RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17762
(124 letters)
>gnl|CDD|185399 PTZ00017, PTZ00017, histone H2A; Provisional.
Length = 134
Score = 200 bits (511), Expect = 5e-68
Identities = 94/127 (74%), Positives = 107/127 (84%), Gaps = 3/127 (2%)
Query: 1 MSGRGKGGKAKAKSK---TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEY 57
G+GK G KA K +RS++AGLQFPVGR+HR L+KG YA+RVGAGAPVYLAAV+EY
Sbjct: 1 KGGKGKTGGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEY 60
Query: 58 LAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLP 117
L AEVLELAGNAA+DNKK RI PRH+QLAIRNDEELNKLL+GVTIA GGVLPNI VLLP
Sbjct: 61 LTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLLAGVTIASGGVLPNIHKVLLP 120
Query: 118 KKTEKKA 124
KK++ K
Sbjct: 121 KKSKPKQ 127
>gnl|CDD|238029 cd00074, H2A, Histone 2A; H2A is a subunit of the nucleosome. The
nucleosome is an octamer containing two H2A, H2B, H3,
and H4 subunits. The H2A subunit performs essential
roles in maintaining structural integrity of the
nucleosome, chromatin condensation, and binding of
specific chromatin-associated proteins.
Length = 115
Score = 193 bits (492), Expect = 2e-65
Identities = 95/113 (84%), Positives = 102/113 (90%)
Query: 7 GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 66
GGK K+K ++RS+RAGLQFPVGRIHR L+KG YAERVGAGAPVYLAAV+EYL AEVLELA
Sbjct: 3 GGKKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELA 62
Query: 67 GNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
GNAARDNKK RI PRHLQLA+RNDEELNKLL GVTIA GGVLPNI VLLPKK
Sbjct: 63 GNAARDNKKKRITPRHLQLAVRNDEELNKLLKGVTIASGGVLPNIHKVLLPKK 115
>gnl|CDD|177758 PLN00157, PLN00157, histone H2A; Provisional.
Length = 132
Score = 193 bits (493), Expect = 2e-65
Identities = 95/126 (75%), Positives = 108/126 (85%), Gaps = 2/126 (1%)
Query: 1 MSGRGK--GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYL 58
MSGRGK GG K+ +RS++AGLQFPVGRI R L+ G YA RVGAGAPVYLAAV+EYL
Sbjct: 1 MSGRGKRKGGGGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYL 60
Query: 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPK 118
AAEVLELAGNAARDNKK+RI+PRH+QLA+RNDEEL+KLL GVTIA GGVLPNI +VLLPK
Sbjct: 61 AAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKLLGGVTIAAGGVLPNIHSVLLPK 120
Query: 119 KTEKKA 124
K+ K
Sbjct: 121 KSGKSK 126
>gnl|CDD|197711 smart00414, H2A, Histone 2A.
Length = 106
Score = 190 bits (485), Expect = 2e-64
Identities = 94/106 (88%), Positives = 98/106 (92%)
Query: 16 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 75
+RS+RAGLQFPVGRIHRLLRKG YA+RVGAGAPVYLAAV+EYL AEVLELAGNAARDNKK
Sbjct: 1 SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKK 60
Query: 76 TRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
RI PRHLQLAIRNDEELNKLL GVTIAQGGVLPNI VLLPKKT
Sbjct: 61 RRITPRHLQLAIRNDEELNKLLKGVTIAQGGVLPNIHKVLLPKKTG 106
>gnl|CDD|215080 PLN00156, PLN00156, histone H2AX; Provisional.
Length = 139
Score = 173 bits (439), Expect = 4e-57
Identities = 92/123 (74%), Positives = 103/123 (83%), Gaps = 1/123 (0%)
Query: 1 MSGRGKGGKAKA-KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
+ +G GK KA KS +RSS+AGLQFPVGRI R L+ G YAERVGAGAPVYL+AV+EYLA
Sbjct: 5 GTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLA 64
Query: 60 AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
AEVLELAGNAARDNKK RI+PRH+QLA+RNDEEL+KLL VTIA GGVLPNI LLPKK
Sbjct: 65 AEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKK 124
Query: 120 TEK 122
K
Sbjct: 125 VGK 127
>gnl|CDD|227587 COG5262, HTA1, Histone H2A [Chromatin structure and dynamics].
