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= 032121
(147 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1EPF|A Chain A, Crystal Structure Of The Two N-Terminal Immunoglobulin
Domains Of The Neural Cell Adhesion Molecule (Ncam)
pdb|1EPF|B Chain B, Crystal Structure Of The Two N-Terminal Immunoglobulin
Domains Of The Neural Cell Adhesion Molecule (Ncam)
pdb|1EPF|C Chain C, Crystal Structure Of The Two N-Terminal Immunoglobulin
Domains Of The Neural Cell Adhesion Molecule (Ncam)
pdb|1EPF|D Chain D, Crystal Structure Of The Two N-Terminal Immunoglobulin
Domains Of The Neural Cell Adhesion Molecule (Ncam)
Length = 191
Score = 28.9 bits (63), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 23/100 (23%), Positives = 45/100 (45%), Gaps = 14/100 (14%)
Query: 41 QIFQKF---------ECRDKSDGGVICNVVRWSVPPLLEKEEGATLVVSAKFDVVSVRNI 91
+IFQK E ++ D ++C+VV P ++ K +G +++ + + N
Sbjct: 96 KIFQKLMFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNN 155
Query: 92 YLQFEEVTVQNIYISEELQALIAPAILPRSFLSLQILQFI 131
YLQ ++ I ++E IL R ++ + +Q I
Sbjct: 156 YLQ-----IRGIKKTDEGTYRCEGRILARGEINFKDIQVI 190
>pdb|3NCM|A Chain A, Neural Cell Adhesion Molecule, Module 2, Nmr, 20
Structures
Length = 92
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/85 (22%), Positives = 40/85 (47%), Gaps = 5/85 (5%)
Query: 47 ECRDKSDGGVICNVVRWSVPPLLEKEEGATLVVSAKFDVVSVRNIYLQFEEVTVQNIYIS 106
E ++ D ++C+VV P ++ K +G +++ + + N YLQ ++ I +
Sbjct: 12 EFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQ-----IRGIKKT 66
Query: 107 EELQALIAPAILPRSFLSLQILQFI 131
+E IL R ++ + +Q I
Sbjct: 67 DEGTYRCEGRILARGEINFKDIQVI 91
>pdb|1QZ1|A Chain A, Crystal Structure Of The Ig 1-2-3 Fragment Of Ncam
Length = 291
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/100 (23%), Positives = 45/100 (45%), Gaps = 14/100 (14%)
Query: 41 QIFQKF---------ECRDKSDGGVICNVVRWSVPPLLEKEEGATLVVSAKFDVVSVRNI 91
+IFQK E ++ D ++C+VV P ++ K +G +++ + + N
Sbjct: 96 KIFQKLMFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNN 155
Query: 92 YLQFEEVTVQNIYISEELQALIAPAILPRSFLSLQILQFI 131
YLQ ++ I ++E IL R ++ + +Q I
Sbjct: 156 YLQ-----IRGIKKTDEGTYRCEGRILARGEINFKDIQVI 190
>pdb|1G5G|A Chain A, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|B Chain B, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|C Chain C, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|D Chain D, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|E Chain E, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|F Chain F, Fragment Of Fusion Protein From Newcastle Disease Virus
Length = 481
Score = 27.7 bits (60), Expect = 2.5, Method: Composition-based stats.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 73 EGATLVVSAKFDVVSVRNIYLQFEEVTVQ-NIYISEEL 109
+G TL +S +FD +NI +Q +V V N+ IS EL
Sbjct: 399 DGITLRLSGEFDATYQKNISIQDSQVIVTGNLDISTEL 436
>pdb|2K60|A Chain A, Nmr Structure Of Calcium-Loaded Stim1 Ef-Sam
Length = 150
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 31/60 (51%)
Query: 85 VVSVRNIYLQFEEVTVQNIYISEELQALIAPAILPRSFLSLQILQFIRAFKAQIPVTNTT 144
++SV +++ ++ V N + E +Q LI LP+ + + LQ ++ VTNTT
Sbjct: 63 LISVEDLWKAWKSSEVYNWTVDEVVQWLITYVELPQYEETFRKLQLSGHAMPRLAVTNTT 122
>pdb|1AF7|A Chain A, Cher From Salmonella Typhimurium
Length = 274
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 57 ICNVVRWSVPPLLEKEEGATLVVSAKFDVVSVRNIYLQFEEVTVQNI 103
+ N V +S LLEK+ V FD + RN+ + F++ T ++I
Sbjct: 192 LANYVEFSSVNLLEKQYN----VPGPFDAIFCRNVMIYFDKTTQEDI 234
>pdb|1BC5|A Chain A, Chemotaxis Receptor Recognition By Protein
Methyltransferase Cher
Length = 269
Score = 27.3 bits (59), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 57 ICNVVRWSVPPLLEKEEGATLVVSAKFDVVSVRNIYLQFEEVTVQNI 103
+ N V +S LLEK+ V FD + RN+ + F++ T ++I
Sbjct: 187 LANYVEFSSVNLLEKQYN----VPGPFDAIFCRNVMIYFDKTTQEDI 229
>pdb|1KAE|A Chain A, L-Histidinol Dehydrogenase (Hisd) Structure Complexed With
L- Histidinol (Substrate), Zinc And Nad (Cofactor)
pdb|1KAE|B Chain B, L-Histidinol Dehydrogenase (Hisd) Structure Complexed With
L- Histidinol (Substrate), Zinc And Nad (Cofactor)
pdb|1KAH|A Chain A, L-histidinol Dehydrogenase (hisd) Structure Complexed With
L-histidine (product), Zn And Nad (cofactor)
pdb|1KAH|B Chain B, L-histidinol Dehydrogenase (hisd) Structure Complexed With
L-histidine (product), Zn And Nad (cofactor)
pdb|1KAR|A Chain A, L-histidinol Dehydrogenase (hisd) Structure Complexed With
Histamine (inhibitor), Zinc And Nad (cofactor)
pdb|1KAR|B Chain B, L-histidinol Dehydrogenase (hisd) Structure Complexed With
Histamine (inhibitor), Zinc And Nad (cofactor)
Length = 434
Score = 25.8 bits (55), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 80 SAKFDVVSVRNIYLQFEEVTVQNIYISEELQALIAPAI 117
SAKFD +V + + EE+ + +S+EL+ A A+
Sbjct: 55 SAKFDKTTVTALKVSAEEIAAASERLSDELKQAXAVAV 92
>pdb|1K75|A Chain A, The L-Histidinol Dehydrogenase (Hisd) Structure Implicates
Domain Swapping And Gene Duplication.
pdb|1K75|B Chain B, The L-Histidinol Dehydrogenase (Hisd) Structure Implicates
Domain Swapping And Gene Duplication
Length = 434
Score = 25.8 bits (55), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 80 SAKFDVVSVRNIYLQFEEVTVQNIYISEELQALIAPAI 117
SAKFD +V + + EE+ + +S+EL+ A A+
Sbjct: 55 SAKFDKTTVTALKVSAEEIAAASERLSDELKQAXAVAV 92
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
0.324 0.140 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,067,189
Number of Sequences: 62578
Number of extensions: 141090
Number of successful extensions: 237
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 229
Number of HSP's gapped (non-prelim): 14
length of query: 147
length of database: 14,973,337
effective HSP length: 90
effective length of query: 57
effective length of database: 9,341,317
effective search space: 532455069
effective search space used: 532455069
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)