RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10828
(245 letters)
>gnl|CDD|215947 pfam00493, MCM, MCM2/3/5 family.
Length = 327
Score = 134 bits (339), Expect = 9e-38
Identities = 58/147 (39%), Positives = 81/147 (55%), Gaps = 5/147 (3%)
Query: 104 ISFPQAGLVCKLNTRCSIIAACNPK-GHYDPNIPISVNIAIASPLLSRFDLVLVLLDSKS 162
IS +AG+V LN RCS++AA NP G YDP ++ NI + PLLSRFDL+ VLLD
Sbjct: 150 ISIAKAGIVATLNARCSVLAAANPIFGRYDPKKSVAENINLPPPLLSRFDLIFVLLDKPD 209
Query: 163 EQWDKMVSNYILFGKRLGPSSNQATS-LWDVEKLQAYFYLIKG-LRPQMTLEANRILTRY 220
E+ D+ ++ +I+ R T D E L+ Y + ++P+++ EA L +
Sbjct: 210 EERDEELAKHIVDLHRASDEEEIETEDEIDPELLRKYIAYARENIKPKLSDEAREKLVNW 269
Query: 221 YQAQRKADM--RNAARTTVRLLESLIR 245
Y RK R + TVR LESLIR
Sbjct: 270 YVELRKESEGSRGSIPITVRQLESLIR 296
>gnl|CDD|224162 COG1241, MCM2, Predicted ATPase involved in replication control,
Cdc46/Mcm family [DNA replication, recombination, and
repair].
Length = 682
Score = 117 bits (296), Expect = 3e-30
Identities = 58/156 (37%), Positives = 78/156 (50%), Gaps = 13/156 (8%)
Query: 103 EISFPQAGLVCKLNTRCSIIAACNPK-GHYDPNIPISVNIAIASPLLSRFDLVLVLLDSK 161
IS +AG+ LN RCS++AA NPK G YDP ++ NI + +PLLSRFDL+ VL D
Sbjct: 411 TISIAKAGITATLNARCSVLAAANPKFGRYDPKKTVAENINLPAPLLSRFDLIFVLKDDP 470
Query: 162 SEQWDKMVSNYILFGKR-------LGPSSNQATSLWDVEKLQAYF-YLIKGLRPQMTLEA 213
E+ D+ ++ +IL R + D E L+ Y Y K + P +T EA
Sbjct: 471 DEEKDEEIAEHILDKHRGEEPEETISLDGVDEVEERDFELLRKYISYARKNVTPVLTEEA 530
Query: 214 NRILTRYYQAQRKADMRNAAR----TTVRLLESLIR 245
L YY RK + T R LES+IR
Sbjct: 531 REELEDYYVEMRKKSALVEEKRTIPITARQLESIIR 566
>gnl|CDD|214631 smart00350, MCM, minichromosome maintenance proteins.
Length = 509
Score = 108 bits (272), Expect = 3e-27
Identities = 54/150 (36%), Positives = 83/150 (55%), Gaps = 8/150 (5%)
Query: 104 ISFPQAGLVCKLNTRCSIIAACNP-KGHYDPNIPISVNIAIASPLLSRFDLVLVLLDSKS 162
IS +AG+ LN RCS++AA NP G YDP + NI + +P+LSRFDL+ V+LD
Sbjct: 329 ISIAKAGITTTLNARCSVLAAANPIGGRYDPKLTPEENIDLPAPILSRFDLLFVVLDEVD 388
Query: 163 EQWDKMVSNYILFGKRLGPSSN--QATSLWDVEKLQAYF-YLIKGLRPQMTLEANRILTR 219
E+ D+ ++ +++ R EKL+ Y Y + ++P+++ EA L +
Sbjct: 389 EERDRELAKHVVDLHRYSHPEEDEAFEPPLSQEKLRKYIAYAREKIKPKLSEEAADKLVK 448
Query: 220 YYQAQRKADMRNAART----TVRLLESLIR 245
Y RK D + +R+ TVR LES+IR
Sbjct: 449 AYVDLRKEDSQTESRSSIPITVRQLESIIR 478
>gnl|CDD|173403 PTZ00111, PTZ00111, DNA replication licensing factor MCM4;
Provisional.
Length = 915
Score = 60.0 bits (145), Expect = 2e-10
Identities = 38/155 (24%), Positives = 71/155 (45%), Gaps = 26/155 (16%)
Query: 104 ISFPQAGLVCKLNTRCSIIAACNP-KGHYDPNIPISVNIAIASPLLSRFDLVLVLLDSKS 162
++ +AG+V L +I+A+CNP Y+ N + NI I+ L +RFDL+ ++LD
Sbjct: 586 VTIAKAGIVATLKAETAILASCNPINSRYNKNKAVIENINISPSLFTRFDLIYLVLDHID 645
Query: 163 EQWDKMVSNYI----LFGKRLGPS--------------------SNQATSLWDVEKLQAY 198
+ D+++S I L G S + + D++ L+ Y
Sbjct: 646 QDTDQLISLSIAKDFLLPHMTGSGNDEDTYDRSNTMHVEDESLRSEKDYNKNDLDMLRMY 705
Query: 199 FYLIK-GLRPQMTLEANRILTRYYQAQRKADMRNA 232
K P+++ EA +++TR Y R+ + + +
Sbjct: 706 IKFSKLHCFPKLSDEAKKVITREYVKMRQGNFQTS 740
>gnl|CDD|100001 cd04955, GT1_like_6, This family is most closely related to the GT1
family of glycosyltransferases. Glycosyltransferases
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. The acceptor molecule can be a lipid,
a protein, a heterocyclic compound, or another
carbohydrate residue. This group of glycosyltransferases
is most closely related to the previously defined
glycosyltransferase family 1 (GT1). The members of this
family may transfer UDP, ADP, GDP, or CMP linked sugars.
