RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6525
(360 letters)
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 35.8 bits (82), Expect = 0.028
Identities = 39/229 (17%), Positives = 65/229 (28%), Gaps = 32/229 (13%)
Query: 160 DLCSRTFNSQSYLQQHKKHDHEGVKYKCKECGKCYTQNTNLKQH------MLSHKGIFFI 213
L ++ SQS E + + + S KG
Sbjct: 234 QLSPKSLLSQSPSSLSSSDSSS----SASESPRSSLPTASSQSSSPNESDSSSEKGFSLP 289
Query: 214 CFH--CNKNFTHRALLVRHMQK-----HSSERFKCD--LCGKVTPYYQHYLRHMRIHQGL 264
CN +F+ + L RH++ S + F C LCGK+ RH+ +H +
Sbjct: 290 IKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSI 349
Query: 265 EVHECNLCA-------KLFACKRSLQDHMQRHEEPNKYQCAM--CKKQYASKKMLEKHIR 315
+ L L + + K + C + + L HI
Sbjct: 350 SPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHII 409
Query: 316 RHEGQDYKCYICGNRYATQK---YLEEHIRLHQGHTYM-CNAKFSFNEQ 360
H + L H ++H H + C+ SF
Sbjct: 410 THLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCSILKSFRRD 458
Score = 30.8 bits (69), Expect = 1.3
Identities = 18/72 (25%), Positives = 23/72 (31%), Gaps = 4/72 (5%)
Query: 162 CSRTFNSQSYLQQHKKHDH---EGVKYKCKECGKCYTQNTNLKQHMLSHKGIFFICFHCN 218
C R F S L H H K C K + ++ NL H H +
Sbjct: 394 CIRNFKRDSNLSLHI-ITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCSIL 452
Query: 219 KNFTHRALLVRH 230
K+F L H
Sbjct: 453 KSFRRDLDLSNH 464
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 35.4 bits (81), Expect = 0.041
Identities = 26/119 (21%), Positives = 39/119 (32%), Gaps = 19/119 (15%)
Query: 153 NWVRFKC--DLCSRTFNSQSYLQQHKKHDHEGVKYKCKECGK----------CYTQNTNL 200
+ + FKC C R S L++H K H C EC + +T
Sbjct: 148 DLLSFKCPKSKCHRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLR 205
Query: 201 KQHMLSHKGIFF----ICFHCNKNFTHRALLVRHMQKHSSERFKCDLCGKVTP-YYQHY 254
+ F +C C F L RH + CD+ G + Y++ Y
Sbjct: 206 DHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSY 264
Score = 30.0 bits (67), Expect = 2.0
Identities = 26/106 (24%), Positives = 39/106 (36%), Gaps = 22/106 (20%)
Query: 238 RFKC--DLCGKVTPYYQHYLRHMRIHQGLEVHECNLCA---KLFAC------KRSLQDHM 286
FKC C + + +H + G + C+ C K F +L+DH
Sbjct: 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGFVL--CSECIGNKKDFWNEIRLFRSSTLRDHK 208
Query: 287 QRHEEPNKYQ----CAMCKKQYASKKMLEKHIR-RHEGQDYKCYIC 327
E ++ C CK + L +H R RHE C+IC
Sbjct: 209 NGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHE----ACHIC 250
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 35.5 bits (81), Expect = 0.042
Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 21/68 (30%)
Query: 157 FKCDL--CSRTFNSQSYLQQHKKHDHEGVK-------------------YKCKECGKCYT 195
+KC + C++ + +Q+ L+ H H H+ K Y+C+ C K Y
Sbjct: 350 YKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYK 409
Query: 196 QNTNLKQH 203
LK H
Sbjct: 410 NLNGLKYH 417
>gnl|CDD|227445 COG5114, COG5114, Histone acetyltransferase complex SAGA/ADA,
subunit ADA2 [Chromatin structure and dynamics].
Length = 432
Score = 34.3 bits (78), Expect = 0.087
Identities = 14/61 (22%), Positives = 20/61 (32%), Gaps = 19/61 (31%)
Query: 127 GTQFQCNVCFLMLNNRCYTRFHLLKHNWVRFKC------DLCSRTFNSQSYLQQHKK-HD 179
G + C+VCFL + + KC DLC F + H H
Sbjct: 3 GVKIHCDVCFLDMTDL------------TFIKCNECPAVDLCLPCFVNGIETGVHSPYHG 50
Query: 180 H 180
+
Sbjct: 51 Y 51
>gnl|CDD|200998 pfam00096, zf-C2H2, Zinc finger, C2H2 type. The C2H2 zinc finger
is the classical zinc finger domain. The two conserved
cysteines and histidines co-ordinate a zinc ion. The
following pattern describes the zinc finger.
