RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1173
(498 letters)
>gnl|CDD|227511 COG5184, ATS1, Alpha-tubulin suppressor and related RCC1
domain-containing proteins [Cell division and chromosome
partitioning / Cytoskeleton].
Length = 476
Score = 196 bits (501), Expect = 3e-57
Identities = 110/375 (29%), Positives = 169/375 (45%), Gaps = 51/375 (13%)
Query: 43 GQGDTGQLGLGPDVM-----ERKTFALVEDLDNVVEVVVGGMHTVCLTEDGKVYTWGCND 97
G +LGLG D + F D +++++ GG H++ L DG +Y+WG ND
Sbjct: 74 GSNGMNELGLGNDETKVDRPQLNPF-GRIDKASIIKIACGGNHSLGLDHDGNLYSWGDND 132
Query: 98 EGALGREAEGDSEFI---------------PQTVNL------PKKAVQISAGDSHSVALL 136
+GALGR+ D P V + V+++ G SV L
Sbjct: 133 DGALGRDIHKDICDQNNDIIDFDDYELESTPFKVPGGSSAKSHLRVVKLACGWEISVILT 192
Query: 137 EDGTVYAWGSFRDSHGSMGL----KGEGIQKTPLKLESVSGIVKIASGADHFVMLTSRGN 192
DG VY+WG+FR G + IQ TPLK+ IV++A+GADH + LT+ G
Sbjct: 193 ADGRVYSWGTFRCGELGQGSYKNSQKTSIQFTPLKVPK-KAIVQLAAGADHLIALTNEGK 251
Query: 193 LLTAGCPEQGQLGRITQRSASRNARRGMSFLEPGEVP--LKRKHIDDVFTGVYNTF-ISS 249
+ G ++GQLGR T V ++I V G ++ +
Sbjct: 252 VYGWGSNQKGQLGRPTSE----------RLKLVVLVGDPFAIRNIKYVACGKDHSLALDE 301
Query: 250 KGSILAFGLNNYSQLGEADSEVQKSGNTCFFTPHLIKSLSDKKFTMLASGQHHSLALNSE 309
G I A+G+N + QLG P+ + LS +++G+ HSL L +
Sbjct: 302 DGEIYAWGVNIFGQLGAGSDG---EIGALTTKPNYKQLLSGVTICSISAGESHSLILRKD 358
Query: 310 GKIYAFGRHDYGRLGL-KNVSEPVTEPTPIPSLQDKTITSIACGNCVSFAIDSEGVLYGW 368
G +YAFGR D G+LG+ + ++ V+ PT + + +ACG + A +G +Y W
Sbjct: 359 GTLYAFGRGDRGQLGIQEEITIDVSTPTKLSV--AIKLEQVACGTHHNIARTDDGSVYSW 416
Query: 369 GMGNGYQLGNGKEDD 383
G G LGNG ++
Sbjct: 417 GWGEHGNLGNGPKEA 431
Score = 84.1 bits (208), Expect = 2e-17
Identities = 69/228 (30%), Positives = 97/228 (42%), Gaps = 25/228 (10%)
Query: 32 CKTGGGVVLTCGQGDTGQLGLGPDVMER-KTFALVED---LDNVVEVVVGGMHTVCLTED 87
T G V G GQ LG ER K LV D + N+ V G H++ L ED
Sbjct: 245 ALTNEGKVYGWGSNQKGQ--LGRPTSERLKLVVLVGDPFAIRNIKYVACGKDHSLALDED 302
Query: 88 GKVYTWGCNDEGALGREAEGDS---EFIPQTVNLP--KKAVQISAGDSHSVALLEDGTVY 142
G++Y WG N G LG ++G+ P L ISAG+SHS+ L +DGT+Y
Sbjct: 303 GEIYAWGVNIFGQLGAGSDGEIGALTTKPNYKQLLSGVTICSISAGESHSLILRKDGTLY 362
Query: 143 AWGSFRDSHGSMGLKGEGIQK--TPLKLESVSGIVKIASGADHFVMLTSRGNLLTAGCPE 200
A+G R G +G++ E TP KL + ++A G H + T G++ + G E
Sbjct: 363 AFG--RGDRGQLGIQEEITIDVSTPTKLSVAIKLEQVACGTHHNIARTDDGSVYSWGWGE 420
Query: 201 QGQLGRITQRSASRNARRGMSFLEPGEVPLKRKHI-DDVFTGVYNTFI 247
G LG + L P + + + G N F
Sbjct: 421 HGNLGNGPKE---------ADVLVPTLIRQPLLSGHNIILAGYGNQFS 459
Score = 31.0 bits (70), Expect = 1.8
Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 4/58 (6%)
Query: 32 CKTGGGVVLTCGQGDTGQLGLGPDVMERKTFALVE----DLDNVVEVVVGGMHTVCLT 85
+T G V + G G+ G LG GP + L+ N++ G +V
Sbjct: 406 ARTDDGSVYSWGWGEHGNLGNGPKEADVLVPTLIRQPLLSGHNIILAGYGNQFSVIEE 463
>gnl|CDD|201217 pfam00415, RCC1, Regulator of chromosome condensation (RCC1)
repeat.
