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|15645979|ref|NP_208159.1| type IIS restriction enzyme
M1 protein (mod) [Helicobacter pylori 26695]
(260 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|1G60|A Chain A, Crystal Structure Of Methyltransferase ... 307 7e-85
pdb|1EG2|A Chain A, Crystal Structure Of Rhodobacter Sphero... 94 1e-20
pdb|1BOO|A Chain A, Pvuii Dna Methyltransferase (Cytosine-N... 44 1e-05
pdb|1QQL|A Chain A, The Crystal Structure Of Fibroblast Gro... 25 6.9
pdb|1F3L|A Chain A, Crystal Structure Of The Conserved Core... 25 6.9
pdb|1IDS|A Chain A, Iron-Dependent Superoxide Dismutase (E.... 25 9.0
pdb|1GN3|A Chain A, H145q Mutant Of Mycobacterium Tuberculo... 25 9.0
pdb|1GN4|A Chain A, H145e Mutant Of Mycobacterium Tuberculo... 25 9.0
pdb|1GN6|A Chain A, G152a Mutant Of Mycobacterium Tuberculo... 25 9.0
pdb|1GN2|A Chain A, S123c Mutant Of The Iron-Superoxide Dis... 25 9.0
>pdb|1G60|A Chain A, Crystal Structure Of Methyltransferase Mboii (Moraxella
Bovis)
pdb|1G60|B Chain B, Crystal Structure Of Methyltransferase Mboii (Moraxella
Bovis)
Length = 260
Score = 307 bits (787), Expect = 7e-85
Identities = 147/246 (59%), Positives = 185/246 (74%), Gaps = 1/246 (0%)
Query: 3 LNKIYIEDVFTFLDKLEDKSVDLAIIDPPYNLKIASWDSFKNDEEFLTFSYAWIDKMLPK 62
+NKI+ + F FLD++E+KSV LA+IDPPYNL A WDSF + EFL F+Y WIDK+L K
Sbjct: 4 INKIHQMNCFDFLDQVENKSVQLAVIDPPYNLSKADWDSFDSHNEFLAFTYRWIDKVLDK 63
Query: 63 LKDTGSFYIFNTPFNCALFLAYLHHKKVHFLNFITWVKKDGFANAKKRYNHAQESILFYS 122
L GS YIFNTPFNCA YL K + F N+ITW K+DG +AK+R++ QE+ILF+S
Sbjct: 64 LDKDGSLYIFNTPFNCAFICQYLVSKGMIFQNWITWDKRDGMGSAKRRFSTGQETILFFS 123
Query: 123 MHKKNYTFNADEIRIAYESAERIKHAQSKGILKNNKRWFPNPKGKLCLDVWEITSQRHVE 182
KN+TFN DE+R+ YES +RIKHA KGILKN KRWFPNP G+LC +VW +SQRH E
Sbjct: 124 K-SKNHTFNYDEVRVPYESTDRIKHASEKGILKNGKRWFPNPNGRLCGEVWHFSSQRHKE 182
Query: 183 KEKGKILKPKHPSIKPKALIERMIKASSHKNDLILDLFSGSGMTSLVAKSLERNFIGCES 242
K GK +K H + KP+ LIER+I+ASS+ NDL+LD F GSG T++VAK L RNFIGC+
Sbjct: 183 KVNGKTVKLTHITPKPRDLIERIIRASSNPNDLVLDCFMGSGTTAIVAKKLGRNFIGCDM 242
Query: 243 HAEYVH 248
+AEYV+
Sbjct: 243 NAEYVN 248
>pdb|1EG2|A Chain A, Crystal Structure Of Rhodobacter Spheroides (N6 Adenosine)
Methyltransferase (M.Rsri)
Length = 319
Score = 94.4 bits (233), Expect = 1e-20
Identities = 72/240 (30%), Positives = 114/240 (47%), Gaps = 28/240 (11%)
Query: 10 DVFTFLDKLEDKSVDLAIIDPPYNLKIASWDSFKNDEEFLTFSYAWIDKMLPKLKDTGSF 69
D L KL D SV L I DPPYN+ +A WD +++ ++ W+ + L TGS
Sbjct: 46 DCLDTLAKLPDDSVQLIICDPPYNIMLADWDDHM---DYIGWAKRWLAEAERVLSPTGSI 102
Query: 70 YIFNT-----PFNCALFLAYLHH----KKVHFLNFITWVKKDGFANAKKRYNHAQESILF 120
IF ++ + H K+ N I W +G + A++ + + E I +
Sbjct: 103 AIFGGLQYQGEAGSGDLISIISHMRQNSKMLLANLIIWNYPNGMS-AQRFFANRHEEIAW 161