#-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can
be any amino acid, and numbers in brackets indicate the
number of residues. The positions marked # are those
that are important for the stable fold of the zinc
finger. The final position can be either his or cys. The
C2H2 zinc finger is composed of two short beta strands
followed by an alpha helix. The amino terminal part of
the helix binds the major groove in DNA binding zinc
fingers. The accepted consensus binding sequence for Sp1
is usually defined by the asymmetric hexanucleotide core
GGGCGG but this sequence does not include, among others,
the GAG (=CTC) repeat that constitutes a high-affinity
site for Sp1 binding to the wt1 promoter.
Length = 22
Score = 29.6 bits (67), Expect = 0.13
Identities = 10/22 (45%), Positives = 18/22 (81%)
Query: 186 KCKECGKCYTQNTNLKQHMLSH 207
KC +CGK +++ +NLK+H+ +H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 28.1 bits (63), Expect = 0.61
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 213 ICFHCNKNFTHRALLVRHMQKH 234
C C K+F+ ++ L RH++ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 25.8 bits (57), Expect = 3.4
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 296 QCAMCKKQYASKKMLEKHIRRH 317
+C C K ++ K L++H+R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|205121 pfam12874, zf-met, Zinc-finger of C2H2 type. This is a zinc-finger
domain with the CxxCx(12)Hx(6)H motif, found in multiple
copies in a wide range of proteins from plants to
metazoans. Some member proteins, particularly those from
plants, are annotated as being RNA-binding.
Length = 25
Score = 29.0 bits (66), Expect = 0.23
Identities = 13/25 (52%), Positives = 17/25 (68%), Gaps = 3/25 (12%)
Query: 157 FKCDLCSRTFNSQSYLQQH---KKH 178
F C+LC+ TF S+S L+ H KKH
Sbjct: 1 FYCELCNVTFTSESQLKSHLRGKKH 25
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 28.3 bits (64), Expect = 0.51
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 157 FKCDLCSRTFNSQSYLQQHKKHDHEG 182
C +C +TF+S L HKK
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSHCSL 27
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 27.8 bits (62), Expect = 0.62
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 239 FKCDLCGKVTPYYQHYLRHMRIH 261
++C CGKV HMR H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.0 bits (60), Expect = 1.1
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 212 FICFHCNKNFTHRALLVRHMQKH 234
+ C C K F ++ L HM+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.0 bits (60), Expect = 1.1
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 185 YKCKECGKCYTQNTNLKQHMLSH 207
Y+C ECGK + + L++HM +H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.9 bits (57), Expect = 3.3
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 295 YQCAMCKKQYASKKMLEKHIRRH 317
Y+C C K + SK L +H+R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 24.7 bits (54), Expect = 7.9
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 267 HECNLCAKLFACKRSLQDHMQRH 289
+ C C K+F K +L++HM+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 24.7 bits (54), Expect = 9.2
Identities = 7/21 (33%), Positives = 14/21 (66%)
Query: 157 FKCDLCSRTFNSQSYLQQHKK 177
++C C + F S+S L++H +
Sbjct: 1 YRCPECGKVFKSKSALREHMR 21
>gnl|CDD|221755 pfam12756, zf-C2H2_2, C2H2 type zinc-finger (2 copies). This
family contains two copies of a C2H2-like zinc finger
domain.
Length = 100
Score = 29.9 bits (68), Expect = 0.63
Identities = 24/79 (30%), Positives = 33/79 (41%), Gaps = 14/79 (17%)
Query: 213 ICFHCNKNFTHRALLVRHMQK-HS----SERFKCDLCGKVTPYYQHYLRHMRIHQGLEVH 267
C CN + HM K H + DL G + +YLR +IH+G +
Sbjct: 1 DCLFCNHTSDTVEENLEHMFKSHGFFIPEREYLVDLEGLL-----NYLRE-KIHEG---N 51
Query: 268 ECNLCAKLFACKRSLQDHM 286
EC C K F +L+ HM
Sbjct: 52 ECLYCGKQFKSLEALRQHM 70
>gnl|CDD|204841 pfam12171, zf-C2H2_jaz, Zinc-finger double-stranded RNA-binding.
This domain family is found in archaea and eukaryotes,
and is approximately 30 amino acids in length. The
mammalian members of this group occur multiple times
along the protein, joined by flexible linkers, and are
referred to as JAZ - dsRNA-binding ZF protein -
zinc-fingers. The JAZ proteins are expressed in all
tissues tested and localise in the nucleus, particularly
the nucleolus. JAZ preferentially binds to
double-stranded (ds) RNA or RNA/DNA hybrids rather than
DNA. In addition to binding double-stranded RNA, these
zinc-fingers are required for nucleolar localisation.
