RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5940
(278 letters)
>gnl|CDD|227511 COG5184, ATS1, Alpha-tubulin suppressor and related RCC1
domain-containing proteins [Cell division and chromosome
partitioning / Cytoskeleton].
Length = 476
Score = 64.9 bits (158), Expect = 6e-12
Identities = 47/199 (23%), Positives = 73/199 (36%), Gaps = 15/199 (7%)
Query: 30 EVYIWGTNANYNLGTGSQQTRD------VPELLDSLKRASIKQVCMDKFHSVFVSDDGRV 83
VY WGT LG GS + P + +I Q+ H + ++++G+V
Sbjct: 196 RVYSWGTFRCGELGQGSYKNSQKTSIQFTPLKVPKK---AIVQLAAGADHLIALTNEGKV 252
Query: 84 WSCGHGQGGRLGLGSESSVVSPKKLN-FEKDKDKLGVAMASISQDHSVFLMLSGSVFVCG 142
+ G Q G+LG + + + ++ VA DHS+ L G ++ G
Sbjct: 253 YGWGSNQKGQLGRPTSERLKLVVLVGDPFAIRNIKYVACGK---DHSLALDEDGEIYAWG 309
Query: 143 LNSFHQLGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSVVYSSR-EVYTFG-IHA 200
+N F QLG T L S + + G HS++ +Y FG
Sbjct: 310 VNIFGQLGAGSDGEIGALTTKPNYKQLLSGVTICSISAGESHSLILRKDGTLYAFGRGDR 369
Query: 201 GQLGHSPVTVSSASVIEPK 219
GQLG S
Sbjct: 370 GQLGIQEEITIDVSTPTKL 388
Score = 59.5 bits (144), Expect = 4e-10
Identities = 43/169 (25%), Positives = 67/169 (39%), Gaps = 14/169 (8%)
Query: 26 NQFNEVYIWGTNANYNLGTGSQQTRDV----PELLDSLKRASIKQVCMDKFHSVFVSDDG 81
++ E+Y WG N LG GS P L +I + + HS+ + DG
Sbjct: 300 DEDGEIYAWGVNIFGQLGAGSDGEIGALTTKPNYKQLLSGVTICSISAGESHSLILRKDG 359
Query: 82 RVWSCGHGQGGRLGLGSE--SSVVSPKKLNFEKDKDKLGVAMASISQDHSVFLML-SGSV 138
+++ G G G+LG+ E V +P KL+ +++ H GSV
Sbjct: 360 TLYAFGRGDRGQLGIQEEITIDVSTPTKLSVAIKLEQV------ACGTHHNIARTDDGSV 413
Query: 139 FVCGLNSFHQLGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSVV 187
+ G LG P + ++ PT I L S +I G SV+
Sbjct: 414 YSWGWGEHGNLGNGPKEADVLVPTLIR-QPLLSGHNIILAGYGNQFSVI 461
Score = 59.1 bits (143), Expect = 6e-10
Identities = 50/215 (23%), Positives = 83/215 (38%), Gaps = 33/215 (15%)
Query: 31 VYIWGTNANYNLG------TGSQQTRDVPELLD------------SLKRASIKQVCMDKF 72
+Y WG N + LG Q + S ++ ++ V +
Sbjct: 125 LYSWGDNDDGALGRDIHKDICDQNNDIIDFDDYELESTPFKVPGGSSAKSHLRVVKLACG 184
Query: 73 --HSVFVSDDGRVWSCGHGQGGRLGLGSESSVVSPKKLNFEKDK---DKLGVAMASISQD 127
SV ++ DGRV+S G + G LG GS + +K + + K + + D
Sbjct: 185 WEISVILTADGRVYSWGTFRCGELGQGSYK---NSQKTSIQFTPLKVPKKAIVQLAAGAD 241
Query: 128 HSVFLMLSGSVFVCGLNSFHQLGLSPPPSHIVS-PTPIPRSSLKSSQPLIGVCCGRFHSV 186
H + L G V+ G N QLG P S + + + + + V CG+ HS+
Sbjct: 242 HLIALTNEGKVYGWGSNQKGQLG--RPTSERLKLVVLVGD--PFAIRNIKYVACGKDHSL 297
