RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10488
(462 letters)
>gnl|CDD|107029 PHA01351, PHA01351, putative minor structural protein.
Length = 1070
Score = 33.4 bits (76), Expect = 0.28
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 17/82 (20%)
Query: 87 VRTVFKLLTSQSQLI--------RLQALKLLGFFLSRSTHKRKYDVMSPHNLYTLLAERL 138
VRTVF + +QSQLI +LQ + LG F K+ + + + +A ++
Sbjct: 464 VRTVFDTMITQSQLIQTNQLLLRQLQQIVSLGIF----DQKKIKEELKANKFNEQVALQI 519
Query: 139 LQHESSLSFATYNVLYEILTEH 160
L+ E L FA L L E+
Sbjct: 520 LESE--LQFA---QLQNQLKEY 536
>gnl|CDD|219909 pfam08569, Mo25, Mo25-like. Mo25-like proteins are involved in
both polarised growth and cytokinesis. In fission yeast
Mo25 is localised alternately to the spindle pole body
and to the site cell division in a cell cycle dependent
manner.
Length = 334
Score = 32.6 bits (75), Expect = 0.42
Identities = 32/104 (30%), Positives = 49/104 (47%), Gaps = 11/104 (10%)
Query: 57 ENLHDVLQTLISLMCDHPACLVPAF---DMKQGVRTVFKLLTSQSQLIRLQALKLLG-FF 112
E D T L+ H LV F + + KLL S + + + Q+LKLLG
Sbjct: 178 EIATDAFSTFKDLLTTHKK-LVAEFLLNNYDRFFSMFNKLLQSTNYVTKRQSLKLLGELL 236
Query: 113 LSRSTHK--RKYDVMSPHNLYTLLAERLLQHES-SLSFATYNVL 153
L R+ K KY + SP NL ++ LL+ +S ++ F ++V
Sbjct: 237 LDRANSKVMTKY-ISSPENLKLMM--NLLRDKSKNIQFEAFHVF 277
>gnl|CDD|220744 pfam10421, OAS1_C, 2'-5'-oligoadenylate synthetase 1, domain 2,
C-terminus. This is the largely alpha-helical,
C-terminal half of 2'-5'-oligoadenylate synthetase 1,
being described as domain 2 of the enzyme and homologous
to a tandem ubiquitin repeat. It carries the region of
enzymic activity between 320 and 344 at the extreme
C-terminal end. Oligoadenylate synthetases are antiviral
enzymes that counteract vial attack by degrading viral
RNA. The enzyme uses ATP in 2'-specific nucleotidyl
transfer reactions to synthesise 2'.5'-oligoadenylates,
which activate latent ribonuclease, resulting in
degradation of viral RNA and inhibition of virus
replication. This domain is often associated with
NTP_transf_2 pfam01909.
Length = 191
Score = 30.7 bits (70), Expect = 1.0
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 75 ACLVPAFDMKQGVRTVFKLLTSQSQL 100
FD +G RTV +L+T QL
Sbjct: 85 GSGKEDFDTAEGFRTVLELVTKYEQL 110
>gnl|CDD|239002 cd02047, HCII, Heparin cofactor II (HCII) inhibits thrombin, the
final protease of the coagulation cascade. HCII is
allosterically activated by binding to cell surface
glycosaminoglycans (GAGs). The specificity of HCII for
thrombin is conferred by a highly acidic hirudin-like
N-terminal tail, which becomes available after GAG
binding for interaction with the anion-binding exosite I
of thrombin. This subgroup corresponds to clade D of the
serpin superfamily.
Length = 436
Score = 30.2 bits (68), Expect = 2.3
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 5/53 (9%)
Query: 104 QALKLLGF--FLSRSTHKRKYDVMSPHNLYTLLAERLLQHESSLSFATYNVLY 154
Q L LGF F++ S+ Y++ + HNL+ L RL + + + N LY
Sbjct: 115 QVLSTLGFKDFVNASSK---YEITTVHNLFRKLTHRLFRRNFGYTLRSVNDLY 164
>gnl|CDD|233992 TIGR02744, TrbI_Ftype, type-F conjugative transfer system protein
TrbI. This protein is an essential component of the
F-type conjugative transfer sytem for plasmid DNA
transfer and has been shown to be localized to the
periplasm.
Length = 112
Score = 28.6 bits (64), Expect = 2.9
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 62 VLQTLIS-LMCDHPACLVPAFDMKQGVRTVFKLLTSQSQLIRLQALKLLGFFLS 114
VL L+S + + + AFDMKQ + F SQ +L Q LLG F +
Sbjct: 17 VLSALVSYGIVRLNSPVTVAFDMKQTLDAFFDSA-SQKKLSEAQQKALLGRFNA 69
>gnl|CDD|173359 PTZ00064, PTZ00064, histone acetyltransferase; Provisional.