Length = 27
Score = 27.9 bits (63), Expect = 0.66
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 3/26 (11%)
Query: 156 RFKCDLCSRTFNSQSYLQQH---KKH 178
+F C C + F S++ L+ H KKH
Sbjct: 1 QFYCVACDKYFKSENALENHLKSKKH 26
Score = 24.5 bits (54), Expect = 9.2
Identities = 7/20 (35%), Positives = 9/20 (45%)
Query: 212 FICFHCNKNFTHRALLVRHM 231
F C C+K F L H+
Sbjct: 2 FYCVACDKYFKSENALENHL 21
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 29.5 bits (66), Expect = 1.2
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 293 NKYQCAMCKKQYASKKMLEKHIRRHEGQDYKCYICGNRYATQKYLEEHI 341
+ Y C +C ++S L++HIR E C +CG + +H+
Sbjct: 72 SPYVCPLCLMPFSSSVSLKQHIRYTE-HSKVCPVCGKEFRNTDSTLDHV 119
>gnl|CDD|173155 PRK14692, PRK14692, lagellar hook-associated protein FlgL;
Provisional.
Length = 749
Score = 30.7 bits (69), Expect = 1.5
Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 15/78 (19%)
Query: 36 DTDSDLDD-KIFLSPT------RKP-----KCSVKIKKEDTDVDIFFRSRRQYNNTYNDN 83
D D + DD K+ PT KP K +V +K EDT D+ Y NT N+
Sbjct: 235 DKDFEYDDSKLDFPPTTLYVQGTKPDGTSFKSAVLVKPEDTLEDVMENIGALYGNTPNNK 294
Query: 84 LVQISPSDP---EIMDTK 98
+V++S +D +I D K
Sbjct: 295 VVEVSMNDSGQIQITDLK 312
>gnl|CDD|99780 cd06183, cyt_b5_reduct_like, Cytochrome b5 reductase catalyzes the
reduction of 2 molecules of cytochrome b5 using NADH as
an electron donor. Like ferredoxin reductases, these
proteins have an N-terminal FAD binding subdomain and a
C-terminal NADH binding subdomain, separated by a cleft,
which accepts FAD. The NADH-binding moiety interacts
with part of the FAD and resembles a Rossmann fold.
However, NAD is bound differently than in canonical
Rossmann fold proteins. Nitrate reductases,
flavoproteins similar to pyridine nucleotide cytochrome
reductases, catalyze the reduction of nitrate to
nitrite. The enzyme can be divided into three functional
fragments that bind the cofactors molybdopterin,
heme-iron, and FAD/NADH.
Length = 234
Score = 29.8 bits (68), Expect = 1.9
Identities = 9/38 (23%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 306 SKKMLEKHIRRHEGQDYKCYICG----NRYATQKYLEE 339
+K+M+++H+ +D +CG A + L+E
Sbjct: 186 TKEMIKEHLPPPPSEDTLVLVCGPPPMIEGAVKGLLKE 223
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 26.6 bits (59), Expect = 2.1
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 253 HYLRHMRIHQGLEVHECNLCAKLFAC 278
+ RHMR H G + ++C +C K F+
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 26.2 bits (58), Expect = 2.3
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 281 SLQDHMQRHEEPNKYQCAMCKKQYAS 306
+L+ HM+ H Y+C +C K ++S
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 26.2 bits (58), Expect = 2.9
Identities = 11/23 (47%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 227 LVRHMQKHSSER-FKCDLCGKVT 248
L RHM+ H+ E+ +KC +CGK
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSF 24
Score = 25.0 bits (55), Expect = 7.2
Identities = 10/26 (38%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 309 MLEKHIRRHEGQD-YKCYICGNRYAT 333
L +H+R H G+ YKC +CG +++
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|187810 cd09679, Cas10_III, CRISPR/Cas system-associated protein Cas10.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Multidomain protein with permuted HD nuclease domain,
palm domain and Zn-ribbon; MTH326-like has inactivated
polymerase catalytic domain; alr1562 and slr7011 -
predicted only on the basis of size, presence of HD
domain, and location with RAMPs in one operon; signature
gene for type III; also known as Crm2 family.