Length = 50
Score = 62.9 bits (154), Expect = 5e-13
Identities = 23/52 (44%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 441 EGVLYGWGMGNGYQLGNGKEDDILEPMKIEGKQLNNYTVLQVASGGQHSVIL 492
+G +Y WG QLG G E+D+L P +EG L+ V+QVA G H+V L
Sbjct: 1 DGRVYTWGRNEYGQLGLGDEEDVLVPQLVEG--LSGVRVVQVACGASHTVAL 50
Score = 59.5 bits (145), Expect = 9e-12
Identities = 22/51 (43%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 87 DGKVYTWGCNDEGALGREAEGDSEFIPQTVNLPKK--AVQISAGDSHSVAL 135
DG+VYTWG N+ G LG + + +PQ V VQ++ G SH+VAL
Sbjct: 1 DGRVYTWGRNEYGQLGLG-DEEDVLVPQLVEGLSGVRVVQVACGASHTVAL 50
Score = 53.7 bits (130), Expect = 1e-09
Identities = 16/51 (31%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 309 EGKIYAFGRHDYGRLGLKNVSEPVTEPTPIPSLQDKTITSIACGNCVSFAI 359
+G++Y +GR++YG+LGL + + V P + L + +ACG + A+
Sbjct: 1 DGRVYTWGRNEYGQLGLGDEED-VLVPQLVEGLSGVRVVQVACGASHTVAL 50
Score = 47.9 bits (115), Expect = 1e-07
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 7/57 (12%)
Query: 250 KGSILAFGLNNYSQLGEADSEVQKSGNTCFFTPHLIKSLSDKKFTMLASGQHHSLAL 306
G + +G N Y QLG D E P L++ LS + +A G H++AL
Sbjct: 1 DGRVYTWGRNEYGQLGLGDEEDV-------LVPQLVEGLSGVRVVQVACGASHTVAL 50
Score = 46.4 bits (111), Expect = 4e-07
Identities = 17/77 (22%), Positives = 25/77 (32%), Gaps = 27/77 (35%)
Query: 362 EGVLYGWGMGNGYQLGNGKEDDILNSEGKIYAFGRHDYGRLGLKNVSEPVTEPTPIPSLQ 421
+G +Y WG QLG G E+D V P + L
Sbjct: 1 DGRVYTWGRNEYGQLGLGDEED---------------------------VLVPQLVEGLS 33
Query: 422 DKTITSIACGNCVSFAI 438
+ +ACG + A+
Sbjct: 34 GVRVVQVACGASHTVAL 50
Score = 40.2 bits (95), Expect = 6e-05
Identities = 22/50 (44%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 37 GVVLTCGQGDTGQLGLGPDVMERKTFALVEDLDN--VVEVVVGGMHTVCL 84
G V T G+ + GQLGLG + LVE L VV+V G HTV L
Sbjct: 2 GRVYTWGRNEYGQLGLGDEEDVLVPQ-LVEGLSGVRVVQVACGASHTVAL 50
Score = 40.2 bits (95), Expect = 7e-05
Identities = 20/48 (41%), Positives = 28/48 (58%), Gaps = 4/48 (8%)
Query: 138 DGTVYAWGSFRDSHGSMGLKGEGIQKTPLKLESVSG--IVKIASGADH 183
DG VY WG R+ +G +GL E P +E +SG +V++A GA H
Sbjct: 1 DGRVYTWG--RNEYGQLGLGDEEDVLVPQLVEGLSGVRVVQVACGASH 46
>gnl|CDD|205718 pfam13540, RCC1_2, Regulator of chromosome condensation (RCC1)
repeat.
