RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16574
(152 letters)
>gnl|CDD|173561 PTZ00368, PTZ00368, universal minicircle sequence binding protein
(UMSBP); Provisional.
Length = 148
Score = 85.2 bits (211), Expect = 6e-22
Identities = 57/153 (37%), Positives = 72/153 (47%), Gaps = 23/153 (15%)
Query: 9 CYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFAREC-----ATESVTCYNCS 63
CY C GH CP + A A CYKC GH +REC +CYNC
Sbjct: 3 CYRCGGVGHQSRECPNSAPAGAAK---ARPCYKCGEPGHLSRECPSAPGGRGERSCYNCG 59
Query: 64 GQGHVAKDC----TVKSSIICYNCNSSGHFARNCPNDSS-----KRCYACHQAGHMAKEC 114
GH++++C CYNC +GH +R CPN + + CY C GH++++C
Sbjct: 60 KTGHLSRECPEAPPGSGPRSCYNCGQTGHISRECPNRAKGGAARRACYNCGGEGHISRDC 119
Query: 115 PGQTAGKSPEPVVDMSLTCYVCGHQGHLSYDCK 147
P AGK P TCY CG GHLS DC
Sbjct: 120 P--NAGKRPGG----DKTCYNCGQTGHLSRDCP 146
Score = 81.0 bits (200), Expect = 3e-20
Identities = 44/130 (33%), Positives = 63/130 (48%), Gaps = 20/130 (15%)
Query: 1 MSSTSTIQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFAREC-----ATE 55
+ CY C + GH CP S+ RG++ CY C GH +REC +
Sbjct: 22 AGAAKARPCYKCGEPGHLSRECP--SAPGGRGER---SCYNCGKTGHLSRECPEAPPGSG 76
Query: 56 SVTCYNCSGQGHVAKDCT-----VKSSIICYNCNSSGHFARNCPNDSS-----KRCYACH 105
+CYNC GH++++C + CYNC GH +R+CPN K CY C
Sbjct: 77 PRSCYNCGQTGHISRECPNRAKGGAARRACYNCGGEGHISRDCPNAGKRPGGDKTCYNCG 136
Query: 106 QAGHMAKECP 115
Q GH++++CP
Sbjct: 137 QTGHLSRDCP 146
Score = 76.0 bits (187), Expect = 2e-18
Identities = 44/124 (35%), Positives = 62/124 (50%), Gaps = 21/124 (16%)
Query: 38 VCYKCNNYGHFAREC-------ATESVTCYNCSGQGHVAKDCTVKSSII----CYNCNSS 86
VCY+C GH +REC A ++ CY C GH++++C CYNC +
Sbjct: 2 VCYRCGGVGHQSRECPNSAPAGAAKARPCYKCGEPGHLSRECPSAPGGRGERSCYNCGKT 61
Query: 87 GHFARNCPN----DSSKRCYACHQAGHMAKECPGQTAGKSPEPVVDMSLTCYVCGHQGHL 142
GH +R CP + CY C Q GH+++ECP + G + CY CG +GH+
Sbjct: 62 GHLSRECPEAPPGSGPRSCYNCGQTGHISRECPNRAKGGAARR------ACYNCGGEGHI 115
Query: 143 SYDC 146
S DC
Sbjct: 116 SRDC 119
Score = 48.3 bits (115), Expect = 8e-08
Identities = 26/78 (33%), Positives = 34/78 (43%), Gaps = 10/78 (12%)
Query: 4 TSTIQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECATESV------ 57
+ CYNC GH CP ++ A CY C GH +R+C
Sbjct: 75 SGPRSCYNCGQTGHISRECPNRAKGGAARRA----CYNCGGEGHISRDCPNAGKRPGGDK 130
Query: 58 TCYNCSGQGHVAKDCTVK 75
TCYNC GH+++DC K
Sbjct: 131 TCYNCGQTGHLSRDCPDK 148
>gnl|CDD|227414 COG5082, AIR1, Arginine methyltransferase-interacting protein,
contains RING Zn-finger [Posttranslational modification,
protein turnover, chaperones / Intracellular trafficking
and secretion].
