RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13560
(629 letters)
>gnl|CDD|218293 pfam04855, SNF5, SNF5 / SMARCB1 / INI1. SNF5 is a component of the
yeast SWI/SNF complex, which is an ATP-dependent
nucleosome-remodelling complex that regulates the
transcription of a subset of yeast genes. SNF5 is a key
component of all SWI/SNF-class complexes characterized
so far. This family consists of the conserved region of
SNF5, including a direct repeat motif. SNF5 is essential
for the assembly promoter targeting and chromatin
remodelling activity of the SWI-SNF complex. SNF5 is
also known as SMARCB1, for SWI/SNF-related,
matrix-associated, actin-dependent regulator of
chromatin, subfamily b, member 1, and also INI1 for
integrase interactor 1. Loss-of function mutations in
SNF5 are thought to contribute to oncogenesis in
malignant rhabdoid tumours (MRTs).
Length = 228
Score = 264 bits (677), Expect = 9e-85
Identities = 101/228 (44%), Positives = 142/228 (62%), Gaps = 32/228 (14%)
Query: 422 ENASHTEVLVPIRLDMEIEGQKLRDTFTWNKNETLITPEQFAEVLCDDLDLNPLLFVPAI 481
A E+LVPIRLD+E++G KLRDTFTWN NE+LITPE+FAE+LC+DLDL F+ I
Sbjct: 1 AQAEQPEILVPIRLDLELDGYKLRDTFTWNLNESLITPEEFAEILCEDLDLPNSPFIQQI 60
Query: 482 AQSIRQQTDAFPAENLLDEVH---------------DQRVVIKLNIHVGNTSLVDQIEWD 526
+ SIR+Q + + LL ++ D RV+IKLNI++G +L+DQ EWD
Sbjct: 61 SSSIREQIEEYAGVALLPQLEPEDPDLPSSAYKNDDDLRVLIKLNINLGQQNLIDQFEWD 120
Query: 527 MSEKENSAEKFAVRLCTELGLGGEFVTAIAYSIRGQLSWHQR-----TYAFSEAPLPVVE 581
+++ N+ E+FA +C +LGL GEFVTAIA+SIR QL ++ + F +P+ E
Sbjct: 121 LNDPPNTPEEFAEIMCADLGLSGEFVTAIAHSIREQLLKFKKSLCELGHLFDGSPIEDDE 180
Query: 582 -----APFRSHS-------ESDQWSPFLETLTDAEMEKKIRDQDRNTR 617
P +D+W+P LE LTDAE+E++ RD++RNTR
Sbjct: 181 IRAAFLPGPLAGTRRDPDQLADEWTPRLEELTDAEIERRERDRERNTR 228
Score = 256 bits (657), Expect = 9e-82
Identities = 101/237 (42%), Positives = 142/237 (59%), Gaps = 41/237 (17%)
Query: 162 ENASHTEVLVPIRLDMEIEGQKLRDTFTWNKNGTVFSFCSLETLITPEQFAEVLCDDLDL 221
A E+LVPIRLD+E++G KLRDTFTWN N E+LITPE+FAE+LC+DLDL
Sbjct: 1 AQAEQPEILVPIRLDLELDGYKLRDTFTWNLN---------ESLITPEEFAEILCEDLDL 51
Query: 222 NPLLFVPAIAQSIRQQTDAFPAENLLDEVH---------------DQRVVIKLNIHVGNT 266
F+ I+ SIR+Q + + LL ++ D RV+IKLNI++G
Sbjct: 52 PNSPFIQQISSSIREQIEEYAGVALLPQLEPEDPDLPSSAYKNDDDLRVLIKLNINLGQQ 111
Query: 267 SLVDQIEWDMSEKENSAEKFAVRLCTELGLGGEFVTAIAYSIRGQLSWHQR-----TYAF 321
+L+DQ EWD+++ N+ E+FA +C +LGL GEFVTAIA+SIR QL ++ + F
Sbjct: 112 NLIDQFEWDLNDPPNTPEEFAEIMCADLGLSGEFVTAIAHSIREQLLKFKKSLCELGHLF 171
Query: 322 SEAPLPVVE-----APFRSHS-------ESDQWSPFLETLTDAEMEKKIRDQDRNTR 366
+P+ E P +D+W+P LE LTDAE+E++ RD++RNTR
Sbjct: 172 DGSPIEDDEIRAAFLPGPLAGTRRDPDQLADEWTPRLEELTDAEIERRERDRERNTR 228
>gnl|CDD|183521 PRK12422, PRK12422, chromosomal replication initiation protein;
Provisional.
