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= 021232
(315 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3U24|A Chain A, The Structure Of A Putative Lipoprotein Of Unknown
Function From Shewanella Oneidensis
Length = 572
Score = 31.2 bits (69), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 16/21 (76%)
Query: 289 PGHYGQLIATLNSTSLIKSLF 309
PGHY QL+ + S SL+KSLF
Sbjct: 412 PGHYTQLVYSNESPSLVKSLF 432
>pdb|2EE0|A Chain A, Solution Structures Of The Ca Domain Of Human
Protocadherin 9
Length = 114
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 198 NATRLLIEEGAVELVVPGNFPIGCSAVYL 226
N R + +EG VE+ +P N P+G S + L
Sbjct: 8 NDNRPVFKEGQVEVHIPENAPVGTSVIQL 36
>pdb|2EEZ|A Chain A, Crystal Structure Of Alanine Dehydrogenase From Themus
Thermophilus
pdb|2EEZ|C Chain C, Crystal Structure Of Alanine Dehydrogenase From Themus
Thermophilus
pdb|2EEZ|D Chain D, Crystal Structure Of Alanine Dehydrogenase From Themus
Thermophilus
pdb|2EEZ|E Chain E, Crystal Structure Of Alanine Dehydrogenase From Themus
Thermophilus
pdb|2EEZ|F Chain F, Crystal Structure Of Alanine Dehydrogenase From Themus
Thermophilus
pdb|2EEZ|G Chain G, Crystal Structure Of Alanine Dehydrogenase From Themus
Thermophilus
Length = 369
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/24 (58%), Positives = 16/24 (66%)
Query: 70 GRLVIDFMAEAFRLPYLPPYLALK 93
GRL +AEAF LPY PP AL+
Sbjct: 345 GRLTHPGVAEAFGLPYTPPEEALR 368
>pdb|1E2U|A Chain A, Low Temperature Stucture Of Hybrid Cluster Protein From
Desulfovibrio Vulgaris To 1.6a
pdb|1E9V|A Chain A, Xenon Bound In Hydrophobic Channel Of Hybrid Cluster
Protein From Desulfovibrio Vulgaris
pdb|1W9M|A Chain A, As-Isolated Hybrid Cluster Protein From Desulfovibrio
Vulgaris X-Ray Structure At 1.35a Resolution Using Iron
Anomalous Signal
Length = 553
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 41/180 (22%), Positives = 71/180 (39%), Gaps = 23/180 (12%)
Query: 127 WTNDSLSVQIDWFKKLKSSICSTRKDCETYFKKSLFFVGEIGGNDY-NYRAFVGESINQL 185
WT DS + + +K KS ++ + + L +G G Y + A +G ++
Sbjct: 120 WTGDSTA----FAEKAKSVGILATENEDVRSLRELLIIGLKGVAAYAEHAAVLGFRKTEI 175
Query: 186 RASVPLVVKAITNATRLLIEEGAVELVVPGNFPIGCSAVYLTLFQSLNEMDYDRN----- 240
+++A+ + T+ L + V LV+ G + + L N Y
Sbjct: 176 DE---FMLEALASTTKDLSVDEMVALVMKAG---GMAVTTMALLDEANTTTYGNPEITQV 229
Query: 241 --GCLKAPNAFARYHNTMLKAELHKLRQK-----YPHANIIYADYYGAAMRFYHAPGHYG 293
G K P H+ AEL K + Y H ++ A+YY A ++ H G+YG
Sbjct: 230 NIGVGKNPGILISGHDLKDMAELLKQTEGTGVDVYTHGEMLPANYYPAFKKYPHFVGNYG 289
>pdb|1GNT|A Chain A, Hybrid Cluster Protein From Desulfovibrio Vulgaris. X-Ray
Structure At 1.25a Resolution Using Synchrotron
Radiation.