Length = 190
Score = 73.3 bits (180), Expect = 6e-17
Identities = 39/117 (33%), Positives = 53/117 (45%), Gaps = 8/117 (6%)
Query: 36 GIVCYKCNNYGHFARECATESVTCYNCSGQGHVAKDCTVKSSIICYNCNSSGHFARNCP- 94
VC+ C GH R+C CYNCS GH + C CYNC +GH +R+C
Sbjct: 60 NPVCFNCGQNGHLRRDC--PHSICYNCSWDGHRSNHCPKP--KKCYNCGETGHLSRDCNP 115
Query: 95 -NDSSKRCYACHQAGHMAKECP--GQTAGKSPEPVVDMSLTCYVCGHQGHLSYDCKL 148
D K C+ C+ H +++CP + + + CY CG GH DCK
Sbjct: 116 SKDQQKSCFDCNSTRHSSEDCPSIWKHYVLNNGDGHPIKKFCYSCGSAGHFGDDCKE 172
Score = 59.9 bits (145), Expect = 8e-12
Identities = 32/94 (34%), Positives = 47/94 (50%), Gaps = 14/94 (14%)
Query: 59 CYNCSGQGHVAKDCTVKSSIICYNCNSSGHFARNCPNDSSKRCYACHQAGHMAKECPGQT 118
C+NC GH+ +DC ICYNC+ GH + +CP K+CY C + GH++++C
Sbjct: 63 CFNCGQNGHLRRDCP---HSICYNCSWDGHRSNHCP--KPKKCYNCGETGHLSRDCN--- 114
Query: 119 AGKSPEPVVDMSLTCYVCGHQGHLSYDCKLVQKS 152
P D +C+ C H S DC + K
Sbjct: 115 ------PSKDQQKSCFDCNSTRHSSEDCPSIWKH 142
Score = 58.3 bits (141), Expect = 3e-11
Identities = 33/119 (27%), Positives = 50/119 (42%), Gaps = 28/119 (23%)
Query: 9 CYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECA---TESVTCYNCSGQ 65
CYNC GH CP+ CY C GH +R+C + +C++C+
Sbjct: 81 CYNCSWDGHRSNHCPKP-----------KKCYNCGETGHLSRDCNPSKDQQKSCFDCNST 129
Query: 66 GHVAKDC-------------TVKSSIICYNCNSSGHFARNC-PNDSSKRCYACHQAGHM 110
H ++DC CY+C S+GHF +C SS+ Y C + G++
Sbjct: 130 RHSSEDCPSIWKHYVLNNGDGHPIKKFCYSCGSAGHFGDDCKEPRSSRVPYVCGKKGYV 188
Score = 41.4 bits (97), Expect = 4e-05
Identities = 23/103 (22%), Positives = 33/103 (32%), Gaps = 22/103 (21%)
Query: 4 TSTIQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFAREC----------- 52
+CYNC + GH C C+ CN+ H + +C
Sbjct: 95 PKPKKCYNCGETGHLSRDCNPSKD-------QQKSCFDCNSTRHSSEDCPSIWKHYVLNN 147
Query: 53 ---ATESVTCYNCSGQGHVAKDCTVKSSI-ICYNCNSSGHFAR 91
CY+C GH DC S + Y C G+ +
Sbjct: 148 GDGHPIKKFCYSCGSAGHFGDDCKEPRSSRVPYVCGKKGYVSF 190
>gnl|CDD|223560 COG0484, DnaJ, DnaJ-class molecular chaperone with C-terminal Zn
finger domain [Posttranslational modification, protein
turnover, chaperones].
Length = 371
Score = 34.5 bits (80), Expect = 0.013
Identities = 17/75 (22%), Positives = 23/75 (30%), Gaps = 11/75 (14%)
Query: 18 YQYSCPQKSSADARGDKVGIVCYKCNNYG--HFARECATES--VTCYNCSGQGHVAKDCT 73
+C + A+ C CN G + S TC C+G G + KD
Sbjct: 141 RSVTCSTCHGSGAKPGTDPKTCPTCNGSGQVRTVQRTGFFSFQQTCPTCNGTGKIIKD-- 198
Query: 74 VKSSIICYNCNSSGH 88
C C G
Sbjct: 199 -----PCGKCKGKGR 208
>gnl|CDD|237665 PRK14295, PRK14295, chaperone protein DnaJ; Provisional.
