RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 035901
(415 letters)
>gnl|CDD|100021 cd02201, FtsZ_type1, FtsZ is a GTPase that is similar to the
eukaryotic tubulins and is essential for cell division
in prokaryotes. FtsZ is capable of polymerizing in a
GTP-driven process into structures similar to those
formed by tubulin. FtsZ forms a ring-shaped septum at
the site of bacterial cell division, which is required
for constriction of cell membrane and cell envelope to
yield two daughter cells.
Length = 304
Score = 46.7 bits (112), Expect = 1e-05
Identities = 45/182 (24%), Positives = 76/182 (41%), Gaps = 32/182 (17%)
Query: 6 AKLQDHINFYIDIDTDRLLE--KDSVTLDEALKTANNAVFLAVNAISTLSSDMHRKLIDI 63
+L+ H++ I I D+LLE ++ L EA K A++ + AV IS L LI++
Sbjct: 141 EELRKHVDTLIVIPNDKLLEVVDKNLPLLEAFKLADDVLAQAVKGISDLI--TKPGLINL 198
Query: 64 VHSNVKELKVSEIFKILGNYKEAKIGFGAGS---NIKTSILQAIYDCPFI-GAGVKELNG 119
++VK ++ N A +G G S + +AI P + + G
Sbjct: 199 DFADVK--------TVMKNKGVALMGIGEASGENRAIEAAEKAI-SSPLLEDDSISGAKG 249
Query: 120 MVICVVATSNIIGNNDLQSFLHTFRQITEYTGE-------TIVSFVHEPNLEPDLLVTTV 172
+++ NI G +DL L + E E I + +LE ++ VT +
Sbjct: 250 VLV------NITGGSDLT--LEEVNEAAEIIKEKVDPDANIIFGATIDESLEDEIRVTVI 301
Query: 173 VT 174
T
Sbjct: 302 AT 303
>gnl|CDD|236468 PRK09330, PRK09330, cell division protein FtsZ; Validated.
Length = 384
Score = 34.0 bits (79), Expect = 0.14
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 6 AKLQDHINFYIDIDTDRLLE--KDSVTLDEALKTANNAVFLAVNAISTL 52
+L+ H++ I I D+LLE L +A K A++ + AV I+ L
Sbjct: 154 EELRKHVDTLIVIPNDKLLEVVDKKTPLLDAFKAADDVLRQAVQGITDL 202
>gnl|CDD|232805 TIGR00065, ftsZ, cell division protein FtsZ. This family consists
of cell division protein FtsZ, a GTPase found in
bacteria, the chloroplast of plants, and in
archaebacteria. Structurally similar to tubulin, FtsZ
undergoes GTP-dependent polymerization into filaments
that form a cytoskeleton involved in septum synthesis
[Cellular processes, Cell division].
Length = 349
Score = 32.7 bits (75), Expect = 0.32
Identities = 44/186 (23%), Positives = 77/186 (41%), Gaps = 40/186 (21%)
Query: 7 KLQDHINFYIDIDTDRLLE-KDSVTLDEALKTANNAVFLAVNAISTLSSDMHRKLIDIVH 65
+L+ ++ I I D+LLE ++ L++A K A++ + AV IS L + LI+I
Sbjct: 159 RLKQAVDTLIVIPNDKLLEVVPNLPLNDAFKVADDVLVRAVKGISELITK--PGLINIDF 216
Query: 66 SNVKELKVSEIFKILGNYKEAKIGFGA--GSNIKTSILQAIYDC---PFIG-AGVKELNG 119
++V+ ++ A +G G G + +A+ P + + G
Sbjct: 217 ADVR--------AVMSGGGVAMMGIGEALGEDTANRAFEAVRKALSSPLLDVDKISGAKG 268
Query: 120 MVICVVATSNIIGNNDLQSFLHTFRQITEYTGETIVSFVHE-----------PNLEPDLL 168
++ +I G DL L +I E I S + + PNLE ++
Sbjct: 269 ALV------HITGGADLT--LLEAEEI----QEIITSELDQDANIIWGAIIDPNLEDEIR 316
Query: 169 VTTVVT 174
VT V T
Sbjct: 317 VTIVAT 322
>gnl|CDD|234608 PRK00064, recF, recombination protein F; Reviewed.
Length = 361
Score = 32.4 bits (75), Expect = 0.35
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 8/32 (25%)
Query: 82 NYKEAKIGFGAGSNI--------KTSILQAIY 105
NY+E + G N+ KT++L+AIY
Sbjct: 13 NYEELDLELSPGVNVLVGENGQGKTNLLEAIY 44
>gnl|CDD|224116 COG1195, RecF, Recombinational DNA repair ATPase (RecF pathway)
[DNA replication, recombination, and repair].
