RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5645
(525 letters)
>gnl|CDD|227470 COG5141, COG5141, PHD zinc finger-containing protein [General
function prediction only].
Length = 669
Score = 187 bits (476), Expect = 5e-52
Identities = 84/205 (40%), Positives = 108/205 (52%), Gaps = 9/205 (4%)
Query: 304 DRLEKMIAELEVRCWDKVQTIIKEEEGLGLEFDENVICDVCRSPDSEEGNEMVFCDCCNI 363
RLEK E DK I+ + EFD+ IC C S +E N +VFCD C I
Sbjct: 165 TRLEKEWFFFEHGLPDKHVEPIEPSD----EFDD--ICTKCTSTHNENSNAIVFCDGCEI 218
Query: 364 CVHQACYGITTIPSGSWLCRTCVLGKRP--ECILCPNKGGAMKCARSGNKWAHVSCALWI 421
CVHQ+CYGI +P G WLCR C+ G+ C CP+ GA S +W HV CA++
Sbjct: 219 CVHQSCYGIQFLPEGFWLCRKCIYGEYQIRCCSFCPSSDGAF-KQTSDGRWGHVICAMFN 277
Query: 422 PEVSIGCVEKMEPITKISSIPQSRWALICILCRERLGACIQCSVKTCKTAYHVTCAFKHG 481
PE+S G + +PI I+S+ SRW L C++C+E G CIQCS C AYHVTCA + G
Sbjct: 278 PELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYHVTCARRAG 337
Query: 482 LEMRAIIEDENAEDGVKLRSYCQKH 506
I + C+KH
Sbjct: 338 YFDLNIYSHNGISYCIDHEPLCRKH 362
>gnl|CDD|206003 pfam13832, zf-HC5HC2H_2, PHD-zinc-finger like domain.
Length = 109
Score = 143 bits (362), Expect = 4e-41
Identities = 55/116 (47%), Positives = 72/116 (62%), Gaps = 7/116 (6%)
Query: 391 PECILCPNKGGAMKCARSGNKWAHVSCALWIPEVSIGCVEKMEPITKISSIPQSRWALIC 450
EC LCP +GGA+K + +W HV CA+++PEV G MEPI +S IP+ RW L C
Sbjct: 1 AECCLCPLRGGALK-KTTDGRWVHVLCAIFVPEVRFGNGATMEPID-VSRIPKERWKLKC 58
Query: 451 ILCRERLGACIQCSVKTCKTAYHVTCAFKHGLEMRAIIEDENAEDGVKLRSYCQKH 506
C++R GACIQCS C+T++HVTCA G+ M IED + +YCQKH
Sbjct: 59 CFCKKRSGACIQCSYGRCQTSFHVTCARAAGVYME--IEDWPNLQVI---AYCQKH 109
>gnl|CDD|222368 pfam13771, zf-HC5HC2H, PHD-like zinc-binding domain. The members
of this family are annotated as containing PHD domain,
but the zinc-binding region here is not typical of PHD
domains. The conformation here is a well-conserved
cysteine-histidine rich region spanning 90 residues,
where the Cys and His are arranged as
HxxC(31)CxxC(6)CxxCxxxxCxxxxHxxC (21)CxxH.
Length = 89
Score = 108 bits (271), Expect = 2e-28
Identities = 38/96 (39%), Positives = 51/96 (53%), Gaps = 9/96 (9%)
Query: 414 HVSCALWIPEVSIGCVEKM--EPITKISSIPQSRWALICILCRERLGACIQCSVKTCKTA 471
HV+CALW PEV + M P+ + + R L C LC+++ GACI C VK C+ A
Sbjct: 1 HVNCALWSPEVVQRGDDDMEGFPLEDVDKAVKRRRKLKCSLCKKK-GACIGCCVKNCRRA 59
Query: 472 YHVTCAFKHGLEMRAIIEDENAEDGVKLRSYCQKHS 507
+HVTCA + G + D K +SYC KH
Sbjct: 60 FHVTCAREAGCLF------QFDGDNGKFKSYCPKHR 89
Score = 27.3 bits (61), Expect = 5.1
Identities = 10/33 (30%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 388 GKRPECILCPNKGGAMKCARSG-NKWAHVSCAL 419
++ +C LC KG + C + HV+CA
Sbjct: 34 RRKLKCSLCKKKGACIGCCVKNCRRAFHVTCAR 66
>gnl|CDD|201356 pfam00628, PHD, PHD-finger. PHD folds into an interleaved type of
Zn-finger chelating 2 Zn ions in a similar manner to
that of the RING and FYVE domains. Several PHD fingers
have been identified as binding modules of methylated
histone H3.
