL---PETSK 124
>gnl|CDD|235239 PRK04172, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Provisional.
Length = 489
Score = 29.4 bits (67), Expect = 2.6
Identities = 9/45 (20%), Positives = 22/45 (48%)
Query: 118 IIQVSTYQMCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLA 162
++++ + VL ++ T EE+ + +P ++RA + L
Sbjct: 1 MMELHPNEKKVLKALKELKEATLEELAEKLGLPPEAVMRAAEWLE 45
>gnl|CDD|215642 PLN03238, PLN03238, probable histone acetyltransferase MYST;
Provisional.
Length = 290
Score = 29.1 bits (65), Expect = 3.2
Identities = 21/70 (30%), Positives = 35/70 (50%), Gaps = 9/70 (12%)
Query: 100 EGKDGASSSTSPPAPRKHIIQVS--TYQMCVLL--LFNNREKLTYEEIQSETDIPERDLI 155
EGK G +P P + +VS +Y VLL L + + ++ +++ T I D++
Sbjct: 187 EGKVG-----TPERPLSDLGKVSFRSYWTRVLLEQLRDVKGDVSIKDLSLATGIRGEDIV 241
Query: 156 RALQSLAMGK 165
LQSL + K
Sbjct: 242 STLQSLNLIK 251
>gnl|CDD|215056 PLN00104, PLN00104, MYST -like histone acetyltransferase;
Provisional.
Length = 450
Score = 29.3 bits (66), Expect = 3.4
Identities = 25/81 (30%), Positives = 36/81 (44%), Gaps = 17/81 (20%)
Query: 100 EGKDGASSSTSPPAPRKHIIQVS--TYQMCVLL--LFNNREKLTYEEIQSETDIPERDLI 155
EGK G +P P + VS Y VLL L ++ ++ +E+ T I D++
Sbjct: 338 EGKVG-----TPERPLSDLGLVSYRGYWTRVLLEILKKHKGNISIKELSDMTAIKAEDIV 392
Query: 156 RALQSLAMGKASQRILIRYPK 176
LQSL LI+Y K
Sbjct: 393 STLQSLN--------LIQYRK 405
>gnl|CDD|212104 cd10792, GH57N_AmyC_like, N-terminal catalytic domain of
alpha-amylase ( AmyC ) and similar proteins.
Alpha-amylases (alpha-1,4-glucan-4-glucanohydrolases, EC
3.2.1.1) play essential roles in alpha-glucan metabolism
by catalyzing the hydrolysis of polysaccharides such as
amylose starch, and beta-limit dextrin. This subfamily
is represented by a novel alpha-amylase (AmyC) encoded
by hyperthermophilic organism Thermotoga maritime ORF
tm1438, and its prokaryotic homologs. AmyC functions as
a homotetramer and shows thermostable amylolytic
activity. It is strongly inhibited by acarbose. AmyC is
composed of a N-terminal catalytic domain, containing a
distorted TIM-barrel structure with a characteristic
(beta/alpha)7 fold motif, and two additional less
conserved domains. There are other two canonical
alpha-amylases encoded from T. maritime that lack the
sequence similarity to AmyC, and belong to a different
superfamily.
Length = 412
Score = 29.0 bits (66), Expect = 3.8
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 15/64 (23%)
Query: 254 EQLKSRFLPSPVIIKKRIESLIERE-----------YLARTPEDRFLQEKDVFERYYKQH 302
L+ R+L + + IE L E+E LAR +RF + K+ FE Y ++
Sbjct: 70 PLLQERYLRY---LDRLIE-LAEKEVERTRGDPEFHKLARFYLERFEETKEDFEERYGRN 125
Query: 303 LAKR 306
L K
Sbjct: 126 LLKA 129
>gnl|CDD|234496 TIGR04198, paramyx_RNAcap, mRNA capping enzyme, paramyxovirus
family. This model represents a common C-terminal
region shared by paramyxovirus-like RNA-dependent RNA
polymerases (see model pfam00946). Polymerase proteins
described by these two models are often called L protein
(large polymerase protein). Capping of mRNA requires RNA
triphosphatase and guanylyl transferase activities,
demonstrated for the rinderpest virus L protein and at
least partially localized to the region of this model.
