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= psy17516
(264 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XEW|Y Chain Y, Structural Biochemistry Of Atp-Driven Dimerization And Dna
Stimulated Activation Of Smc Atpases
Length = 172
Score = 80.9 bits (198), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 47/147 (31%), Positives = 77/147 (52%), Gaps = 2/147 (1%)
Query: 112 EKKKIALREAWLKVNTDFGSIFSLLLPGSQAKLSPPAGKDILDG-LEVNVAFGGLWKESL 170
EKK + +R + ++ +F IF+ L PG A+L +D G LE+ G + +
Sbjct: 3 EKKNVFMR-TFEAISRNFSEIFAKLSPGGSARLILENPEDPFSGGLEIEAKPAGKDVKRI 61
Query: 171 GELSGGQRXXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGQMLKRHFKTSQFII 230
+SGG++ FKPAP Y+ DE+DA LD ++ + + ++K K SQFI+
Sbjct: 62 EAMSGGEKALTALAFVFAIQKFKPAPFYLFDEIDAHLDDANVKRVADLIKESSKESQFIV 121
Query: 231 VSLKEGMFSNANVIFRTKFVDGNSNVT 257
++L++ M +NA+ I DG S V
Sbjct: 122 ITLRDVMMANADKIIGVSMRDGVSKVV 148
>pdb|1XEX|B Chain B, Structural Biochemistry Of Atp-Driven Dimerization And Dna
Stimulated Activation Of Smc Atpases
Length = 172
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 46/147 (31%), Positives = 77/147 (52%), Gaps = 2/147 (1%)
Query: 112 EKKKIALREAWLKVNTDFGSIFSLLLPGSQAKLSPPAGKDILDG-LEVNVAFGGLWKESL 170
EKK + +R + ++ +F IF+ L PG A+L +D G LE+ G + +
Sbjct: 3 EKKNVFMR-TFEAISRNFSEIFAKLSPGGSARLILENPEDPFSGGLEIEAKPAGKDVKRI 61
Query: 171 GELSGGQRXXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGQMLKRHFKTSQFII 230
+SGG++ FKPAP Y+ D++DA LD ++ + + ++K K SQFI+
Sbjct: 62 EAMSGGEKALTALAFVFAIQKFKPAPFYLFDQIDAHLDDANVKRVADLIKESSKESQFIV 121
Query: 231 VSLKEGMFSNANVIFRTKFVDGNSNVT 257
++L++ M +NA+ I DG S V
Sbjct: 122 ITLRDVMMANADKIIGVSMRDGVSKVV 148
>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 = 77.8 bits (190), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 43/144 (29%), Positives = 77/144 (53%), Gaps = 1/144 (0%)
Query: 103 LLKVIEELDEKKKIALREAWLKVNTDFGSIFSLLLPGSQAKLSPPAGKDIL-DGLEVNVA 161
L +VIEE+DE+ + ++++ + F +F L G +A+L D+L G+E+
Sbjct: 258 LFQVIEEMDEEMTKRFNDTFVQIRSHFDQVFRSLFGGGRAELRLTDPNDLLHSGVEIIAQ 317
Query: 162 FGGLWKESLGELSGGQRXXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGQMLKR 221
G ++L LSGG+R +P P +LDEV+AALD ++ Q LK+
Sbjct: 318 PPGKKLQNLNLLSGGERALTAIALLFSILKVRPVPFCVLDEVEAALDEANVFRFAQYLKK 377
Query: 222 HFKTSQFIIVSLKEGMFSNANVIF 245
+ +QFI+++ ++G A+V++
Sbjct: 378 YSSDTQFIVITHRKGTMEEADVLY 401
>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 = 73.9 bits (180), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 46/147 (31%), Positives = 74/147 (50%), Gaps = 2/147 (1%)
Query: 112 EKKKIALREAWLKVNTDFGSIFSLLLPGSQAKLSPPAGKDILDG-LEVNVAFGGLWKESL 170
EKK + R + ++ +F IF+ L PG A+L +D G LE+ G + +
Sbjct: 4 EKKNVFXR-TFEAISRNFSEIFAKLSPGGSARLILENPEDPFSGGLEIEAKPAGKDVKRI 62
Query: 171 GELSGGQRXXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGQMLKRHFKTSQFII 230
SGG++ FKPAP Y+ DE+DA LD ++ + + ++K K SQFI+
Sbjct: 63 EAXSGGEKALTALAFVFAIQKFKPAPFYLFDEIDAHLDDANVKRVADLIKESSKESQFIV 122
Query: 231 VSLKEGMFSNANVIFRTKFVDGNSNVT 257
++L++ +NA+ I DG S V
Sbjct: 123 ITLRDVXXANADKIIGVSXRDGVSKVV 149
>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 = 71.2 bits (173), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 42/134 (31%), Positives = 68/134 (50%), Gaps = 1/134 (0%)
Query: 125 VNTDFGSIFSLLLPGSQAKLSPPAGKDILDG-LEVNVAFGGLWKESLGELSGGQRXXXXX 183
++ +F IF+ L PG A+L +D G LE+ G + + SGG++
Sbjct: 197 ISRNFSEIFAKLSPGGSARLILENPEDPFSGGLEIEAKPAGKDVKRIEAXSGGEKALTAL 256
Query: 184 XXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGQMLKRHFKTSQFIIVSLKEGMFSNANV 243
FKPAP Y+ DE+DA LD ++ + + ++K K SQFI+++L++ +NA+
Sbjct: 257 AFVFAIQKFKPAPFYLFDEIDAHLDDANVKRVADLIKESSKESQFIVITLRDVXXANADK 316
Query: 244 IFRTKFVDGNSNVT 257
I DG S V
Sbjct: 317 IIGVSXRDGVSKVV 330
>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 = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 42/141 (29%), Positives = 74/141 (52%), Gaps = 2/141 (1%)