pdb|1OA1|A Chain A, Reduced Hybrid Cluster Protein (Hcp) From Desulfovibrio
Vulgaris Hildenborough Structure At 1.55a Resolution
Using Synchrotron Radiation
Length = 553
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 41/180 (22%), Positives = 71/180 (39%), Gaps = 23/180 (12%)
Query: 127 WTNDSLSVQIDWFKKLKSSICSTRKDCETYFKKSLFFVGEIGGNDY-NYRAFVGESINQL 185
WT DS + + +K KS ++ + + L +G G Y + A +G ++
Sbjct: 120 WTGDSTA----FAEKAKSVGILATENEDVRSLRELLIIGLKGVAAYAEHAAVLGFRKTEI 175
Query: 186 RASVPLVVKAITNATRLLIEEGAVELVVPGNFPIGCSAVYLTLFQSLNEMDYDRN----- 240
+++A+ + T+ L + V LV+ G + + L N Y
Sbjct: 176 DE---FMLEALASTTKDLSVDEMVALVMKAG---GMAVTTMALLDEANTTTYGNPEITQV 229
Query: 241 --GCLKAPNAFARYHNTMLKAELHKLRQK-----YPHANIIYADYYGAAMRFYHAPGHYG 293
G K P H+ AEL K + Y H ++ A+YY A ++ H G+YG
Sbjct: 230 NIGVGKNPGILISGHDLKDMAELLKQTEGTGVDVYTHGEMLPANYYPAFKKYPHFVGNYG 289
>pdb|2FN6|A Chain A, Helicobacter Pylori Psec, Aminotransferase Involved In The
Biosynthesis Of Pseudoaminic Acid
pdb|2FN6|B Chain B, Helicobacter Pylori Psec, Aminotransferase Involved In The
Biosynthesis Of Pseudoaminic Acid
pdb|2FNI|A Chain A, Psec Aminotransferase Involved In Pseudoaminic Acid
Biosynthesis
pdb|2FNI|B Chain B, Psec Aminotransferase Involved In Pseudoaminic Acid
Biosynthesis
pdb|2FNU|A Chain A, Psec Aminotransferase With External Aldimine
pdb|2FNU|B Chain B, Psec Aminotransferase With External Aldimine
Length = 375
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 3/69 (4%)
Query: 194 KAITNATR-LLIEEGAVELVVPGNFPI--GCSAVYLTLFQSLNEMDYDRNGCLKAPNAFA 250
K +T R LL EE E + + + ++ LTL+++ +E DRN + P +F
Sbjct: 26 KQLTQGKRSLLFEEALCEFLGVKHALVFNSATSALLTLYRNFSEFSADRNEIITTPISFV 85
Query: 251 RYHNTMLKA 259
N +L++
Sbjct: 86 ATANMLLES 94
>pdb|1E1D|A Chain A, Hybrid Cluster Protein From Desulfovibrio Vulgaris
Length = 553
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 41/180 (22%), Positives = 71/180 (39%), Gaps = 23/180 (12%)
Query: 127 WTNDSLSVQIDWFKKLKSSICSTRKDCETYFKKSLFFVGEIGGNDY-NYRAFVGESINQL 185
WT DS + + +K KS ++ + + L +G G Y + A +G ++
Sbjct: 120 WTGDSTA----FAEKAKSVGILATENEDVRSLRELLIIGLKGVAAYAEHAAVLGFRKTEI 175
Query: 186 RASVPLVVKAITNATRLLIEEGAVELVVPGNFPIGCSAVYLTLFQSLNEMDYDRN----- 240
+++A+ + T+ L + V LV+ G + + L N Y
Sbjct: 176 DE---FMLEALASTTKDLSVDEMVALVMKGRR---MAVTTMALLDEANTTTYGNPEITQV 229
Query: 241 --GCLKAPNAFARYHNTMLKAELHKLRQK-----YPHANIIYADYYGAAMRFYHAPGHYG 293
G K P H+ AEL K + Y H ++ A+YY A ++ H G+YG
Sbjct: 230 NIGVGKNPGILISGHDLKDMAELLKQTEGTGVDVYTHGEMLPANYYPAFKKYPHFVGNYG 289
>pdb|1PV6|A Chain A, Crystal Structure Of Lactose Permease
pdb|1PV6|B Chain B, Crystal Structure Of Lactose Permease
pdb|1PV7|A Chain A, Crystal Structure Of Lactose Permease With Tdg
pdb|1PV7|B Chain B, Crystal Structure Of Lactose Permease With Tdg
pdb|2CFP|A Chain A, Sugar Free Lactose Permease At Acidic Ph
pdb|2CFQ|A Chain A, Sugar Free Lactose Permease At Neutral Ph
Length = 417
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 42/91 (46%), Gaps = 4/91 (4%)
Query: 157 FKKSLFFVGEIGGNDYNYRAFVGESIN-QLRASVPLVVKAITNATRLLIEEGAVELVVPG 215
F S F GE G + Y +GE +N + PL++ I LL+ + + + G
Sbjct: 246 FFTSFFATGEQGTRVFGYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIG 305
Query: 216 NFPIGCSAVYLTLFQSLN--EMDYDRNGCLK 244
+ SA+ + + ++L+ E+ + GC K
Sbjct: 306 S-SFATSALEVVILKTLHMFEVPFLLVGCFK 335
>pdb|2V8N|A Chain A, Wild-Type Structure Of Lactose Permease
pdb|2V8N|B Chain B, Wild-Type Structure Of Lactose Permease
Length = 417
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 42/91 (46%), Gaps = 4/91 (4%)
Query: 157 FKKSLFFVGEIGGNDYNYRAFVGESIN-QLRASVPLVVKAITNATRLLIEEGAVELVVPG 215
F S F GE G + Y +GE +N + PL++ I LL+ + + + G
Sbjct: 246 FFTSFFATGEQGTRVFGYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIG 305
Query: 216 NFPIGCSAVYLTLFQSLN--EMDYDRNGCLK 244
+ SA+ + + ++L+ E+ + GC K
Sbjct: 306 S-SFATSALEVVILKTLHMFEVPFLLVGCFK 335
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
0.325 0.139 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,216,983
Number of Sequences: 62578
Number of extensions: 364199
Number of successful extensions: 949
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 943
Number of HSP's gapped (non-prelim): 9
length of query: 315
length of database: 14,973,337
effective HSP length: 99
effective length of query: 216
effective length of database: 8,778,115
effective search space: 1896072840
effective search space used: 1896072840
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)