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= 002901
(869 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 110 bits (275), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 63/156 (40%), Positives = 93/156 (59%), Gaps = 1/156 (0%)
Query: 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773
+ K V+ S + + L L E+ + + +RLDG+M+ KKRA+++E F NP +L+
Sbjct: 416 SDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLS 475
Query: 774 SLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERI 833
S KA G G+NL A+R+ + +P WNPA +EQAM RV R GQK+ I RL+ +IEE+I
Sbjct: 476 S-KAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYIYRLLSTGTIEEKI 534
Query: 834 LELQDRKKKLAREAFRRKGKDQREVSTDDLRILMSL 869
L+ Q KK L+ + +R S +LR L SL
Sbjct: 535 LQRQAHKKALSSCVVDEEQDVERHFSLGELRELFSL 570
Score = 56.2 bits (134), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 72/143 (50%), Gaps = 14/143 (9%)
Query: 425 VILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSY 484
VI DE H +KN++ Q + ++NA+RR +++GTPIQN + FSL+ F+
Sbjct: 196 VICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQE 255
Query: 485 WQSLIQRPLAQG---------NRKGLSRLQVLMSTIS---LRRTKDKGLIGLQPKTIEKY 532
++ + P+ +G G +LQ L+S ++ +RRT D L P IE+
Sbjct: 256 FKKRFEIPILKGRDADASDKDRAAGEQKLQELISIVNRCLIRRTSDI-LSKYLPVKIEQV 314
Query: 533 Y-VELSLEERKLYDELEGKAKGV 554
L+ +++LY +AK V
Sbjct: 315 VCCNLTPLQKELYKLFLKQAKPV 337
Score = 33.1 bits (74), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 23/37 (62%)
Query: 233 VNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLI 269
V L + T +R E G I AD+MGLGKTL ++LI
Sbjct: 64 VKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLI 100
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 108 bits (271), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 77/247 (31%), Positives = 134/247 (54%), Gaps = 17/247 (6%)
Query: 352 TLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEES 411
+L++CP SV W +L + L+ +++ DR++ +L+ YD++LTTY+ L
Sbjct: 89 SLVICPLSVLKNWEEELSKFA--PHLRFAVFHEDRSKI--KLEDYDIILTTYAVLL---- 140
Query: 412 WLESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLM 471
++ +K++EW +++DEA IKN + + V L +K R +TGTPI+N DL+S+M
Sbjct: 141 -RDTRLKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIM 199
Query: 472 AFLQFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQVLMSTISLRRTK-DKGLIGLQPKTIE 530
FL S ++S P+ +G+ L+ ++S LRRTK DK +I P IE
Sbjct: 200 TFLNPGLLGSYSEFKSKFATPIKKGDNMAKEELKAIISPFILRRTKYDKAIINDLPDKIE 259
Query: 531 -KYYVELSLEERKLYD-ELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNLALC 588
Y L+ E+ +Y E+E + + I++ + ++ +LS LL+L+QI + AL
Sbjct: 260 TNVYCNLTPEQAAMYKAEVEN-----LFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALL 314
Query: 589 PSDVRSI 595
+S+
Sbjct: 315 KGGEQSV 321
Score = 91.7 bits (226), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 56/157 (35%), Positives = 94/157 (59%), Gaps = 7/157 (4%)
Query: 716 KSVVFSQFRKMLILLEEPLQAA-GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTV--LL 772
K +F+QF M ++ ++ ++ L G ++ K+R +I +F N P+V ++
Sbjct: 343 KIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQN----NPSVKFIV 398
Query: 773 ASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEER 832
S+KA G G+NLT+A+RV + WWNPAVE+QA DRV+RIGQ +V + +LI ++EE+
Sbjct: 399 LSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEK 458
Query: 833 ILELQDRKKKLAREAFRRKGKDQREVSTDDLRILMSL 869
I +L K+ L ++ E+ST++LR ++ L
Sbjct: 459 IDQLLAFKRSLFKDIISSGDSWITELSTEELRKVIEL 495
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 105 bits (263), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 76/247 (30%), Positives = 132/247 (53%), Gaps = 17/247 (6%)
Query: 352 TLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEES 411