Length = 475
Score = 29.7 bits (67), Expect = 2.8
Identities = 14/80 (17%), Positives = 27/80 (33%), Gaps = 13/80 (16%)
Query: 232 QKHSSERFKCDLCGKVTPYYQHYLRHMRIHQGLEVHECNLCAKLFACKR----------- 280
+K SE++K L K L + C L A + ++
Sbjct: 183 EKELSEKYKEFLLKKRNGLLLDKLGGRA--RKEYRSVCGLLAAAWKLEKETEQYSLFAKD 240
Query: 281 SLQDHMQRHEEPNKYQCAMC 300
L++ ++ E + C +C
Sbjct: 241 DLEEDLKLLLEAGERLCPLC 260
>gnl|CDD|226202 COG3677, COG3677, Transposase and inactivated derivatives [DNA
replication, recombination, and repair].
Length = 129
Score = 28.5 bits (64), Expect = 2.9
Identities = 13/59 (22%), Positives = 19/59 (32%), Gaps = 12/59 (20%)
Query: 141 NRCYTRFHLLKHN-----WVRFKCDLCSRTFNSQSYLQQHKKHDHEGVKYKCKECGKCY 194
RC +++K R+KC C TF ++ K YK K
Sbjct: 34 PRC-KSSNVVKIGGIRRGHQRYKCKSCGSTFTVETGSPLSKA------LYKIKLQAVTL 85
>gnl|CDD|215056 PLN00104, PLN00104, MYST -like histone acetyltransferase;
Provisional.
Length = 450
Score = 29.3 bits (66), Expect = 3.2
Identities = 27/77 (35%), Positives = 33/77 (42%), Gaps = 22/77 (28%)
Query: 212 FICFHCNKNFTHRALLVRHMQKHSSERFKCDLCGKVTPYYQHYLRHMRIHQGLEVHE--- 268
+ C C K + L RHM+ KCDL K P + Y RH +GL + E
Sbjct: 199 YFCEFCLKFMKRKEQLQRHMK-------KCDL--KHPPGDEIY-RHPTRQEGLSMFEVDG 248
Query: 269 ------C-NLC--AKLF 276
C NLC AKLF
Sbjct: 249 KKNKVYCQNLCYLAKLF 265
>gnl|CDD|165133 PHA02768, PHA02768, hypothetical protein; Provisional.
Length = 55
Score = 26.5 bits (58), Expect = 3.6
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 322 YKCYICGNRYATQKYLEEHIRLHQGHTYMCNAK 354
Y+C ICG Y +K + H+R H + + N K
Sbjct: 6 YECPICGEIYIKRKSMITHLRKHNTNLKLSNCK 38
Score = 25.8 bits (56), Expect = 7.5
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 295 YQCAMCKKQYASKKMLEKHIRRH 317
Y+C +C + Y +K + H+R+H
Sbjct: 6 YECPICGEIYIKRKSMITHLRKH 28
>gnl|CDD|240082 cd04731, HisF, The cyclase subunit of imidazoleglycerol phosphate
synthase (HisF). Imidazole glycerol phosphate synthase
(IGPS) catalyzes the fifth step of histidine
biosynthesis, the formation of the imidazole ring. IGPS
converts
N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-
carboxamide ribonucleotide (PRFAR) to imidazole glycerol
phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide)
ribonucleotide (AICAR). This conversion involves two
tightly coupled reactions in distinct active sites of
IGPS. The two catalytic domains can be fused, like in
fungi and plants, or peformed by a heterodimer
(HisH-glutaminase and HisF-cyclase), like in bacteria.
Length = 243
Score = 28.6 bits (65), Expect = 4.1
Identities = 7/29 (24%), Positives = 10/29 (34%)
Query: 314 IRRHEGQDYKCYICGNRYATQKYLEEHIR 342
+R Y+ Y G R T E +
Sbjct: 128 AKRRGDGGYEVYTHGGRKPTGLDAVEWAK 156
>gnl|CDD|206065 pfam13894, zf-C2H2_4, C2H2-type zinc finger. This family contains
a number of divergent C2H2 type zinc fingers.
Length = 24
Score = 25.3 bits (55), Expect = 5.6
Identities = 11/23 (47%), Positives = 12/23 (52%)
Query: 239 FKCDLCGKVTPYYQHYLRHMRIH 261
FKC LCGK RH+R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 25.3 bits (55), Expect = 6.0
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 157 FKCDLCSRTFNSQSYLQQHKKHDH 180
FKC LC ++F+S+ L++H + H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
Score = 24.5 bits (53), Expect = 9.2
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 212 FICFHCNKNFTHRALLVRHMQKH 234
F C C K+F+ + L RH++KH
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
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
0.325 0.137 0.439
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,535,382
Number of extensions: 1612026
Number of successful extensions: 2502
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2478
Number of HSP's successfully gapped: 99
Length of query: 360
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 262
Effective length of database: 6,590,910
Effective search space: 1726818420
Effective search space used: 1726818420
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 60 (26.9 bits)