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= 006619
(638 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LLI|A Chain A, Low Resolution Structure Of Rna-Binding Subunit Of The
Tramp Complex
Length = 124
Score = 43.9 bits (102), Expect = 3e-04, Method: Composition-based stats.
Identities = 33/128 (25%), Positives = 47/128 (36%), Gaps = 30/128 (23%)
Query: 447 CFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSC 506
C C H K+C + +H + CP Q C +C + GH S C
Sbjct: 7 CNNCSQRGHLKKDCPHIICSYCGATDDHYSRHCPKAIQ--------CSKCDEVGHYRSQC 58
Query: 507 EGEYHADDLKKIQCYICKSFGH---LCC--------------VNSSIIGLKQVSCYNCGQ 549
++ KK+QC +CKS H C ++ + CYNCG
Sbjct: 59 PHKW-----KKVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGG 113
Query: 550 SGHLGPEC 557
GH G +C
Sbjct: 114 KGHFGDDC 121
Score = 30.4 bits (67), Expect = 3.4, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 9/57 (15%)
Query: 544 CYNCGQSGHLGPEC----ANSCEALNGKKSN-----LICYKCGKEGHFARRCGSNFK 591
C NC Q GHL +C + C A + S + C KC + GH+ +C +K
Sbjct: 7 CNNCSQRGHLKKDCPHIICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPHKWK 63
>pdb|2BL6|A Chain A, Solution Structure Of The Zn Complex Of Eiav Ncp11(22-58)
Peptide, Including Two Cchc Zn-Binding Motifs
Length = 37
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 10/46 (21%)
Query: 543 SCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGS 588
+CYNCG+ GHL +C ++ +C+KC + GHF+++C S
Sbjct: 2 TCYNCGKPGHLSSQC----------RAPKVCFKCKQPGHFSKQCRS 37
Score = 31.2 bits (69), Expect = 2.1, Method: Composition-based stats.
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 423 ETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCK 461
+TC NCGK H ++ C+ K CF C H K C+
Sbjct: 1 QTCYNCGKPGHLSSQCRAPKV---CFKCKQPGHFSKQCR 36
>pdb|2A51|A Chain A, Structure Of The (13-51) Domain Of The Nucleocapsid
Protein Ncp8 From Sivlhoest
Length = 39
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 18/39 (46%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 424 TCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQ 462
TC NCGK HTA C+ +Q + C+ CGS +HR+ C +
Sbjct: 2 TCFNCGKPGHTARMCRQPRQ-EGCWNCGSKEHRFAQCPK 39
>pdb|2M3Z|A Chain A, Nmr Solution Structure Of Hiv-1 Nucleocapsid Protein In
Complex With An Inhibitor Displaying A 2 Inhibitors:1 Nc
Stoichiometry
Length = 55
Score = 37.4 bits (85), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 8/47 (17%)
Query: 540 KQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRC 586
K V C+NCG+ GH+ A +C A K C+KCGKEGH + C
Sbjct: 11 KTVKCFNCGKEGHI----AKNCRAPRKKG----CWKCGKEGHQMKDC 49
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQ 464
C NCGKE H A C+ ++ K C+ CG H+ K+C + Q
Sbjct: 15 CFNCGKEGHIAKNCRAPRK-KGCWKCGKEGHQMKDCTERQ 53
>pdb|1F6U|A Chain A, Nmr Structure Of The Hiv-1 Nucleocapsid Protein Bound To
Stem-Loop Sl2 Of The Psi-Rna Packaging Signal.
