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= 026122
(243 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XDZ|A Chain A, Crystal Structure Of Gram_positive Bacillus Subtilis
Glucose Inhibited Division Protein B (Gidb), Structural
Genomics, Mcsg
Length = 240
Score = 149 bits (377), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 82/211 (38%), Positives = 113/211 (53%), Gaps = 10/211 (4%)
Query: 33 QKMNLTAVKDVNEVMERHIDDSLAIIPPIKNSYTSHCDSSCNSNLKLVDVGTGAGLPGLV 92
+K+NLT++ + EV +H DS+ T+ N + DVG GAG P L
Sbjct: 38 EKINLTSITEKKEVYLKHFYDSI----------TAAFYVDFNQVNTICDVGAGAGFPSLP 87
Query: 93 LAIACPDWKVTLLESMNKRCVFLEHAVSLTQLLNVQIVRGRAETLGKDVSFREQYDVAVA 152
+ I P VT+++S+NKR FLE QL N RAET G+ RE YD+ A
Sbjct: 88 IKICFPHLHVTIVDSLNKRITFLEKLSEALQLENTTFCHDRAETFGQRKDVRESYDIVTA 147
Query: 153 RAVAEMRILAEYCLPLVRVGGLFVAAKGHDPQEEVKNSERAVQLMGASLLQLCSVESQSP 212
RAVA + +L+E CLPLV+ GLFVA K +EE+ ++A+ +G L + S +
Sbjct: 148 RAVARLSVLSELCLPLVKKNGLFVALKAASAEEELNAGKKAITTLGGELENIHSFKLPIE 207
Query: 213 FGQRTAVVCLKSRRTPKKYPRDPGTPAKVPL 243
R +V K + TPKKYPR PGTP K P+
Sbjct: 208 ESDRNIMVIRKIKNTPKKYPRKPGTPNKSPI 238
>pdb|3G88|A Chain A, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adomet In Space Group P61
pdb|3G88|B Chain B, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adomet In Space Group P61
pdb|3G89|A Chain A, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adomet And Amp In Space Group P61
pdb|3G89|B Chain B, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adomet And Amp In Space Group P61
pdb|3G8A|A Chain A, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adohcy In Space Group P61
pdb|3G8A|B Chain B, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adohcy In Space Group P61
pdb|3G8A|C Chain C, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adohcy In Space Group P61
pdb|3G8A|D Chain D, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adohcy In Space Group P61
pdb|3G8A|E Chain E, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adohcy In Space Group P61
pdb|3G8A|F Chain F, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adohcy In Space Group P61
pdb|3G8B|A Chain A, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adomet In Space Group I222
pdb|3G8B|B Chain B, T. Thermophilus 16s Rrna G527 Methyltransferase In Complex
With Adomet In Space Group I222
Length = 249
Score = 108 bits (271), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 75/210 (35%), Positives = 116/210 (55%), Gaps = 10/210 (4%)
Query: 34 KMNLTAVKDVNEVMERHIDDSLAIIPPIKNSYTSHCDSSCNSNLKLVDVGTGAGLPGLVL 93
K+NLTA++ EV+ +H DSL ++ L+++D+GTGAG PGL L
Sbjct: 49 KVNLTALRGEEEVVVKHFLDSLTLL----------RLPLWQGPLRVLDLGTGAGFPGLPL 98
Query: 94 AIACPDWKVTLLESMNKRCVFLEHAVSLTQLLNVQIVRGRAETLGKDVSFREQYDVAVAR 153
I P+ ++ L+++ K+ F+E A+ + L + + GRAE L ++ RE Y AVAR
Sbjct: 99 KIVRPELELVLVDATRKKVAFVERAIEVLGLKGARALWGRAEVLAREAGHREAYARAVAR 158
Query: 154 AVAEMRILAEYCLPLVRVGGLFVAAKGHDPQEEVKNSERAVQLMGASLLQLCSVESQSPF 213
AVA + +L+E LP + VGG VA KG +EE+ A++ +G L ++ +++
Sbjct: 159 AVAPLCVLSELLLPFLEVGGAAVAMKGPRVEEELAPLPPALERLGGRLGEVLALQLPLSG 218
Query: 214 GQRTAVVCLKSRRTPKKYPRDPGTPAKVPL 243
R VV K+ TP YPR PG P + PL
Sbjct: 219 EARHLVVLEKTAPTPPAYPRRPGVPERHPL 248
>pdb|1JSX|A Chain A, Crystal Structure Of The Escherichia Coli
Glucose-Inhibited Division Protein B (Gidb)
Length = 207
Score = 90.1 bits (222), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 59/186 (31%), Positives = 93/186 (50%), Gaps = 22/186 (11%)
Query: 36 NLTAVKDVNEVMERHIDDSLAIIPPIKNSYTSHCDSSCNSNLKLVDVGTGAGLPGLVLAI 95
