BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= gi|15645151|ref|NP_207321.1| virB11 homolog
[Helicobacter pylori 26695]
(330 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1G6O|A Chain A, Crystal Structure Of The Helicobacter P... 652 0.0
pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Pro... 31 0.22
pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Pro... 31 0.22
pdb|1GAJ|A Chain A, Crystal Structure Of A Nucleotide-Free ... 29 0.65
pdb|1J4G|A Chain A, Crystal Structure Analysis Of The Trich... 28 1.1
pdb|1MRJ| Alpha-Trichosanthin Complexed With Adenine >gi|... 28 1.1
pdb|1G6H|A Chain A, Crystal Structure Of The Adp Conformati... 28 1.1
pdb|1DLC| Delta-Endotoxin Cryiiia (Bt13) 28 1.1
pdb|1G8P|A Chain A, Crystal Structure Of Bchi Subunit Of Ma... 27 3.2
pdb|1JSQ|A Chain A, Structure Of Msba From Escherichia Coli... 27 3.2
pdb|1GHQ|C Chain C, Cr2-C3d Complex Structure >gi|14488495|... 27 4.2
pdb|1LKX|A Chain A, Motor Domain Of Myoe, A Class-I Myosin ... 27 4.2
pdb|1LY2|A Chain A, Crystal Structure Of Unliganded Human C... 27 4.2
pdb|1L9A|A Chain A, Crystal Structure Of Srp19 In Complex W... 27 4.2
pdb|1SGF|A Chain A, Crystal Structure Of 7s Ngf: A Complex ... 26 5.5
pdb|1LNG|A Chain A, Crystal Structure Of The Srp19-7s.S Srp... 26 5.5
pdb|2SCP|A Chain A, Sarcoplasmic Calcium-Binding Protein >g... 25 9.3
pdb|1KJU|A Chain A, Ca2+-Atpase In The E2 State >gi|2320015... 25 9.3
>pdb|1G6O|A Chain A, Crystal Structure Of The Helicobacter Pylori Atpase,
Hp0525, In Complex With Adp
pdb|1G6O|B Chain B, Crystal Structure Of The Helicobacter Pylori Atpase,
Hp0525, In Complex With Adp
Length = 330
Score = 652 bits (1682), Expect = 0.0
Identities = 324/330 (98%), Positives = 324/330 (98%)
Query: 1 MTEDRLSAEDKKFLEVERALKEAALNPLRHATEELFGDFLKMENITEICYNGNKVVWVLK 60
MTEDRLSAEDKKFLEVERALKEAALNPLRHATEELFGDFLK ENITEICYNGNKVVWVLK
Sbjct: 1 MTEDRLSAEDKKFLEVERALKEAALNPLRHATEELFGDFLKXENITEICYNGNKVVWVLK 60
Query: 61 NNGEWQPFDVRDRKAFSLSRLMHFARCCASFKKKTIDNYENPILSSNLANGERVQIVLSP 120
NNGEWQPFDVRDRKAFSLSRL HFARCCASFKKKTIDNYENPILSSNLANGERVQIVLSP
Sbjct: 61 NNGEWQPFDVRDRKAFSLSRLXHFARCCASFKKKTIDNYENPILSSNLANGERVQIVLSP 120
Query: 121 VTVNDETISISIRIPSKTTYPHSFFEEQGFYNLLDNKEQAISAIKDGIAIGKNVIVCGGT 180
VTVNDETISISIRIPSKTTYPHSFFEEQGFYNLLDNKEQAISAIKDGIAIGKNVIVCGGT
Sbjct: 121 VTVNDETISISIRIPSKTTYPHSFFEEQGFYNLLDNKEQAISAIKDGIAIGKNVIVCGGT 180
Query: 181 GSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMR 240
GSGKTTYIKSI EFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLR R
Sbjct: 181 GSGKTTYIKSIXEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRXR 240
Query: 241 PDRIILGELRSSEAYDFYNVLCSGHKGTLTTLHAGSSEEAFIRLANMSSSNSAARNIKFE 300
PDRIILGELRSSEAYDFYNVLCSGHKGTLTTLHAGSSEEAFIRLAN SSSNSAARNIKFE
Sbjct: 241 PDRIILGELRSSEAYDFYNVLCSGHKGTLTTLHAGSSEEAFIRLANXSSSNSAARNIKFE 300
Query: 301 SLIEGFKDLIDMIVHINHHKQCDEFYIKHR 330
SLIEGFKDLID IVHINHHKQCDEFYIKHR
Sbjct: 301 SLIEGFKDLIDXIVHINHHKQCDEFYIKHR 330
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 30.8 bits (68), Expect = 0.22