Length = 389
Score = 34.4 bits (79), Expect = 0.014
Identities = 21/71 (29%), Positives = 29/71 (40%), Gaps = 9/71 (12%)
Query: 19 QYSCPQKSSADARGDKVGIVCYKCNNYGHFARECATESVT--CYNCSGQGHVAKDCTVKS 76
Q CP S A+ VC C+ G +R S++ C +C G+G +A D
Sbjct: 166 QAPCPACSGTGAKNGTTPRVCPTCSGTGQVSRNSGGFSLSEPCPDCKGRGLIADD----- 220
Query: 77 SIICYNCNSSG 87
C C SG
Sbjct: 221 --PCLVCKGSG 229
Score = 29.4 bits (66), Expect = 0.70
Identities = 24/74 (32%), Positives = 32/74 (43%), Gaps = 9/74 (12%)
Query: 54 TESVTCYNCSGQGHVAKDCTVKSSIICYNCNSSGHFARNCPNDS-SKRCYACHQAGHMAK 112
T C CSG G AK+ T +C C+ +G +RN S S+ C C G +A
Sbjct: 164 TSQAPCPACSGTG--AKNGTTPR--VCPTCSGTGQVSRNSGGFSLSEPCPDCKGRGLIAD 219
Query: 113 E----CPGQTAGKS 122
+ C G KS
Sbjct: 220 DPCLVCKGSGRAKS 233
>gnl|CDD|233829 TIGR02349, DnaJ_bact, chaperone protein DnaJ. This model
represents bacterial forms of DnaJ, part of the
DnaK-DnaJ-GrpE chaperone system. The three components
typically are encoded by consecutive genes. DnaJ
homologs occur in many genomes, typically not near DnaK
and GrpE-like genes; most such genes are not included by
this family. Eukaryotic (mitochondrial and chloroplast)
forms are not included in the scope of this family.
Length = 354
Score = 33.0 bits (76), Expect = 0.039
Identities = 17/82 (20%), Positives = 25/82 (30%), Gaps = 15/82 (18%)
Query: 37 IVCYKCNNYGHFARECATESVTCYNCSGQGHVAKD-----CTVKSSIICYNCNSSGHFAR 91
C C+ G A+ T+ TC C G G V + + C C G
Sbjct: 144 ESCETCHGTG--AKP-GTDPKTCPTCGGTGQVRRQQGTPFGFFQQQQTCPTCGGEGKII- 199
Query: 92 NCPNDSSKRCYACHQAGHMAKE 113
+ C C G + +
Sbjct: 200 ------KEPCSTCKGKGRVKER 215
>gnl|CDD|189387 pfam00098, zf-CCHC, Zinc knuckle. The zinc knuckle is a zinc
binding motif composed of the the following CX2CX4HX4C
where X can be any amino acid. The motifs are mostly
from retroviral gag proteins (nucleocapsid). Prototype
structure is from HIV. Also contains members involved
in eukaryotic gene regulation, such as C. elegans
GLH-1. Structure is an 18-residue zinc finger.
Length = 18
Score = 29.7 bits (68), Expect = 0.052
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 78 IICYNCNSSGHFARNCPN 95
CYNC GH AR+CP
Sbjct: 1 RKCYNCGKEGHLARDCPE 18
Score = 26.6 bits (60), Expect = 0.60
Identities = 8/16 (50%), Positives = 9/16 (56%)
Query: 37 IVCYKCNNYGHFAREC 52
CY C GH AR+C
Sbjct: 1 RKCYNCGKEGHLARDC 16
Score = 26.6 bits (60), Expect = 0.62
Identities = 8/17 (47%), Positives = 14/17 (82%)
Query: 99 KRCYACHQAGHMAKECP 115
++CY C + GH+A++CP
Sbjct: 1 RKCYNCGKEGHLARDCP 17
Score = 25.5 bits (57), Expect = 1.5
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 57 VTCYNCSGQGHVAKDCT 73
CYNC +GH+A+DC
Sbjct: 1 RKCYNCGKEGHLARDCP 17
>gnl|CDD|197667 smart00343, ZnF_C2HC, zinc finger.