Length = 445
Score = 31.7 bits (72), Expect = 1.1
Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 125 HLDAVPQATPVNR-NRVNQKKVRTFPLCFDDTDPSCIFENASHT-EVLVPIRLDMEIEG 181
H+ ++ ++TP + ++ Q+K F + + + DP F N T E +P R+ E
Sbjct: 73 HVTSLDKSTPFKKEKQIQQEKTAYFTMKYGELDPLMTFANFLVTPENDLPHRILQEFTK 131
Score = 31.7 bits (72), Expect = 1.1
Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 385 HLDAVPQATPVNR-NRVNQKKVRTFPLCFDDTDPSCIFENASHT-EVLVPIRLDMEIEG 441
H+ ++ ++TP + ++ Q+K F + + + DP F N T E +P R+ E
Sbjct: 73 HVTSLDKSTPFKKEKQIQQEKTAYFTMKYGELDPLMTFANFLVTPENDLPHRILQEFTK 131
>gnl|CDD|240573 cd12953, MMP_TTHA0227, Minimal MMP-like domain found in Thermus
thermophilus hypothetical protein TTHA0227 and similar
proteins. The subfamily includes an uncharacterized
protein from Thermus thermophilus (TTHA0227) and its
homologs from bacteria. Although its biological role
remains unclear, TTHA0227 contains a minimal
metalloprotease (MMP)-like domain consisting of
3-stranded mixed 2-beta sheets and a HExxH (x could be
any amino acid) motif. It may belong to a superfamily
of bacterial zinc metallo-peptidases, which is
characterized by a conserved HExxHxxGxxD motif.
Length = 112
Score = 28.7 bits (65), Expect = 3.4
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 4/47 (8%)
Query: 18 NGDFYCIG----SEVGNYLRMFRGSLYKKYPGLFRRTISNEERKRLL 60
NGD Y +G +G + ++ GS Y R E R+ LL
Sbjct: 42 NGDLYILGEYVRDILGRQIVIYYGSFAAVYGDESREDWKEELRETLL 88
>gnl|CDD|221554 pfam12378, CytadhesinP1, Trypsin-sensitive surface-exposed protein.
This domain family is found in bacteria, and is
typically between 67 and 79 amino acids in length. This
family contains trypsin-sensitive surface-exposed
proteins called cytadhesins. Cytadhesins are virulence
factor proteins which mediate attachment of bacterial
cells to host cells for invasion.
Length = 72
Score = 27.8 bits (62), Expect = 3.4
Identities = 14/61 (22%), Positives = 21/61 (34%)
Query: 332 PFRSHSESDQWSPFLETLTDAEMEKKIRDQDRNTRESKTKKAVPWAPSLPNSSHLDAVPQ 391
F + + W+ F KK Q N + A+P+ N +L V Q
Sbjct: 5 GFFTQNGHPSWNTFTGFGLSGTDNKKDGPQKWNESKKSAPIALPFEAYFANLGNLLLVGQ 64
Query: 392 A 392
A
Sbjct: 65 A 65
>gnl|CDD|237513 PRK13803, PRK13803, bifunctional phosphoribosylanthranilate
isomerase/tryptophan synthase subunit beta; Provisional.
Length = 610
Score = 29.0 bits (65), Expect = 8.3
Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 11/46 (23%)
Query: 21 FYCIGSEVG--NYLRMFRGSLYKKYPGLFRRTISNEERKRLLDTAG 64
Y IGS VG Y M F+ I E +++L + G
Sbjct: 400 HYLIGSAVGPHPYPEMVA---------YFQSVIGEEAKEQLKEQTG 436
>gnl|CDD|222843 PHA02030, PHA02030, hypothetical protein.
Length = 336
Score = 28.8 bits (64), Expect = 9.4
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 98 IHTEPLVPRESKTK-KAVPWAPSLPNSSHLDAVPQATPV 135
P VP + +A P P +PN + L VPQ PV
Sbjct: 278 SAAAPAVPAAAAAVAQAAPSVPQVPNVAVLPDVPQVAPV 316
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 0.132 0.395
Gapped
Lambda K H
0.267 0.0652 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 31,533,387
Number of extensions: 3049221
Number of successful extensions: 2457
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2443
Number of HSP's successfully gapped: 21
Length of query: 629
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 526
Effective length of database: 6,369,140
Effective search space: 3350167640
Effective search space used: 3350167640
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: 62 (27.8 bits)