+L++CP SV W +L + L+ +++ DR++ +L+ YD++LTTY+ L
Sbjct: 89 SLVICPLSVLKNWEEELSKFA--PHLRFAVFHEDRSKI--KLEDYDIILTTYAVLL---- 140
Query: 412 WLESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLM 471
++ +K++EW +++DEA IKN + + V L +K R +TGTPI+N DL+S+
Sbjct: 141 -RDTRLKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIX 199
Query: 472 AFLQFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQVLMSTISLRRTK-DKGLIGLQPKTIE 530
FL S ++S P+ +G+ L+ ++S LRRTK DK +I P IE
Sbjct: 200 TFLNPGLLGSYSEFKSKFATPIKKGDNXAKEELKAIISPFILRRTKYDKAIINDLPDKIE 259
Query: 531 -KYYVELSLEERKLYD-ELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNLALC 588
Y L+ E+ Y E+E + + I++ + ++ +LS LL+L+QI + AL
Sbjct: 260 TNVYCNLTPEQAAXYKAEVEN-----LFNNIDSVTGIKRKGXILSTLLKLKQIVDHPALL 314
Query: 589 PSDVRSI 595
+S+
Sbjct: 315 KGGEQSV 321
Score = 90.9 bits (224), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 51/128 (39%), Positives = 81/128 (63%), Gaps = 6/128 (4%)
Query: 744 LDGSMNAKKRAQVIEEFGNPGPGGPTV--LLASLKASGAGVNLTAASRVFLLEPWWNPAV 801
L G ++ K+R +I +F N P+V ++ S+KA G G+NLT+A+RV + WWNPAV
Sbjct: 372 LYGELSKKERDDIISKFQN----NPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAV 427
Query: 802 EEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKKLAREAFRRKGKDQREVSTD 861
E+QA DRV+RIGQ +V + +LI ++EE+I +L K+ L ++ E+ST+
Sbjct: 428 EDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSGDSWITELSTE 487
Query: 862 DLRILMSL 869
+LR ++ L
Sbjct: 488 ELRKVIEL 495
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 94.0 bits (232), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 53/139 (38%), Positives = 79/139 (56%), Gaps = 2/139 (1%)
Query: 709 RDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGP 768
R KK + ++FSQ +ML +L + L G RLDG++ + +R I+ F +P
Sbjct: 567 RLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPD-SND 625
Query: 769 TVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNS 828
V L S +A G G+NL A V + + WNP + QAM R HRIGQK V + RL+ +++
Sbjct: 626 FVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDT 685
Query: 829 IEERILELQDRKKKLAREA 847
+EE +LE + RKK + A
Sbjct: 686 VEEEVLE-RARKKMILEYA 703
Score = 53.5 bits (127), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 36/143 (25%), Positives = 69/143 (48%), Gaps = 19/143 (13%)
Query: 353 LIVCPPSVFSTWITQLEEHTVPGM--------------LKTYMYYGDRTQDVEELKMYDL 398
+IV P S W+ E+ P + ++ Y +Y + ++ +++
Sbjct: 290 IIVVPLSTMPAWLDTFEK-WAPDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNV 348
Query: 399 VLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGT 458
+LTTY + + + L S I+W + +DEAH +KNA + ++ + R ++TGT
Sbjct: 349 LLTTYEYILKDRAELGS----IKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGT 404
Query: 459 PIQNGSFDLFSLMAFLQFEPFSV 481
P+QN +L +L+ FL F++
Sbjct: 405 PLQNNIKELAALVNFLMPGRFTI 427
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 91.3 bits (225), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 56/157 (35%), Positives = 94/157 (59%), Gaps = 7/157 (4%)
Query: 716 KSVVFSQFRKMLILLEEPLQAA-GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTV--LL 772
K +F+QF M ++ ++ ++ L G ++ K+R +I +F N P+V ++
Sbjct: 114 KIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQN----NPSVKFIV 169
Query: 773 ASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEER 832
S+KA G G+NLT+A+RV + WWNPAVE+QA DRV+RIGQ +V + +LI ++EE+
Sbjct: 170 LSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEK 229
Query: 833 ILELQDRKKKLAREAFRRKGKDQREVSTDDLRILMSL 869
I +L K+ L ++ E+ST++LR ++ L
Sbjct: 230 IDQLLAFKRSLFKDIISSGDSWITELSTEELRKVIEL 266
>pdb|2L1I|A Chain A, Nmr Structure Of The Hltf Hiran Domain
Length = 122
Score = 87.4 bits (215), Expect = 3e-17, Method: Composition-based stats.
