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= 004480
(750 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 36.6 bits (83), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 44/107 (41%), Gaps = 9/107 (8%)
Query: 535 LMNEMRTVGLSPNHISWTILIDACG---------GSGNVEGALQILKIMREDGMSPDVVA 585
L +E R G+ + + +L+ C + + I K M D + P+
Sbjct: 48 LYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEAT 107
Query: 586 YTTAIKVCVRSKRLKQAFSLFEEMKHYQIQPNLVTYITLLRARSRYG 632
+T ++ V + AF + ++MK + IQP L +Y L R G
Sbjct: 108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKG 154
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 28/125 (22%), Positives = 52/125 (41%), Gaps = 11/125 (8%)
Query: 233 KKRDLVSALRAYDASKKHLSSPNMYICRTIIDVCGICGDYMKSRA---------IYEDLR 283
KK D++ ALR YD ++++ + Y ++ VC + +S I++ +
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMI 97
Query: 284 SQNVTLNIYVF--NSLMNVNAHDLKFTLEVYKNMQKLGVMADMASYNILLKACCLAGNTV 341
V N F + + V D + ++ K M+ G+ + SY L C G+
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 342 LAQEI 346
A E+
Sbjct: 158 KAYEV 162
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 29/55 (52%)
Query: 246 ASKKHLSSPNMYICRTIIDVCGICGDYMKSRAIYEDLRSQNVTLNIYVFNSLMNV 300
A KK + + + +D+C GD +++ +Y++ R V L+ Y +N L+ V
Sbjct: 16 AKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYV 70
>pdb|3GCF|A Chain A, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|B Chain B, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|C Chain C, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|D Chain D, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|E Chain E, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|F Chain F, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|G Chain G, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|H Chain H, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|I Chain I, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|J Chain J, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|K Chain K, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|L Chain L, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|M Chain M, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|N Chain N, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
pdb|3GCF|O Chain O, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Nocardioides Aromaticivorans Ic177
Length = 394
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 6/69 (8%)
Query: 309 LEVYKNMQKLGVMADMASYNILLKACCLAGNTVLAQEIYGEVKHLEAK------GVLKLD 362
++VY GV+ ++ + + L G TVL+ E+ GE K + A+ GVLK+D
Sbjct: 218 MQVYDENWPKGVLDRLSENYMPVFEATLDGETVLSAELTGEEKKVAAQVSVWLPGVLKVD 277
Query: 363 VFTYSTIVK 371
F T+++
Sbjct: 278 PFPDPTLIQ 286
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 27/125 (21%), Positives = 49/125 (39%), Gaps = 11/125 (8%)
Query: 233 KKRDLVSALRAYDASKKHLSSPNMYICRTIIDVCGICGDYMKSRA---------IYEDLR 283
KK D++ ALR YD ++++ + Y ++ VC + +S I++
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXI 97
Query: 284 SQNVTLNIYVF--NSLMNVNAHDLKFTLEVYKNMQKLGVMADMASYNILLKACCLAGNTV 341
V N F + + V D + + K + G+ + SY L C G+
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 342 LAQEI 346
A E+
Sbjct: 158 KAYEV 162
Score = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 28/55 (50%)
Query: 246 ASKKHLSSPNMYICRTIIDVCGICGDYMKSRAIYEDLRSQNVTLNIYVFNSLMNV 300
A KK + + + +D C GD +++ +Y++ R V L+ Y +N L+ V
Sbjct: 16 AKKKAIQQSPEALLKQKLDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYV 70
>pdb|1QZ1|A Chain A, Crystal Structure Of The Ig 1-2-3 Fragment Of Ncam
Length = 291
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 40/166 (24%), Positives = 68/166 (40%), Gaps = 21/166 (12%)
Query: 253 SPNMYICRTIIDVCGICGDYMKSRAIYEDLRSQNVTLNIYVFNSLMNVNAHDLKFTLEVY 312
S + I ID GI K ED T+N+ +F LM NA T + +
Sbjct: 61 SSTLTIYNANIDDAGI----YKCVVTAEDGTQSEATVNVKIFQKLMFKNAP----TPQEF 112
Query: 313 KNMQKLGVMADMASY---NILLKACCLAGNTVLAQEIYGEV---KHLEAKGVLKLDVFTY 366
K + ++ D+ S I+ K + +L +++ V +L+ +G+ K D TY
Sbjct: 113 KEGEDAVIVCDVVSSLPPTIIWKH--KGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTY 170
Query: 367 STIVKVFADAKWWQMALKVKEDMLSAGVTPNTITWSSLINACANAG 412
++ A + + K+ + V P S++NA AN G
Sbjct: 171 RCEGRILARGE-----INFKDIQVIVNVPPTVQARQSIVNATANLG 211
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
0.322 0.135 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,058,852
Number of Sequences: 62578
Number of extensions: 783965
Number of successful extensions: 1863
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1854
Number of HSP's gapped (non-prelim): 9
length of query: 750
length of database: 14,973,337
effective HSP length: 106
effective length of query: 644
effective length of database: 8,340,069
effective search space: 5371004436
effective search space used: 5371004436
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: 55 (25.8 bits)