Length = 51
Score = 54.4 bits (131), Expect = 6e-10
Identities = 18/51 (35%), Positives = 22/51 (43%), Gaps = 6/51 (11%)
Query: 340 ICDVCRSPDSEEGNEMVFCDCCNICVHQACYGIT----TIPSGSWLCRTCV 386
C VC D + E++ CD C+ H AC G IP G W C C
Sbjct: 1 YCAVCGKVD--DDGELLLCDGCDRWFHLACLGPPLEPEEIPEGEWYCPECK 49
>gnl|CDD|222406 pfam13831, PHD_2, PHD-finger. PHD folds into an interleaved type
of Zn-finger chelating 2 Zn ions in a similar manner to
that of the RING and FYVE domains. Several PHD fingers
have been identified as binding modules of methylated
histone H3.
Length = 33
Score = 52.3 bits (126), Expect = 3e-09
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 353 NEMVFCDCCNICVHQACYGITTIPSGSWLCRTC 385
N ++ C C++ VH +CYG+ + G WLCR C
Sbjct: 1 NPLLVCSKCSVAVHASCYGVPELSDGPWLCRRC 33
>gnl|CDD|214584 smart00249, PHD, PHD zinc finger. The plant homeodomain (PHD)
finger is a C4HC3 zinc-finger-like motif found in
nuclear proteins thought to be involved in epigenetics
and chromatin-mediated transcriptional regulation. The
PHD finger binds two zinc ions using the so-called
'cross-brace' motif and is thus structurally related to
the RING finger and the FYVE finger. It is not yet known
if PHD fingers have a common molecular function. Several
reports suggest that it can function as a
protein-protein interacton domain and it was recently
demonstrated that the PHD finger of p300 can cooperate
with the adjacent BROMO domain in nucleosome binding in
vitro. Other reports suggesting that the PHD finger is a
ubiquitin ligase have been refuted as these domains were
RING fingers misidentified as PHD fingers.
Length = 47
Score = 46.8 bits (111), Expect = 3e-07
Identities = 19/49 (38%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 340 ICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITT---IPSGSWLCRTC 385
C VC PD +G E++ CD C+ HQ C G P G W C C
Sbjct: 1 YCSVCGKPD--DGGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC 47
Score = 31.4 bits (71), Expect = 0.086
Identities = 10/31 (32%), Positives = 13/31 (41%), Gaps = 4/31 (12%)
Query: 449 ICILCRER--LGACIQCSVKTCKTAYHVTCA 477
C +C + G +QC C YH TC
Sbjct: 1 YCSVCGKPDDGGELLQCD--GCDRWYHQTCL 29
>gnl|CDD|219956 pfam08658, Rad54_N, Rad54 N terminal. This is the N terminal of
the DNA repair protein Rad54.
Length = 191
Score = 41.9 bits (99), Expect = 2e-04
Identities = 23/55 (41%), Positives = 29/55 (52%), Gaps = 8/55 (14%)
Query: 15 ILAKPFKVPILNYTGSGYSTK----ALGVRREGAR---KALHDPTAPNALVLYTP 62
K F VP++N GY + LG+RR GA + LHDPT A+VLY P
Sbjct: 86 TFKKSFSVPLINKKSKGYVPRRPPPTLGMRR-GAVFVPRPLHDPTGEFAIVLYDP 139
>gnl|CDD|220792 pfam10513, EPL1, Enhancer of polycomb-like. This is a family of
EPL1 (Enhancer of polycomb-like) proteins. The EPL1
protein is a member of a histone acetyltransferase
complex which is involved in transcriptional activation
of selected genes.