Length = 552
Score = 30.0 bits (67), Expect = 3.1
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 157 LTEHISQQILYTRHPEPESHYRLENPMILKVVATLIRQSKQSELLLEVKKLFLSDLTL 214
L H+S+ L RHP YR +N + ++ L R +E L + KLFL TL
Sbjct: 296 LIRHLSRCQL--RHPPGNEIYRKDNISVFEIDGALTR--GYAENLCYLAKLFLDHKTL 349
>gnl|CDD|131745 TIGR02698, CopY_TcrY, copper transport repressor, CopY/TcrY family.
This family includes metal-fist type transcriptional
repressors of copper transport systems such as copYZAB
of Enterococcus hirae and tcrYAZB (transferble copper
resistance) of an Enterocuccus faecium plasmid. High
levels of copper can displace zinc and prevent binding
by the repressor, activating efflux by copper resistance
transporters. The most closely related proteins excluded
by this model are antibiotic resistance regulators
including the methicillin resistance regulatory protein
MecI [Transport and binding proteins, Cations and iron
carrying compounds, Regulatory functions, DNA
interactions].
Length = 130
Score = 28.5 bits (64), Expect = 3.2
Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 15/63 (23%)
Query: 48 NYLTTVQEDENLHDVLQTLISLMCDHPACLVPAFDMKQGVRTVFKLLT----SQSQLIRL 103
Y V EDE + + Q L S +C K G + L+ SQ+ + +L
Sbjct: 62 IYTALVSEDEAVENAAQELFSRIC----------SRKVG-AVIADLIEESPLSQTDIEKL 110
Query: 104 QAL 106
+ L
Sbjct: 111 EKL 113
>gnl|CDD|117609 pfam09043, Lys-AminoMut_A, D-Lysine 5,6-aminomutase alpha subunit.
Members of his family are involved in the 1,2
rearrangement of the terminal amino group of DL-lysine
and of L-beta-lysine, using adenosylcobalamin (AdoCbl)
and pyridoxal-5'-phosphate as cofactors. The structure
is predominantly a PLP-binding TIM barrel domain, with
several additional alpha-helices and beta-strands at the
N and C termini. These helices and strands form an
intertwined accessory clamp structure that wraps around
the sides of the TIM barrel and extends up toward the
Ado ligand of the Cbl cofactor, providing most of the
interactions observed between the protein and the Ado
ligand of the Cbl, suggesting that its role is mainly in
stabilising AdoCbl in the precatalytic resting state.
Length = 509
Score = 29.7 bits (67), Expect = 3.5
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 8/63 (12%)
Query: 48 NYLTTVQEDENLHDVLQT--------LISLMCDHPACLVPAFDMKQGVRTVFKLLTSQSQ 99
NYLTT E H VL + L++ + + L AF+M + F +Q+Q
Sbjct: 295 NYLTTADAFEEAHTVLASQFINEQFALLAGLPEEQMGLGHAFEMDPELENGFLYELAQAQ 354
Query: 100 LIR 102
++R
Sbjct: 355 MVR 357
>gnl|CDD|223038 PHA03302, PHA03302, envelope glycoprotein L; Provisional.
Length = 253
Score = 28.9 bits (65), Expect = 5.7
Identities = 21/105 (20%), Positives = 31/105 (29%), Gaps = 21/105 (20%)
Query: 234 GMPIEVAVSFLQRLVNMADVLVFASSLNFAELEAEKNMSSGGILRQCLRLVCTCAVRNCL 293
M + + V L +V A + S EA+ C AV NC
Sbjct: 1 MMHLLLFVLLLILIVFSAAASLNNS--VAEYREAD----------------CIEAVINCT 42
Query: 294 ---ECKERHRALLNSPAYNNPTKNAHLQSLIRGAQTSPKNANDVP 335
P P +N L SLIR + + + +
Sbjct: 43 NGETFSRSEDDSPLRPLIQAPHRNGDLSSLIRYRPPTGELRSPIE 87
>gnl|CDD|203500 pfam06686, SpoIIIAC, Stage III sporulation protein AC/AD protein
family. This family consists of several bacterial stage
III sporulation protein AC (SpoIIIAC) and SpoIIIAD
sequences. The exact function of this family is unknown.
SpoIIIAD is the an uncharacterized protein which is part
of the spoIIIA operon that acts at sporulation stage III
as part of a cascade of events leading to endospore
formation. The operon is regulated by sigmaG.