Query: 121 YSMHKKNYTFNADEIRIAYESAERIKHAQSKGILKNNKRWFPNP--KGKLCLDVWEITSQ 178
++ KK Y F+ D +R Y+ ++K +KR P KG+ +VW ++
Sbjct: 162 FAKTKK-YFFDLDAVREPYDE-------ETKAAYMKDKRLNPESVEKGRNPTNVWRMSRL 213
Query: 179 RHVEKEKGKILKPKHPSIKPKALIERMIKASSHKNDLILDLFSGSGMTSLVAKSLERNFI 238
E+ HP+ KP A+IER+++A SH +LD F+GSG+T+ VA RN I
Sbjct: 214 NGNSLER-----VGHPTQKPAAVIERLVRALSHPGSTVLDFFAGSGVTARVAIQEGRNSI 268
>pdb|1BOO|A Chain A, Pvuii Dna Methyltransferase (Cytosine-N4-Specific)
Length = 323
Score = 44.3 bits (103), Expect = 1e-05
Identities = 25/65 (38%), Positives = 34/65 (51%)
Query: 193 HPSIKPKALIERMIKASSHKNDLILDLFSGSGMTSLVAKSLERNFIGCESHAEYVHGSLE 252
HP+ P L E I+ + +DL++D+F GS T LVA+ R +I E EYV S
Sbjct: 233 HPARFPAKLPEFFIRMLTEPDDLVVDIFGGSNTTGLVAERESRKWISFEMKPEYVAASAF 292
Query: 253 MFRYN 257
F N
Sbjct: 293 RFLDN 297
Score = 30.8 bits (68), Expect = 0.16
Identities = 16/66 (24%), Positives = 31/66 (46%)
Query: 6 IYIEDVFTFLDKLEDKSVDLAIIDPPYNLKIASWDSFKNDEEFLTFSYAWIDKMLPKLKD 65
+YI D L+ ++S+ L + PP+ L+ E++ + ++ + KLK
Sbjct: 17 MYIGDSLELLESFPEESISLVMTSPPFALQRKKEYGNLEQHEYVDWFLSFAKVVNKKLKP 76
Query: 66 TGSFYI 71
GSF +
Sbjct: 77 DGSFVV 82
>pdb|1QQL|A Chain A, The Crystal Structure Of Fibroblast Growth Factor 71
Chimera
Length = 140
Score = 25.4 bits (54), Expect = 6.9
Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 8/62 (12%)
Query: 67 GSFYIFNTPFNCALFLAYLHH--------KKVHFLNFITWVKKDGFANAKKRYNHAQESI 118
G Y TP LFL L KK N+ +KK+G R ++ Q++I
Sbjct: 71 GKLYAKQTPNEECLFLERLEENHYNTYISKKHAEKNWFVGLKKNGSCKRGPRTHYGQKAI 130
Query: 119 LF 120
LF
Sbjct: 131 LF 132
>pdb|1F3L|A Chain A, Crystal Structure Of The Conserved Core Of Protein
Arginine Methyltransferase Prmt3
Length = 321
Score = 25.4 bits (54), Expect = 6.9
Identities = 11/49 (22%), Positives = 27/49 (54%)
Query: 212 KNDLILDLFSGSGMTSLVAKSLERNFIGCESHAEYVHGSLEMFRYNECE 260
K+ ++LD+ G+G+ S+ A + +E ++ ++++ R N+ E
Sbjct: 45 KDKVVLDVGCGTGILSMFAAKAGAKKVIAVDQSEILYQAMDIIRLNKLE 93
>pdb|1IDS|A Chain A, Iron-Dependent Superoxide Dismutase (E.C.1.15.1.1)
(Fe-Superoxide Dismutase, Fe-Sod)
pdb|1IDS|B Chain B, Iron-Dependent Superoxide Dismutase (E.C.1.15.1.1)
(Fe-Superoxide Dismutase, Fe-Sod)
pdb|1IDS|C Chain C, Iron-Dependent Superoxide Dismutase (E.C.1.15.1.1)
(Fe-Superoxide Dismutase, Fe-Sod)
pdb|1IDS|D Chain D, Iron-Dependent Superoxide Dismutase (E.C.1.15.1.1)
(Fe-Superoxide Dismutase, Fe-Sod)
Length = 207
Score = 25.0 bits (53), Expect = 9.0
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 85 LHHKKVHFLNFITWVKKDGFANAKKRYNHAQESILFYSMHKKNYTFN 131
LHH K H T+VK A AK A+E +++KN FN
Sbjct: 27 LHHSKHH----ATYVKGANDAVAKLEEARAKEDHSAILLNEKNLAFN 69
>pdb|1GN3|A Chain A, H145q Mutant Of Mycobacterium Tuberculosis Iron-Superoxide
Dismutase.