Implications For Genome Recognition
Length = 56
Score = 37.4 bits (85), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 8/47 (17%)
Query: 540 KQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRC 586
K V C+NCG+ GH+ A +C A K C+KCGKEGH + C
Sbjct: 11 KTVKCFNCGKEGHI----AKNCRAPRKKG----CWKCGKEGHQMKDC 49
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQ 464
C NCGKE H A C+ ++ K C+ CG H+ K+C + Q
Sbjct: 15 CFNCGKEGHIAKNCRAPRK-KGCWKCGKEGHQMKDCTERQ 53
>pdb|1A1T|A Chain A, Structure Of The Hiv-1 Nucleocapsid Protein Bound To The
Sl3 Psi-Rna Recognition Element, Nmr, 25 Structures
pdb|1MFS|A Chain A, Dynamical Behavior Of The Hiv-1 Nucleocapsid Protein; Nmr,
30 Structures
Length = 55
Score = 37.4 bits (85), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 8/47 (17%)
Query: 540 KQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRC 586
K V C+NCG+ GH+ A +C A K C+KCGKEGH + C
Sbjct: 11 KTVKCFNCGKEGHI----AKNCRAPRKKG----CWKCGKEGHQMKDC 49
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQ 464
C NCGKE H A C+ ++ K C+ CG H+ K+C + Q
Sbjct: 15 CFNCGKEGHIAKNCRAPRK-KGCWKCGKEGHQMKDCTERQ 53
>pdb|1AAF|A Chain A, Nucleocapsid Zinc Fingers Detected In Retroviruses: Exafs
Studies On Intact Viruses And The Solution-State
Structure Of The Nucleocapsid Protein From Hiv-1
Length = 55
Score = 37.0 bits (84), Expect = 0.036, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 8/47 (17%)
Query: 540 KQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRC 586
K + C+NCG+ GH+ A +C A + C+KCGKEGH + C
Sbjct: 11 KIIKCFNCGKEGHI----AKNCRAPRKRG----CWKCGKEGHQMKDC 49
Score = 35.8 bits (81), Expect = 0.073, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQ 464
C NCGKE H A C+ ++ + C+ CG H+ K+C + Q
Sbjct: 15 CFNCGKEGHIAKNCRAPRK-RGCWKCGKEGHQMKDCTERQ 53
>pdb|2L4L|A Chain A, Structural Insights Into The Ctar Dna Recognition By The
Hiv-1 Nucleocapsid Protein: Role Of Sugar Deoxyriboses
In The Binding Polarity Of Nc
Length = 45
Score = 35.8 bits (81), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 26/47 (55%), Gaps = 8/47 (17%)
Query: 540 KQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRC 586
K V C+NCG+ GH A +C A K C+KCGKEGH + C
Sbjct: 1 KNVKCFNCGKEGHT----ARNCRAPRKKG----CWKCGKEGHQMKDC 39
Score = 33.5 bits (75), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQ 464
C NCGKE HTA C+ ++ K C+ CG H+ K+C + Q
Sbjct: 5 CFNCGKEGHTARNCRAPRK-KGCWKCGKEGHQMKDCTERQ 43
>pdb|2EC7|A Chain A, Solution Structure Of Human Immunodificiency Virus Type-2
Nucleocapsid Protein
Length = 49
Score = 35.0 bits (79), Expect = 0.13, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 8/47 (17%)
Query: 540 KQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRC 586
K + C+NCG+ GH A C A + C+KCGK GH +C
Sbjct: 5 KVIRCWNCGKEGH----SARQCRAPRRQG----CWKCGKTGHVMAKC 43
Score = 33.1 bits (74), Expect = 0.44, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQ 464
C NCGKE H+A C+ ++ + C+ CG H C + Q
Sbjct: 9 CWNCGKEGHSARQCRAPRR-QGCWKCGKTGHVMAKCPERQ 47
>pdb|3TRZ|A Chain A, Mouse Lin28a In Complex With Let-7d Microrna Pre-Element
pdb|3TRZ|B Chain B, Mouse Lin28a In Complex With Let-7d Microrna Pre-Element
pdb|3TRZ|C Chain C, Mouse Lin28a In Complex With Let-7d Microrna Pre-Element
pdb|3TRZ|D Chain D, Mouse Lin28a In Complex With Let-7d Microrna Pre-Element
pdb|3TRZ|E Chain E, Mouse Lin28a In Complex With Let-7d Microrna Pre-Element
pdb|3TRZ|F Chain F, Mouse Lin28a In Complex With Let-7d Microrna Pre-Element
pdb|3TS2|A Chain A, Mouse Lin28a In Complex With Let-7g Microrna Pre-Element
pdb|3TS2|B Chain B, Mouse Lin28a In Complex With Let-7g Microrna Pre-Element
Length = 148
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 18/36 (50%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNC 460
C NCG +H A CK+ Q K C C S H +C
Sbjct: 100 CYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASC 135
>pdb|2EXF|A Chain A, Solution Structure Of The Hiv-1 Nucleocapsid (Ncp7(12-55))