Identities = 42/117 (35%), Positives = 71/117 (60%), Gaps = 2/117 (1%)
Query: 26 TYMLGFVIANIVGLQYYSGTISGREMVGLVREPLNPYDSNAVKVLNTRTDQVGHIERSVA 85
+ + G + ++VGL+YY+G ++ EMV L R+P NPYD NA+KV N +QVGH+++ +A
Sbjct: 8 SVLFGSLRGHVVGLRYYTGVVNNNEMVALQRDPNNPYDKNAIKVNNVNGNQVGHLKKELA 67
Query: 86 AVLAPLIDSGMILVEGIVPNTRSKGNRFKIPCQVHIFTRLEMFSIVKDVILEGGLQL 142
LA ++D+ + +EG+VP N F +P + + + E V D + + G +L
Sbjct: 68 GALAYIMDNKLAQIEGVVP--FGANNAFTMPLHMTFWGKEENRKAVSDQLKKHGFKL 122
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 47.0 bits (110), Expect = 5e-05, Method: Composition-based stats.
Identities = 20/42 (47%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSPPES 680
T C H+FCR CIL+ L+ CP CR+P +DL SP +S
Sbjct: 39 TSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL-ESPVKS 79
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 38.1 bits (87), Expect = 0.023, Method: Composition-based stats.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 641 CAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSP 677
C H F R C++K L+ + CPLC P+LQ S P
Sbjct: 36 CKHAFHRKCLIKWLE-VRKVCPLCNMPVLQLAQLSGP 71
>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The P1
Space Group
pdb|3HCU|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
pdb|3HCU|C Chain C, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
Length = 118
Score = 37.0 bits (84), Expect = 0.044, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLF 674
T C H FC++CI+K+++ CP+ LL++ LF
Sbjct: 34 TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 69
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 37.0 bits (84), Expect = 0.044, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLF 674
T C H FC++CI+K+++ CP+ LL++ LF
Sbjct: 34 TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 69
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 37.0 bits (84), Expect = 0.044, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLF 674
T C H FC++CI+K+++ CP+ LL++ LF
Sbjct: 41 TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 76
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 37.0 bits (84), Expect = 0.044, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLF 674
T C H FC++CI+K+++ CP+ LL++ LF
Sbjct: 22 TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 57
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 34.7 bits (78), Expect = 0.21, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 641 CAHIFCRSCILKTLQHTKPCCPLCR 665
C H C+ C T++ CCP CR
Sbjct: 33 CNHTLCKPCFQSTVEKASLCCPFCR 57
>pdb|2ECY|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger)" Domain Of Tnf Receptor-Associated Factor 3
Length = 66
Score = 34.7 bits (78), Expect = 0.24, Method: Composition-based stats.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLF 674
T C H FC SC+ L + P C C+ +++ +F
Sbjct: 31 TECGHRFCESCMAALLSSSSPKCTACQESIVKDKVF 66
>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic
Resonance Spectroscopy; A New Structural Class Of Zinc-
Finger
Length = 68
Score = 33.9 bits (76), Expect = 0.40, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 641 CAHIFCRSCILKTLQHTKPCCPLCRHPL 668
C H FC CI + ++ P CPLC+ P+
Sbjct: 24 CLHAFCYVCITRWIRQN-PTCPLCKVPV 50
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 33.9 bits (76), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 32/76 (42%), Gaps = 2/76 (2%)
Query: 377 LKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKNA 436
K M GD D LK YD+++TTY L + W P E +LDE H + +
Sbjct: 103 FKVAMTSGDYDTDDAWLKNYDIIITTYEKL--DSLWRHRPEWLNEVNYFVLDELHYLNDP 160
Query: 437 NAQQSRTVTNLNAKRR 452
+ AKRR
Sbjct: 161 ERGPVVESVTIRAKRR 176
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 33.5 bits (75), Expect = 0.56, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 641 CAHIFCRSCILKTL-QHTKPCCPLCRHPLLQSDLFSSPP 678
C H+F SCI+ L QH CP+CR L + ++PP
Sbjct: 36 CNHLFHDSCIVPWLEQHDS--CPVCRKSLTGQNTATNPP 72
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 33.1 bits (74), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 28/124 (22%), Positives = 57/124 (45%), Gaps = 13/124 (10%)
Query: 710 DKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPT 769
