BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 047506
(947 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 73.2 bits (178), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 40/99 (40%), Positives = 62/99 (62%), Gaps = 1/99 (1%)
Query: 29 SYERVDGNVLDSKKKAALQNFNN-GSGRFVFLLETRACRPSIKLSSVHAVIIFHSDWSPV 87
+++R+DG V ++++ ++ +FN+ S FVFLL TRA I L + V+IF SDW+P
Sbjct: 598 NFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQ 657
Query: 88 NDLRALQRITLDPQLEQIKVFRLYSFCTVEEKVLILAKQ 126
DL+A+ R Q + V+RL S TVEE+VL A++
Sbjct: 658 ADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLERARK 696
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 65.5 bits (158), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 55/93 (59%), Gaps = 1/93 (1%)
Query: 30 YERVDGNVLDSKKKAALQNFNNGSG-RFVFLLETRACRPSIKLSSVHAVIIFHSDWSPVN 88
Y R+DG + K+ ++ FNN S F+F+L ++A + L + +++F DW+P N
Sbjct: 443 YVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPAN 502
Query: 89 DLRALQRITLDPQLEQIKVFRLYSFCTVEEKVL 121
D +A+ R+ D Q + ++RL S T+EEK+L
Sbjct: 503 DEQAMARVWRDGQKKTCYIYRLLSTGTIEEKIL 535
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 50 NNGSGRFVFLLETRACRPSIKLSSVHAVIIFHSDWSPVNDLRALQRITLDPQLEQIKVFR 109
NN S +F+ +L +A I L+S + VI F W+P + +A R+ Q + V +
Sbjct: 161 NNPSVKFI-VLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHK 219
Query: 110 LYSFCTVEEKV 120
L S T+EEK+
Sbjct: 220 LISVGTLEEKI 230
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 37.0 bits (84), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 50 NNGSGRFVFLLETRACRPSIKLSSVHAVIIFHSDWSPVNDLRALQRITLDPQLEQIKVFR 109
NN S +F+ +L +A I L+S + VI F W+P + +A R+ Q + V +
Sbjct: 390 NNPSVKFI-VLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHK 448
Query: 110 LYSFCTVEEKV 120
L S T+EEK+
Sbjct: 449 LISVGTLEEKI 459
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 37.0 bits (84), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 50 NNGSGRFVFLLETRACRPSIKLSSVHAVIIFHSDWSPVNDLRALQRITLDPQLEQIKVFR 109
NN S +F+ +L +A I L+S + VI F W+P + +A R+ Q + V +
Sbjct: 390 NNPSVKFI-VLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHK 448
Query: 110 LYSFCTVEEKV 120
L S T+EEK+
Sbjct: 449 LISVGTLEEKI 459
>pdb|2GSZ|A Chain A, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|B Chain B, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|C Chain C, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|D Chain D, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|E Chain E, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|F Chain F, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
Length = 363
Score = 33.1 bits (74), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 396 KESLELAKKHLHFSCKKGEADYVYSLLQCLKEVFELSMKDVSKYQSNARLSQSEIVSHRQ 455
KE++EL +H + A + ++ LK+ L+ +D K + SE HRQ
Sbjct: 9 KEAIELGASDIHLTAGAPPAVRIDGYIKFLKDFPRLTPEDTQKLAYSV---XSE--KHRQ 63
Query: 456 ELFKVAQKDFSRSIRGIQK 474
+L + Q DFS +RG+ +
Sbjct: 64 KLEENGQVDFSFGVRGVGR 82
>pdb|2EWW|A Chain A, Crystal Structure Of The Pilus Retraction Motor Pilt And
Bound Atp
Length = 372
Score = 33.1 bits (74), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 396 KESLELAKKHLHFSCKKGEADYVYSLLQCLKEVFELSMKDVSKYQSNARLSQSEIVSHRQ 455
KE++EL +H + A + ++ LK+ L+ +D K + SE HRQ