Length = 145
Score = 38.5 bits (90), Expect = 0.002
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 13/56 (23%)
Query: 109 RPKHKYIRITKKDSFKPEEHVLSNVLEKAEKACLYDLDDCDIAWLNILNGERACMG 164
RPK YIR ++K +E+ + YD+D+ D AWL LN +R G
Sbjct: 84 RPKS-YIRFSEKS------------VEELDSGVEYDMDEEDEAWLEELNEKRKEEG 126
Score = 34.3 bits (79), Expect = 0.059
Identities = 19/82 (23%), Positives = 32/82 (39%), Gaps = 16/82 (19%)
Query: 210 PAELFR-KDLISAMKLPDSEPLKSDEFWVISDQWKQ--EWERGVQVPVNPDS------LP 260
P +FR +DL K D E I ++ EWE+ +QVP++ +P
Sbjct: 11 PLPVFREEDLPDLEKSADIEV------PQIPTGVEKEEEWEKHLQVPISAAQVAKKLYIP 64
Query: 261 GPQVTVVSTLNSTRYPNNYNEP 282
P+ + + Y + P
Sbjct: 65 TPEAREIEDYDKP-YAPKFKRP 85
>gnl|CDD|215738 pfam00130, C1_1, Phorbol esters/diacylglycerol binding domain (C1
domain). This domain is also known as the Protein
kinase C conserved region 1 (C1) domain.
Length = 53
Score = 30.1 bits (68), Expect = 0.29
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 341 CDVCRSPDSEEGNEMVFCDCCNICVHQACY 370
CD C G + + C C + VH+ C+
Sbjct: 14 CDHCGEFLWGLGKQGLKCSWCGLNVHKRCH 43
>gnl|CDD|227367 COG5034, TNG2, Chromatin remodeling protein, contains PhD zinc
finger [Chromatin structure and dynamics].
Length = 271
Score = 31.8 bits (72), Expect = 0.73
Identities = 17/58 (29%), Positives = 21/58 (36%), Gaps = 9/58 (15%)
Query: 332 GLEFDENVICDVCRSPDSEEGNEMVFCDCCNIC----VHQACYGITTIPSGSWLCRTC 385
E + C C+ +MV CD N C H C G+ P G W C C
Sbjct: 215 DNSEGEELYC-FCQQVSY---GQMVACDNAN-CKREWFHLECVGLKEPPKGKWYCPEC 267
>gnl|CDD|172788 PRK14300, PRK14300, chaperone protein DnaJ; Provisional.
Length = 372
Score = 31.9 bits (72), Expect = 0.88
Identities = 17/43 (39%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 323 TIIKEEEGLGLE----FDENVICDVCRSPDSEEGNEMVFCDCC 361
TI EE G+E F V CD C SE+G + CD C
Sbjct: 126 TINLEEAFHGIEKNISFSSEVKCDTCHGSGSEKGETVTTCDAC 168
>gnl|CDD|178752 PLN03213, PLN03213, repressor of silencing 3; Provisional.
Length = 759
Score = 31.7 bits (71), Expect = 1.0
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 156 LNGERACMGIMYNTQDDEEATSSPMDSVHSSRGGSSYSDLKSMNS-IYNRNTNEAPAELF 214
LN E+ + + N D+EEA P+ + + S GGSS+ S + ++NT+
Sbjct: 576 LNAEKESLVVKENVVDEEEAGKEPLKACNKSTGGSSWLQKASWTQLVSDKNTSSFSITQL 635
Query: 215 RKDLIS 220
DL S
Sbjct: 636 FPDLSS 641
>gnl|CDD|237223 PRK12839, PRK12839, hypothetical protein; Provisional.
Length = 572
Score = 31.3 bits (71), Expect = 1.5
Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 16 LAKPFKVPILNYTGSGYSTKALGVRREGARKALHDPTAPNALV 58
+AKP VP+ Y SGY T+ + E A K DP A V
Sbjct: 407 MAKPLPVPLTPYLRSGYLTRGRTI-EELAEKCGIDPAGLEATV 448
>gnl|CDD|117316 pfam08746, zf-RING-like, RING-like domain. This is a zinc finger
domain that is related to the C3HC4 RING finger domain
(pfam00097).