D T++V+F ++ + L E ++ A F + + G M K+R +++EF + G +
Sbjct: 251 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS----GAS 306
Query: 770 VLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQK---------EDVKI 820
+L S G+++ S + + N + + R R G+K +D++I
Sbjct: 307 RVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRI 366
Query: 821 VRLI 824
+R I
Sbjct: 367 LRDI 370
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 33.1 bits (74), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 28/124 (22%), Positives = 57/124 (45%), Gaps = 13/124 (10%)
Query: 710 DKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPT 769
D T++V+F ++ + L E ++ A F + + G M K+R +++EF + G +
Sbjct: 273 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS----GAS 328
Query: 770 VLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQK---------EDVKI 820
+L S G+++ S + + N + + R R G+K +D++I
Sbjct: 329 RVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRI 388
Query: 821 VRLI 824
+R I
Sbjct: 389 LRDI 392
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 33.1 bits (74), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 767 GPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKI 820
G VLL S + G N AS + +NP + EQ + R+ RIGQ D++I
Sbjct: 556 GAQVLLCS-EIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQAHDIQI 608
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 33.1 bits (74), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 28/124 (22%), Positives = 57/124 (45%), Gaps = 13/124 (10%)
Query: 710 DKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPT 769
D T++V+F ++ + L E ++ A F + + G M K+R +++EF + G +
Sbjct: 273 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS----GAS 328
Query: 770 VLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQK---------EDVKI 820
+L S G+++ S + + N + + R R G+K +D++I
Sbjct: 329 RVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRI 388
Query: 821 VRLI 824
+R I
Sbjct: 389 LRDI 392
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 33.1 bits (74), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 28/124 (22%), Positives = 57/124 (45%), Gaps = 13/124 (10%)
Query: 710 DKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPT 769
D T++V+F ++ + L E ++ A F + + G M K+R +++EF + G +
Sbjct: 272 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS----GAS 327
Query: 770 VLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQK---------EDVKI 820
+L S G+++ S + + N + + R R G+K +D++I
Sbjct: 328 RVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRI 387
Query: 821 VRLI 824
+R I
Sbjct: 388 LRDI 391
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 32.7 bits (73), Expect = 0.84, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSP 677
T C H FC+SCI++ ++ CP C + Q+ S P
Sbjct: 32 TECLHTFCKSCIVRHFYYSNR-CPKCNIVVHQTQPLSGP 69
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 32.7 bits (73), Expect = 0.89, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 641 CAHIFCRSCILKTLQHTKPCCPLC 664
C H FC++CI++ L+ +K CP+C
Sbjct: 34 CLHSFCKTCIVRYLETSK-YCPIC 56
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 32.7 bits (73), Expect = 0.89, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 641 CAHIFCRSCILKTLQHTKPCCPLC 664
C H FC++CI++ L+ +K CP+C
Sbjct: 34 CLHSFCKTCIVRYLETSK-YCPIC 56
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 32.7 bits (73), Expect = 0.89, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 641 CAHIFCRSCILKTLQHTKPCCPLC 664
C H FC++CI++ L+ +K CP+C
Sbjct: 30 CLHSFCKTCIVRYLETSK-YCPIC 52
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 32.7 bits (73), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 27/124 (21%), Positives = 57/124 (45%), Gaps = 13/124 (10%)
Query: 710 DKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPT 769
D T++V+F ++ + L E ++ A F + + G M K+R +++EF + G +
Sbjct: 236 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS----GAS 291
Query: 770 VLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQK---------EDVKI 820
+L S G+++ S + + N + + R R G+K +D+++
Sbjct: 292 RVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRV 351
Query: 821 VRLI 824
+R I