Query: 119 REAWLKVNTDFGSIFSLLLPGSQAKLSPPA-GKDILD-GLEVNVAFGGLWKESLGELSGG 176
R ++ +VN F SLL G + +L+ + K ILD G E+++ G + L LSGG
Sbjct: 164 RGSYQRVNESFNRFISLLFFGGEGRLNIVSEAKSILDAGFEISIRKPGRRDQKLSLLSGG 223
Query: 177 QRXXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGQMLKRHFKTSQFIIVSLKEG 236
++ KP+P Y+LDEVD+ LD + + ++LK + K +QFI+++ +
Sbjct: 224 EKALVGLALLFALMEIKPSPFYVLDEVDSPLDDYNAERFKRLLKENSKHTQFIVITHNKI 283
Query: 237 MFSNANVIFRTKFVDGNSNVT 257
+ A+++ V+G S +
Sbjct: 284 VMEAADLLHGVTMVNGVSAIV 304
>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 = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 44/73 (60%), Gaps = 1/73 (1%)
Query: 173 LSGGQRXXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGQMLKRHFKTS-QFIIV 231
LSGG++ ++P+P ++LDEVDAALD+++ Q I ++RH QFI++
Sbjct: 334 LSGGEKTVAALALLFAINSYQPSPFFVLDEVDAALDITNVQRIAAYIRRHRNPDLQFIVI 393
Query: 232 SLKEGMFSNANVI 244
SLK MF ++ +
Sbjct: 394 SLKNTMFEKSDAL 406
>pdb|1TOA|A Chain A, Periplasmic Zinc Binding Protein Troa From Treponema
Pallidum
pdb|1TOA|B Chain B, Periplasmic Zinc Binding Protein Troa From Treponema
Pallidum
Length = 313
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 5 EVTRKYQKLKEQRDKLERTVDKKAQ 29
E T++YQ ++Q DKL+ V +KAQ
Sbjct: 167 EFTQRYQAYQQQLDKLDAYVRRKAQ 191
>pdb|1K0F|A Chain A, Crystal Structure Of Zn(Ii)-Free T. Pallidum Troa
Length = 277
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 5 EVTRKYQKLKEQRDKLERTVDKKAQ 29
E T++YQ ++Q DKL+ V +KAQ
Sbjct: 131 EFTQRYQAYQQQLDKLDAYVRRKAQ 155
>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2
(Rras2) In The Gdp Bound State
pdb|2ERY|B Chain B, The Crystal Structure Of The Ras Related Protein Rras2
(Rras2) In The Gdp Bound State
Length = 172
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 88 EAMTKKSIVESDRAKLLKVIEELDEKKKIALREAWLKVNTDFGSIFSLLLPGS 140
++ TK+ +++ DRA L +++ +++ A+RE +++ F +FS+ GS
Sbjct: 40 DSYTKQCVID-DRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGS 91
>pdb|4AD8|A Chain A, Crystal Structure Of A Deletion Mutant Of Deinococcus
Radiodurans Recn
Length = 517
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 45/173 (26%), Positives = 75/173 (43%), Gaps = 17/173 (9%)
Query: 69 VKVGAMVKAPLRTLLFISMEAMTKKSIVESDRAKLLKVIEELDEKKKIALREAWLKVNTD 128
V+ GA L L +A + ++ V++ A+LLKV + LD ++ REA V++
Sbjct: 291 VEFGAQAAEELAGLEEDERDAGSLQADVDALHAELLKVGQALDAARE---REAEPLVDSL 347
Query: 129 FGSIFSLLLPGSQ-----AKLSPPAGKDILDGLEVNVAFGGLWKESLGELS----GGQRX 179
I L +P ++ + L+ PA + D V + F E LG LS GG+
Sbjct: 348 LAVIRELGMPHARMEFALSALAEPAAYGLSD---VLLRFSANPGEELGPLSDVASGGELS 404
Query: 180 XXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGQMLKRHFKTSQFIIVS 232
P+ + DEVDA + + + + L R T Q ++V+
Sbjct: 405 RVMLAVSTVLGADTPS--VVFDEVDAGIGGAAAIAVAEQLSRLADTRQVLVVT 455
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 27.7 bits (60), Expect = 6.3, Method: Composition-based stats.
Identities = 28/136 (20%), Positives = 59/136 (43%), Gaps = 6/136 (4%)
Query: 5 EVTRKYQKLKEQRDKLERTVDKKAQL-----SLRNEENQFKVGAMVKAPLKTLLFISMKK 59
E+ +++ KEQ L + K + L + +FK ++ + + K+
Sbjct: 684 EMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLIVDEEHRFGVRHKE 743
Query: 60 YLGSMSSFSVKVGAMVKAPLRTLLFISMEAMTKKSIVESDRAKLLKVIEELDEKKKIALR 119
+ +M + +V + + P+ L ++M M SI+ + A+ L V + E + +R
Sbjct: 744 RIKAMRA-NVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLAVKTFVREYDSMVVR 802
Query: 120 EAWLKVNTDFGSIFSL 135
EA L+ G ++ L
Sbjct: 803 EAILREILRGGQVYYL 818
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
0.317 0.133 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,397,604
Number of Sequences: 62578
Number of extensions: 225227
Number of successful extensions: 583
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 563
Number of HSP's gapped (non-prelim): 25
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)