Identities = 18/58 (31%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 151 YNLLDNKEQAISAIKDGIAIG-KNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDT 207
Y ++ QAI+ + DG+ G K+ + G TG+GKT I +++ + K +I+ T
Sbjct: 11 YEPQGDQPQAIAKLVDGLRRGVKHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHNKT 68
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 30.8 bits (68), Expect = 0.22
Identities = 18/58 (31%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 151 YNLLDNKEQAISAIKDGIAIG-KNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDT 207
Y ++ QAI+ + DG+ G K+ + G TG+GKT I +++ + K +I+ T
Sbjct: 11 YEPQGDQPQAIAKLVDGLRRGVKHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHNKT 68
>pdb|1GAJ|A Chain A, Crystal Structure Of A Nucleotide-Free Atp-Binding
Cassette From An Abc Transporter
Length = 257
Score = 29.3 bits (64), Expect = 0.65
Identities = 22/94 (23%), Positives = 44/94 (46%), Gaps = 9/94 (9%)
Query: 166 DGIAIGKN----VIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQL 221
DG++I N ++ G GSGK+T I I F+ +E + E+ + +K +L
Sbjct: 24 DGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDIT----NKEPAEL 79
Query: 222 FFGGNITSADCLKSCLRMRP-DRIILGELRSSEA 254
+ G + + + M + +++GE+ E+
Sbjct: 80 YHYGIVRTFQTPQPLKEMTVLENLLIGEINPGES 113
>pdb|1J4G|A Chain A, Crystal Structure Analysis Of The Trichosanthin Delta C7
pdb|1J4G|B Chain B, Crystal Structure Analysis Of The Trichosanthin Delta C7
pdb|1J4G|C Chain C, Crystal Structure Analysis Of The Trichosanthin Delta C7
pdb|1J4G|D Chain D, Crystal Structure Analysis Of The Trichosanthin Delta C7
Length = 248
Score = 28.5 bits (62), Expect = 1.1
Identities = 26/98 (26%), Positives = 41/98 (41%), Gaps = 3/98 (3%)
Query: 99 YENPILSSNLANGERVQIVLSPVTVNDETISISIRIPSKTTYPHSFFEEQGFYNLLDNKE 158
Y+ P+L S+L +R ++ DETIS++I + + + + F+N E
Sbjct: 33 YDIPLLRSSLPGSQRYALI-HLTNYADETISVAIDVTNVYIMGYRAGDTSYFFNEASATE 91
Query: 159 QAISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIP 196
A KD A+ K + G T I E IP
Sbjct: 92 AAKYVFKD--AMRKVTLPYSGNYERLQTAAGKIRENIP 127
>pdb|1MRJ| Alpha-Trichosanthin Complexed With Adenine
pdb|1MRK| Alpha-Trichosanthin Complexed With Formycin
pdb|1TCS| Trichosanthin (E.C.3.2.2.22) Complexed With Nadph
pdb|1QD2|A Chain A, Crystal Structure Of The Complex Of Trichosanthin With
Adenine, Obtained From Trichosanthin Complexed With The
Dinucleotide Apg
Length = 247
Score = 28.5 bits (62), Expect = 1.1
Identities = 26/98 (26%), Positives = 41/98 (41%), Gaps = 3/98 (3%)
Query: 99 YENPILSSNLANGERVQIVLSPVTVNDETISISIRIPSKTTYPHSFFEEQGFYNLLDNKE 158
Y+ P+L S+L +R ++ DETIS++I + + + + F+N E
Sbjct: 32 YDIPLLRSSLPGSQRYALI-HLTNYADETISVAIDVTNVYIMGYRAGDTSYFFNEASATE 90
Query: 159 QAISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIP 196
A KD A+ K + G T I E IP
Sbjct: 91 AAKYVFKD--AMRKVTLPYSGNYERLQTAAGKIRENIP 126
>pdb|1G6H|A Chain A, Crystal Structure Of The Adp Conformation Of Mj1267, An
Atp- Binding Cassette Of An Abc Transporter
Length = 257
Score = 28.5 bits (62), Expect = 1.1
Identities = 15/47 (31%), Positives = 25/47 (52%), Gaps = 4/47 (8%)