Complexed With The Dna (-) Primer Binding Site
pdb|2JZW|A Chain A, How The Hiv-1 Nucleocapsid Protein Binds And Destabilises
The (-)primer Binding Site During Reverse Transcription
Length = 44
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 25/45 (55%), Gaps = 8/45 (17%)
Query: 542 VSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRC 586
V C+NCG+ GH A +C A K C+KCGKEGH + C
Sbjct: 2 VKCFNCGKEGHT----ARNCRAPRKKG----CWKCGKEGHQMKDC 38
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQ 464
C NCGKE HTA C+ ++ K C+ CG H+ K+C + Q
Sbjct: 4 CFNCGKEGHTARNCRAPRK-KGCWKCGKEGHQMKDCTERQ 42
>pdb|3TS0|A Chain A, Mouse Lin28a In Complex With Let-7f-1 Microrna Pre-Element
pdb|3TS0|B Chain B, Mouse Lin28a In Complex With Let-7f-1 Microrna Pre-Element
Length = 146
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 18/36 (50%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNC 460
C NCG +H A CK+ Q K C C S H +C
Sbjct: 98 CYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASC 133
>pdb|1BJ6|A Chain A, 1h Nmr Of (12-53) Ncp7D(ACGCC) COMPLEX, 10 STRUCTURES
pdb|1ESK|A Chain A, Solution Structure Of Ncp7 From Hiv-1
Length = 42
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 25/45 (55%), Gaps = 8/45 (17%)
Query: 542 VSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRC 586
V C+NCG+ GH A +C A K C+KCGKEGH + C
Sbjct: 2 VKCFNCGKEGHT----ARNCRAPRKKG----CWKCGKEGHQMKDC 38
Score = 33.5 bits (75), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQ 464
C NCGKE HTA C+ ++ K C+ CG H+ K+C + Q
Sbjct: 4 CFNCGKEGHTARNCRAPRK-KGCWKCGKEGHQMKDCTERQ 42
>pdb|2CQF|A Chain A, Solution Structure Of The Zinc-Finger Domain In Lin-28
Length = 63
Score = 34.3 bits (77), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%)
Query: 419 GWNSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNC 460
G + + C NCG +H A CK+ Q K C C S H +C
Sbjct: 4 GSSGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASC 45
>pdb|2O1X|A Chain A, 1-deoxy-d-xylulose 5-phosphate Synthase (dxs) From
Deinococcus Radiodurans
pdb|2O1X|B Chain B, 1-deoxy-d-xylulose 5-phosphate Synthase (dxs) From
Deinococcus Radiodurans
pdb|2O1X|C Chain C, 1-deoxy-d-xylulose 5-phosphate Synthase (dxs) From
Deinococcus Radiodurans
pdb|2O1X|D Chain D, 1-deoxy-d-xylulose 5-phosphate Synthase (dxs) From
Deinococcus Radiodurans
Length = 629
Score = 33.5 bits (75), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 32/68 (47%), Gaps = 6/68 (8%)
Query: 233 KVVE-VSKPESVLTTEMDGSRHLFIDPAKDNEGASMGEPMPMVRVVGGNDGGNSFEVIDL 291
K VE VSKP + + S F DPA N A+MG VR VG DG N E++ L
Sbjct: 216 KAVEAVSKPLADFMSRAKNSTRHFFDPASVNPFAAMG-----VRYVGPVDGHNVQELVWL 270
Query: 292 CLSSTDDD 299
D D
Sbjct: 271 LERLVDLD 278
>pdb|2LI8|A Chain A, The Solution Structure Of The Lin28-Znf Domains Bound To
Aggagau Of Pre-Let-7 Mirna
Length = 74
Score = 33.1 bits (74), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 19/38 (50%)
Query: 423 ETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNC 460
+ C NCG +H A CK+ Q K C C S H +C
Sbjct: 25 DRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASC 62
>pdb|3CDD|A Chain A, Crystal Structure Of Prophage Muso2, 43 Kda Tail Protein
From Shewanella Oneidensis
pdb|3CDD|B Chain B, Crystal Structure Of Prophage Muso2, 43 Kda Tail Protein
From Shewanella Oneidensis
pdb|3CDD|C Chain C, Crystal Structure Of Prophage Muso2, 43 Kda Tail Protein
From Shewanella Oneidensis
pdb|3CDD|D Chain D, Crystal Structure Of Prophage Muso2, 43 Kda Tail Protein
From Shewanella Oneidensis
pdb|3CDD|E Chain E, Crystal Structure Of Prophage Muso2, 43 Kda Tail Protein
From Shewanella Oneidensis
pdb|3CDD|F Chain F, Crystal Structure Of Prophage Muso2, 43 Kda Tail Protein
From Shewanella Oneidensis
Length = 361
Score = 32.7 bits (73), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 36/87 (41%), Gaps = 13/87 (14%)
Query: 460 CKQGQDCFINKGSEHLASD-----CPGTDQGNNLSSNFCLRCGDSGHDLSSCE-----GE 509