Length = 17
Score = 28.2 bits (64), Expect = 0.17
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 80 CYNCNSSGHFARNCPN 95
CYNC GH AR+CP+
Sbjct: 2 CYNCGKEGHIARDCPS 17
Score = 26.6 bits (60), Expect = 0.68
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 100 RCYACHQAGHMAKECP 115
+CY C + GH+A++CP
Sbjct: 1 KCYNCGKEGHIARDCP 16
Score = 25.5 bits (57), Expect = 1.8
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 38 VCYKCNNYGHFAREC 52
CY C GH AR+C
Sbjct: 1 KCYNCGKEGHIARDC 15
Score = 24.7 bits (55), Expect = 3.3
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 58 TCYNCSGQGHVAKDCT 73
CYNC +GH+A+DC
Sbjct: 1 KCYNCGKEGHIARDCP 16
>gnl|CDD|227547 COG5222, COG5222, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 427
Score = 30.5 bits (68), Expect = 0.32
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 77 SIICYNCNSSGHFARNCPNDSSK 99
+CY C GH+ +NCP +
Sbjct: 176 GYVCYRCGQKGHWIQNCPTNQDP 198
Score = 27.0 bits (59), Expect = 4.7
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 36 GIVCYKCNNYGHFARECATES 56
G VCY+C GH+ + C T
Sbjct: 176 GYVCYRCGQKGHWIQNCPTNQ 196
>gnl|CDD|237660 PRK14289, PRK14289, chaperone protein DnaJ; Provisional.
Length = 386
Score = 30.2 bits (68), Expect = 0.43
Identities = 20/77 (25%), Positives = 28/77 (36%), Gaps = 15/77 (19%)
Query: 37 IVCYKCNNYGHFARECATESVTCYNCSGQGHVAKDC-----TVKSSIICYNCNSSGHFAR 91
+ C C+ G E S TC C G G V + T+++ C CN G +
Sbjct: 155 VPCSHCHGTG---AEGNNGSETCPTCKGSGSVTRVQNTILGTMQTQSTCPTCNGEGKIIK 211
Query: 92 NCPNDSSKRCYACHQAG 108
K+C C G
Sbjct: 212 -------KKCKKCGGEG 221
>gnl|CDD|237653 PRK14276, PRK14276, chaperone protein DnaJ; Provisional.
Length = 380
Score = 29.7 bits (67), Expect = 0.50
Identities = 20/77 (25%), Positives = 29/77 (37%), Gaps = 15/77 (19%)
Query: 38 VCYKCNNYGHFARECATESVTCYNCSGQGHVAKDC-----TVKSSIICYNCNSSGHFARN 92
C+ CN G + T VTC C G G + D ++ + C C+ +G +
Sbjct: 148 TCHTCNGSG---AKPGTSPVTCGKCHGSGVITVDTQTPLGMMRRQVTCDVCHGTGKEIKE 204
Query: 93 CPNDSSKRCYACHQAGH 109
C CH GH
Sbjct: 205 -------PCQTCHGTGH 214
>gnl|CDD|237656 PRK14280, PRK14280, chaperone protein DnaJ; Provisional.
Length = 376
Score = 29.7 bits (67), Expect = 0.59
Identities = 20/79 (25%), Positives = 31/79 (39%), Gaps = 15/79 (18%)
Query: 39 CYKCNNYGHFARECATESVTCYNCSGQGHVAKDCT-----VKSSIICYNCNSSGHFARNC 93
C C+ G + T TC +C G G V+ + V + C +CN +G +
Sbjct: 146 CDTCHGSG---AKPGTSKETCSHCGGSGQVSVEQNTPFGRVVNRQTCPHCNGTGQEIKE- 201
Query: 94 PNDSSKRCYACHQAGHMAK 112
+C CH G + K
Sbjct: 202 ------KCPTCHGKGKVRK 214
>gnl|CDD|237654 PRK14278, PRK14278, chaperone protein DnaJ; Provisional.
Length = 378
Score = 28.9 bits (65), Expect = 1.2
Identities = 18/73 (24%), Positives = 26/73 (35%), Gaps = 10/73 (13%)
Query: 68 VAKDCTVKSSIICYNCNSSGHFARNCPNDSSKRCYACHQAGHMAKECPGQTAGKSPEPVV 127
V K TV ++++C C+ G + C C G + QT +S V
Sbjct: 130 VTKQVTVDTAVLCDRCHGKG----TAGDSKPVTCDTCGGRGEV------QTVQRSFLGQV 179
Query: 128 DMSLTCYVCGHQG 140
S C C G
Sbjct: 180 MTSRPCPTCRGVG 192
>gnl|CDD|237668 PRK14301, PRK14301, chaperone protein DnaJ; Provisional.