Length = 132
Score = 164 bits (416), Expect = 1e-53
Identities = 93/124 (75%), Positives = 105/124 (84%), Gaps = 2/124 (1%)
Query: 3 GRGKGGKAKA--KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
GKGGKA S++RS++AGL FPVGR+ RLL+KGNY R+GAGAPVYLAAV+EYLAA
Sbjct: 3 SGGKGGKAADARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAA 62
Query: 61 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
E+LELAGNAARDNKK RIIPRHLQLAIRNDEELNKLL VTIAQGGVLPNI LLPK +
Sbjct: 63 EILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLPKSS 122
Query: 121 EKKA 124
+K +
Sbjct: 123 KKGS 126
>gnl|CDD|165721 PLN00153, PLN00153, histone H2A; Provisional.
Length = 129
Score = 160 bits (405), Expect = 4e-52
Identities = 94/121 (77%), Positives = 106/121 (87%)
Query: 1 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
M+GRGKG + K+ +RS++AGLQFPVGRI R L+KG YAER+GAGAPVYLAAV+EYL A
Sbjct: 1 MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTA 60
Query: 61 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
EVLELAGNAARDNKK RI+PRH+QLAIRNDEEL KLL VTIA GGVLPNI AVLLPKKT
Sbjct: 61 EVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKLLGEVTIASGGVLPNIHAVLLPKKT 120
Query: 121 E 121
+
Sbjct: 121 K 121
>gnl|CDD|177756 PLN00154, PLN00154, histone H2A; Provisional.
Length = 136
Score = 127 bits (321), Expect = 3e-39
Identities = 75/123 (60%), Positives = 89/123 (72%), Gaps = 2/123 (1%)
Query: 1 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLA 59
+ K K K K +RSSRAGLQFPVGRIHR L++ A RVGA A VY AA++EYL
Sbjct: 15 TAAAAKKDKDKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLT 74
Query: 60 AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
AEVLELAGNA++D K RI PRHLQLAIR DEEL+ L+ G TIA GGV+P+I L+ K
Sbjct: 75 AEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKG-TIAGGGVIPHIHKSLINKS 133
Query: 120 TEK 122
T+K
Sbjct: 134 TKK 136
>gnl|CDD|240330 PTZ00252, PTZ00252, histone H2A; Provisional.
Length = 134
Score = 100 bits (249), Expect = 3e-28
Identities = 59/119 (49%), Positives = 81/119 (68%), Gaps = 3/119 (2%)
Query: 9 KAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGN 68
KA RS++AGL FPVGR+ LLR+G YA R+GA VY+AAV+EYL AE+LEL+
Sbjct: 10 KASKSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVK 69
Query: 69 AARDN--KKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPK-KTEKKA 124
AA K R+ PR + LA+R+D++L LL VT+++GGV+P++ L K K+ KKA
Sbjct: 70 AAAQQAKKPKRLTPRTVTLAVRHDDDLGSLLKNVTLSRGGVMPSLNKALAKKHKSGKKA 128
>gnl|CDD|201020 pfam00125, Histone, Core histone H2A/H2B/H3/H4.
Length = 75
Score = 87.6 bits (218), Expect = 3e-24
Identities = 33/75 (44%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 17 RSSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 75
S L+ P R+ R L++G YAE R+ + APV L +E L E+LE AG AR K+
Sbjct: 1 SSRLLILKLPFSRVVRELKEGFYAELRISSKAPVALQEALEDLLEEILEDAGLLARHAKR 60
Query: 76 TRIIPRHLQLAIRND 90
I PR +QLA+R D
Sbjct: 61 KTITPRDIQLAVRLD 75
>gnl|CDD|165723 PLN00155, PLN00155, histone H2A; Provisional.