Length = 43
Score = 27.0 bits (60), Expect = 2.6
Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 1/39 (2%)
Query: 450 CILCRERLGACIQCSVKTCKTAYHVTCAFKHGLEMRAII 488
C +C E + +C + C +HV C R+
Sbjct: 1 CEVCHEIVTQGQRCGNRDCNIRWHVDC-LARYFRHRSNP 38
>gnl|CDD|221734 pfam12722, Hid1, High-temperature-induced dauer-formation protein.
Hid1 (high-temperature-induced dauer-formation protein
1) represents proteins of approximately 800 residues
long and is conserved from fungi to humans. It contains
up to seven potential transmembrane domains separated by
regions of low complexity. Functionally it might be
involved in vesicle secretion or be an inter-cellular
signalling protein or be a novel insulin receptor.
Length = 813
Score = 30.0 bits (68), Expect = 3.7
Identities = 15/79 (18%), Positives = 24/79 (30%), Gaps = 8/79 (10%)
Query: 168 NTQDDEEATSSPMDSVHSSRGGSSYSDLKSMNSIYNRNTNEAPAELFRKDLISAMKLPDS 227
E A ++SV G S D + + R + + K P
Sbjct: 631 ENSTSEAAAPPSVNSVPLQLQGPSEKDRGKNPAGSLAFS--------RLNSATRPKWPSG 682
Query: 228 EPLKSDEFWVISDQWKQEW 246
KS E + + W + W
Sbjct: 683 LSSKSKEKFPPTSDWVESW 701
>gnl|CDD|197519 smart00109, C1, Protein kinase C conserved region 1 (C1) domains
(Cysteine-rich domains). Some bind phorbol esters and
diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Length = 50
Score = 27.0 bits (60), Expect = 3.7
Identities = 9/36 (25%), Positives = 14/36 (38%)
Query: 334 EFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQAC 369
F + C VCR + + C C + H+ C
Sbjct: 7 TFTKPTFCCVCRKSIWGSFKQGLRCSECKVKCHKKC 42
>gnl|CDD|165711 PLN00143, PLN00143, tyrosine/nicotianamine aminotransferase;
Provisional.
Length = 409
Score = 30.0 bits (67), Expect = 3.7
Identities = 12/35 (34%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 474 VTCAFKHGLEMRAIIEDENAEDGV-KLRSYCQKHS 507
VT K+ L + +E + EDG+ +L+S+C +H+
Sbjct: 372 VTVGLKNWLRITFAVEQSSLEDGLGRLKSFCGRHA 406
>gnl|CDD|172360 PRK13833, PRK13833, conjugal transfer protein TrbB; Provisional.
Length = 323
Score = 29.8 bits (67), Expect = 3.9
Identities = 30/105 (28%), Positives = 40/105 (38%), Gaps = 16/105 (15%)
Query: 11 LIRQILAKPFKVPILNYTGSGYSTKALGVRREGARKA-------LHDPT-----APNALV 58
+IR + + I TGSG +T A V E A L D A NA+
Sbjct: 136 VIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQCAAENAVA 195
Query: 59 LYTPPQLSAHDLLK----IDKDKIQVHVVVDPVLSNIYLTWKTNH 99
L+T + LLK + D+I V V D + W T H
Sbjct: 196 LHTSDTVDMARLLKSTMRLRPDRIIVGEVRDGAALTLLKAWNTGH 240
>gnl|CDD|239081 cd02341, ZZ_ZZZ3, Zinc finger, ZZ type. Zinc finger present in ZZZ3
(ZZ finger containing 3) and related proteins. The ZZ
motif coordinates two zinc ions and most likely
participates in ligand binding or molecular scaffolding.