KQGQ C ++ G E + + P D+ + + D DL C G+
Sbjct: 57 IKQGQACTVDIGGERVITGYVDDWVPSYDES---TITISVSGRDKTADLVDCSIDYPSGQ 113
Query: 510 YHADDLKKIQCYICKSFGHLCCVNSSI 536
++ L +I +CK FG VN+ +
Sbjct: 114 FNNQTLTQIADIVCKPFGIKVIVNTDV 140
>pdb|2JX9|A Chain A, Solution Structure Of The Gal_lectin Domain Of Mouse
Latrophilin-1 Gpcr
pdb|2JXA|A Chain A, Mouse Latrophilin-1 Gpcr Gal_lectin Domain In Complex With
Rhamnose
Length = 106
Score = 32.3 bits (72), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 20/43 (46%)
Query: 440 MQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGT 482
Q +N C+L +FK + C C + GS+ CPGT
Sbjct: 48 FQMENVQCYLPDAFKIMSQRCNNRTQCVVVAGSDAFPDPCPGT 90
>pdb|4A1F|A Chain A, Crystal Structure Of C-Terminal Domain Of Helicobacter
Pylori Dnab Helicase
pdb|4A1F|B Chain B, Crystal Structure Of C-Terminal Domain Of Helicobacter
Pylori Dnab Helicase
Length = 338
Score = 32.0 bits (71), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 40/66 (60%), Gaps = 9/66 (13%)
Query: 283 GNSFEVIDLCLSSTDDDKSVSGVSLERSVEDMGKAVQTTATITGANDGVKSVEMNNLYSL 342
G + ++++ LS+ +DD+ V+ SLE S E + A++ + +T S+ M++L S
Sbjct: 58 GKTSLMMNMVLSALNDDRGVAVFSLEMSAEQL--ALRALSDLT-------SINMHDLESG 108
Query: 343 RLEDDK 348
RL+DD+
Sbjct: 109 RLDDDQ 114
>pdb|3NYB|B Chain B, Structure And Function Of The Polymerase Core Of Tramp, A
Rna Surveillance Complex
Length = 83
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 24/60 (40%), Gaps = 17/60 (28%)
Query: 515 LKKIQCYICKSFGH---LCC--------------VNSSIIGLKQVSCYNCGQSGHLGPEC 557
KK+QC +CKS H C ++ + CYNCG GH G +C
Sbjct: 3 WKKVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDC 62
>pdb|1Q3Y|A Chain A, Nmr Structure Of The Cys28his Mutant (D Form) Of The
Nucleocapsid Protein Ncp7 Of Hiv-1.
pdb|1Q3Z|A Chain A, Nmr Structure Of The Cys28his Mutant (e Form) Of The
Nucleocapsid Protein Ncp7 Of Hiv-1
Length = 42
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 10/46 (21%)
Query: 542 VSCYNCGQSGHLGPECANSCEALNGKKSNLI-CYKCGKEGHFARRC 586
V C+NCG+ GH A N + C+KCGKEGH + C
Sbjct: 2 VKCFNCGKEGHT---------ARNHRAPRKKGCWKCGKEGHQMKDC 38
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 425 CSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQ 464
C NCGKE HTA + ++ K C+ CG H+ K+C + Q
Sbjct: 4 CFNCGKEGHTARNHRAPRK-KGCWKCGKEGHQMKDCTERQ 42
>pdb|1CL4|A Chain A, Nucleocapsid Protein From Mason-Pfizer Monkey Virus (Mpmv)
Length = 60
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 10/14 (71%), Positives = 13/14 (92%)
Query: 573 CYKCGKEGHFARRC 586
C+KCGK+GHFA+ C
Sbjct: 4 CFKCGKKGHFAKNC 17
>pdb|2QEJ|C Chain C, Crystal Structure Of A Staphylococcus Aureus Protein
(Ssl7) In Complex With Fc Of Human Iga1
pdb|2QEJ|D Chain D, Crystal Structure Of A Staphylococcus Aureus Protein
(Ssl7) In Complex With Fc Of Human Iga1
Length = 201
Score = 29.3 bits (64), Expect = 7.0, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 441 QKQNKPCFLCGSFKHRWKNCKQGQDCFINK 470
+KQN FL G K ++K QGQD F+ K
Sbjct: 48 EKQNHQLFLLGEDKAKYKQGLQGQDVFVVK 77
>pdb|2YSA|A Chain A, Solution Structure Of The Zinc Finger Cchc Domain From The
Human Retinoblastoma-Binding Protein 6 (Retinoblastoma-
Binding Q Protein 1, Rbq-1)
Length = 55
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 569 SNLICYKCGKEGHFARRCGSN 589
S C++CGK GH+ + C +N
Sbjct: 6 SGYTCFRCGKPGHYIKNCPTN 26
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
0.314 0.132 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,564,573
Number of Sequences: 62578
Number of extensions: 642491
Number of successful extensions: 1053
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 893
Number of HSP's gapped (non-prelim): 144
length of query: 638
length of database: 14,973,337
effective HSP length: 105
effective length of query: 533
effective length of database: 8,402,647
effective search space: 4478610851
effective search space used: 4478610851
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.8 bits)