Length = 30
Score = 46.7 bits (112), Expect = 2e-07
Identities = 15/24 (62%), Positives = 18/24 (75%)
Query: 123 VQISAGDSHSVALLEDGTVYAWGS 146
V I+AGD H++AL DGTVY WG
Sbjct: 2 VSIAAGDYHTLALTSDGTVYCWGD 25
Score = 42.9 bits (102), Expect = 5e-06
Identities = 15/29 (51%), Positives = 17/29 (58%)
Query: 71 VVEVVVGGMHTVCLTEDGKVYTWGCNDEG 99
VV + G HT+ LT DG VY WG N G
Sbjct: 1 VVSIAAGDYHTLALTSDGTVYCWGDNSYG 29
Score = 34.8 bits (81), Expect = 0.003
Identities = 12/27 (44%), Positives = 21/27 (77%)
Query: 296 LASGQHHSLALNSEGKIYAFGRHDYGR 322
+A+G +H+LAL S+G +Y +G + YG+
Sbjct: 4 IAAGDYHTLALTSDGTVYCWGDNSYGQ 30
Score = 34.0 bits (79), Expect = 0.007
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 174 IVKIASGADHFVMLTSRGNLLTAGCPEQGQ 203
+V IA+G H + LTS G + G GQ
Sbjct: 1 VVSIAAGDYHTLALTSDGTVYCWGDNSYGQ 30
Score = 32.5 bits (75), Expect = 0.019
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 346 ITSIACGNCVSFAIDSEGVLYGWGMGNGYQ 375
+ SIA G+ + A+ S+G +Y WG + Q
Sbjct: 1 VVSIAAGDYHTLALTSDGTVYCWGDNSYGQ 30
Score = 32.5 bits (75), Expect = 0.019
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 425 ITSIACGNCVSFAIDSEGVLYGWGMGNGYQ 454
+ SIA G+ + A+ S+G +Y WG + Q
Sbjct: 1 VVSIAAGDYHTLALTSDGTVYCWGDNSYGQ 30
Score = 25.5 bits (57), Expect = 6.8
Identities = 9/30 (30%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 235 IDDVFTGVYNT-FISSKGSILAFGLNNYSQ 263
+ + G Y+T ++S G++ +G N+Y Q
Sbjct: 1 VVSIAAGDYHTLALTSDGTVYCWGDNSYGQ 30
>gnl|CDD|235513 PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine
decarboxylase/phosphopantothenate synthase; Validated.
Length = 399
Score = 31.3 bits (72), Expect = 1.2
Identities = 18/73 (24%), Positives = 24/73 (32%), Gaps = 21/73 (28%)
Query: 174 IVKIASG-ADHFVMLTSRGNLLTAGCP------------EQGQLGRITQRSASRNARRGM 220
I K+A G AD + T LL P E TQR+ + RG+
Sbjct: 96 IAKLAHGIADDLLTTT----LLATTAPVLVAPAMNTQMWEN----PATQRNLATLRSRGV 147
Query: 221 SFLEPGEVPLKRK 233
+ P L
Sbjct: 148 EIIGPASGRLACG 160
>gnl|CDD|201334 pfam00600, Flu_NS1, Influenza non-structural protein (NS1). NS1 is
a homodimeric RNA-binding protein that is required for
viral replication. NS1 binds polyA tails of mRNA keeping
them in the nucleus. NS1 inhibits pre-mRNA splicing by
tightly binding to a specific stem-bulge of U6 snRNA.
Length = 216
Score = 29.5 bits (66), Expect = 3.0
Identities = 11/37 (29%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 66 EDLDNVVEVVVGGM----HTVCLTEDGKVYTWGCNDE 98
ED+ N + +++GG+ +TV ++E + + W +DE
Sbjct: 172 EDVKNAIGILIGGLEWNDNTVRVSETIQRFAWRNSDE 208
>gnl|CDD|180142 PRK05578, PRK05578, cytidine deaminase; Validated.
Length = 131
Score = 28.3 bits (64), Expect = 4.1
Identities = 11/17 (64%), Positives = 14/17 (82%), Gaps = 1/17 (5%)
Query: 84 LTEDGKVYTWGCNDEGA 100
LT+DG++YT GCN E A
Sbjct: 31 LTDDGRIYT-GCNIENA 46
>gnl|CDD|238919 cd01944, YegV_kinase_like, YegV-like sugar kinase. Found only in
bacteria, YegV-like kinase is part of the
ribokinase/pfkB sugar kinase superfamily. Its
oligomerization state is unknown at this time.
Length = 289
Score = 29.3 bits (66), Expect = 4.6
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 98 EGALGREAEGDSEFIPQTVNLPKKAVQ-ISAGDSHSVALL 136
GA R +G++ IP KAV I AGD+H+ +L
Sbjct: 225 NGAWIRLPDGNTHIIP---GFKVKAVDTIGAGDTHAGGML 261
>gnl|CDD|202394 pfam02783, MCR_beta_N, Methyl-coenzyme M reductase beta subunit,
N-terminal domain. Methyl-coenzyme M reductase (MCR) is
the enzyme responsible for microbial formation of
methane. It is a hexamer composed of 2 alpha
(pfam02249), 2 beta (this family), and 2 gamma
(pfam02240) subunits with two identical nickel
porphinoid active sites. The N-terminal domain has an
alpha/beta ferredoxin-like fold.