Length = 363
Score = 31.8 bits (73), Expect = 0.64
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 8/32 (25%)
Query: 82 NYKEAKIGFGAGSNI--------KTSILQAIY 105
NY E + G N+ KT++L+AIY
Sbjct: 13 NYAELDLDLSPGVNVLVGENGQGKTNLLEAIY 44
>gnl|CDD|214867 smart00864, Tubulin, Tubulin/FtsZ family, GTPase domain. This
domain is found in all tubulin chains, as well as the
bacterial FtsZ family of proteins. These proteins are
involved in polymer formation. Tubulin is the major
component of microtubules, while FtsZ is the
polymer-forming protein of bacterial cell division, it
is part of a ring in the middle of the dividing cell
that is required for constriction of cell membrane and
cell envelope to yield two daughter cells. FtsZ and
tubulin are GTPases, this entry is the GTPase domain.
FtsZ can polymerise into tubes, sheets, and rings in
vitro and is ubiquitous in bacteria and archaea.
Length = 192
Score = 30.1 bits (69), Expect = 1.6
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 7 KLQDHINFYIDIDTDRLLE--KDSVTLDEALKTANNAVFLAVNAISTL 52
+L++H++ I ID D LL+ + L A K AN+ + AV+ I+ L
Sbjct: 140 ELREHVDSLIVIDNDALLDICGRKLPLRPAFKDANDLLAQAVSGITDL 187
>gnl|CDD|237336 PRK13288, PRK13288, pyrophosphatase PpaX; Provisional.
Length = 214
Score = 29.6 bits (67), Expect = 2.6
Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 130 IIGNNDL--QSFLHTFRQI--TEYTGETIVSFVHEP 161
+I N+L SFLHT + +Y E ++ F+
Sbjct: 14 LINTNELIISSFLHTLKTYYPNQYKREDVLPFIGPS 49
>gnl|CDD|182233 PRK10090, PRK10090, aldehyde dehydrogenase A; Provisional.
Length = 409
Score = 28.9 bits (65), Expect = 4.9
Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 8/64 (12%)
Query: 30 TLDEALKTANNAVFLAVNAISTLSSDMHRKLIDIVHSNVKELKVSEIFKILGNYKEAKIG 89
TL+EA+ AN++ + L+S ++ + +++ +K LK E + N+ EA G
Sbjct: 325 TLEEAIAMANDSDY-------GLTSSIYTQNLNVAMKAIKGLKFGETYINRENF-EAMQG 376
Query: 90 FGAG 93
F AG
Sbjct: 377 FHAG 380
>gnl|CDD|218296 pfam04860, Phage_portal, Phage portal protein. Bacteriophage
portal proteins form a dodecamer and is located at a
five-fold vertex of the viral capsid. The portal complex
forms a channel through which the viral DNA is packaged
into the capsid, and exits during infection. The portal
protein is though to rotate during DNA packaging. Portal
proteins from different phage show little sequence
homology, so this family does not represent all portal
proteins.
Length = 348
Score = 28.8 bits (65), Expect = 5.1
Identities = 11/46 (23%), Positives = 19/46 (41%)
Query: 2 KDLAAKLQDHINFYIDIDTDRLLEKDSVTLDEALKTANNAVFLAVN 47
+ L + +Y + + + LL DS EA A + +L N
Sbjct: 296 RKLLTPEERRAGYYFEFNVEGLLRGDSKARAEAYSKAVQSGWLTPN 341
>gnl|CDD|223020 PHA03246, PHA03246, large tegument protein UL36; Provisional.