Query: 166 DGIAIGKN----VIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTE 208
DG++I N ++ G GSGK+T I I F+ +E + E+ +
Sbjct: 24 DGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKD 70
>pdb|1DLC| Delta-Endotoxin Cryiiia (Bt13)
Length = 584
Score = 28.5 bits (62), Expect = 1.1
Identities = 22/100 (22%), Positives = 37/100 (37%), Gaps = 16/100 (16%)
Query: 150 FYNLLDNK-------------EQAISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIP 196
F+N++D+K + S + G ++I C GS T Y+ + +
Sbjct: 440 FFNMIDSKKITQLPLVKAYKLQSGASVVAGPRFTGGDIIQCTENGSAATIYVTPDVSYSQ 499
Query: 197 KEERIISIEDTEEIVFKHHKN---YTQLFFGGNITSADCL 233
K I T +I F + + Q +F I D L
Sbjct: 500 KYRARIHYASTSQITFTLSLDGAPFNQYYFDKTINKGDTL 539
>pdb|1G8P|A Chain A, Crystal Structure Of Bchi Subunit Of Magnesium Chelatase
Length = 350
Score = 26.9 bits (58), Expect = 3.2
Identities = 12/41 (29%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 161 ISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIPKEERI 201
++A+ GI V+V G G+GK+T ++++ +P+ E +
Sbjct: 38 LTAVDPGIG---GVLVFGDRGTGKSTAVRALAALLPEIEAV 75
>pdb|1JSQ|A Chain A, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|B Chain B, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|C Chain C, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|D Chain D, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|E Chain E, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|F Chain F, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|G Chain G, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|H Chain H, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
Length = 582
Score = 26.9 bits (58), Expect = 3.2
Identities = 20/64 (31%), Positives = 28/64 (43%), Gaps = 2/64 (3%)
Query: 160 AISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEF--IPKEERIISIEDTEEIVFKHHKN 217
A+ I I GK V + G +GSGK+T I F I + E ++ D E +N
Sbjct: 358 ALRNINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGEILMDGHDLREYTLASLRN 417
Query: 218 YTQL 221
L
Sbjct: 418 QVAL 421
>pdb|1GHQ|C Chain C, Cr2-C3d Complex Structure
pdb|1GHQ|B Chain B, Cr2-C3d Complex Structure
Length = 134
Score = 26.6 bits (57), Expect = 4.2
Identities = 15/40 (37%), Positives = 18/40 (44%), Gaps = 1/40 (2%)
Query: 28 LRHATEELFGDFLKMENITEICYNGNKVVWVLKNNGEWQP 67
+R +T GD + T NGNK VW NN W P
Sbjct: 83 IRGSTPYRHGDSVTFACKTNFSMNGNKSVWCQANN-MWGP 121
>pdb|1LKX|A Chain A, Motor Domain Of Myoe, A Class-I Myosin
pdb|1LKX|B Chain B, Motor Domain Of Myoe, A Class-I Myosin
pdb|1LKX|C Chain C, Motor Domain Of Myoe, A Class-I Myosin
pdb|1LKX|D Chain D, Motor Domain Of Myoe, A Class-I Myosin
Length = 697
Score = 26.6 bits (57), Expect = 4.2
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 174 VIVCGGTGSGKTTYIKSIMEFI 195
VI+ G +G+GKT K IM+F+
Sbjct: 97 VIISGESGAGKTEASKKIMQFL 118
>pdb|1LY2|A Chain A, Crystal Structure Of Unliganded Human Cd21 Scr1-Scr2
(Complement Receptor Type 2)
Length = 130
Score = 26.6 bits (57), Expect = 4.2
Identities = 15/40 (37%), Positives = 18/40 (44%), Gaps = 1/40 (2%)
Query: 28 LRHATEELFGDFLKMENITEICYNGNKVVWVLKNNGEWQP 67