Length = 58
Score = 26.2 bits (59), Expect = 5.8
Identities = 8/37 (21%), Positives = 17/37 (45%)
Query: 362 AAIYRDMEESKQAQFLSLAVVYFISVLMVSKYRDILE 398
A + +D + + A + LA I +L++ + E
Sbjct: 16 ALVLKDAGKPEIAVLIELAGGIIILLLVIPIITALFE 52
>gnl|CDD|224471 COG1554, ATH1, Trehalose and maltose hydrolases (possible
phosphorylases) [Carbohydrate transport and metabolism].
Length = 772
Score = 28.8 bits (65), Expect = 7.8
Identities = 21/66 (31%), Positives = 28/66 (42%), Gaps = 14/66 (21%)
Query: 92 KLLTSQSQLIR----LQALKLLGFFLSRSTHKRKYDVMSPHNLYTLLAERLLQHESSLSF 147
+ +SQ I+ L L LL S T KR +D Y E H+SSLS
Sbjct: 591 RESVLRSQFIKQADVLMLLYLLPDLFSPETIKRNFDY------Y----EPRTVHDSSLSP 640
Query: 148 ATYNVL 153
A + +L
Sbjct: 641 AIHAIL 646
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 28.9 bits (65), Expect = 8.1
Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 9/56 (16%)
Query: 308 YNNPTK---------NAHLQSLIRGAQTSPKNANDVPGGPTSSSSPVKDLHKLLQD 354
+N K L+ + +TS N ND+ G S+ + D + D
Sbjct: 692 FNKGAKQKGEILVFRRGSLKRAKKAGETSASNKNDIEAGEVLGSTDLTDESDDVND 747
>gnl|CDD|219751 pfam08223, PaaX_C, PaaX-like protein C-terminal domain. This
family contains proteins that are similar to the product
of the paaX gene of Escherichia coli. This protein is
involved in the regulation of expression of a group of
proteins known to participate in the metabolism of
phenylacetic acid.
Length = 166
Score = 27.7 bits (62), Expect = 8.4
Identities = 15/48 (31%), Positives = 25/48 (52%)
Query: 363 AIYRDMEESKQAQFLSLAVVYFISVLMVSKYRDILEPPPMLPRALSPP 410
A +R + +A L+ A + +L+V +YR +L P+LP L P
Sbjct: 98 ARFRPLLRLAEAGELTPAEAFAARLLLVHEYRRLLLRDPLLPEELLPA 145
>gnl|CDD|202014 pfam01858, RB_A, Retinoblastoma-associated protein A domain. This
domain has the cyclin fold as predicted.
Length = 192
Score = 27.8 bits (62), Expect = 9.6
Identities = 11/73 (15%), Positives = 29/73 (39%), Gaps = 8/73 (10%)
Query: 151 NVLYEILTEHISQQILYTRHPEPESHYRLENPMILKVVATLIRQSKQSELLLEVKKLFLS 210
++ E + E ++ + ++L + +V+ ++++ E K+L
Sbjct: 48 KIIGEEIFETFAEAEDQSPKEIASQRFKLALKLYYRVLESILKA--------EEKRLHDM 99
Query: 211 DLTLLCNNNRENR 223
DL+ L +R
Sbjct: 100 DLSNLLEQEAFHR 112
>gnl|CDD|235812 PRK06476, PRK06476, pyrroline-5-carboxylate reductase; Reviewed.
Length = 258
Score = 28.1 bits (63), Expect = 9.7
Identities = 18/79 (22%), Positives = 33/79 (41%), Gaps = 14/79 (17%)
Query: 228 QMSVW---QGMPIEVAVSFLQRL-VNMADVLVFASSLNFAELEAEKNMSSGGILRQCLRL 283
+ W QG+ + A ++L L ++A V ++ +F+ L E + GG+ Q
Sbjct: 174 TATGWLEEQGLKRQKARAYLAPLFASLAQDAVRSTKTDFSALSRE-FSTKGGLNEQ---- 228
Query: 284 VCTCAVRNCLECKERHRAL 302
V N + + AL
Sbjct: 229 -----VLNDFSRQGGYAAL 242
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
0.321 0.134 0.389
Gapped
Lambda K H
0.267 0.0753 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,156,391
Number of extensions: 2213482
Number of successful extensions: 1847
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1847
Number of HSP's successfully gapped: 26
Length of query: 462
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 362
Effective length of database: 6,502,202
Effective search space: 2353797124
Effective search space used: 2353797124
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 61 (27.2 bits)