The diverse enzymatic activities among members of this
family reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility. The members of this family are found in
certain bacteria and Archaea.
Length = 363
Score = 29.5 bits (67), Expect = 1.4
Identities = 17/66 (25%), Positives = 28/66 (42%), Gaps = 4/66 (6%)
Query: 119 CSIIAACNPKGHYDPNIPISVNIAIASPLLSRFDLVLVL----LDSKSEQWDKMVSNYIL 174
+I+ A K D + IA PLL +V+ L+ K +W + Y+
Sbjct: 75 LAILHALFVKRDIDHVHALGPAIAPFLPLLRLKGKKVVVNMDGLEWKRAKWGRPAKRYLK 134
Query: 175 FGKRLG 180
FG++L
Sbjct: 135 FGEKLA 140
>gnl|CDD|178459 PLN02868, PLN02868, acyl-CoA thioesterase family protein.
Length = 413
Score = 29.3 bits (66), Expect = 2.2
Identities = 18/72 (25%), Positives = 28/72 (38%)
Query: 174 LFGKRLGPSSNQATSLWDVEKLQAYFYLIKGLRPQMTLEANRILTRYYQAQRKADMRNAA 233
L G+ L +S L V L AYF L+ + + + RI + A R+ D
Sbjct: 165 LVGQALAAASKTVDPLKLVHSLHAYFLLVGDINLPIIYQVERIRDGHNFATRRVDAIQKG 224
Query: 234 RTTVRLLESLIR 245
+ L S +
Sbjct: 225 KVIFTLFASFQK 236
>gnl|CDD|216984 pfam02348, CTP_transf_3, Cytidylyltransferase. This family
consists of two main Cytidylyltransferase activities: 1)
3-deoxy-manno-octulosonate cytidylyltransferase,,
EC:2.7.7.38 catalyzing the reaction:- CTP +
3-deoxy-D-manno-octulosonate <=> diphosphate +
CMP-3-deoxy-D-manno-octulosonate, 2) acylneuraminate
cytidylyltransferase EC:2.7.7.43, catalyzing the
reaction:- CTP + N-acylneuraminate <=> diphosphate +
CMP-N-acylneuraminate. NeuAc cytydilyltransferase of
Mannheimia haemolytica has been characterized describing
kinetics and regulation by substrate charge, energetic
charge and amino-sugar demand.
Length = 197
Score = 28.4 bits (64), Expect = 3.0
Identities = 11/71 (15%), Positives = 22/71 (30%), Gaps = 1/71 (1%)
Query: 130 HYDPNIPISVNIAIASPLLSRFDLVLVLLDSKSEQWDKMVSNYILFGKRLGP-SSNQATS 188
+ + I VN+ PLL ++ + + D + + + N
Sbjct: 83 AFLADEEIIVNLQGDEPLLQPTSILRAIEHLREAGEDYVSTLVKPVVSSEEILNPNPLKV 142
Query: 189 LWDVEKLQAYF 199
+ D YF
Sbjct: 143 VLDDAGYALYF 153
>gnl|CDD|239968 cd04595, CBS_pair_DHH_polyA_Pol_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with an upstream DHH domain which
performs a phosphoesterase function and a downstream
polyA polymerase domain. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 110
Score = 27.2 bits (61), Expect = 3.5
Identities = 9/21 (42%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 202 IKGLRPQMTL-EANRILTRYY 221
+K +RP+ T+ EA +L RY
Sbjct: 4 VKTVRPEATIEEARELLLRYG 24
>gnl|CDD|227770 COG5483, COG5483, Uncharacterized conserved protein [Function
unknown].
Length = 289
Score = 28.0 bits (62), Expect = 4.7
Identities = 17/70 (24%), Positives = 25/70 (35%), Gaps = 1/70 (1%)
Query: 47 ARGPQFG-LIELEIFSAAGEIFQKKKAIISSVSPQKRGAPKSAGPVAVCHSALWWAKEIS 105
+RG + G IE E F E K K + + P+ A V +C +
Sbjct: 69 SRGQKEGYCIESEKFFEYIERLYKGKIALKGLDPKATLAENRVVKVFMCEEEIMEYCHRK 128
Query: 106 FPQAGLVCKL 115
FP L +
Sbjct: 129 FPADTLKSRG 138
>gnl|CDD|224686 COG1772, COG1772, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 178
Score = 27.4 bits (61), Expect = 5.8
Identities = 18/68 (26%), Positives = 29/68 (42%)
Query: 141 IAIASPLLSRFDLVLVLLDSKSEQWDKMVSNYILFGKRLGPSSNQATSLWDVEKLQAYFY 200
IA A+P+ F+ L L+D + +K ++ + +G S L + KL
Sbjct: 23 IARAAPICYAFNFHLALIDFPFKGTEKELAEEVAEKTTIGESGKYLLVLAESNKLHVIDK 82
Query: 201 LIKGLRPQ 208
KG PQ
Sbjct: 83 PKKGFPPQ 90
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
0.318 0.133 0.392
Gapped
Lambda K H
0.267 0.0754 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,206,043
Number of extensions: 1130946
Number of successful extensions: 775
Number of sequences better than 10.0: 1
Number of HSP's gapped: 764
Number of HSP's successfully gapped: 14
Length of query: 245
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 151
Effective length of database: 6,768,326
Effective search space: 1022017226
Effective search space used: 1022017226
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 (26.1 bits)