NLT+V+D NE++ RHI DS+ + P ++ + +DVGTG GLPG+ L+I
Sbjct: 39 NLTSVRDPNEMLVRHILDSIVVAPYLQGE-------------RFIDVGTGPGLPGIPLSI 85
Query: 96 ACPDWKVTLLESMNKRCVFLEHAVSLTQLLNVQIVRGRAETLGKDVSFREQYDVAVARAV 155
P+ TLL+S+ KR FL +L N++ V+ R E + F D ++RA
Sbjct: 86 VRPEAHFTLLDSLGKRVRFLRQVQHELKLENIEPVQSRVEEFPSEPPF----DGVISRAF 141
Query: 156 AEMRILAEYCLPLVRVGGLFVAAKGHDPQEEVKNSERAVQLMGASLLQLCSVESQSPFGQ 215
A + + +C L G F A KG P++E+ Q+ LQ+ +++ G+
Sbjct: 142 ASLNDMVSWCHHLPGEQGRFYALKGQMPEDEIALLPEEYQVESVVKLQVPALD-----GE 196
Query: 216 RTAVVC 221
R VV
Sbjct: 197 RHLVVI 202
>pdb|4DZR|A Chain A, The Crystal Structure Of Protein-(Glutamine-N5)
Methyltransferase (Release Factor-Specific) From
Alicyclobacillus Acidocaldarius Subsp. Acidocaldarius
Dsm 446
Length = 215
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%)
Query: 75 SNLKLVDVGTGAGLPGLVLAIACPDWKVTLLE 106
S +++DVGTG+G + +A+ACP VT ++
Sbjct: 30 SGTRVIDVGTGSGCIAVSIALACPGVSVTAVD 61
>pdb|1JNN|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 214
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 13/74 (17%)
Query: 181 HDPQEEVKNSERAVQLMGASLLQL------------CSVESQSPFGQRTAVVCLKSRRTP 228
+DP+ + K + A + LQL C++E P+GQ T V ++ TP
Sbjct: 60 YDPRFQGKATLTADTSSNTAYLQLDNLTSEDTAVYYCAIEKDLPWGQGTLVTVSVAKTTP 119
Query: 229 KK-YPRDPGTPAKV 241
YP PG+ A+
Sbjct: 120 PSVYPLAPGSAAQT 133
>pdb|1JNL|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 216
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 13/74 (17%)
Query: 181 HDPQEEVKNSERAVQLMGASLLQL------------CSVESQSPFGQRTAVVCLKSRRTP 228
+DP+ + K + A + LQL C++E P+GQ T V ++ TP
Sbjct: 60 YDPRFQGKATLTADTSSNTAYLQLDNLTSEDTAVYYCAIEKDLPWGQGTLVTVSVAKTTP 119
Query: 229 KK-YPRDPGTPAKV 241
YP PG+ A+
Sbjct: 120 PSVYPLAPGSAAQT 133
>pdb|2GSI|B Chain B, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
pdb|2GSI|D Chain D, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
pdb|2GSI|F Chain F, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
pdb|2GSI|H Chain H, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
Length = 221
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 185 EEVKNSERAVQLMGASLLQLCSVESQSPFGQRTAVVCLKSRRTPKK-YPRDPGTPAKV 241
+ + + AV A ++ + ++ +GQ T V ++ TP YP PGT A+
Sbjct: 83 SSLTSEDTAVYYCNAGVITMMGYQAMDYWGQGTTVTTSSAKTTPPSVYPLAPGTAAQT 140
>pdb|2YXD|A Chain A, Crystal Structure Of Cobalamin Biosynthesis Precorrin 8w
Decarboxylase (Cbit)
pdb|2YXD|B Chain B, Crystal Structure Of Cobalamin Biosynthesis Precorrin 8w
Decarboxylase (Cbit)
Length = 183
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 28/89 (31%)
Query: 72 SCNSNLKLVDVGTGAGLPGLVLAIACPDWKVTLLESMNKRCVF------LEHAVSLTQ-- 123
+ N + +VDVG G+G G + IA KRC F L+ A+ +T+
Sbjct: 32 NLNKDDVVVDVGCGSG--GXTVEIA-------------KRCKFVYAIDYLDGAIEVTKQN 76
Query: 124 -----LLNVQIVRGRAETLGKDVSFREQY 147
+ N QI++GRAE + + F + +
Sbjct: 77 LAKFNIKNCQIIKGRAEDVLDKLEFNKAF 105
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
0.319 0.134 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,496,934
Number of Sequences: 62578
Number of extensions: 221693
Number of successful extensions: 498
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 488
Number of HSP's gapped (non-prelim): 11
length of query: 243
length of database: 14,973,337
effective HSP length: 96
effective length of query: 147
effective length of database: 8,965,849
effective search space: 1317979803
effective search space used: 1317979803
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: 50 (23.9 bits)