Length = 893
Score = 29.0 bits (65), Expect = 3.9
Identities = 14/82 (17%), Positives = 27/82 (32%), Gaps = 2/82 (2%)
Query: 249 ITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPEDRFLQEKDVFERYYKQHLAKRLL 308
+ + KS P P+ I ++ +LI L +L+ + ++ ++LL
Sbjct: 775 LIRTLDSSKSLTPPYPLSILGKLRTLIGL--LTLKSLSLYLRTLLLLNESWRIKWVRKLL 832
Query: 309 LDKSVSDDSEKNMISKLKVRNL 330
K R L
Sbjct: 833 KGKFRLSSILSWDEYLRDRRLL 854
>gnl|CDD|168927 PRK07374, dnaE, DNA polymerase III subunit alpha; Validated.
Length = 1170
Score = 28.9 bits (65), Expect = 4.9
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 14 LRLENDLFKFYLAKHSGRQLT 34
L+LE +L FYL+ H +QLT
Sbjct: 960 LKLEKELLGFYLSDHPLKQLT 980
>gnl|CDD|114346 pfam05618, Zn_protease, Putative ATP-dependant zinc protease.
Proteins in this family are annotated as being
ATP-dependant zinc proteases.
Length = 138
Score = 27.5 bits (61), Expect = 5.4
Identities = 25/110 (22%), Positives = 41/110 (37%), Gaps = 5/110 (4%)
Query: 192 FTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKARKRMQHNT--LI 249
TS L I + GE ++TR R + +EA V+RI+K R+ +
Sbjct: 26 LTSSLSAGDIWSFERDGEKWVRFKDTRYDEKNKRGYTLEAPVLRIVKIRQSGGDAERRPV 85
Query: 250 TEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPEDR-FLQEKDVFERY 298
++ L + R L++ L + R + E D RY
Sbjct: 86 IKLYLFLGPEIERIEGTLTDR--ELMKYPVLLGSRAKRKHIAEVDPSRRY 133
>gnl|CDD|181466 PRK08558, PRK08558, adenine phosphoribosyltransferase; Provisional.
Length = 238
Score = 28.0 bits (63), Expect = 6.2
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 135 REKLTYEEIQSETDIPERDLIR 156
++ TYEE+ S T +PE L R
Sbjct: 21 KKTYTYEELSSITGLPESVLNR 42
>gnl|CDD|235698 PRK06102, PRK06102, hypothetical protein; Provisional.
Length = 452
Score = 27.7 bits (62), Expect = 8.7
Identities = 8/31 (25%), Positives = 17/31 (54%), Gaps = 5/31 (16%)
Query: 234 VRIMKARKRMQHNTLITEVTEQLKSRFLPSP 264
+ +++AR+R+ +VT +L L +P
Sbjct: 345 IALLEARERLIA-----QVTRELGGALLATP 370
>gnl|CDD|223219 COG0141, HisD, Histidinol dehydrogenase [Amino acid transport and
metabolism].
Length = 425
Score = 27.5 bits (62), Expect = 9.8
Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 4/61 (6%)
Query: 192 FTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMK-ARKRMQHNTLIT 250
+T+K V+ + S E ++D + K +E A I ++ + L+
Sbjct: 47 YTAKFDGVEPDNLRV---SAAEIDAAYQRLDPEVKEALEVAAENIEAFHEAQLPKDWLVE 103
Query: 251 E 251
Sbjct: 104 T 104
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
0.318 0.134 0.372
Gapped
Lambda K H
0.267 0.0811 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,011,083
Number of extensions: 1670467
Number of successful extensions: 1595
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1588
Number of HSP's successfully gapped: 50
Length of query: 331
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 234
Effective length of database: 6,635,264
Effective search space: 1552651776
Effective search space used: 1552651776
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: 59 (26.4 bits)