Length = 48
Score = 26.6 bits (59), Expect = 4.2
Identities = 11/38 (28%), Positives = 14/38 (36%), Gaps = 9/38 (23%)
Query: 360 CCNICVHQACYGITTIPSGSWLCRTCVLGKRPECILCP 397
C+ C GI IP + C C G + LC
Sbjct: 2 KCDSC------GIEPIPGTRYHCSECDDG---DFDLCQ 30
>gnl|CDD|237996 cd00029, C1, Protein kinase C conserved region 1 (C1) .
Cysteine-rich zinc binding domain. Some members of this
domain family bind phorbol esters and diacylglycerol,
some are reported to bind RasGTP. May occur in tandem
arrangement. Diacylglycerol (DAG) is a second messenger,
released by activation of Phospholipase D. Phorbol
Esters (PE) can act as analogues of DAG and mimic its
downstream effects in, for example, tumor promotion.
Protein Kinases C are activated by DAG/PE, this
activation is mediated by their N-terminal conserved
region (C1). DAG/PE binding may be phospholipid
dependent. C1 domains may also mediate DAG/PE signals in
chimaerins (a family of Rac GTPase activating proteins),
RasGRPs (exchange factors for Ras/Rap1), and Munc13
isoforms (scaffolding proteins involved in exocytosis).
Length = 50
Score = 26.7 bits (59), Expect = 4.2
Identities = 9/29 (31%), Positives = 13/29 (44%)
Query: 341 CDVCRSPDSEEGNEMVFCDCCNICVHQAC 369
CDVCR + + C C + H+ C
Sbjct: 14 CDVCRKSIWGLFKQGLRCSWCKVKCHKKC 42
>gnl|CDD|240238 PTZ00040, PTZ00040, translation initiation factor E4; Provisional.
Length = 233
Score = 28.6 bits (64), Expect = 7.0
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 202 YNRNTNEAPAELFRKDLISAMKLPDSEPLKSDEFWVISDQWKQEWER 248
+N++ +A +L +L K+P S PL WVI +Q +E R
Sbjct: 13 FNKSIEDA-LDL--SELFEETKIPLSTPLPLSYKWVIWEQVVKETIR 56
>gnl|CDD|183451 PRK12336, PRK12336, translation initiation factor IF-2 subunit
beta; Provisional.
Length = 201
Score = 28.4 bits (64), Expect = 7.4
Identities = 13/31 (41%), Positives = 16/31 (51%), Gaps = 4/31 (12%)
Query: 335 FDENVICDVCRSPDS----EEGNEMVFCDCC 361
DE VIC C PD+ E+ M+ CD C
Sbjct: 95 VDEYVICSECGLPDTRLVKEDRVLMLRCDAC 125
>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger).
Length = 45
Score = 25.5 bits (56), Expect = 8.8
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 3/41 (7%)
Query: 359 DCCNICVHQACYGITTIPSGSWLCRTCV---LGKRPECILC 396
C IC+ + P G CR C+ L K+ +C +C
Sbjct: 3 LECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSKCPIC 43
>gnl|CDD|217740 pfam03803, Scramblase, Scramblase. Scramblase is palmitoylated and
contains a potential protein kinase C phosphorylation
site. Scramblase exhibits Ca2+-activated phospholipid
scrambling activity in vitro. There are also possible
SH3 and WW binding motifs. Scramblase is involved in the
redistribution of phospholipids after cell activation or
injury.
Length = 223
Score = 28.1 bits (63), Expect = 9.8
Identities = 11/53 (20%), Positives = 21/53 (39%), Gaps = 6/53 (11%)
Query: 52 TAPNALVLYTPPQLSAHDLLKIDKDKIQVHVVVDPVLSNIYLTWKTNHQYEIR 104
+ P P L LL++D + V I+ ++T ++Y I+
Sbjct: 2 SGPGQPPANCPAGLEY--LLQLD----TILVHQQIEPLEIFTGFETKNRYVIK 48
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 0.424
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,214,183
Number of extensions: 2479162
Number of successful extensions: 2008
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1998
Number of HSP's successfully gapped: 39
Length of query: 525
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 424
Effective length of database: 6,457,848
Effective search space: 2738127552
Effective search space used: 2738127552
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: 61 (27.3 bits)