Length = 373
Score = 28.6 bits (64), Expect = 1.5
Identities = 24/98 (24%), Positives = 29/98 (29%), Gaps = 33/98 (33%)
Query: 30 ARGDKVGI------VCYKCNNYGHFARECATESVTCYNCSGQGHVAKDCTVKSSIICYNC 83
A+GD+V + C C G T TC +C G G V
Sbjct: 132 AKGDEVTLRIPKNVTCDDCGGSG---AAPGTSPETCRHCGGSGQVR-------------- 174
Query: 84 NSSGHFARNCPNDSSKRCYACHQAG----HMAKECPGQ 117
S G F P C C G H +C G
Sbjct: 175 QSQGFFQIAVP------CPVCRGEGRVITHPCPKCKGS 206
>gnl|CDD|237663 PRK14293, PRK14293, chaperone protein DnaJ; Provisional.
Length = 374
Score = 28.0 bits (63), Expect = 1.8
Identities = 21/77 (27%), Positives = 24/77 (31%), Gaps = 15/77 (19%)
Query: 38 VCYKCNNYGHFARECATESVTCYNCSGQGHVAKDC-TVKSSI----ICYNCNSSGHFARN 92
C C G A+ T TC C G G V + T S C CN +G
Sbjct: 145 TCETCRGSG--AKP-GTGPTTCSTCGGAGQVRRATRTPFGSFTQVSECPTCNGTGQVI-- 199
Query: 93 CPNDSSKRCYACHQAGH 109
C AC G
Sbjct: 200 -----EDPCDACGGQGV 211
>gnl|CDD|206088 pfam13917, zf-CCHC_3, Zinc knuckle. The zinc knuckle is a zinc
binding motif composed of the the following CX2CX4HX4C
where X can be any amino acid. The motifs are mostly
from retroviral gag proteins (nucleocapsid). Prototype
structure is from HIV. Also contains members involved
in eukaryotic gene regulation, such as C. elegans
GLH-1. Structure is an 18-residue zinc finger.
Length = 40
Score = 25.4 bits (56), Expect = 2.5
Identities = 7/29 (24%), Positives = 14/29 (48%)
Query: 3 STSTIQCYNCFDFGHYQYSCPQKSSADAR 31
+ ++ +C C GH+ Y C + +R
Sbjct: 1 ANASARCQKCLKKGHWTYECKNERKYVSR 29
>gnl|CDD|240640 cd12163, 2-Hacid_dh_5, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 334
Score = 27.6 bits (62), Expect = 2.6
Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 5/25 (20%)
Query: 29 DARGDKVGIVCYKCNNYGHFARECA 53
D+ G +VGI+ YG R+ A
Sbjct: 130 DSVGKRVGIL-----GYGSIGRQTA 149
>gnl|CDD|237658 PRK14284, PRK14284, chaperone protein DnaJ; Provisional.
Length = 391
Score = 27.5 bits (61), Expect = 3.4
Identities = 18/69 (26%), Positives = 27/69 (39%), Gaps = 12/69 (17%)
Query: 21 SCPQKSSADARGDKVGIVCYKCNNYGHF--ARECATESVTCYNCSGQGHVAKDCTVKSSI 78
+C + ++G KV C +C G +R + + TC C G+G V D
Sbjct: 163 ACSGSGANSSQGIKV---CDRCKGSGQVVQSRGFFSMASTCPECGGEGRVITD------- 212
Query: 79 ICYNCNSSG 87
C C G
Sbjct: 213 PCSVCRGQG 221
Score = 27.1 bits (60), Expect = 4.3
Identities = 18/75 (24%), Positives = 23/75 (30%), Gaps = 9/75 (12%)
Query: 57 VTCYNCSGQGHVAKDCTVKSSIICYNCNSSGH-FARNCPNDSSKRCYACHQAGHM----A 111
+C CSG G + +K C C SG + C C G +
Sbjct: 159 KSCDACSGSGANSSQ-GIKV---CDRCKGSGQVVQSRGFFSMASTCPECGGEGRVITDPC 214
Query: 112 KECPGQTAGKSPEPV 126
C GQ K V
Sbjct: 215 SVCRGQGRIKDKRSV 229
>gnl|CDD|187737 cd09616, Peptidase_C12_UCH_L1_L3, Cysteine peptidase C12 containing
ubiquitin carboxyl-terminal hydrolase (UCH) families L1
and L3. This ubiquitin C-terminal hydrolase (UCH)
family includes UCH-L1 and UCH-L3, the two members
sharing around 53% sequence identity as well as
conserved catalytic residues. Both enzymes hydrolyze
carboxyl terminal esters and amides of ubiquitin (Ub).