Length = 58
Score = 71.7 bits (175), Expect = 5e-18
Identities = 41/58 (70%), Positives = 50/58 (86%)
Query: 1 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYL 58
M+GRGKG + K+ +RS++AGLQFPVGRI R L+KG YAER+GAGAPVYLAAV+EYL
Sbjct: 1 MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58
>gnl|CDD|227572 COG5247, BUR6, Class 2 transcription repressor NC2, alpha subunit
(DRAP1 homolog) [Transcription].
Length = 113
Score = 41.1 bits (96), Expect = 1e-05
Identities = 18/82 (21%), Positives = 37/82 (45%)
Query: 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 83
+FP+ R+ ++++ +VG PV + +E E++ L+ AR R+ L
Sbjct: 23 RFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFL 82
Query: 84 QLAIRNDEELNKLLSGVTIAQG 105
+ A +DE+ + L +
Sbjct: 83 KRATESDEKFDFLKNMEQFKNR 104
>gnl|CDD|201453 pfam00808, CBFD_NFYB_HMF, Histone-like transcription factor
(CBF/NF-Y) and archaeal histone. This family includes
archaebacterial histones and histone like transcription
factors from eukaryotes.
Length = 65
Score = 33.7 bits (78), Expect = 0.003
Identities = 14/63 (22%), Positives = 28/63 (44%)
Query: 25 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQ 84
P+ R+ R+++ A R+ A +A +E + A + K+ I H++
Sbjct: 3 LPIARVKRIMKSDPDAGRISQDAKELIAECVEEFIEFIASEAAEICKKEKRKTINAEHIK 62
Query: 85 LAI 87
LA+
Sbjct: 63 LAV 65
>gnl|CDD|237406 PRK13515, PRK13515, carboxylate-amine ligase; Provisional.
Length = 371
Score = 28.0 bits (63), Expect = 1.2
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 27 VGRIHRLLRKGNYAER---VGAGAPVYLAAVMEYLAAEVLE 64
V +L +G A+R V A L AV+++L E LE
Sbjct: 326 VEYARTILEEGTSADRQLRVYAETGGALRAVVDWLIEETLE 366
>gnl|CDD|227533 COG5208, HAP5, CCAAT-binding factor, subunit C [Transcription].
Length = 286
Score = 26.9 bits (59), Expect = 3.2
Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPR 81
P+ RI ++++ + + A APV A + E E+ A A +NK+ R + +
Sbjct: 108 HNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKR-RTLQK 165
>gnl|CDD|227354 COG5021, HUL4, Ubiquitin-protein ligase [Posttranslational
modification, protein turnover, chaperones].
Length = 872
Score = 26.3 bits (58), Expect = 4.9
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 76 TRIIPRHLQLAIRNDEELNKLLSGV 100
+ IIP L L I ++ EL L+ G+
Sbjct: 729 SEIIPPDL-LQIFDESELELLIGGI 752
>gnl|CDD|225663 COG3121, FimC, P pilus assembly protein, chaperone PapD [Cell
motility and secretion / Intracellular trafficking and
secretion].
Length = 235
Score = 26.2 bits (58), Expect = 5.3
Identities = 8/49 (16%), Positives = 19/49 (38%)
Query: 74 KKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK 122
KK L ++N L+ +T+ GG + + ++ + +
Sbjct: 156 KKLTWSRSGNLLTVKNPTPYYVTLANLTLNVGGRKLGLNSGMVAPFSTR 204
>gnl|CDD|236974 PRK11768, PRK11768, serine/threonine protein kinase; Provisional.
Length = 325
Score = 25.9 bits (58), Expect = 5.6
Identities = 16/73 (21%), Positives = 26/73 (35%), Gaps = 17/73 (23%)
Query: 28 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI 87
GRIH++ K + R Y ++L A +IP L+ A
Sbjct: 130 GRIHQVGAKRPFEHRPTLDLQEYGIEPRDWLLAS---------------DLIPSDLRPAY 174
Query: 88 RNDEELNKLLSGV 100
++LL+ V
Sbjct: 175 LAA--ADQLLAAV 185
>gnl|CDD|163669 cd08162, MPP_PhoA_N, Synechococcus sp. strain PCC 7942 PhoA and
related proteins, N-terminal metallophosphatase domain.
