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= psy12760
(199 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W1W|A Chain A, Sc Smc1hd:scc1-c Complex, Atpgs
pdb|1W1W|B Chain B, Sc Smc1hd:scc1-c Complex, Atpgs
pdb|1W1W|C Chain C, Sc Smc1hd:scc1-c Complex, Atpgs
pdb|1W1W|D Chain D, Sc Smc1hd:scc1-c Complex, Atpgs
Length = 430
Score = 63.9 bits (154), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 34/90 (37%), Positives = 52/90 (57%), Gaps = 9/90 (10%)
Query: 111 KRQKEFDTNFVKIGKRVQECYQMLT---------FGGKADLEYKEYSDPYAQGIKYVVRP 161
KR++ F+ F + + Y+ LT GG A L ++ +P+ GIKY P
Sbjct: 264 KRKELFEKTFDYVSDHLDAIYRELTKNPNSNVELAGGNASLTIEDEDEPFNAGIKYHATP 323
Query: 162 PRKSWKSIDCLSGGEKTLASLALVFALHYY 191
P K +K ++ LSGGEKT+A+LAL+FA++ Y
Sbjct: 324 PLKRFKDMEYLSGGEKTVAALALLFAINSY 353
>pdb|3ZGX|A Chain A, Crystal Structure Of The Kleisin-n Smc Interface In
Prokaryotic Condensin
pdb|3ZGX|B Chain B, Crystal Structure Of The Kleisin-n Smc Interface In
Prokaryotic Condensin
Length = 426
Score = 59.7 bits (143), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 52/90 (57%)
Query: 99 NTYCTGYEQCLSKRQKEFDTNFVKIGKRVQECYQMLTFGGKADLEYKEYSDPYAQGIKYV 158
NT E+ + K F+ FV+I + ++ L GG+A+L + +D G++ +
Sbjct: 256 NTLFQVIEEMDEEMTKRFNDTFVQIRSHFDQVFRSLFGGGRAELRLTDPNDLLHSGVEII 315
Query: 159 VRPPRKSWKSIDCLSGGEKTLASLALVFAL 188
+PP K ++++ LSGGE+ L ++AL+F++
Sbjct: 316 AQPPGKKLQNLNLLSGGERALTAIALLFSI 345
>pdb|1XEX|B Chain B, Structural Biochemistry Of Atp-Driven Dimerization And Dna
Stimulated Activation Of Smc Atpases
Length = 172
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 41/76 (53%)
Query: 116 FDTNFVKIGKRVQECYQMLTFGGKADLEYKEYSDPYAQGIKYVVRPPRKSWKSIDCLSGG 175
F F I + E + L+ GG A L + DP++ G++ +P K K I+ +SGG
Sbjct: 8 FMRTFEAISRNFSEIFAKLSPGGSARLILENPEDPFSGGLEIEAKPAGKDVKRIEAMSGG 67
Query: 176 EKTLASLALVFALHYY 191
EK L +LA VFA+ +
Sbjct: 68 EKALTALAFVFAIQKF 83
>pdb|1XEW|Y Chain Y, Structural Biochemistry Of Atp-Driven Dimerization And Dna
Stimulated Activation Of Smc Atpases
Length = 172
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 41/76 (53%)
Query: 116 FDTNFVKIGKRVQECYQMLTFGGKADLEYKEYSDPYAQGIKYVVRPPRKSWKSIDCLSGG 175
F F I + E + L+ GG A L + DP++ G++ +P K K I+ +SGG
Sbjct: 8 FMRTFEAISRNFSEIFAKLSPGGSARLILENPEDPFSGGLEIEAKPAGKDVKRIEAMSGG 67
Query: 176 EKTLASLALVFALHYY 191
EK L +LA VFA+ +
Sbjct: 68 EKALTALAFVFAIQKF 83
>pdb|3KTA|B Chain B, Structural Basis For Adenylate Kinase Activity In Abc
Atpases
pdb|3KTA|D Chain D, Structural Basis For Adenylate Kinase Activity In Abc
Atpases
Length = 173
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 40/76 (52%)
Query: 116 FDTNFVKIGKRVQECYQMLTFGGKADLEYKEYSDPYAQGIKYVVRPPRKSWKSIDCLSGG 175
F F I + E + L+ GG A L + DP++ G++ +P K K I+ SGG
Sbjct: 9 FXRTFEAISRNFSEIFAKLSPGGSARLILENPEDPFSGGLEIEAKPAGKDVKRIEAXSGG 68
Query: 176 EKTLASLALVFALHYY 191
EK L +LA VFA+ +
Sbjct: 69 EKALTALAFVFAIQKF 84
>pdb|4I99|A Chain A, Crystal Structure Of The Smchead Bound To The C-winged
Helix Domain Of Scpa
pdb|4I99|B Chain B, Crystal Structure Of The Smchead Bound To The C-winged
Helix Domain Of Scpa
Length = 354
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 40/76 (52%)
Query: 116 FDTNFVKIGKRVQECYQMLTFGGKADLEYKEYSDPYAQGIKYVVRPPRKSWKSIDCLSGG 175
F F I + E + L+ GG A L + DP++ G++ +P K K I+ SGG
Sbjct: 190 FXRTFEAISRNFSEIFAKLSPGGSARLILENPEDPFSGGLEIEAKPAGKDVKRIEAXSGG 249
Query: 176 EKTLASLALVFALHYY 191
EK L +LA VFA+ +
Sbjct: 250 EKALTALAFVFAIQKF 265
>pdb|1E69|A Chain A, Smc Head Domain From Thermotoga Maritima
pdb|1E69|B Chain B, Smc Head Domain From Thermotoga Maritima
pdb|1E69|C Chain C, Smc Head Domain From Thermotoga Maritima
pdb|1E69|D Chain D, Smc Head Domain From Thermotoga Maritima
pdb|1E69|E Chain E, Smc Head Domain From Thermotoga Maritima
pdb|1E69|F Chain F, Smc Head Domain From Thermotoga Maritima
Length = 322
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 35/69 (50%), Gaps = 5/69 (7%)
Query: 125 KRVQECYQ----MLTFGGKADLEY-KEYSDPYAQGIKYVVRPPRKSWKSIDCLSGGEKTL 179
+RV E + +L FGG+ L E G + +R P + + + LSGGEK L
Sbjct: 168 QRVNESFNRFISLLFFGGEGRLNIVSEAKSILDAGFEISIRKPGRRDQKLSLLSGGEKAL 227
Query: 180 ASLALVFAL 188
LAL+FAL
Sbjct: 228 VGLALLFAL 236
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 0.131 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,489,131
Number of Sequences: 62578
Number of extensions: 199618
Number of successful extensions: 450
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 441
Number of HSP's gapped (non-prelim): 14
length of query: 199
length of database: 14,973,337
effective HSP length: 94
effective length of query: 105
effective length of database: 9,091,005
effective search space: 954555525
effective search space used: 954555525
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: 49 (23.5 bits)