Length = 3095
Score = 29.2 bits (65), Expect = 6.1
Identities = 24/62 (38%), Positives = 33/62 (53%), Gaps = 11/62 (17%)
Query: 7 KLQDHINFYIDIDTDRLLEKDSVTLDEALKTANNAVFLAV------NAISTLSSDMHRKL 60
+L+ I Y D++T L+K LDEALK AN+ V L A S+LSSD+ K+
Sbjct: 1004 ELESRIASYTDLETTVDLQK----LDEALKLANSIVKLTKGLDGAKLA-SSLSSDIREKI 1058
Query: 61 ID 62
Sbjct: 1059 RQ 1060
>gnl|CDD|213209 cd03242, ABC_RecF, ATP-binding cassette domain of RecF. RecF is a
recombinational DNA repair ATPase that maintains
replication in the presence of DNA damage. When
replication is prematurely disrupted by DNA damage,
several recF pathway gene products play critical roles
processing the arrested replication fork, allowing it to
resume and complete its task. This CD represents the
nucleotide binding domain of RecF. RecF belongs to a
large superfamily of ABC transporters involved in the
transport of a wide variety of different compounds
including sugars, ions, peptides, and more complex
organic molecules. The nucleotide binding domain shows
the highest similarity between all members of the
family. ABC transporters are a subset of nucleotide
hydrolases with a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 270
Score = 28.4 bits (64), Expect = 6.5
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 8/32 (25%)
Query: 82 NYKEAKIGFGAGSNI--------KTSILQAIY 105
NY E ++ F G + KT++L+AI
Sbjct: 11 NYAELELEFEPGVTVLVGENAQGKTNLLEAIS 42
>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein. CDC45 is an essential gene
required for initiation of DNA replication in S.
cerevisiae, forming a complex with MCM5/CDC46.
Homologues of CDC45 have been identified in human, mouse
and smut fungus among others.
Length = 583
Score = 28.8 bits (65), Expect = 6.6
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 108 PFIGAGVKELNGMVICVVATSNIIGNNDLQSFLHTFRQITEYTGETIV--SFVH 159
P + A + E G + VV S ++D F F+Q E T + SF
Sbjct: 509 PLVLAALDEEKGTYL-VVGVSPSTEDSDKNFFGRAFQQAAEETNARVRIDSFET 561
>gnl|CDD|184826 PRK14799, thrS, threonyl-tRNA synthetase; Provisional.
Length = 545
Score = 28.7 bits (64), Expect = 7.5
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 5/27 (18%)
Query: 13 NFYIDIDTDRLLEKDSVTLDEALKTAN 39
+FYID+ +D S+TLDE K N
Sbjct: 35 DFYIDVKSD-----TSITLDEVKKAIN 56
>gnl|CDD|234289 TIGR03639, cas1_NMENI, CRISPR-associated endonuclease Cas1, subtype
II/NMENI. The CRISPR-associated protein Cas1 is
virtually universal to CRISPR systems. CRISPR, an
acronym for Clustered Regularly Interspaced Short
Palindromic Repeats, is a prokaryotic immunity system
for foreign DNA, mostly from phage. CRISPR systems
belong to different subtypes, distinguished by both
nature of the repeats, the makeup of the cohort of
associated Cas proteins, and by molecular phylogeny
within the more universal Cas proteins such as this one.
This model is of type EXCEPTION and provides more
specific information than the EQUIVALOG model TIGR00287.
It describes the Cas1 variant of the NMENI subtype of
CRISPR/Cas system.
Length = 278
Score = 28.0 bits (63), Expect = 9.7
Identities = 30/114 (26%), Positives = 45/114 (39%), Gaps = 27/114 (23%)
Query: 235 IENKISNESVSEGFYNYSNDAPTLLTDYNNI---DASSRSGQSEAEFYESRTEPSNLYDQ 291
I+ KI N++ N D+ L N + D ++R + LY +
Sbjct: 107 IKQKILNQAFVLEKLNLDEDSEKLKNLANKVESGDKTNREAHAAK-----------LYFK 155
Query: 292 IVEGTPFQRELL--NSWN--LGPGYQIAQQWAKERSADSRA---STMIDNLGIF 338
+ G F R+ + N L GY I RSA +RA S ++ LGIF
Sbjct: 156 TLFGEDFSRDDDGEDPINAALNYGYAIL------RSAVARALVKSGLLPRLGIF 203
>gnl|CDD|224747 COG1834, COG1834, N-Dimethylarginine dimethylaminohydrolase [Amino
acid transport and metabolism].
Length = 267
Score = 27.7 bits (62), Expect = 9.8
Identities = 14/56 (25%), Positives = 22/56 (39%)
Query: 29 VTLDEALKTANNAVFLAVNAISTLSSDMHRKLIDIVHSNVKELKVSEIFKILGNYK 84
V +EA N V L N + L + + V E+ ++EI K G +
Sbjct: 206 VPEEEAFALGCNVVSLGPNVVIALPRTPKAEQLAAAGFEVIEVDLTEILKGGGGLR 261
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
0.316 0.132 0.372
Gapped
Lambda K H
0.267 0.0842 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,413,147
Number of extensions: 1929578
Number of successful extensions: 1549
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1544
Number of HSP's successfully gapped: 26
Length of query: 415
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 316
Effective length of database: 6,546,556
Effective search space: 2068711696
Effective search space used: 2068711696
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: 60 (26.7 bits)