Synechococcus sp. strain PCC 7942 PhoA is a large
atypical alkaline phosphatase. It is known to be
transported across the inner cytoplasmic membrane and
into the periplasmic space. In vivo inactivation of the
gene encoding PhoA leads to a loss of extracellular,
phosphate-regulated phosphatase activity, but does not
appear to affect the cells capacity for phosphate
uptake. PhoA may play a role in scavenging phosphate
during growth of Synechococcus sp. strain PCC 7942 in
its natural environment. PhoA belongs to a domain
family which includes the bacterial enzyme UshA and
several other related enzymes including SoxB, CpdB,
YhcR, and CD73. All members have a similar domain
architecture which includes an N-terminal
metallophosphatase domain and a C-terminal nucleotidase
domain. The N-terminal metallophosphatase domain
belongs to a large superfamily of distantly related
metallophosphatases (MPPs) that includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 313
Score = 25.8 bits (57), Expect = 7.1
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 82 HLQLAIRNDEELNKLLSGVTIA-QGG 106
HLQ I ++ L LLSGV + GG
Sbjct: 216 HLQQ-ISIEQALAALLSGVDVIIAGG 240
>gnl|CDD|224719 COG1806, COG1806, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 273
Score = 25.7 bits (57), Expect = 7.2
Identities = 17/59 (28%), Positives = 22/59 (37%), Gaps = 12/59 (20%)
Query: 60 AEVLELAGNAA-------RDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNI 111
E EL G AA + T P IR+ +L ++L A G V P I
Sbjct: 14 GETAELIGRAALAQFPGVKFKAITHPFP-----DIRSKAQLVEVLILAAYAPGIVRPTI 67
>gnl|CDD|237598 PRK14056, PRK14056, phenylalanine 4-monooxygenase; Provisional.
Length = 578
Score = 25.4 bits (56), Expect = 9.4
Identities = 8/42 (19%), Positives = 21/42 (50%)
Query: 58 LAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSG 99
L E+LEL + ++ + + + L ++ E+ +L++
Sbjct: 529 LRLEILELLLEHNKGHELSAALLQQLSTLTTDEPEVTRLINN 570
>gnl|CDD|233961 TIGR02644, Y_phosphoryl, pyrimidine-nucleoside phosphorylase. In
general, members of this protein family are designated
pyrimidine-nucleoside phosphorylase, enzyme family EC
2.4.2.2, as in Bacillus subtilis, and more narrowly as
the enzyme family EC 2.4.2.4, thymidine phosphorylase
(alternate name: pyrimidine phosphorylase), as in
Escherichia coli. The set of proteins encompassed by
this model is designated subfamily rather than equivalog
for this reason; the protein name from this model should
be used when TIGR02643 does not score above trusted
cutoff [Purines, pyrimidines, nucleosides, and
nucleotides, Other].
Length = 405
Score = 25.3 bits (56), Expect = 9.8
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 46 GAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQG 105
P L + LAAE+L LAG A+ K+ R + + + + L K V AQG
Sbjct: 261 EGPADLKELTLALAAEMLLLAG-IAKTEKEAR---ALAEDVLESGKALEKFRRFVE-AQG 315
Query: 106 G 106
G
Sbjct: 316 G 316
>gnl|CDD|177669 PLN00035, PLN00035, histone H4; Provisional.
Length = 103
Score = 24.8 bits (54), Expect = 9.8
Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 5/42 (11%)
Query: 1 MSGRGKGGKAKAKSKTRSSRAGLQFPV-----GRIHRLLRKG 37
MSGRGKGGK K + R L+ + I RL R+G
Sbjct: 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRG 42
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
0.315 0.133 0.362
Gapped
Lambda K H
0.267 0.0632 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,337,379
Number of extensions: 585441
Number of successful extensions: 547
Number of sequences better than 10.0: 1
Number of HSP's gapped: 540
Number of HSP's successfully gapped: 48
Length of query: 124
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 39
Effective length of database: 7,167,512
Effective search space: 279532968
Effective search space used: 279532968
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: 53 (24.4 bits)