pdb|1GN3|B Chain B, H145q Mutant Of Mycobacterium Tuberculosis Iron-Superoxide
Dismutase
Length = 207
Score = 25.0 bits (53), Expect = 9.0
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 85 LHHKKVHFLNFITWVKKDGFANAKKRYNHAQESILFYSMHKKNYTFN 131
LHH K H T+VK A AK A+E +++KN FN
Sbjct: 27 LHHSKHH----ATYVKGANDAVAKLEEARAKEDHSAILLNEKNLAFN 69
>pdb|1GN4|A Chain A, H145e Mutant Of Mycobacterium Tuberculosis Iron-Superoxide
Dismutase.
pdb|1GN4|B Chain B, H145e Mutant Of Mycobacterium Tuberculosis Iron-Superoxide
Dismutase.
pdb|1GN4|C Chain C, H145e Mutant Of Mycobacterium Tuberculosis Iron-Superoxide
Dismutase.
pdb|1GN4|D Chain D, H145e Mutant Of Mycobacterium Tuberculosis Iron-Superoxide
Dismutase
Length = 207
Score = 25.0 bits (53), Expect = 9.0
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 85 LHHKKVHFLNFITWVKKDGFANAKKRYNHAQESILFYSMHKKNYTFN 131
LHH K H T+VK A AK A+E +++KN FN
Sbjct: 27 LHHSKHH----ATYVKGANDAVAKLEEARAKEDHSAILLNEKNLAFN 69
>pdb|1GN6|A Chain A, G152a Mutant Of Mycobacterium Tuberculosis Iron-Superoxide
Dismutase.
pdb|1GN6|B Chain B, G152a Mutant Of Mycobacterium Tuberculosis Iron-Superoxide
Dismutase.
pdb|1GN6|C Chain C, G152a Mutant Of Mycobacterium Tuberculosis Iron-Superoxide
Dismutase.
pdb|1GN6|D Chain D, G152a Mutant Of Mycobacterium Tuberculosis Iron-Superoxide
Dismutase
Length = 207
Score = 25.0 bits (53), Expect = 9.0
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 85 LHHKKVHFLNFITWVKKDGFANAKKRYNHAQESILFYSMHKKNYTFN 131
LHH K H T+VK A AK A+E +++KN FN
Sbjct: 27 LHHSKHH----ATYVKGANDAVAKLEEARAKEDHSAILLNEKNLAFN 69
>pdb|1GN2|A Chain A, S123c Mutant Of The Iron-Superoxide Dismutase From
Mycobacterium Tuberculosis.
pdb|1GN2|B Chain B, S123c Mutant Of The Iron-Superoxide Dismutase From
Mycobacterium Tuberculosis.
pdb|1GN2|C Chain C, S123c Mutant Of The Iron-Superoxide Dismutase From
Mycobacterium Tuberculosis.
pdb|1GN2|D Chain D, S123c Mutant Of The Iron-Superoxide Dismutase From
Mycobacterium Tuberculosis.
pdb|1GN2|E Chain E, S123c Mutant Of The Iron-Superoxide Dismutase From
Mycobacterium Tuberculosis.
pdb|1GN2|F Chain F, S123c Mutant Of The Iron-Superoxide Dismutase From
Mycobacterium Tuberculosis.
pdb|1GN2|G Chain G, S123c Mutant Of The Iron-Superoxide Dismutase From
Mycobacterium Tuberculosis.
pdb|1GN2|H Chain H, S123c Mutant Of The Iron-Superoxide Dismutase From
Mycobacterium Tuberculosis
Length = 207
Score = 25.0 bits (53), Expect = 9.0
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 85 LHHKKVHFLNFITWVKKDGFANAKKRYNHAQESILFYSMHKKNYTFN 131
LHH K H T+VK A AK A+E +++KN FN
Sbjct: 27 LHHSKHH----ATYVKGANDAVAKLEEARAKEDHSAILLNEKNLAFN 69
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
0.321 0.137 0.417
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,616,020
Number of Sequences: 13198
Number of extensions: 67099
Number of successful extensions: 144
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 137
Number of HSP's gapped (non-prelim): 11
length of query: 260
length of database: 2,899,336
effective HSP length: 86
effective length of query: 174
effective length of database: 1,764,308
effective search space: 306989592
effective search space used: 306989592
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)