Sbjct: 20 KEAIELGASDIHLTAGAPPAVRIDGYIKFLKDFPRLTPEDTQKLAYSV---XSE--KHRQ 74
Query: 456 ELFKVAQKDFSRSIRGIQK 474
+L + Q DFS +RG+ +
Sbjct: 75 KLEENGQVDFSFGVRGVGR 93
>pdb|2EWV|A Chain A, Crystal Structure Of The Pilus Retraction Motor Pilt And
Bound Adp
Length = 372
Score = 32.7 bits (73), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 396 KESLELAKKHLHFSCKKGEADYVYSLLQCLKEVFELSMKDVSKYQSNARLSQSEIVSHRQ 455
KE++EL +H + A + ++ LK+ L+ +D K + SE HRQ
Sbjct: 20 KEAIELGASDIHLTAGAPPAVRIDGYIKFLKDFPRLTPEDTQKLAYSV---MSE--KHRQ 74
Query: 456 ELFKVAQKDFSRSIRGIQK 474
+L + Q DFS +RG+ +
Sbjct: 75 KLEENGQVDFSFGVRGVGR 93
>pdb|4A0C|C Chain C, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|E Chain E, Structure Of The Cand1-Cul4b-Rbx1 Complex
Length = 741
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 230 YYSGSSQGSRKR--VQYFDDLQKKPELEIDEVAKKQRRVASNCVNQSSLKPGLEE 282
Y+ G +GS K+ ++ F D K PE DE +K + N +S+K LEE
Sbjct: 13 YFQGGGRGSAKKLVIKNFKDKPKLPENYTDETWQKLKEAVEAIQNSTSIKYNLEE 67
>pdb|4GL0|A Chain A, Putative SpermidinePUTRESCINE ABC TRANSPORTER FROM
LISTERIA Monocytogenes
Length = 333
Score = 30.8 bits (68), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 761 GEVAETVSSNDDLENVVPVNAPISKDQIPDGATTSMPDGEVLLRVPEAASSSNCTENFMD 820
GE AE +S N+DLE V+P DG+ D V+ + + ++ NF
Sbjct: 214 GEAAEXLSENEDLEYVIP----------KDGSNLWF-DNXVIPKTAKNVDGAHKFINFXL 262
Query: 821 SPPGEEQIATVAISAVPNEEAPLRVPKNVNS 851
P A A PN +A +PK ++S
Sbjct: 263 KPENAAINAEYVGYATPNAKAVELLPKEISS 293
>pdb|2P31|A Chain A, Crystal Structure Of Human Glutathione Peroxidase 7
pdb|2P31|B Chain B, Crystal Structure Of Human Glutathione Peroxidase 7
Length = 181
Score = 30.8 bits (68), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 6/68 (8%)
Query: 192 TYSTSFPLFGESKVEGMDEERPHIFWTNLLEGKHPCWKYYSGSSQGSRKRVQYFDDLQKK 251
TYS SFP+F + V G P + GK P W ++ K V +D
Sbjct: 111 TYSVSFPMFSKIAVTGTGAH-PAFKYLAQTSGKEPTWNFWKYLVAPDGKVVGAWD----- 164
Query: 252 PELEIDEV 259
P + ++EV
Sbjct: 165 PTVSVEEV 172
>pdb|1EMS|A Chain A, Crystal Structure Of The C. Elegans Nitfhit Protein
pdb|1EMS|B Chain B, Crystal Structure Of The C. Elegans Nitfhit Protein
Length = 440
Score = 29.6 bits (65), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 47/107 (43%), Gaps = 15/107 (14%)
Query: 477 QKQMAKLRHK----QLEEKKDIDKRYEEQKAQLET--KKRTEAAVI-----RYHCNGKMQ 525
++ MA RH Q+ D++K ++ K +E +K+ E + N Q
Sbjct: 7 RRTMATGRHFIAVCQMTSDNDLEKNFQAAKNMIERAGEKKCEMVFLPECFDFIGLNKNEQ 66
Query: 526 MDKLKVLENEYAEKFKELERDRDVRLENLEALHVASMKKLSDKQTSW 572
+D + EY EK++EL R ++ L +L LH K SD W
Sbjct: 67 IDLAMATDCEYMEKYRELARKHNIWL-SLGGLH---HKDPSDAAHPW 109
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.312 0.129 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,773,843
Number of Sequences: 62578
Number of extensions: 1096229
Number of successful extensions: 2153
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 2138
Number of HSP's gapped (non-prelim): 37
length of query: 947
length of database: 14,973,337
effective HSP length: 108
effective length of query: 839
effective length of database: 8,214,913
effective search space: 6892312007
effective search space used: 6892312007
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (26.2 bits)