+R +T GD + T NGNK VW NN W P
Sbjct: 83 IRGSTPYRHGDSVTFACKTNFSMNGNKSVWCQANN-MWGP 121
>pdb|1L9A|A Chain A, Crystal Structure Of Srp19 In Complex With The S Domain
Of Signal Recognition Particle Rna
Length = 87
Score = 26.6 bits (57), Expect = 4.2
Identities = 13/52 (25%), Positives = 25/52 (48%)
Query: 4 DRLSAEDKKFLEVERALKEAALNPLRHATEELFGDFLKMENITEICYNGNKV 55
+ L+ E ++E+ALK+ L P + + ++ E+ Y GNK+
Sbjct: 22 EELAIEKPSLKDIEKALKKLGLEPKIYRDKRYPRQHWEIAGRVEVDYKGNKL 73
>pdb|1SGF|A Chain A, Crystal Structure Of 7s Ngf: A Complex Of Nerve Growth
Factor With Four Binding Proteins (Serine Proteinases)
pdb|1SGF|X Chain X, Crystal Structure Of 7s Ngf: A Complex Of Nerve Growth
Factor With Four Binding Proteins (Serine Proteinases)
Length = 238
Score = 26.2 bits (56), Expect = 5.5
Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 1/79 (1%)
Query: 49 CYNGNKVVWVLKNNG-EWQPFDVRDRKAFSLSRLMHFARCCASFKKKTIDNYENPILSSN 107
CYN VW+ KNN E +P D + ++ + D+Y N ++
Sbjct: 45 CYNDKYQVWLGKNNFLEDEPSDQHRLVSKAIPHPDFNMSLLNEHTPQPEDDYSNDLMLLR 104
Query: 108 LANGERVQIVLSPVTVNDE 126
L+ + V+ P+T+ E
Sbjct: 105 LSKPADITDVVKPITLPTE 123
>pdb|1LNG|A Chain A, Crystal Structure Of The Srp19-7s.S Srp Rna Complex Of
M. Jannaschii
Length = 87
Score = 26.2 bits (56), Expect = 5.5
Identities = 13/52 (25%), Positives = 25/52 (48%)
Query: 4 DRLSAEDKKFLEVERALKEAALNPLRHATEELFGDFLKMENITEICYNGNKV 55
+ L+ E ++E+ALK+ L P + + ++ E+ Y GNK+
Sbjct: 22 EELAIEKPSLKDIEKALKKLGLEPKIYRDKRYPRQHWEICGCVEVDYKGNKL 73
>pdb|2SCP|A Chain A, Sarcoplasmic Calcium-Binding Protein
pdb|2SCP|B Chain B, Sarcoplasmic Calcium-Binding Protein
Length = 174
Score = 25.4 bits (54), Expect = 9.3
Identities = 12/38 (31%), Positives = 19/38 (49%)
Query: 176 VCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFK 213
V GG G +TT+I S+ E + E +E + F+
Sbjct: 64 VAGGKGIDETTFINSMKEMVKNPEAKSVVEGPLPLFFR 101
>pdb|1KJU|A Chain A, Ca2+-Atpase In The E2 State
pdb|1IWO|A Chain A, Crystal Structure Of The Sr Ca2+-Atpase In The Absence Of
Ca2+
pdb|1IWO|B Chain B, Crystal Structure Of The Sr Ca2+-Atpase In The Absence Of
Ca2+
pdb|1EUL|A Chain A, Crystal Structure Of Calcium Atpase With Two Bound Calcium
Ions
Length = 994
Score = 25.4 bits (54), Expect = 9.3
Identities = 14/34 (41%), Positives = 17/34 (49%)
Query: 238 RMRPDRIILGELRSSEAYDFYNVLCSGHKGTLTT 271
RM I+ L S E +V+CS GTLTT
Sbjct: 325 RMAKKNAIVRSLPSVETLGCTSVICSDKTGTLTT 358
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.320 0.136 0.394
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,886,980
Number of Sequences: 13198
Number of extensions: 76965
Number of successful extensions: 269
Number of sequences better than 10.0: 18
Number of HSP's better than 10.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 258
Number of HSP's gapped (non-prelim): 18
length of query: 330
length of database: 2,899,336
effective HSP length: 89
effective length of query: 241
effective length of database: 1,724,714
effective search space: 415656074
effective search space used: 415656074
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)