1UC3

Crystal Structure of hemoglobin I from river lamprey

PDB DOI: https://doi.org/10.2210/pdb1UC3/pdb

Classification: OXYGEN STORAGE/TRANSPORT
Organism(s): Lampetra fluviatilis
Mutation(s): No

Deposited: 2003-04-08 Released: 2003-04-29
Deposition Author(s): Seki, M., Yao, M., Yazawa, Y., Tanaka, I.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.258 (Depositor), 0.250 (DCC)
R-Value Work:
0.197 (Depositor), 0.190 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.4 of the entry. See complete history.

Literature

Crystal structure analysis of river lamprey hemoglobin I

Seki, M., Yao, M., Yazawa, Y., Tanaka, I.

To be published.

Macromolecule Content

Total Structure Weight: 202.91 kDa
Atom Count: 15,098
Modelled Residue Count: 1,788
Deposited Residue Count: 1,788
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Globin	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	149	Lampetra fluviatilis	Mutation(s): 0
UniProt
Find proteins for P02207 (Lampetra fluviatilis) Explore P02207 Go to UniProtKB: P02207
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P02207
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HEM Query on HEM Download Ideal Coordinates CCD File SDF format, chain M [auth A] SDF format, chain Q [auth E] SDF format, chain R [auth F] SDF format, chain T [auth H] SDF format, chain W [auth K] SDF format, chain X [auth L] SDF format, chain N [auth B] SDF format, chain O [auth C] SDF format, chain P [auth D] SDF format, chain S [auth G] SDF format, chain U [auth I] SDF format, chain V [auth J] MOL2 format, chain M [auth A] MOL2 format, chain Q [auth E] MOL2 format, chain R [auth F] MOL2 format, chain T [auth H] MOL2 format, chain W [auth K] MOL2 format, chain X [auth L] MOL2 format, chain N [auth B] MOL2 format, chain O [auth C] MOL2 format, chain P [auth D] MOL2 format, chain S [auth G] MOL2 format, chain U [auth I] MOL2 format, chain V [auth J] mmCIF format, chain M [auth A] mmCIF format, chain Q [auth E] mmCIF format, chain R [auth F] mmCIF format, chain T [auth H] mmCIF format, chain W [auth K] mmCIF format, chain X [auth L] mmCIF format, chain N [auth B] mmCIF format, chain O [auth C] mmCIF format, chain P [auth D] mmCIF format, chain S [auth G] mmCIF format, chain U [auth I] mmCIF format, chain V [auth J]	M [auth A] N [auth B] O [auth C] P [auth D] Q [auth E] M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain M [auth A] Focus chain N [auth B] Focus chain O [auth C] Focus chain P [auth D] Focus chain Q [auth E] Focus chain R [auth F] Focus chain S [auth G] Focus chain T [auth H] Focus chain U [auth I] Focus chain V [auth J] Focus chain W [auth K] Focus chain X [auth L] Interactions & Density Focus chain M [auth A] Focus chain N [auth B] Focus chain O [auth C] Focus chain P [auth D] Focus chain Q [auth E] Focus chain R [auth F] Focus chain S [auth G] Focus chain T [auth H] Focus chain U [auth I] Focus chain V [auth J] Focus chain W [auth K] Focus chain X [auth L]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.258 (Depositor), 0.250 (DCC)
R-Value Work: 0.197 (Depositor), 0.190 (DCC)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.21	α = 103.95
b = 73.61	β = 91.52
c = 105.87	γ = 97.64

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
CNS	refinement

Structure Validation

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Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2003-04-29

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2003-04-29
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2019-12-11
Changes: Advisory, Data collection, Derived calculations
Version 1.4: 2023-10-25
Changes: Data collection, Database references, Derived calculations, Refinement description

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Help and Resources

1UC3

Crystal Structure of hemoglobin I from river lamprey

Crystal structure analysis of river lamprey hemoglobin I

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

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Experimental Data

Structure Validation

Ligand Structure Quality Assessment

Deposition Data

Revision History (Full details and data files)