Sbjct: 352 LRDI 355
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 27/124 (21%), Positives = 57/124 (45%), Gaps = 13/124 (10%)
Query: 710 DKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPT 769
D T++V+F ++ + L E ++ A F + + G M K+R +++EF + G +
Sbjct: 236 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS----GAS 291
Query: 770 VLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQK---------EDVKI 820
+L S G+++ S + + N + + R R G+K +D+++
Sbjct: 292 RVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRV 351
Query: 821 VRLI 824
+R I
Sbjct: 352 LRDI 355
>pdb|1Z6U|A Chain A, Np95-Like Ring Finger Protein Isoform B [homo Sapiens]
pdb|1Z6U|B Chain B, Np95-Like Ring Finger Protein Isoform B [homo Sapiens]
Length = 150
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 608 PDLLKKLVEVLQDGEDFXXXXXXXXXXXXXXTCCAHIFCRSCILKTLQHTKPCCPLCRHP 667
P+ LKKL + F T C H C+ C+ ++ + CP CRH
Sbjct: 69 PNFLKKL------EQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHD 122
Query: 668 LLQS 671
L Q+
Sbjct: 123 LGQN 126
>pdb|3LRQ|A Chain A, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|B Chain B, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|C Chain C, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|D Chain D, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d
Length = 100
Score = 32.3 bits (72), Expect = 1.2, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 641 CAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDL 673
C+ + C SCI + L + CP CR PL +L
Sbjct: 41 CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLREL 73
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 641 CAHIFCRSCILKTLQHTK-PC-CPLCRHPLLQSDLFSS 676
C HIFC+ C+LK L K P CPLC++ + + L S
Sbjct: 39 CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQES 76
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCR 665
T C H+FC C+ +L++ CP CR
Sbjct: 30 TECGHVFCSQCLRDSLKNAN-TCPTCR 55
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCR 665
T C H+FC C+ +L++ CP CR
Sbjct: 95 TECGHVFCSQCLRDSLKNAN-TCPTCR 120
>pdb|3NG2|A Chain A, Crystal Structure Of The Rnf4 Ring Domain Dimer
pdb|3NG2|B Chain B, Crystal Structure Of The Rnf4 Ring Domain Dimer
Length = 71
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCR 665
T C H+FC C+ +L++ CP CR
Sbjct: 33 TECGHVFCSQCLRDSLKNAN-TCPTCR 58
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCR 665
T C H+FC C+ +L++ CP CR
Sbjct: 26 TECGHVFCSQCLRDSLKNAN-TCPTCR 51
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCR 665
T C H+FC C+ +L++ CP CR
Sbjct: 38 TECGHVFCSQCLRDSLKNAN-TCPTCR 63
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 715 TKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774
T++V+F R+ + L E + A F + + G M+ K+R ++ EF + G VL+ +
Sbjct: 255 TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRS---GSSRVLITT 311
Query: 775 -LKASGAGV 782
L A G V
Sbjct: 312 DLLARGIDV 320
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 31.2 bits (69), Expect = 2.6, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 641 CAHIFCRSCILK-TLQHTKPCCPLCRHPLLQSDLFSSP 677
CAH FC+ CI K + +H CP+CR + ++ S P
Sbjct: 32 CAHSFCQKCIDKWSDRHRN--CPICRLQMTGANESSGP 67
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 715 TKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774
T++V+F R+ + L E + A F + + G M+ K+R ++ EF + G VL+ +
Sbjct: 281 TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRS---GSSRVLITT 337
Query: 775 -LKASGAGV 782
L A G V
Sbjct: 338 DLLARGIDV 346
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 31.2 bits (69), Expect = 2.9, Method: Composition-based stats.
Identities = 28/105 (26%), Positives = 47/105 (44%), Gaps = 11/105 (10%)
Query: 711 KKP-TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPT 769
K+P T+S+VF + R+ + L L+ AG L+G M KR + I+ G
Sbjct: 26 KQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTE----GRV 81
Query: 770 VLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQ 814
+L + + G+++ S VF N + +HRIG+
Sbjct: 82 NVLVATDVAARGIDIPDVSHVF------NFDMPRSGDTYLHRIGR 120
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 31.2 bits (69), Expect = 2.9, Method: Composition-based stats.
Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 639 TCCAHIFCRSCILKTLQHTKPCCPLCRHP 667
T C H FC SC L+ + T P C +C P
Sbjct: 31 TKCRHYFCESCALEHFRAT-PRCYICDQP 58
>pdb|3K2Y|A Chain A, Crystal Structure Of Protein Lp_0118 From Lactobacillus
Plantarum,Northeast Structural Genomics Consortium
Target Lpr91b
pdb|3K2Y|B Chain B, Crystal Structure Of Protein Lp_0118 From Lactobacillus
Plantarum,Northeast Structural Genomics Consortium
Target Lpr91b
pdb|3K2Y|C Chain C, Crystal Structure Of Protein Lp_0118 From Lactobacillus
Plantarum,Northeast Structural Genomics Consortium
Target Lpr91b
pdb|3K2Y|D Chain D, Crystal Structure Of Protein Lp_0118 From Lactobacillus
Plantarum,Northeast Structural Genomics Consortium
Target Lpr91b
Length = 109
Score = 30.8 bits (68), Expect = 3.1, Method: Composition-based stats.
Identities = 21/52 (40%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 52 VGLVREPLNPYDSNAVKVLNTRTDQVGHIERSVAAVLAPLIDSGMILVEGIV 103
V L RE N YD NA+ V + ++G+I R A L+D G L GIV
Sbjct: 35 VLLQRESGNQYDDNAISVWTLQHAKLGYIARYQNQPYATLMDQGQRLY-GIV 85
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 24/100 (24%), Positives = 41/100 (41%), Gaps = 4/100 (4%)
Query: 715 TKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774
++++F RK L L G ++ L G M ++RA VIE F G +L +
Sbjct: 267 AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE----GKEKVLVT 322
Query: 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQ 814
G+++ S V + + +HRIG+
Sbjct: 323 TNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGR 362
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 24/100 (24%), Positives = 41/100 (41%), Gaps = 4/100 (4%)
Query: 715 TKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774
++++F RK L L G ++ L G M ++RA VIE F G +L +
Sbjct: 304 AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE----GKEKVLVT 359
Query: 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQ 814
G+++ S V + + +HRIG+
Sbjct: 360 TNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGR 399
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 24/100 (24%), Positives = 41/100 (41%), Gaps = 4/100 (4%)
Query: 715 TKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774
++++F RK L L G ++ L G M ++RA VIE F G +L +
Sbjct: 283 AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE----GKEKVLVT 338
Query: 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQ 814
G+++ S V + + +HRIG+
Sbjct: 339 TNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGR 378
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 29.6 bits (65), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 24/100 (24%), Positives = 41/100 (41%), Gaps = 4/100 (4%)
Query: 715 TKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774
++++F RK L L G ++ L G M ++RA VIE F G +L +
Sbjct: 334 AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE----GKEKVLVT 389
Query: 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQ 814
G+++ S V + + +HRIG+
Sbjct: 390 TNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGR 429
>pdb|4IR8|A Chain A, 1.85 Angstrom Crystal Structure Of Putative
Sedoheptulose-1,7 Bisphosphatase From Toxoplasma Gondii
pdb|4IR8|B Chain B, 1.85 Angstrom Crystal Structure Of Putative
Sedoheptulose-1,7 Bisphosphatase From Toxoplasma Gondii
Length = 347
Score = 29.6 bits (65), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 26/45 (57%), Gaps = 5/45 (11%)
Query: 256 DMGLGKTLTLLSLIALDKCAGVAPGLTGTNSLD----LNEVEDEE 296
+ G +TLT L L LD+C +A L GT S+D +NE DE+
Sbjct: 33 EQGADQTLTDLILAILDRCGKIASALQGT-SVDKVGSVNEFGDEQ 76
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 641 CAHIFCRSCILKTLQHTKPCCPLCRHPLL 669
C H FC CI+ L+ CP CR L+
Sbjct: 73 CLHRFCADCIITALRSGNKECPTCRKKLV 101
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
0.318 0.135 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,572,555
Number of Sequences: 62578
Number of extensions: 889700
Number of successful extensions: 2441
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 2392
Number of HSP's gapped (non-prelim): 61
length of query: 869
length of database: 14,973,337
effective HSP length: 107
effective length of query: 762
effective length of database: 8,277,491
effective search space: 6307448142
effective search space used: 6307448142
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: 56 (26.2 bits)