UCH-L1, in dimeric form, has additional enzymatic
activity as a ubiquitin ligase. It is highly abundant in
the brain, constituting up to 2% of total protein, and
is expressed exclusively in neurons and testes. Abnormal
expression of UCH-L1 has been shown to correlate with
several forms of cancer, including several primary lung
tumors, lung tumor cell lines, and colorectal cancers.
Mutations in the UCH-L1 gene have been linked to
susceptibility to and protection from Parkinson's
disease (PD); dysfunction of the hydrolase activity can
lead to an accumulation of alpha-synuclein, which is
linked to Parkinson's disease (PD), while accumulation
of neurofibrillary tangles is linked to Alzheimer's
disease (AD). UCH-L3 hydrolyzes isopeptide bonds at the
C-terminal glycine of either Ub or Nedd8, a
ubiquitin-like protein. It can also interact with
Lys48-linked Ub dimers to protect them from degradation
while inhibiting its hydrolase activity at the same
time. Unlike UCH-L1, neither dimerization nor ligase
activity have been observed for UCH-L3. It has been
shown that levels of Nedd8 and the apoptotic protein p53
and Bax are elevated in UCH-L3 knockout mice upon
cryptorchid injury, possibly contributing to profound
germ cell loss via apoptosis.
Length = 222
Score = 26.8 bits (60), Expect = 4.0
Identities = 11/34 (32%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 109 HMAKECPGQTAGKSPEPVVDMSLTCYVCGHQGHL 142
H A GQT S + V++ +V GHL
Sbjct: 143 HAAAATEGQTEAPSADEKVNLHFIAFVKK-DGHL 175
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 27.3 bits (61), Expect = 4.1
Identities = 9/49 (18%), Positives = 19/49 (38%), Gaps = 12/49 (24%)
Query: 56 SVTCYNCSGQGHVAK--DCTV-------KSSIICYNCNSSGHFARNCPN 95
+ C +C G++A+ +C + C+ C ++CP
Sbjct: 435 LLLCRDC---GYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPE 480
>gnl|CDD|184877 PRK14877, PRK14877, conjugal transfer mating pair stabilization
protein TraN; Provisional.
Length = 1062
Score = 27.0 bits (59), Expect = 4.8
Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 31 RGDKVGIVCYKCNNYGHFARECATESVTCYNCSGQGHVAKDCTVKSSIICYN 82
GDK G + +K N G+F A + + Y+ SG+ + KD K +CYN
Sbjct: 506 EGDK-GFLTWKTNLEGYFCDPLAKDKICSYDASGK--IMKDANGKD--LCYN 552
>gnl|CDD|237655 PRK14279, PRK14279, chaperone protein DnaJ; Provisional.
Length = 392
Score = 26.6 bits (59), Expect = 5.8
Identities = 14/34 (41%), Positives = 17/34 (50%), Gaps = 4/34 (11%)
Query: 59 CYNCSGQGHVAKDCTVKSSIICYNCNSSGHFARN 92
C C G G A+ T S +C CN SG +RN
Sbjct: 176 CTTCHGSG--ARPGT--SPKVCPTCNGSGVISRN 205
>gnl|CDD|206097 pfam13926, DUF4211, Domain of unknown function (DUF4211).
Length = 147
Score = 25.7 bits (57), Expect = 9.0
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 91 RNCPNDSSKRCYACHQAGHMAK 112
+ +C AC+++GH A
Sbjct: 103 TELSPPTGGKCDACNRSGHPAT 124
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
0.321 0.132 0.448
Gapped
Lambda K H
0.267 0.0869 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,467,847
Number of extensions: 487895
Number of successful extensions: 565
Number of sequences better than 10.0: 1
Number of HSP's gapped: 499
Number of HSP's successfully gapped: 74
Length of query: 152
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 64
Effective length of database: 7,034,450
Effective search space: 450204800
Effective search space used: 450204800
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: 55 (24.7 bits)