Query: 187 -VYSSREVYTFGIHA-GQLGHSPVTVSSASVIEPK 219
+ E+Y +G++ GQLG A +P
Sbjct: 298 ALDEDGEIYAWGVNIFGQLGAGSDGEIGALTTKPN 332
Score = 46.4 bits (110), Expect = 8e-06
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 17 RDRKIDVSSNQFNEVYIWGTNANYNLGTGSQQT-RDVPELL--DSLKRASIKQVCMDKFH 73
K + VY WG+N LG G+ +T D P+L + +ASI ++ H
Sbjct: 56 IINKHTHLLVKMASVYSWGSNGMNELGLGNDETKVDRPQLNPFGRIDKASIIKIACGGNH 115
Query: 74 SVFVSDDGRVWSCGHGQGGRLG 95
S+ + DG ++S G G LG
Sbjct: 116 SLGLDHDGNLYSWGDNDDGALG 137
Score = 32.9 bits (75), Expect = 0.16
Identities = 22/89 (24%), Positives = 37/89 (41%), Gaps = 5/89 (5%)
Query: 118 GVAMASISQDHSVFLMLSGSVFVCGLNSFHQLGLSPPPSHIVSPTPIPRSSLKSSQPLIG 177
VA H + M S + G N ++LGL + + P P + + +I
Sbjct: 52 KVAQIINKHTHLLVKMASVYSW--GSNGMNELGLGNDETKVDRPQLNPFGRIDKAS-IIK 108
Query: 178 VCCGRFHSVVYSSR-EVYTFGIH-AGQLG 204
+ CG HS+ +Y++G + G LG
Sbjct: 109 IACGGNHSLGLDHDGNLYSWGDNDDGALG 137
>gnl|CDD|201217 pfam00415, RCC1, Regulator of chromosome condensation (RCC1)
repeat.
Length = 50
Score = 45.6 bits (109), Expect = 4e-07
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 80 DGRVWSCGHGQGGRLGLGSESSVVSPKKLNFEKDKDKLGVAMASISQDHSVFL 132
DGRV++ G + G+LGLG E V+ P+ + V + H+V L
Sbjct: 1 DGRVYTWGRNEYGQLGLGDEEDVLVPQLVEGLSGVR---VVQVACGASHTVAL 50
Score = 40.6 bits (96), Expect = 2e-05
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 4/53 (7%)
Query: 135 SGSVFVCGLNSFHQLGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSVV 187
G V+ G N + QLGL ++ P + S ++ V CG H+V
Sbjct: 1 DGRVYTWGRNEYGQLGL-GDEEDVLVPQLVE---GLSGVRVVQVACGASHTVA 49
Score = 37.1 bits (87), Expect = 4e-04
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 30 EVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFV 77
VY WG N LG G ++ VP+L++ L + QV H+V +
Sbjct: 3 RVYTWGRNEYGQLGLGDEEDVLVPQLVEGLSGVRVVQVACGASHTVAL 50
>gnl|CDD|205718 pfam13540, RCC1_2, Regulator of chromosome condensation (RCC1)
repeat.
Length = 30
Score = 32.8 bits (76), Expect = 0.010
Identities = 7/30 (23%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 64 IKQVCMDKFHSVFVSDDGRVWSCG---HGQ 90
+ + +H++ ++ DG V+ G +GQ
Sbjct: 1 VVSIAAGDYHTLALTSDGTVYCWGDNSYGQ 30
Score = 30.5 bits (70), Expect = 0.061
Identities = 8/26 (30%), Positives = 14/26 (53%)
Query: 123 SISQDHSVFLMLSGSVFVCGLNSFHQ 148
+ H++ L G+V+ G NS+ Q
Sbjct: 5 AAGDYHTLALTSDGTVYCWGDNSYGQ 30
>gnl|CDD|226260 COG3737, COG3737, Uncharacterized conserved protein [Function
unknown].