Length = 182
Score = 28.5 bits (64), Expect = 5.7
Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 12/80 (15%)
Query: 64 LVEDLDNVVEVVVGGMHTVCLTEDGKVYTWGCNDEGALGREAE----GDSEFIPQTVNLP 119
+V+D+ V V + G+ T GKV GC GRE + G++E I + V
Sbjct: 33 IVKDIKRTVAVNLAGIENALKT--GKVGGKGCQ---IPGRELDLDIVGNAEAIAEKV--- 84
Query: 120 KKAVQISAGDSHSVALLEDG 139
KK VQ+S D +V L+ G
Sbjct: 85 KKMVQVSEDDDTNVKLINGG 104
>gnl|CDD|132301 TIGR03257, met_CoM_red_bet, methyl-coenzyme M reductase, beta
subunit. Members of this protein family are the beta
subunit of methyl coenzyme M reductase, also called
coenzyme-B sulfoethylthiotransferase (EC 2.8.4.1). This
enzyme, with alpha, beta, and gamma subunits, catalyzes
the last step in methanogenesis. Several methanogens
have encode two such enzymes, designated I and II; this
model does not separate the isozymes [Energy metabolism,
Methanogenesis].
Length = 433
Score = 29.1 bits (65), Expect = 6.3
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 12/80 (15%)
Query: 64 LVEDLDNVVEVVVGGMHTVCLTEDGKVYTWGCNDEGALGREAE----GDSEFIPQTVNLP 119
++ D+ V V + G+ + GK+ GC GR G++E I + V
Sbjct: 34 IIMDIKRTVAVNLAGIEGALAS--GKMGGKGCQ---IPGRGLNYDVIGNAEAIAEKV--- 85
Query: 120 KKAVQISAGDSHSVALLEDG 139
KK VQ+ GD +V L++ G
Sbjct: 86 KKLVQVDEGDDTNVILVKGG 105
>gnl|CDD|233255 TIGR01061, parC_Gpos, DNA topoisomerase IV, A subunit,
Gram-positive. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation of
chromosome segregation. Not every bacterium has both a
topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason [DNA metabolism, DNA replication,
recombination, and repair].
Length = 738
Score = 29.0 bits (65), Expect = 8.0
Identities = 19/80 (23%), Positives = 31/80 (38%), Gaps = 14/80 (17%)
Query: 154 MGLKGEGIQKTPLKLESVSGIVKIASGADHFVMLTSRGNLLTAGCPEQGQLGRITQRSAS 213
+G K G++ LK + I + V+LT RG++ I++ +
Sbjct: 671 VGAKAAGVKGMKLKEDDQVKSGVIFEANESLVLLTQRGSVKRL---------SISELVVT 721
Query: 214 RNARRGMSFLEPGEVPLKRK 233
A G L PLK+K
Sbjct: 722 SRAATGKKLL-----PLKKK 736
>gnl|CDD|133171 cd05039, PTKc_Csk_like, Catalytic domain of C-terminal Src
kinase-like Protein Tyrosine Kinases. Protein Tyrosine
Kinase (PTK) family; C-terminal Src kinase (Csk)
subfamily; catalytic (c) domain. The Csk subfamily is
composed of Csk, Chk, and similar proteins. The PTKc
family is part of a larger superfamily that includes the
catalytic domains of other kinases such as protein
serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. Csk
subfamily kinases are cytoplasmic (or nonreceptor) tyr
kinases containing the Src homology domains, SH3 and
SH2, N-terminal to the catalytic tyr kinase domain. They
negatively regulate the activity of Src kinases that are
anchored to the plasma membrane. To inhibit Src kinases,
Csk and Chk are translocated to the membrane via binding
to specific transmembrane proteins, G-proteins, or
adaptor proteins near the membrane. Csk catalyzes the
tyr phosphorylation of the regulatory C-terminal tail of
Src kinases, resulting in their inactivation. Chk
inhibit Src kinases using a noncatalytic mechanism by
simply binding to them. As negative regulators of Src
kinases, Csk and Chk play important roles in cell
proliferation, survival, and differentiation, and
consequently, in cancer development and progression.
Length = 256
Score = 28.1 bits (63), Expect = 9.4
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 312 IYAFGRHDYGRLGLKNVSEPV 332
IY+FGR Y R+ LK+V V
Sbjct: 192 IYSFGRVPYPRIPLKDVVPHV 212
Score = 28.1 bits (63), Expect = 9.4
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 391 IYAFGRHDYGRLGLKNVSEPV 411
IY+FGR Y R+ LK+V V
Sbjct: 192 IYSFGRVPYPRIPLKDVVPHV 212
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 0.135 0.399
Gapped
Lambda K H
0.267 0.0841 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,875,846
Number of extensions: 2393675
Number of successful extensions: 1259
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1204
Number of HSP's successfully gapped: 33
Length of query: 498
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 397
Effective length of database: 6,457,848
Effective search space: 2563765656
Effective search space used: 2563765656
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: 42 (22.0 bits)
S2: 61 (27.1 bits)