Length = 127
Score = 28.2 bits (63), Expect = 2.6
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 42 LGTGSQQTRDVPELLDSLKRASIKQVCMD-----KFHSVFVSDDGRVW 84
+GTG++ P+L +LK A I M + ++V +S+ RV
Sbjct: 75 IGTGARLRFPPPKLRAALKAAGISVEPMSTGAAVRTYNVLLSEGRRVA 122
>gnl|CDD|240187 cd05560, Xcc1710_like, Xcc1710_like family, specific to
proteobacteria. Xcc1710 is a hypothetical protein from
Xanthomonas campestris pv. campestris str. ATCC 33913,
similar to Mth938, a hypothetical protein encoded by
the Methanobacterium thermoautotrophicum (Mth) genome.
Their three-dimensional structures have been
determined, but their functions are unknown.
Length = 109
Score = 27.2 bits (61), Expect = 4.0
Identities = 12/29 (41%), Positives = 13/29 (44%)
Query: 42 LGTGSQQTRDVPELLDSLKRASIKQVCMD 70
LGTG +Q P LL L I MD
Sbjct: 58 LGTGERQRFPPPALLAPLLARGIGVEVMD 86
>gnl|CDD|213529 TIGR00423, TIGR00423, radical SAM domain protein, CofH subfamily.
This protein family includes the CofH protein of
coenzyme F(420) biosynthesis from Methanocaldococcus
jannaschii, but appears to hit genomes more broadly than
just the subset that make coenzyme F(420), so that
narrower group is being built as a separate family
[Hypothetical proteins, Conserved].
Length = 309
Score = 28.1 bits (63), Expect = 4.7
Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 12/81 (14%)
Query: 2 TVM----DNEEMRPIDHLIRDRKIDVSSNQFNEVYIW---GTNANYNLGTGSQQTRDVPE 54
T+M +N E R ++HL+R RKI + F E N Y G + R
Sbjct: 164 TMMFGHVENPEHR-VEHLLRIRKIQEKTGGFTEFIPLPFQPENNPYLEG----EVRKGAS 218
Query: 55 LLDSLKRASIKQVCMDKFHSV 75
+D LK +I ++ ++ ++
Sbjct: 219 GIDDLKVIAISRILLNNIRNI 239
>gnl|CDD|176215 cd08253, zeta_crystallin, Zeta-crystallin with NADP-dependent
quinone reductase activity (QOR). Zeta-crystallin is a
eye lens protein with NADP-dependent quinone reductase
activity (QOR). It has been cited as a structural
component in mammalian eyes, but also has homology to
quinone reductases in unrelated species. QOR catalyzes
the conversion of a quinone and NAD(P)H to a
hydroquinone and NAD(P+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR acts
in the respiratory chains of bacteria and mitochondria,
while soluble QOR acts to protect from toxic quinones
(e.g. DT-diaphorase) or as a soluble eye-lens protein in
some vertebrates (e.g. zeta-crystalin). QOR reduces
quinones through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 325
Score = 28.3 bits (64), Expect = 4.7
Identities = 15/48 (31%), Positives = 19/48 (39%), Gaps = 12/48 (25%)
Query: 82 RVWSCGHGQGGRLGLGSESSVVS-------PKKLNFEKDKDKLGVAMA 122
RVW G G R G +E VV P ++FE G A+
Sbjct: 84 RVWLTNLGWGRRQGTAAEYVVVPADQLVPLPDGVSFE-----QGAALG 126
>gnl|CDD|222115 pfam13419, HAD_2, Haloacid dehalogenase-like hydrolase.
Length = 176
Score = 27.7 bits (62), Expect = 5.5
Identities = 16/48 (33%), Positives = 19/48 (39%), Gaps = 18/48 (37%)
Query: 51 DVPELLDSLKRASIKQVCM------------------DKFHSVFVSDD 80
DV ELL LK +K V + D F +VF SDD
Sbjct: 81 DVVELLRRLKAKGVKLVILSNGSREAVERLLEKLGLLDLFDAVFTSDD 128
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
0.317 0.134 0.398
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: 13,723,077
Number of extensions: 1251594
Number of successful extensions: 1168
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1155
Number of HSP's successfully gapped: 17
Length of query: 278
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 182
Effective length of database: 6,679,618
Effective search space: 1215690476
Effective search space used: 1215690476
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: 58 (25.9 bits)